RPS-BLAST 2.2.22 [Sep-27-2009]
Database: pdb70
24,244 sequences; 5,693,230 total letters
Searching..................................................done
Query= gi|254780130|ref|YP_003064543.1| hypothetical protein
CLIBASIA_00045 [Candidatus Liberibacter asiaticus str. psy62]
(205 letters)
>3mwy_W Chromo domain-containing protein 1; SWI2/SNF2 ATPase, double
chromodomains, hydrolase; HET: ATG; 3.70A {Saccharomyces
cerevisiae}
Length = 800
Score = 78.0 bits (191), Expect = 1e-15
Identities = 31/160 (19%), Positives = 61/160 (38%), Gaps = 20/160 (12%)
Query: 52 HDEKIKALEVIIE--KANAAPIIVAYHFNSDLARLQKAFPQ---------GRTLDKD-PC 99
K+ L+ ++ K + +++ L L G
Sbjct: 554 SSGKMVLLDQLLTRLKKDGHRVLIFSQMVRMLDILGDYLSIKGINFQRLDGTVPSAQRRI 613
Query: 100 TIQEWNEG--KIPLLFAHPASCGHGLNLQYGGNILVFFSLWWDLEEHQQMIERIGVTRQR 157
+I +N + + G G+NL + +V F W+ + Q + R R
Sbjct: 614 SIDHFNSPDSNDFVFLLSTRAGGLGINLM-TADTVVIFDSDWNPQADLQAMARA--HRIG 670
Query: 158 QAGFKRAVFVYYLIAQNTIDELVLQRLRTKSTIQDLLLNA 197
Q K V VY L++++T++E VL+R R K ++ +++
Sbjct: 671 Q---KNHVMVYRLVSKDTVEEEVLERARKKMILEYAIISL 707
>3dmq_A RNA polymerase-associated protein RAPA; SWF2/SNF2, transcription
factor, RNA polymerase recycling, activator,
ATP-binding, DNA-binding; 3.20A {Escherichia coli K12}
Length = 968
Score = 74.6 bits (182), Expect = 2e-14
Identities = 21/192 (10%), Positives = 58/192 (30%), Gaps = 18/192 (9%)
Query: 8 QRELYCDLQGENIEAFNSASKTVKCLQLANGAVYYDEEKHWKEVHDEKIKALEVIIEKAN 67
Q + + G ++ + L ++ + D +++ L +
Sbjct: 443 QYQTAIKVSGIMGARKSAEDRARDMLYPERIYQEFEGDNATWWNFDPRVEWLMGYLTSHR 502
Query: 68 AAPIIVAYHFNSDLARLQKAFPQ----------GRTLDKDPCTIQEW--NEGKIPLLFAH 115
+ ++V + +L++ + + W E +
Sbjct: 503 SQKVLVICAKAATALQLEQVLREREGIRAAVFHEGMSIIERDRAAAWFAEEDTGAQVLLC 562
Query: 116 PASCGHGLNLQYGGNILVFFSLWWDLEEHQQMIERIGVTRQRQAGFKRAVFVYYLIAQNT 175
G N Q + +V F L ++ + +Q I R+ R Q + ++ + T
Sbjct: 563 SEIGSEGRNFQ-FASHMVMFDLPFNPDLLEQRIGRLD--RIGQ---AHDIQIHVPYLEKT 616
Query: 176 IDELVLQRLRTK 187
++++
Sbjct: 617 AQSVLVRWYHEG 628
>1z63_A Helicase of the SNF2/RAD54 hamily; protein-DNA complex,
hydrolase/DNA complex complex; 3.00A {Sulfolobus
solfataricus} SCOP: c.37.1.19 c.37.1.19 PDB: 1z6a_A
Length = 500
Score = 71.9 bits (175), Expect = 1e-13
Identities = 35/180 (19%), Positives = 65/180 (36%), Gaps = 19/180 (10%)
Query: 31 KCLQLANGAVYYDEEKHWKEVHDEKIKALEVIIE-KANAAPIIVAYHFNSDL-------- 81
K Q+ + + + I+ +E+I E I + F
Sbjct: 303 KLKQIVDHPALLKGGEQSVRRSGKMIRTMEIIEEALDEGDKIAIFTQFVDMGKIIRNIIE 362
Query: 82 --ARLQKAFPQGRTLDKDPCTIQE--WNEGKIPLLFAHPASCGHGLNLQYGGNILVFFSL 137
+ F G K+ I N + + + G G+NL N ++ F
Sbjct: 363 KELNTEVPFLYGELSKKERDDIISKFQNNPSVKFIVLSVKAGGFGINLT-SANRVIHFDR 421
Query: 138 WWDLEEHQQMIERIGVTRQRQAGFKRAVFVYYLIAQNTIDELVLQRLRTKSTIQDLLLNA 197
WW+ Q +R+ R Q R V V+ LI+ T++E + Q L K ++ ++++
Sbjct: 422 WWNPAVEDQATDRV--YRIGQ---TRNVIVHKLISVGTLEEKIDQLLAFKRSLFKDIISS 476
>1z3i_X Similar to RAD54-like; recombination ATPase helicase,
recombination/DNA binding complex; 3.00A {Danio rerio}
SCOP: c.37.1.19 c.37.1.19
Length = 644
Score = 65.0 bits (157), Expect = 1e-11
Identities = 35/168 (20%), Positives = 65/168 (38%), Gaps = 21/168 (12%)
Query: 44 EEKHWKEVHDEKIKALEVIIEKANAAP---IIVAYHFNSDLARLQKAFPQ---------G 91
K + K+ L+ I+ +++ ++ L +K G
Sbjct: 389 STKAVEPQLSGKMLVLDYILAMTRTTTSDKVVLVSNYTQTLDLFEKLCRNRRYLYVRLDG 448
Query: 92 RTLDKDPCT-IQEWNEGKIP--LLFAHPASCGHGLNLQYGGNILVFFSLWWDLEEHQQMI 148
K ++ +N P + + G GLNL G N LV F W+ +Q +
Sbjct: 449 TMSIKKRAKIVERFNNPSSPEFIFMLSSKAGGCGLNLI-GANRLVMFDPDWNPANDEQAM 507
Query: 149 ERIGVTRQRQAGFKRAVFVYYLIAQNTIDELVLQRLRTKSTIQDLLLN 196
R+ R Q K+ ++Y L++ TI+E +LQR K + +++
Sbjct: 508 ARV--WRDGQ---KKTCYIYRLLSTGTIEEKILQRQAHKKALSSCVVD 550
>2fwr_A DNA repair protein RAD25; DNA unwinding, XPB, DNA binding protein;
HET: DNA; 2.60A {Archaeoglobus fulgidus} SCOP: c.37.1.19
c.37.1.19 PDB: 2fzl_A*
Length = 472
Score = 60.0 bits (144), Expect = 3e-10
Identities = 28/151 (18%), Positives = 58/151 (38%), Gaps = 11/151 (7%)
Query: 42 YDEEKHWKEVHDEKIKALEVIIEKANAAPIIVAYHFNSDLAR----LQKAFPQGRTLDKD 97
++E + KI+ L I+E+ II+ N + R RT ++
Sbjct: 323 WEEARRIAFNSKNKIRKLREILERHRKDKIIIFTRHNELVYRISKVFLIPAITHRTSREE 382
Query: 98 -PCTIQEWNEGKIPLLFAHPASCGHGLNLQYGGNILVFFSLWWDLEEHQQMIERIGVTRQ 156
++ + G+ + + G+++ N+ V S E+ Q + RI
Sbjct: 383 REEILEGFRTGRFRAIVSSQV-LDEGIDVP-DANVGVIMSGSGSAREYIQRLGRIL---- 436
Query: 157 RQAGFKRAVFVYYLIAQNTIDELVLQRLRTK 187
R + K+ +Y LI++ T + +R +
Sbjct: 437 RPSKGKKEAVLYELISRGTGEVNTARRRKNA 467
>1z5z_A Helicase of the SNF2/RAD54 family; hydrolase, recombination,
hydrolase/recombination complex; 2.00A {Sulfolobus
solfataricus P2} SCOP: c.37.1.19
Length = 271
Score = 47.3 bits (111), Expect = 2e-06
Identities = 34/215 (15%), Positives = 68/215 (31%), Gaps = 29/215 (13%)
Query: 6 KFQRELYCDLQGENIEAFNSASK---------TVKCLQLANGAVYYDEEKHWKEVHDEKI 56
Q +Y +S + T+ L+ + K+
Sbjct: 39 PEQAAMYKAEVENLFNNIDSVTGIKRKGMILSTLLKLKQIVDHPALLKGGEQSVRRSGKM 98
Query: 57 KALEVIIE--KANAAPIIVAYHFNSDLARLQKAFPQGRTL------------DKDPCTIQ 102
IIE I + F ++ + ++D +
Sbjct: 99 IRTMEIIEEALDEGDKIAIFTQFVDMGKIIRNIIEKELNTEVPFLYGELSKKERDDIISK 158
Query: 103 EWNEGKIPLLFAHPASCGHGLNLQYGGNILVFFSLWWDLEEHQQMIERIGVTRQRQAGFK 162
N + + + G G+NL + + F WW+ Q +R+ R Q
Sbjct: 159 FQNNPSVKFIVLSVKAGGFGINLTSANRV-IHFDRWWNPAVEDQATDRV--YRIGQ---T 212
Query: 163 RAVFVYYLIAQNTIDELVLQRLRTKSTIQDLLLNA 197
R V V+ LI+ T++E + Q L K ++ ++++
Sbjct: 213 RNVIVHKLISVGTLEEKIDQLLAFKRSLFKDIISS 247
>1wp9_A ATP-dependent RNA helicase, putative; ATPase, DNA replication, DNA
repair, DNA recombination, hydrolase; 2.90A {Pyrococcus
furiosus dsm 3638} SCOP: c.37.1.19 c.37.1.19
Length = 494
Score = 47.0 bits (110), Expect = 3e-06
Identities = 20/88 (22%), Positives = 32/88 (36%), Gaps = 10/88 (11%)
Query: 100 TIQEWNEGKIPLLFAHPASCGHGLNLQYGGNILVFFSLWWDLEEHQQMIERIGVTRQRQA 159
+ E+ G+ +L A GL++ +++VF+ Q R G R
Sbjct: 411 ILDEFARGEFNVLVATSV-GEEGLDVP-EVDLVVFYEPVPSAIRSIQRRGRTG--RHMP- 465
Query: 160 GFKRAVFVYYLIAQNTIDELVLQRLRTK 187
V L+A+ T DE R K
Sbjct: 466 -----GRVIILMAKGTRDEAYYWSSRQK 488
>3hgt_A HDA1 complex subunit 3; RECA-like domain, SWI2/SNF2 helical domain,
chromatin regulator, coiled coil, nucleus, repressor,
transcription; 2.20A {Saccharomyces cerevisiae} PDB:
3hgq_A
Length = 328
Score = 44.2 bits (104), Expect = 2e-05
Identities = 13/81 (16%), Positives = 30/81 (37%), Gaps = 3/81 (3%)
Query: 118 SCGHGLNLQYGGNILVFFSLWWDLEEHQQMIERIGVTRQRQAGFKRAVFVYYLIAQNTID 177
+ + ++L+ D Q+ I+ + ++ + G +R + L+A N+ID
Sbjct: 184 TKYPIKSKA-RFDMLICLDTTVD--TSQKDIQYLLQYKRERKGLERYAPIVRLVAINSID 240
Query: 178 ELVLQRLRTKSTIQDLLLNAL 198
L + L +
Sbjct: 241 HCRLFFGKKFDKNSREYLENV 261
>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
acyl-carrier-protein, beta-ketoacyl reductase,
beta-ketoacyl synthase, dehydratase; 4.00A
{Saccharomyces cerevisiae}
Length = 2006
Score = 40.3 bits (94), Expect = 3e-04
Identities = 25/151 (16%), Positives = 49/151 (32%), Gaps = 69/151 (45%)
Query: 21 EAFNSASKT---------VKCLQ------LANGAVYYDEEKHWKE--------VHDEKIK 57
E+F + + V+C + L ++ D ++ E + + +
Sbjct: 290 ESFFVSVRKAITVLFFIGVRCYEAYPNTSLPP-SILEDSLEN-NEGVPSPMLSISNLTQE 347
Query: 58 ALEVIIEKANA--------------AP--IIVA------YHFNSDLARLQKAFPQGRTLD 95
++ + K N+ ++V+ Y N L R KA P G LD
Sbjct: 348 QVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLYGLNLTL-RKAKA-PSG--LD 403
Query: 96 KDPCTIQEWNEGKIP-----LLFAH---PAS 118
+ +IP L F++ P +
Sbjct: 404 ----------QSRIPFSERKLKFSNRFLPVA 424
Score = 36.5 bits (84), Expect = 0.004
Identities = 32/162 (19%), Positives = 50/162 (30%), Gaps = 65/162 (40%)
Query: 9 REL-YCDLQGENIEAFNS---ASKTVKCLQLANGA---VYYDEEKHWKEV--HDEKIKAL 59
L +Q + + NS A K V + L NGA V V + + L
Sbjct: 342 SNLTQEQVQ-DYVNKTNSHLPAGKQV-EISLVNGAKNLV----------VSGPPQSLYGL 389
Query: 60 EVIIEKANAA----------------------PIIVAYHFNSDLARLQKAFPQGRTLDKD 97
+ + KA A P+ +H S L L A ++KD
Sbjct: 390 NLTLRKAKAPSGLDQSRIPFSERKLKFSNRFLPVASPFH--SHL--LVPASDL---INKD 442
Query: 98 -PCTIQEWNEG--KIPLLFAHPASCGH---GLNLQ-YGGNIL 132
+N +IP+ G +L+ G+I
Sbjct: 443 LVKNNVSFNAKDIQIPVY--------DTFDGSDLRVLSGSIS 476
Score = 29.5 bits (66), Expect = 0.52
Identities = 16/73 (21%), Positives = 24/73 (32%), Gaps = 30/73 (41%)
Query: 48 WKEVHDEKIKALEVIIEKANAAPIIVAYHFNSDL----ARLQKAFPQGRTLDKDPCTIQ- 102
W+ KA+ V L R +A+P +L P ++
Sbjct: 289 WESFFVSVRKAITV-------------------LFFIGVRCYEAYPN-TSL--PPSILED 326
Query: 103 --EWNEGK-IPLL 112
E NEG P+L
Sbjct: 327 SLENNEGVPSPML 339
>1hv8_A Putative ATP-dependent RNA helicase MJ0669; RNA-binding protein,
ATPase, RNA binding protein; 3.00A {Methanocaldococcus
jannaschii} SCOP: c.37.1.19 c.37.1.19
Length = 367
Score = 28.1 bits (61), Expect = 1.4
Identities = 17/113 (15%), Positives = 36/113 (31%), Gaps = 2/113 (1%)
Query: 40 VYYDEEKHWKEVHDEKIKALEVIIEKANAAPIIVAYHFNSDLARLQKAFPQGRTLDKDPC 99
+ E+ K K ++ D+ A + +
Sbjct: 220 EVNENERFEALCRLLKNKEFYGLVFCKTKRDTKELASMLRDIGFKAGAIHGDLSQSQREK 279
Query: 100 TIQEWNEGKIPLLFAHPASCGHGLNLQYGGNILVFFSLWWDLEEHQQMIERIG 152
I+ + + KI +L A G+++ N ++ + L + E + I R G
Sbjct: 280 VIRLFKQKKIRILIATDV-MSRGIDVN-DLNCVINYHLPQNPESYMHRIGRTG 330
>2i88_A Colicin-E1; protein-membrane interactions, toxin-membrane
interactions, toxin structure, voltage-gated channel,
membrane protein; 2.50A {Escherichia coli}
Length = 191
Score = 27.8 bits (62), Expect = 2.0
Identities = 18/89 (20%), Positives = 31/89 (34%), Gaps = 20/89 (22%)
Query: 2 KQYHKFQRELYCDLQGENIEAFNSASKTVKCLQLANGAVYYDEEKHWKEVHDEKIKA--L 59
++Y K +EL +G+ I N A EK+ K+V ++K
Sbjct: 34 EKYSKMAQELADKSKGKKIGNVNEALAAF--------------EKY-KDVLNKKFSKADR 78
Query: 60 EVIIEKANAAPIIVAYHFNSDLARLQKAF 88
+ I NA + + L + K
Sbjct: 79 DAI---FNALASVKYDDWAKHLDQFAKYL 104
>1fuk_A Eukaryotic initiation factor 4A; helicase, DEAD-box protein,
translation; 1.75A {Saccharomyces cerevisiae} SCOP:
c.37.1.19
Length = 165
Score = 26.2 bits (57), Expect = 6.0
Identities = 17/152 (11%), Positives = 49/152 (32%), Gaps = 19/152 (12%)
Query: 52 HDEKIKALEVIIEKANAAPIIVAYHFNSDLARLQKAFPQ----------GRTLDKDPCTI 101
+ K + L + + + ++ + + L + +
Sbjct: 14 EEYKYECLTDLYDSISVTQAVIFCNTRRKVEELTTKLRNDKFTVSAIYSDLPQQERDTIM 73
Query: 102 QEWNEGKIPLLFAHPASCGHGLNLQYGGNILVFFSLWWDLEEHQQMIERIGVTRQRQAGF 161
+E+ G +L + G+++Q ++++ + L + E + I R G R + G
Sbjct: 74 KEFRSGSSRILIST-DLLARGIDVQ-QVSLVINYDLPANKENYIHRIGRGG--RFGRKG- 128
Query: 162 KRAVFVYYLIAQNTIDELVLQRLRTKSTIQDL 193
+ + + + I++L
Sbjct: 129 ----VAINFVTNEDVGAMRELEKFYSTQIEEL 156
>1fuu_A Yeast initiation factor 4A; IF4A, helicase, DEAD-box protein,
translation; 2.50A {Saccharomyces cerevisiae} SCOP:
c.37.1.19 PDB: 2vso_A* 2vsx_A*
Length = 394
Score = 25.8 bits (55), Expect = 6.6
Identities = 14/129 (10%), Positives = 40/129 (31%), Gaps = 1/129 (0%)
Query: 24 NSASKTVKCLQLANGAVYYDEEKHWKEVHDEKIKALEVIIEKANAAPIIVAYHFNSDLAR 83
T++ ++ V +E K+ ++ + N + +
Sbjct: 224 KKDELTLEGIKQFYVNVEEEEYKYECLTDLYDSISVTQAVIFCNTRRKVEELTTKLRNDK 283
Query: 84 LQKAFPQGRTLDKDPCTIQEWNEGKIPLLFAHPASCGHGLNLQYGGNILVFFSLWWDLEE 143
+ ++ TI + + G+++Q ++++ + L + E
Sbjct: 284 FTVSAIYSDLPQQERDTIMKEFRSGSSRILISTDLLARGIDVQ-QVSLVINYDLPANKEN 342
Query: 144 HQQMIERIG 152
+ I R G
Sbjct: 343 YIHRIGRGG 351
>3elf_A Fructose-bisphosphate aldolase; zinc enzyme, mechanism,
dihydroxyacetone, glyceraldehyde-3-phosphate, aldol
condensation, glycolysis; HET: 2FP; 1.31A
{Mycobacterium tuberculosis} PDB: 3ekz_A* 3ekl_A*
Length = 349
Score = 25.7 bits (56), Expect = 8.4
Identities = 9/44 (20%), Positives = 16/44 (36%)
Query: 33 LQLANGAVYYDEEKHWKEVHDEKIKALEVIIEKANAAPIIVAYH 76
+Q + G + K++ + E A P+ VA H
Sbjct: 50 IQFSTGGAEFGSGLGVKDMVTGAVALAEFTHVIAAKYPVNVALH 93
Database: pdb70
Posted date: Jan 26, 2011 11:21 AM
Number of letters in database: 5,693,230
Number of sequences in database: 24,244
Lambda K H
0.322 0.137 0.414
Gapped
Lambda K H
0.267 0.0479 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 24244
Number of Hits to DB: 1,843,147
Number of extensions: 83603
Number of successful extensions: 289
Number of sequences better than 10.0: 1
Number of HSP's gapped: 280
Number of HSP's successfully gapped: 32
Length of query: 205
Length of database: 5,693,230
Length adjustment: 88
Effective length of query: 117
Effective length of database: 3,559,758
Effective search space: 416491686
Effective search space used: 416491686
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 54 (25.2 bits)