Score E
Sequences producing significant alignments: (bits) Value
gnl|CDD|10913 COG1195, RecF, Recombinational DNA repair ATP... 371 e-103
gnl|CDD|8310 pfam02463, SMC_N, RecF/RecN/SMC N terminal dom... 76 2e-14
gnl|CDD|10828 COG1106, COG1106, Predicted ATPases [General ... 46 1e-05
gnl|CDD|10293 COG0419, SbcC, ATPase involved in DNA repair ... 39 0.002
gnl|CDD|10914 COG1196, Smc, Chromosome segregation ATPases ... 38 0.004
gnl|CDD|13222 COG3910, COG3910, Predicted ATPase [General f... 36 0.017
gnl|CDD|18772 KOG0979, KOG0979, Structural maintenance of c... 35 0.022
gnl|CDD|18757 KOG0964, KOG0964, Structural maintenance of c... 34 0.053
gnl|CDD|18726 KOG0933, KOG0933, Structural maintenance of c... 31 0.48
gnl|CDD|24814 pfam05941, Chordopox_A20R, Chordopoxvirus A20... 31 0.69
gnl|CDD|25214 pfam06342, DUF1057, Protein of unknown functi... 30 0.85
gnl|CDD|11188 COG1474, CDC6, Cdc6-related protein, AAA supe... 29 1.6
gnl|CDD|8906 cd00009, AAA, AAA-superfamily of ATPases assoc... 29 2.1
gnl|CDD|25398 pfam00108, Thiolase_N, Thiolase, N-terminal d... 28 3.0
gnl|CDD|10842 COG1120, FepC, ABC-type cobalamin/Fe3+-sidero... 28 3.2
gnl|CDD|19743 KOG1957, KOG1957, DNA topoisomerase III beta ... 28 3.8
gnl|CDD|25315 smart00382, AAA, ATPases associated with a va... 28 4.4
gnl|CDD|10309 COG0435, ECM4, Predicted glutathione S-transf... 28 4.9
gnl|CDD|17816 KOG0018, KOG0018, Structural maintenance of c... 27 9.5
>gnl|CDD|10913 COG1195, RecF, Recombinational DNA repair ATPase (RecF pathway) [DNA
replication, recombination, and repair]
Length = 363
Score = 371 bits (954), Expect = e-103
Identities = 134/367 (36%), Positives = 201/367 (54%), Gaps = 10/367 (2%)
Query: 1 MSLTRVSVTAVRNLHPVTLSPSPRINILYGDNGSGKTSVLEAIHLLGLARSFRSARLQPV 60
Sbjct: 1 MYLLSLLLRNFRNYAELDLDLSPGVNVLVGENGQGKTNLLEAIYLLALGRSHRTSRDKEL 60
Query: 61 IQYEEAACTVFGQVMLANGIASNLGISRERQGEFTIRIDGQNARSAAQLAETLPLQLINP 120
Sbjct: 61 IRTGADEAEISARVQRKGREGT-LGLQISKKGRRRVRINGTKARKLAELAGHLNVVLFTP 119
Query: 121 DSFRLLEGAPKIRRQFLDWGVFHVEPRFLPVWQRLQKALRQRNSWLRHGKLDPASQAAWD 180
Sbjct: 120 EDLGLVKGSPSDRRRFLDWLLFQIEPVYLEALSNYEKLLKQRNALLKQLQGDYAWLDVWD 179
Query: 181 RELSLASDEIDAYRRSYIQALKPVFEETLAELVSLDDLTLSYYRG------WDKDRDLLE 234
Sbjct: 180 QQLAELGAEIAAARAEYLNALAPLAEKIHQLFLPELESLSIFYRGSVDVTAWEIEEDYLE 239
Query: 235 VLASSLLRDQQMGHTQAGPQRADLRIRLAGHNAAEILSRGQQKLVVCALRIAQGHLINRA 294
Sbjct: 240 ALAKRRERDLARGYTLVGPHRDDLLFRLNGKPAADFASQGQQKTLALALRLAEIELLREE 299
Query: 295 KRGQCVYLVDDLPSELDEQHRMALCRLLEDLGCQVFITCVDPQLLKDGWRTDTPVSMFHV 354
Sbjct: 300 TGEYPILLLDDVASELDDGRRAALLDTIE-LGVQVFVTTTDLEDIDDNLDENA--QMFHV 356
Query: 355 EHGKVSQ 361
Sbjct: 357 EDGKITK 363
>gnl|CDD|8310 pfam02463, SMC_N, RecF/RecN/SMC N terminal domain. This domain is
found at the N terminus of SMC proteins. The SMC
(structural maintenance of chromosomes) superfamily
proteins have ATP-binding domains at the N- and
C-termini, and two extended coiled-coil domains separated
by a hinge in the middle. The eukaryotic SMC proteins
form two kind of heterodimers: the SMC1/SMC3 and the
SMC2/SMC4 types. These heterodimers constitute an
essential part of higher order complexes, which are
involved in chromatin and DNA dynamics. This family also
includes the RecF and RecN proteins that are involved in
DNA metabolism and recombination
Length = 170
Score = 75.7 bits (186), Expect = 2e-14
Identities = 42/167 (25%), Positives = 66/167 (39%), Gaps = 33/167 (19%)
Query: 3 LTRVSVTAVRNLHPVTLSP--SPRINILYGDNGSGKTSVLEAIH-LLGL--ARSFRSARL 57
Sbjct: 1 LKRLEIEGFKSYAGKTVIGPFSPGFNAIVGPNGSGKSNVLDAILFVLGERSASSLRAERL 60
Query: 58 QPVIQYEEAACTVFGQ----VMLANGIASNLGISRERQGEFTIR------------IDGQ 101
Sbjct: 61 SDLIHKGSGAKPKLNSAEVTITFDNQNSGPEPLDELN-PEVTIRRRVYRDGKSEYFINGK 119
Query: 102 NARSAAQLAETLPLQLINPDS--FRLLEGA--------PKIRRQFLD 138
Sbjct: 120 RVT-KKEVQELLESAGIDIKMPYFIIAQGEVEDIASMKPKERRELLE 165
>gnl|CDD|10828 COG1106, COG1106, Predicted ATPases [General function prediction
only]
Length = 371
Score = 46.2 bits (109), Expect = 1e-05
Identities = 25/98 (25%), Positives = 42/98 (42%), Gaps = 6/98 (6%)
Query: 3 LTRVSVTAVRNLHPVTLSPSPRINILYGDNGSGKTSVLEAIHLLGLARSFRSARLQPVIQ 62
Sbjct: 2 IKSFKIKNFKSFRELELEDFGKINIIYGANGAGKSNLLEALYFLKGLISPGSESPIPFER 61
Query: 63 YEEAACTVFGQVMLANGIASNLGISRERQGEFTIRIDG 100
Sbjct: 62 EINIWNGSYGK------EESNLDIFFEQDKEVEIISKN 93
>gnl|CDD|10293 COG0419, SbcC, ATPase involved in DNA repair [DNA replication,
recombination, and repair]
Length = 908
Score = 39.3 bits (91), Expect = 0.002
Identities = 21/75 (28%), Positives = 37/75 (49%), Gaps = 6/75 (8%)
Query: 1 MSLTRVSVTAVR---NLHPVTLSPSPRINILYGDNGSGKTSVLEAIH--LLGLARSFRSA 55
Sbjct: 1 MKILRLRLKNFRSFKDIDIEKLFDSG-IFLIVGPNGAGKSSILDAITFALYGKTPRLGAF 59
Query: 56 RLQPVIQYEEAACTV 70
Sbjct: 60 SLDDLIRAGEKSASV 74
>gnl|CDD|10914 COG1196, Smc, Chromosome segregation ATPases [Cell division and
chromosome partitioning]
Length = 1163
Score = 38.1 bits (88), Expect = 0.004
Identities = 25/104 (24%), Positives = 48/104 (46%), Gaps = 15/104 (14%)
Query: 16 PVTLSPSPRINILYGDNGSGKTSVLEAIHL-LGL--ARSFRSARLQPVI----QYEEAAC 68
Sbjct: 17 PTEINFSPGFTAIVGPNGSGKSNIVDAIRFVLGEQSAKNLRASKMSDLIFAGSGNRKPAN 76
Query: 69 TVFGQVMLAN------GIASNLGISR--ERQGEFTIRIDGQNAR 104
Sbjct: 77 YAEVELTFDNSDNTLPLEYEEISVTRRIYRDGESEYYINGEKVR 120
>gnl|CDD|13222 COG3910, COG3910, Predicted ATPase [General function prediction only]
Length = 233
Score = 35.7 bits (82), Expect = 0.017
Identities = 16/37 (43%), Positives = 23/37 (62%), Gaps = 1/37 (2%)
Query: 7 SVTAVRNLHPVTLSPSPRINILYGDNGSGKTSVLEAI 43
Sbjct: 22 SLPAFRHLEE-RLEFRAPITFITGENGSGKSTLLEAI 57
>gnl|CDD|18772 KOG0979, KOG0979, Structural maintenance of chromosome protein
SMC5/Spr18, SMC superfamily [Chromatin structure and
dynamics, Cell cycle control, cell division, chromosome
partitioning, Replication, recombination and repair]
Length = 1072
Score = 35.3 bits (81), Expect = 0.022
Identities = 29/111 (26%), Positives = 46/111 (41%), Gaps = 8/111 (7%)
Query: 19 LSPSPRINILYGDNGSGKTSVLEAIHLLGLARSFRS-ARLQPVIQYEEAACTVFGQVMLA 77
Sbjct: 38 FLPGPSLNMIIGPNGSGKSSIVCAI-CLGLGGKPKLLGRAKKVGEYIKRGEDE-GYIEIE 95
Query: 78 NGIAS-NLGISRE--RQGEFTIRIDGQNA--RSAAQLAETLPLQLINPDSF 123
Sbjct: 96 LKDKDETLTITRLISRDKESKYFINDSATTKSEIEELVAHFNIQIDNLCQF 146
>gnl|CDD|18757 KOG0964, KOG0964, Structural maintenance of chromosome protein 3
(sister chromatid cohesion complex Cohesin, subunit SMC3)
[Cell cycle control, cell division, chromosome
partitioning]
Length = 1200
Score = 34.2 bits (78), Expect = 0.053
Identities = 15/46 (32%), Positives = 24/46 (52%), Gaps = 2/46 (4%)
Query: 1 MSLTRVSVTAVRNLHPVTLSP--SPRINILYGDNGSGKTSVLEAIH 44
Sbjct: 1 MYIKQVIIKGFRSYRDETVVDPFSPHHNVIVGRNGSGKSNFFHAIR 46
Score = 32.3 bits (73), Expect = 0.23
Identities = 26/74 (35%), Positives = 37/74 (50%), Gaps = 7/74 (9%)
Query: 269 EILSRGQQKLVVCALRIAQGHLINRAKRGQCVYLVDDLPSELDEQHRMALCRLLEDLG-- 326
Sbjct: 1096 EQLSGGQKSVVALALIFA----IQRCDPAP-FYLFDEIDAALDAQYRTAVADLIKELSDS 1150
Query: 327 CQVFITCVDPQLLK 340
Sbjct: 1151 AQFITTTFRPELLS 1164
>gnl|CDD|18726 KOG0933, KOG0933, Structural maintenance of chromosome protein 2
(chromosome condensation complex Condensin, subunit E)
[Chromatin structure and dynamics, Cell cycle control,
cell division, chromosome partitioning]
Length = 1174
Score = 31.1 bits (70), Expect = 0.48
Identities = 17/50 (34%), Positives = 29/50 (58%), Gaps = 3/50 (6%)
Query: 15 HPVTLSPSPRINILYGDNGSGKTSVLEAI-HLLGLA--RSFRSARLQPVI 61
Sbjct: 17 RTVISGFDPQFNAITGLNGSGKSNILDSICFVLGITNLSQVRASNLQELI 66
>gnl|CDD|24814 pfam05941, Chordopox_A20R, Chordopoxvirus A20R protein. This family
consists of several Chordopoxvirus A20R proteins. The
A20R protein is required for DNA replication, is
associated with the processive form of the viral DNA
polymerase, and directly interacts with the viral
proteins encoded by the D4R, D5R, and H5R open reading
frames. A20R may contribute to the assembly or stability
of the multiprotein DNA replication complex
Length = 334
Score = 30.6 bits (69), Expect = 0.69
Identities = 19/112 (16%), Positives = 48/112 (42%), Gaps = 5/112 (4%)
Query: 220 LSYYRGWDKDRDLLEVLASSLLRDQQMGHTQAGPQRADLRIRLAGHNAAEILSRGQQKLV 279
Sbjct: 198 ICCIKEGTLERNVIDFFKNGYVCVKSIELEQIGDNLFLPKIITF--SGKTVLVKDVDHLV 255
Query: 280 VCALRIAQGHLINRAKRGQCVYLVDDLPSELDEQHRMALCRLLEDLGCQVFI 331
Sbjct: 256 RSKVRV--GSFVSVKKKKTF-SILTATVSDSNETRAEVLCRIMKDLGNEYFV 304
>gnl|CDD|25214 pfam06342, DUF1057, Protein of unknown function (DUF1057). This
family consists of several Caenorhabditis elegans
specific proteins of unknown function
Length = 297
Score = 30.3 bits (68), Expect = 0.85
Identities = 19/49 (38%), Positives = 28/49 (57%), Gaps = 5/49 (10%)
Query: 105 SAAQLAETLPLQ---LINPDSFRLLEG-APKIRRQFLDWGVFHVEPRFL 149
Sbjct: 117 NALQTATTRPAHGLVMINPTGFRIHKGIRPKSRMETINW-VYKLLPLFL 164
>gnl|CDD|11188 COG1474, CDC6, Cdc6-related protein, AAA superfamily ATPase [DNA
replication, recombination, and repair /
Posttranslational modification, protein turnover,
chaperones]
Length = 366
Score = 29.2 bits (65), Expect = 1.6
Identities = 10/30 (33%), Positives = 16/30 (53%)
Query: 14 LHPVTLSPSPRINILYGDNGSGKTSVLEAI 43
Sbjct: 33 LAPALRGERPSNIIIYGPTGTGKTATVKFV 62
>gnl|CDD|8906 cd00009, AAA, AAA-superfamily of ATPases associated with a wide
variety of cellular activities, including membrane
fusion, proteolysis, and DNA replication
Length = 129
Score = 28.8 bits (63), Expect = 2.1
Identities = 12/36 (33%), Positives = 18/36 (50%), Gaps = 1/36 (2%)
Query: 27 ILYGDNGSGKTSVLEAIHLLGLARSFRSARLQPVIQ 62
Sbjct: 3 LIVGPPGSGKTTLARAIARE-LLPTGLGKRVIYVNQ 37
>gnl|CDD|25398 pfam00108, Thiolase_N, Thiolase, N-terminal domain. Thiolase is
reported to be structurally related to beta-ketoacyl
synthase (pfam00109), and also chalcone synthase
Length = 264
Score = 28.3 bits (63), Expect = 3.0
Identities = 25/79 (31%), Positives = 33/79 (41%), Gaps = 7/79 (8%)
Query: 35 GKTSVLEAIHLLGLARSFR---SARLQPVIQYEEAACTVFGQVM--LANGIASNLGISRE 89
Sbjct: 114 GVESMSNAPYALPAARSGARMGDAKLVDTMIYDGLTDAFTLIHMGITAENVAKKYGISRE 173
Query: 90 RQGEFTIRIDGQNARSAAQ 108
Sbjct: 174 EQDEFALR--SHQKAAAAQ 190
>gnl|CDD|10842 COG1120, FepC, ABC-type cobalamin/Fe3+-siderophores transport
systems, ATPase components [Inorganic ion transport and
metabolism / Coenzyme metabolism]
Length = 258
Score = 28.2 bits (63), Expect = 3.2
Identities = 11/31 (35%), Positives = 19/31 (61%), Gaps = 1/31 (3%)
Query: 14 LHPVTLS-PSPRINILYGDNGSGKTSVLEAI 43
Sbjct: 18 LDDLSFSIPKGEITGILGPNGSGKSTLLKCL 48
>gnl|CDD|19743 KOG1957, KOG1957, DNA topoisomerase III beta [Replication,
recombination and repair]
Length = 555
Score = 28.0 bits (62), Expect = 3.8
Identities = 29/173 (16%), Positives = 54/173 (31%), Gaps = 13/173 (7%)
Query: 194 RRSYIQALKPVFEETLAELVSLDDLTLSYYRGWDKDRDLLEVLASSLLRDQQMGHTQAGP 253
Sbjct: 203 RHDQIQTFKPEQYWVLQTNFTTDDLSLEWQRGRVFDAEIARVFL-NRVKECKTALVEDVS 261
Query: 254 QRADLRIRLAGHNAAEIL----SRGQQKLVVCALRIAQGHLINRAKRGQCVYLVDDLP-- 307
Sbjct: 262 KKEARKERPCALNTVELMRVAITETTAYPANFDTSIILGDTLFEASFGT---DAGDGPPI 318
Query: 308 SELDEQHRMALCRLLEDL---GCQVFITCVDPQLLKDGWRTDTPVSMFHVEHG 357
Sbjct: 319 TPMRKCNRYMKSGDTKRLYCYVCQHFYATPQFKCKKVITTVKCSLGDEQFILW 371
>gnl|CDD|25315 smart00382, AAA, ATPases associated with a variety of cellular
activities; AAA - ATPases associated with a variety of
cellular activities. This profile/alignment only detects
a fraction of this vast family. The poorly conserved
N-terminal helix is missing from the alignment
Length = 151
Score = 27.8 bits (60), Expect = 4.4
Identities = 7/23 (30%), Positives = 13/23 (56%)
Query: 22 SPRINILYGDNGSGKTSVLEAIH 44
Sbjct: 1 PGEVVLIVGPPGSGKTTLARALA 23
>gnl|CDD|10309 COG0435, ECM4, Predicted glutathione S-transferase [Posttranslational
modification, protein turnover, chaperones]
Length = 324
Score = 27.5 bits (61), Expect = 4.9
Identities = 10/43 (23%), Positives = 19/43 (44%)
Query: 314 HRMALCRLLEDLGCQVFITCVDPQLLKDGWRTDTPVSMFHVEH 356
Sbjct: 64 HRTLIFRALKGLEPVISVSVVHPLMDENGWTFDPEFPGATGDP 106
>gnl|CDD|17816 KOG0018, KOG0018, Structural maintenance of chromosome protein 1
(sister chromatid cohesion complex Cohesin, subunit SMC1)
[Cell cycle control, cell division, chromosome
partitioning]
Length = 1141
Score = 26.8 bits (59), Expect = 9.5
Identities = 15/46 (32%), Positives = 27/46 (58%), Gaps = 2/46 (4%)
Query: 18 TLSPSPRINILYGDNGSGKTSVLEAIH-LLGL-ARSFRSARLQPVI 61
Sbjct: 20 VIGPFDRFTAIIGPNGSGKSNLMDAISFVLGEKSSHLRVSHLKDLI 65
Lambda K H
0.321 0.136 0.403
Gapped
Lambda K H
0.267 0.0488 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 1100, Extension: 100
Number of Hits to DB: 6,148,888
Number of Sequences: 0
Number of extensions: 591038
Number of successful extensions: 321
Number of sequences better than 10.0: 1
Number of HSP's better than 10.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 0
Number of HSP's gapped (non-prelim): 317
length of query: 0
length of database: 5,506,404
effective HSP length: 95
effective length of query: -95
effective length of database: 3,792,699
effective search space: -360306405
effective search space used: 1039199526
T: 11
A: 40
X1: 1600 (741.8 bits)
X2: 3800 (1463.8 bits)
X3: 6400 (2465.3 bits)
S1: 4100 (1903.7 bits)
S2: 54 (25.2 bits)