ViewGene

Locus Name:
GeneID:
Location:

GeneID:1205
TrivialName: PA14_19290
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_19290
PAO1 Ortholog Locus:PA3466
Sequence Length:1341
Protein Length:446
Start: 1662267
Stop: 1663607
Strand: +
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG06854.1|AE004767_5 (AE004767) probable ATP-dependent RNA helicase [Pseudomonas aeruginosa PAO1]
Identities = 445/446 (99%), Positives = 445/446 (99%)
Sequence:
ATGCCGAGGTCTCCCTTGTTCAGCCAATTTCCCCTCCACGAACGCCTGCTGAAGGCACTGGAAAGCCTGTCC
TTCAGCGAGCCGACGCCGGTCCAGGCCGCGGCCATTCCCAAGGCGCTGGAGGGGCACGACCTGCGGGTCACG
GCGCAGACCGGCAGCGGCAAGACCGCGGCCTTCCTGCTGCCGCTGCTGCACCGCCTGCTGGCCGAGGACAAG
CCGCGCTCCCTGGCGCGCGCGCTGATCCTCCTGCCGACCCGCGAGCTGGCCCAGCAGACCCTCAAGGAAGTC
GAGCGCTTCGCCCAGTTCACCTTCATCAAGGCCTGCCTGATCACTGGCGGCGAGGACTTCAAGGTGCAGGGC
GCGCGCCTGCGCAAGAACCCGGAGATCATCATCGGCACCCCCGGCCGCCTGCTCGAGCAGCGCAACGCCGGC
AACCTGCCGTTGCAGGACATCGAGGTGCTGGTGCTGGACGAGGCCGACCGCATGCTCGACATGGGCTTCGCC
GACGACGTGCTGGCCCTGGCCAATGCCTGCCCGGCCGAGCGCCAGACCCTGCTGTTCTCCGCCACCCACAGC
GGCGCCGGGTTGAACAAGGTGATAGCCGAGGTGCTGCGCGAGCCGCAAGTGCTGCGCCTGAACCAGGTCGGC
GAGCTGAACGAGAACGTCCGCCAGCAGGTCATCACCGCCGACGACGTGGCGCACAAGGAACAGTTGCTGCAA
TGGCTGCTGAGCAACGAGACCTACACCAAGGCCATCGTTTTCACCAATACCCGGGTCTCCGCCGATCGCCTG
ACCGGGCGGCTGATCGCCAACCAGCACAAGGTCTTCGTCCTGCATGGCGAGAAGGACCAGAAGGACCGCAAG
CTGGCCATCGAACGCCTGAAGCAGGGCGCGGTGAAGATCCTCGTCGCCACCGACGTCGCCGCACGCGGCCTG
GACGTCGAAGGCCTGGACCTGGTGATCAACTTCGACATGCCGCGCAGCGGCGACGAGTACGTGCACCGCATC
GGCCGCACCGGTCGCGCCGGCGCCGAGGGCCTGGCGATCTCGCTGATCTGCCATGGCGACTGGAACCTGATG
TCGAGCGTCGAACGCTACCTCAAGCAGAACTTCGAACGACGCAACATCAAGGAACTGAAGGCCGCCTACCAG
GGGCCGAAGAAGCTCAAGGCCTCGGGCAAGGCCGCCGGCAGCAAGAAGAAAAAGCAGGACAGGAAGGGCACC
GCCGCCAAGCCCGCGGCCAAGCGCAAGCCCGCCGCGCGGCCGAAGGCCGGGCCGTCGGCGGTGGTCAGCGCC
GACGGCATGGCGCCGCTCAAGCGCAAGAAGCCGACGGCGGAGTGA
Translation:
MPRSPLFSQFPLHERLLKALESLSFSEPTPVQAAAIPKALEGHDLRVTAQTGSGKTAAFLLPLLHRLLAEDK
PRSLARALILLPTRELAQQTLKEVERFAQFTFIKACLITGGEDFKVQGARLRKNPEIIIGTPGRLLEQRNAG
NLPLQDIEVLVLDEADRMLDMGFADDVLALANACPAERQTLLFSATHSGAGLNKVIAEVLREPQVLRLNQVG
ELNENVRQQVITADDVAHKEQLLQWLLSNETYTKAIVFTNTRVSADRLTGRLIANQHKVFVLHGEKDQKDRK
LAIERLKQGAVKILVATDVAARGLDVEGLDLVINFDMPRSGDEYVHRIGRTGRAGAEGLAISLICHGDWNLM
SSVERYLKQNFERRNIKELKAAYQGPKKLKASGKAAGSKKKKQDRKGTAAKPAAKRKPAARPKAGPSAVVSA
DGMAPLKRKKPTAE*
AnnotationID:1214GeneID:1205
AnnotatorUID: diggins
Modification Date/Time: 2005-04-19 09:09:02
Gene Name:
Confidence Code:3
GeneProduct:putative ATP-dependent RNA helicase
Cell Localization:()
Synonyms:srmB
Cell Localization Confidence Code:5
MolecularFunction:
Functional Category:(11) DNA replication, recombination, modification and repair
Alternate Gene Product Name:putative ATP-dependent RNA helicase, DEAD box family
Functional Category Confidence Code:5
COGs:cd00268,smart00487,COG0513
Secondary Functional Category(ies):
EC Number:
Status:ACTIVE
Pathway:
Homology:
>gb|AAO55107.1| (AE016861) ATP-dependent RNA helicase SrmB [Pseudomonas syringae
           pv. tomato str. DC3000]
          Length = 453

 Score =  613 bits (1580), Expect = e-175
 Identities = 317/446 (71%), Positives = 365/446 (81%), Gaps = 7/446 (1%)

>gb|AAN70106.1|AE016650_5 (AE016791) ATP-dependent RNA helicase, DEAD box family [Pseudomonas
           putida KT2440]
          Length = 440

 Score =  610 bits (1573), Expect = e-174
 Identities = 311/441 (70%), Positives = 360/441 (81%), Gaps = 1/441 (0%)

>gb|AAN54021.1|AE015540_1 (AE015540) ATP-dependent RNA helicase SrmB [Shewanella oneidensis
           MR-1]
          Length = 420

 Score =  293 bits (751), Expect = 1e-78
 Identities = 172/419 (41%), Positives = 242/419 (57%), Gaps = 10/419 (2%)
Structural Features:
cd00268, DEADc, DEAD-box helicases.
CD-Length = 203 residues,  98.0% aligned
Score =  232 bits (594), Expect = 6e-62
Identities = 90/201 (44%), Positives = 120/201 (59%), Gaps = 2/201 (0%)

smart00487, DEXDc, DEAD-like helicases superfamily.
CD-Length = 202 residues,  83.7% aligned
Score =  142 bits (358), Expect = 9e-35
Identities = 71/173 (41%), Positives = 98/173 (56%), Gaps = 6/173 (3%)

COG0513, SrmB, Superfamily II DNA and RNA helicases 
[DNA replication, recombination, and repair / Transcription      / Translation, ribosomal structure and biogenesis]
CD-Length = 513 residues,  88.3% aligned
Score =  370 bits (951), Expect = 2e-103
Identities = 161/455 (35%), Positives = 242/455 (53%), Gaps = 12/455 (2%)
Genomic Context:
Comment:
ReferenceID:2413
Author/Investigator(s): GenNotator
Title:
PubMed:
MedLine:
Source:
Reference Type:BLASTP
Data:
URL:
ReferenceID:19556
Author/Investigator(s): GenNotator
Title: CDD Search
PubMed:
MedLine:
Source:
Reference Type:RPSBLAST
Data:
URL:
ReferenceID:32092
Author/Investigator(s):
Title: CDD Search
PubMed:
MedLine:
Source:
Reference Type:Misc (text/plain)
Data:1205_cdd.html
URL:
Homologs By Global Alignment
Gene ID:1205

Identity:

0% 10% 20% 30% 40% 50% 60% 70% 80% 90% 100%
HomologID Accession Description Length PctIdentity PctSimilarity Gaps Score
2183 PA3466_tr translation of PA3466 446 99.77 99.77 0 2232.0
72808 gb|AAG06854.1|AE004767_5 (AE004767) probable ATP-dependent RNA helicase [Pseudomonas aeruginosa PAO1] 446 99.77 99.77 0 2232.0
72809 gb|AAO55107.1| (AE016861) ATP-dependent RNA helicase SrmB [Pseudomonas syringae pv. tomato str. DC3000] 456 69.95 80.70 13 1586.0
72810 gb|AAN70106.1|AE016650_5 (AE016791) ATP-dependent RNA helicase, DEAD box family [Pseudomonas putida KT2440] 446 69.73 80.71 6 1575.0
72815 gb|AAF93826.1| (AE004152) ATP-dependent RNA helicase SrmB [Vibrio cholerae O1 biovar eltor str. N16961] 449 41.87 56.57 29 775.0
GC ORFID: 44207How Found: BLASTX
GC_TrimmedSeqID: 69Blast Result ID
Subject Sequence Name: t_PA3466Glimmer Score:
Start: 3291665Stop: 3290325
Length: 1341
Start Codon: ATGTruncated Start:
Stop Codon: TGATruncated Stop:
Homolog: t_PA3466 translation of PA3466Homolog Bit Score 864.0
Other Homologs: psyr_15may02_Scaffold5_revised_gene6356 (ORF: BLASTX 610.0), t_PA3950 (ORF: BLASTX 295.0), psyr_15may02_Scaffold4_revised_gene5383 (ORF: BLASTX 290.0), t_PA3466 (ORF: GLIMMER)
GC ORF Sequence
ATGCCGAGGTCTCCCTTGTTCAGCCAATTTCCCCTCCACGAACGCCTGCTGAAGGCACTGGAAAGCCTGTCC
TTCAGCGAGCCGACGCCGGTCCAGGCCGCGGCCATTCCCAAGGCGCTGGAGGGGCACGACCTGCGGGTCACG
GCGCAGACCGGCAGCGGCAAGACCGCGGCCTTCCTGCTGCCGCTGCTGCACCGCCTGCTGGCCGAGGACAAG
CCGCGCTCCCTGGCGCGCGCGCTGATCCTCCTGCCGACCCGCGAGCTGGCCCAGCAGACCCTCAAGGAAGTC
GAGCGCTTCGCCCAGTTCACCTTCATCAAGGCCTGCCTGATCACTGGCGGCGAGGACTTCAAGGTGCAGGGC
GCGCGCCTGCGCAAGAACCCGGAGATCATCATCGGCACCCCCGGCCGCCTGCTCGAGCAGCGCAACGCCGGC
AACCTGCCGTTGCAGGACATCGAGGTGCTGGTGCTGGACGAGGCCGACCGCATGCTCGACATGGGCTTCGCC
GACGACGTGCTGGCCCTGGCCAATGCCTGCCCGGCCGAGCGCCAGACCCTGCTGTTCTCCGCCACCCACAGC
GGCGCCGGGTTGAACAAGGTGATAGCCGAGGTGCTGCGCGAGCCGCAAGTGCTGCGCCTGAACCAGGTCGGC
GAGCTGAACGAGAACGTCCGCCAGCAGGTCATCACCGCCGACGACGTGGCGCACAAGGAACAGTTGCTGCAA
TGGCTGCTGAGCAACGAGACCTACACCAAGGCCATCGTTTTCACCAATACCCGGGTCTCCGCCGATCGCCTG
ACCGGGCGGCTGATCGCCAACCAGCACAAGGTCTTCGTCCTGCATGGCGAGAAGGACCAGAAGGACCGCAAG
CTGGCCATCGAACGCCTGAAGCAGGGCGCGGTGAAGATCCTCGTCGCCACCGACGTCGCCGCACGCGGCCTG
GACGTCGAAGGCCTGGACCTGGTGATCAACTTCGACATGCCGCGCAGCGGCGACGAGTACGTGCACCGCATC
GGCCGCACCGGTCGCGCCGGCGCCGAGGGCCTGGCGATCTCGCTGATCTGCCATGGCGACTGGAACCTGATG
TCGAGCGTCGAACGCTACCTCAAGCAGAACTTCGAACGACGCAACATCAAGGAACTGAAGGCCGCCTACCAG
GGGCCGAAGAAGCTCAAGGCCTCGGGCAAGGCCGCCGGCAGCAAGAAGAAAAAGCAGGACAGGAAGGGCACC
GCCGCCAAGCCCGCGGCCAAGCGCAAGCCCGCCGCGCGGCCGAAGGCCGGGCCGTCGGCGGTGGTCAGCGCC
GACGGCATGGCGCCGCTCAAGCGCAAGAAGCCGACGGCGGAGTGA