RPS-BLAST 2.2.9 [May-01-2004]
Query= local sequence: lcl|tmpseq_0 unnamed protein product
(514 letters)
Database: cdd.v2.00
 .. This CD alignment includes 3D structure. To display structure, download
Cn3D!
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PSSMs producing significant alignments: |
Score
(bits) |
E
value |
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gnl|CDD|8906 |
cd00009, AAA, AAA-superfamily of ATPases associated with a wid... |
58.1 |
2e-09 |
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gnl|CDD|25315 |
smart00382, AAA, ATPases associated with a variety of cellular... |
42.8 |
9e-05 |
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gnl|CDD|7560 |
pfam00308, Bac_DnaA, Bacterial dnaA protein |
492 |
4e-140 |
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gnl|CDD|27281 |
pfam07174, FAP, Fibronectin-attachment protein (FAP). This fam... |
40.6 |
4e-04 |
|
gnl|CDD|25355 |
pfam00004, AAA, ATPase family associated with various cellular... |
38.4 |
0.002 |
| |
gnl|CDD|5035 |
pfam03276, Gag_spuma, Spumavirus gag protein |
37.0 |
0.006 |
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gnl|CDD|2228 |
pfam01695, IstB, IstB-like ATP binding protein. This protein c... |
36.3 |
0.008 |
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gnl|CDD|10463 |
COG0593, DnaA, ATPase involved in DNA replication initiation [... |
459 |
3e-130 |
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gnl|CDD|10463 |
COG0593, DnaA, ATPase involved in DNA replication initiation [... |
57.6 |
4e-09 |
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gnl|CDD|11198 |
COG1484, DnaC, DNA replication protein [DNA replication, recom... |
64.6 |
3e-11 |
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gnl|CDD|11188 |
COG1474, CDC6, Cdc6-related protein, AAA superfamily ATPase [D... |
40.0 |
8e-04 |
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gnl|CDD|11199 |
COG1485, COG1485, Predicted ATPase [General function predictio... |
39.5 |
0.001 |
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gnl|CDD|11961 |
COG2255, RuvB, Holliday junction resolvasome, helicase subunit... |
39.4 |
0.001 |
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gnl|CDD|8906, cd00009, AAA, AAA-superfamily of ATPases associated with a wide variety of cellular activities, including membrane fusion, proteolysis, and DNA replication.
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CD-Length = 129 residues, 96.9% aligned
Score = 58.1 bits (139), Expect = 2e-09
Query: 214 PLFLYGGVGLGKTHLMHAVGNHLLKKNPNAKVVYLHSERFVADMVKALQ--------LNA 265
Sbjct: 1 IVLIVGPPGSGKTTLARAIARELLPTGLGKRVIYVNQESLLFNGGSSLSGGQKQRLLLAR 60
Query: 266 INEFKRFYRSVDALLIDDIQFFARKERSQEEFFHTFNALLE--GGQQVILTSDRYPKEIE 323
Sbjct: 61 ALEAAGEEGKPDVLILDEITSLLDSE-TREELLEALLELLEEEGVTVILITHDLSLLELR 119
Query: 324 GLEERL 329
Sbjct: 120 DRLDRR 125
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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.
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CD-Length = 151 residues, 93.4% aligned
Score = 42.8 bits (99), Expect = 9e-05
Query: 213 NPLFLYGGVGLGKTHLMHAVGNHLLKKNPNAKVVYLHSERFVADMVKALQLNAINEFKRF 272
Sbjct: 3 EVVLIVGPPGSGKTTLARALARELGPD--GGGVIYIDGEDLREEALLQLLRLLVLVGEDK 60
Query: 273 -----------------YRSVDALLIDDIQFFARKERSQEEFFH------TFNALLEGGQ 309
Sbjct: 61 LSGSGGQRIRLALALARKLKPDVLILDEITSLLDAEQEALLLLLEELLRLLLLLLKEENV 120
Query: 310 QVILTSDRYPKEIEGLEERLKSR 332
Sbjct: 121 TVIATTNDETDLIPALLRRRFDR 143
gnl|CDD|7560, pfam00308, Bac_DnaA, Bacterial dnaA protein.
CD-Length = 314 residues, 100.0% aligned
Score = 492 bits (1269), Expect = 4e-140
Query: 179 LNRTFTFENFVEGKSNQLARAAAWQVADNLKHGYNPLFLYGGVGLGKTHLMHAVGNHLLK 238
Sbjct: 1 LNKRYTFENFVIGSSNRFAHAAALAVAEAPGKAYNPLFIYGGVGLGKTHLLHAIGNYALR 60
Query: 239 KNPNAKVVYLHSERFVADMVKALQLNAINEFKRFYRSVDALLIDDIQFFARKERSQEEFF 298
Sbjct: 61 NFPNLRVVYLTSEEFLNDFVDALRDNKIEKFKKSYRNVDLLLIDDIQFLAGKEKTQEEFF 120
Query: 299 HTFNALLEGGQQVILTSDRYPKEIEGLEERLKSRFGWGLTVAVEPPELETRVAILMKKAE 358
Sbjct: 121 HTFNALHENNKQIVITSDRPPKELEGFEDRLRSRFEWGLITDIEPPDLETRLAILRKKAE 180
Query: 359 QAKIELPHDAAFFIAQRIRSNVRELEGALKRVIAHSHFMGRPITIELIRESLKDLLA-LQ 417
Sbjct: 181 EENINIPNEVLNFIAQRITDNVRELEGALIRLLAFASLNNKEIDIELVEEILKDIIADSK 240
Query: 418 DKLVSIDNIQRTVAEYYKIKISDLLSKRRSRSVARPRQVAMALSKELTNHSLPEIGVAFG 477
Sbjct: 241 EKEITIENIQKVVAEYYNITVEDLLSKSRTRSVVRARQIAMYLAKELTNRSLPEIGREFG 300
Query: 478 GRDHTTVLHACRKI 491
Sbjct: 301 GRDHTTVLHAVRKI 314
gnl|CDD|27281, pfam07174, FAP, Fibronectin-attachment protein (FAP). This family contains bacterial fibronectin-attachment proteins (FAP). Family members are rich in alanine and proline, are approximately 300 long, and seem to be restricted to mycobacteria. These proteins contain a fibronectin-binding motif that allows mycobacteria to bind to fibronectin in the extracellular matrix.
CD-Length = 296 residues, only 36.5% aligned
Score = 40.6 bits (94), Expect = 4e-04
Query: 60 LELLGERGEGQLPALSLLIGSKRSRTPRAAIVPSQTHVAPPPPVAP-----------PPA 108
Sbjct: 4 VDATSTRRKGLWATLAIATVASASAVTIALPATANADPEPPPPVPPSTATTPSTAAAAPA 63
Query: 109 PVQPVSAAP--VVVPREELPPVTTAPSVSSDPYEPEEPSIDPLAAAMP 154
Sbjct: 64 PAPPTRAPPPAAAPPNGAQPGDPNAPPPPVDPNAPPPPPADPNAGRIP 111
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gnl|CDD|25355, pfam00004, AAA, ATPase family associated with various cellular activities (AAA). AAA family proteins often perform chaperone-like functions that assist in the assembly, operation, or disassembly of protein complexes.
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CD-Length = 186 residues, 96.8% aligned
Score = 38.4 bits (89), Expect = 0.002
Query: 215 LFLYGGVGLGKTHLMHAVGNHLLKKNPNAKVVYLHSERFVADMV---KALQLNAINEFKR 271
Sbjct: 2 VLLYGPPGTGKTLLAKAVAKEL-----GVPFIEISGSELVSKYVGESEKLVRALFSLAKK 56
Query: 272 FYRSVDALLIDDIQFFARKERSQ------EEFFHTFNALLEGGQQ-----VILTSDRYPK 320
Sbjct: 57 SAPCI--IFIDEIDALAKKRGDVGTGDVSSRVVNQLLTEMDGFEKLSNVLVIGATNR--- 111
Query: 321 EIEGLEERLKSRFGWGLTVAVEPPELETRVAILMKKAEQAKIELPHDAAFFIAQRIRSNV 380
Sbjct: 112 -PDLLDPALRRPGRFDREIEVPLPDEEERLEILKIHLKKMPLDKDVDLDELARRTPGFSG 170
Query: 381 RELEGALKRVI 391
Sbjct: 171 ADLAALCREAA 181
gnl|CDD|5035, pfam03276, Gag_spuma, Spumavirus gag protein.
CD-Length = 591 residues, only 15.6% aligned
Score = 37.0 bits (85), Expect = 0.006
Query: 68 EGQLPALS-LLIGSKRSRTPRAAI----VPSQTHVAPPPPVAPPPAPVQPVSAAPVVVPR 122
Sbjct: 167 RGQLQGLRGNLPGAPAPRPPPSSIPQPSAPSSQAPAPSPSSAPADLPWSPGPSDP----- 221
Query: 123 EELPPVTTAPSVSSDPYEPEEPSIDPLAAAMPAGAAPA 160
Sbjct: 222 -RLSRVAYNPFIESDGSGPRQPSAPPRREPLPAPAPGA 258
gnl|CDD|2228, pfam01695, IstB, IstB-like ATP binding protein. This protein contains an ATP/GTP binding P-loop motif. It is found associated with IS21 family insertion sequences. The function of this protein is unknown, but it may perform a transposase function.
CD-Length = 178 residues, only 58.4% aligned
Score = 36.3 bits (84), Expect = 0.008
Query: 215 LFLYGGVGLGKTHLMHAVGNHLLKKNPNAKVVYLHSERFVADMVKALQLNAINEFKRFYR 274
Sbjct: 50 LLLLGPPGVGKTHLACALGHQACRA--GYSVLFTRTPDLVEQLKRARGDGRLARTLQRLA 107
Query: 275 SVDALLIDDIQFFARKERSQEEFFHTFNALLEGGQQVILTSDRYPKE 321
Sbjct: 108 KADLLILDDIGYLPLSQEAAHLLFELISDRYERR-STILTSNLPFGE 153
gnl|CDD|10463, COG0593, DnaA, ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]
CD-Length = 408 residues, 82.1% aligned
Score = 459 bits (1183), Expect = 3e-130
Query: 173 LKHTSYLNRTFTFENFVEGKSNQLARAAAWQVADNLKHGYNPLFLYGGVGLGKTHLMHAV 232
Sbjct: 74 LPLPSGLNPKYTFDNFVVGPSNRLAYAAAKAVAENPGGAYNPLFIYGGVGLGKTHLLQAI 133
Query: 233 GNHLLKKNPNAKVVYLHSERFVADMVKALQLNAINEFKRFYRSVDALLIDDIQFFARKER 292
Sbjct: 134 GNEALANGPNARVVYLTSEDFTNDFVKALRDNEMEKFKEKY-SLDLLLIDDIQFLAGKER 192
Query: 293 SQEEFFHTFNALLEGGQQVILTSDRYPKEIEGLEERLKSRFGWGLTVAVEPPELETRVAI 352
Sbjct: 193 TQEEFFHTFNALLENGKQIVLTSDRPPKELNGLEDRLRSRLEWGLVVEIEPPDDETRLAI 252
Query: 353 LMKKAEQAKIELPHDAAFFIAQRIRSNVRELEGALKRVIAHSHFMGRPITIELIRESLKD 412
Sbjct: 253 LRKKAEDRGIEIPDEVLEFLAKRLDRNVRELEGALNRLDAFALFTKRAITIDLVKEILKD 312
Query: 413 LLALQDKLVSIDNIQRTVAEYYKIKISDLLSKRRSRSVARPRQVAMALSKELTNHSLPEI 472
Sbjct: 313 LLRAGEK-ITIEDIQKIVAEYYNVKVSDLLSKSRTRNIVRPRQIAMYLARELTNLSLPEI 371
Query: 473 GVAFGGRDHTTVLHACRKIAQLRESDADIREDYKNLLR 510
Sbjct: 372 GKAF-GRDHTTVLHAVRKIEQLIEEDDSLKEEIELLKR 408
gnl|CDD|10463, COG0593, DnaA, ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]
CD-Length = 408 residues, only 14.2% aligned
Score = 57.6 bits (139), Expect = 4e-09
Query: 6 WQQCVDLLRDELPSQQFNTWIRPLQVEAEGDELRVYAPNRFVLDWVNEKYLGRLLELLGE 65
Sbjct: 1 WERVLARLKKELGETEFESWIRPLKVEES--VLVLYAPNEFVRNWLNSK-LDLIKELLQE 57
Query: 66 R 66
Sbjct: 58 L 58
gnl|CDD|11198, COG1484, DnaC, DNA replication protein [DNA replication, recombination, and repair]
CD-Length = 254 residues, only 52.4% aligned
Score = 64.6 bits (157), Expect = 3e-11
Query: 181 RTFTFENF-VEGKSNQLARAAAWQVADNLKHGYNPLFLYGGVGLGKTHLMHAVGNHLLKK 239
Sbjct: 74 KTFEEFDFEFQPGIDKKALEDLASLVEFFERGEN-LVLLGPPGVGKTHLAIAIGNELLKA 132
Query: 240 NPNAKVVYLHSERFVADMVKALQLNAINE-FKRFYRSVDALLIDDIQFFARKERSQEEFF 298
Sbjct: 133 GI--SVLFITAPDLLSKLKAAFDEGRLEEKLLRELKKVDLLIIDDIGYEPFSQEEADLLF 190
Query: 299 HTFNALLEGGQQVILT 314
Sbjct: 191 QLISRRYESRSLIITS 206
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gnl|CDD|11188, COG1474, CDC6, Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]
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CD-Length = 366 residues, 73.0% aligned
Score = 40.0 bits (93), Expect = 8e-04
Query: 215 LFLYGGVGLGKTHLMHAVGNHLLKKNPNAKVVYLHSERF---------VADMVKAL---Q 262
Sbjct: 45 IIIYGPTGTGKTATVKFVMEELEESSANVEVVYINCLELRTPYQVLSKILNKLGKVPLTG 104
Query: 263 LNAINEFKRFYRSVDA------LLIDDIQFFARKERSQEEFFHTFNALLEGGQQV-ILTS 315
Sbjct: 105 DSSLEILKRLYDNLSKKGKTVIVILDEVDALVDK--DGEVLYSLLRAPGENKVKVSIIAV 162
Query: 316 DRYPKEIEGLEERLKSRFGWGLTVAVEPPELETRVAILMKKAEQAKIE-------LPHDA 368
Sbjct: 163 SNDDKFLDYLDPRVKSSLG-PSEIVFPPYTAEELYDILRERVEEGFSAGVIDDDVLKLIA 221
Query: 369 AFFIAQRIRSNVRELEGALKRVIAHSHFMGRP-ITIELIRESLKDLLALQDKLVSIDNIQ 427
Sbjct: 222 AL--VAAESGDARKAIDILRRAGEIAEREGSRKVSEDHVREAQEEI----ERDVLEEVL- 274
Query: 428 RTVAEYYKIKISDLLSKRRSRSVARPRQVAMALSKEL 464
Sbjct: 275 KTLPLHQKIVLLAIVELTVEISTGELYDVYESLCERL 311
gnl|CDD|11199, COG1485, COG1485, Predicted ATPase [General function prediction only]
CD-Length = 367 residues, only 29.4% aligned
Score = 39.5 bits (92), Expect = 0.001
Query: 215 LFLYGGVGLGKTHLMHAVGNHLLKKNPNAKVVYLHSERFVADMVKAL-----QLNAINEF 269
Sbjct: 68 LYLWGGVGRGKTMLM----DLFYESLPGERKRRLHFHRFMARVHQRLHTLQGQTDPLPPI 123
Query: 270 -KRFYRSVDALLIDDIQFFARKERSQEEFFHT-----------FNALLEGGQQVILTSDR 317
Sbjct: 124 ADELAAETRVLCFD-------------EFEVTDIADAMILGRLLEALFARGVVLVATSNT 170
Query: 318 YPKEI 322
Sbjct: 171 APDNL 175
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gnl|CDD|11961, COG2255, RuvB, Holliday junction resolvasome, helicase subunit [DNA replication, recombination, and repair]
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CD-Length = 332 residues, 76.2% aligned
Score = 39.4 bits (92), Expect = 0.001
Query: 181 RTFTFENFV---EGKSN-QLARAAAWQVADNLKHGYNPLFLYGGVGLGKTHLMHAVGNHL 236
Sbjct: 21 RPKTLDEFIGQEKVKEQLQIFIKAAKKRGEALDH----VLLFGPPGLGKTTLAHIIANEL 76
Query: 237 LKKNPNAKVV---YLHSERFVADMVKALQLNAINEFKRFYRSVDALLIDDIQFFARKERS 293
Sbjct: 77 ---GVNLKITSGPALEKPGDLAAILTNLEEG------------DVLFIDEIH---RLSPA 118
Query: 294 QEEFFHTFNALLEGGQQVILTSDRYPKEIE----------------GLEERLKSRFGWGL 337
Sbjct: 119 VEEVL--YPAMEDFRLDIIIGKGPAARSIRLDLPPFTLIGATTRAGMLTNPLRDRFGIIQ 176
Query: 338 TVAV-EPPELETRVAILMKKAEQAKIELPHDAAFFIAQRIRSNVRELEGALKRVIAHSHF 396
Sbjct: 177 RLEFYTVEELEE---IVKRSAKILGIEIDEEAALEIARRSRGTPRIANRLLRRVRDFAQV 233
Query: 397 MGRP-ITIELIRESLKDLLALQDKLVSID-NIQRTVAEYY 434
Sbjct: 234 KGDGDIDRDIADKALKMLDVDELGLDEIDRKYLRALIEQF 273
Citing CD-Search:
Marchler-Bauer A, Anderson JB, DeWeese-Scott C, Fedorova ND, Geer LY, He S, Hurwitz DI, Jackson JD, Jacobs AR,
Lanczycki CJ, Liebert CA, Liu C, Madej T, Marchler GH, Mazumder R, Nikolskaya AN, Panchenko AR, Rao BS, Shoemaker BA,
Simonyan V, Song JS, Thiessen PA, Vasudevan S, Wang Y, Yamashita RA, Yin JJ, and Bryant SH (2003),
"CDD: a curated Entrez database of conserved domain alignments",
Nucleic Acids Res. 31:383-387.
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