BLASTP 2.2.26 [Sep-21-2011]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Reference for compositional score matrix adjustment: Altschul, Stephen F.,
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.
Query= 048746
(755 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3KX2|B Chain B, Crystal Structure Of Prp43p In Complex With Adp
pdb|3KX2|A Chain A, Crystal Structure Of Prp43p In Complex With Adp
Length = 767
Score = 616 bits (1588), Expect = e-176, Method: Compositional matrix adjust.
Identities = 332/653 (50%), Positives = 433/653 (66%), Gaps = 35/653 (5%)
Query: 127 RKTLPIYPYRDELLQAVNEYQVLVIVGETGSGKTTQIPQYL--HEAGYTKQGKVGCTQPX 184
R+ LP++ RDE L+ Q++V VGETGSGKTTQIPQ++ E + + +V CTQP
Sbjct: 90 RRELPVHAQRDEFLKLYQNNQIMVFVGETGSGKTTQIPQFVLFDEMPHLENTQVACTQPR 149
Query: 185 XXXXXXXXXXXXQEMGVKLGHEVGYSIRFEDCTSEKTILKYMTDGMLLREILSEPNLESY 244
+EM VKLG EVGYSIRFE+ TS KTILKYMTDGMLLRE + + +L Y
Sbjct: 150 RVAAMSVAQRVAEEMDVKLGEEVGYSIRFENKTSNKTILKYMTDGMLLREAMEDHDLSRY 209
Query: 245 SVLMVDEAHERTLSTDILFGLLKDLIKFRSDLKLLISSATLDAEKFSDYFGSAPIFKIPG 304
S +++DEAHERTL+TDIL GLLK ++K R DLK++I SATLDAEKF YF AP+ +PG
Sbjct: 210 SCIILDEAHERTLATDILMGLLKQVVKRRPDLKIIIMSATLDAEKFQRYFNDAPLLAVPG 269
Query: 305 RRYPVEIHYTKAPEADYIDAAIVTVLQIHVTQSPGDILVFLTGQEEIETA--------DE 356
R YPVE++YT + DY+D+AI TVLQIH T+ GDIL+FLTG++EIE A D+
Sbjct: 270 RTYPVELYYTPEFQRDYLDSAIRTVLQIHATEEAGDILLFLTGEDEIEDAVRKISLEGDQ 329
Query: 357 ILKHRTRGLGSKIAELIICPIYANLPTELQAKIFEPTPEG-----ARKVVLATNIAETSL 411
++ R G G L + P+Y +LP Q +IFEP PE RKVV++TNIAETSL
Sbjct: 330 LV--REEGCGP----LSVYPLYGSLPPHQQQRIFEPAPESHNGRPGRKVVISTNIAETSL 383
Query: 412 TIDGIKYVIDPGFSKVKSYNPRTGMESLLVHPISKASAMQRAGRSGRTGPGKCFRLYTLH 471
TIDGI YV+DPGFSK K YNPR +ESLLV PISKASA QRAGR+GRT PGKCFRLYT
Sbjct: 384 TIDGIVYVVDPGFSKQKVYNPRIRVESLLVSPISKASAQQRAGRAGRTRPGKCFRLYTEE 443
Query: 472 NYHKDMDDNTVPEIQRTNLANVVLILKSLGIDDLVNFDFIDPPPXXXXXXXXXXXXXXXX 531
+ K++ + + PEI R+NL++ VL LK LGIDDLV+FDF+DPP
Sbjct: 444 AFQKELIEQSYPEILRSNLSSTVLELKKLGIDDLVHFDFMDPPAPETMMRALEELNYLAC 503
Query: 532 XXXXGELTKVGRRMAEFPLDPMLSKMIVASDKDKCSDEIITIAAMLSVGNSIFYRPKDKQ 591
G LT +GR ++FPLDPML+ M++ S + +CS EI+TI AMLSV N +F RP +
Sbjct: 504 LDDEGNLTPLGRLASQFPLDPMLAVMLIGSFEFQCSQEILTIVAMLSVPN-VFIRPTKDK 562
Query: 592 VHADNARMNFHLGNVGDHIALLRVYNSWRE---CNYST-QWCYENYIQVRSMKRARDIRD 647
AD+A+ N GDHI LL VY++++ Y +WC ++Y+ RS+ A +IR
Sbjct: 563 KRADDAK-NIFAHPDGDHITLLNVYHAFKSDEAYEYGIHKWCRDHYLNYRSLSAADNIRS 621
Query: 648 QLEGLLERVEIEVTSNLND----LDAIKKAITSGFFPHSAKLQKNGS--YWTVKHPQRVH 701
QLE L+ R +E+ + + D I+KA+ SGFF AK +++G+ Y TVK Q V
Sbjct: 622 QLERLMNRYNLELNTTDYESPKYFDNIRKALASGFFMQVAK-KRSGAKGYITVKDNQDVL 680
Query: 702 IHPSSGLAQVLPRWVVYHELVLTTKEYMRQVTELKPEWLVEIAPHYYQLKDVE 754
IHPS+ L WV+Y+E VLT+K Y+R VT ++PEWL+EIAP YY L + +
Sbjct: 681 IHPSTVLGHD-AEWVIYNEFVLTSKNYIRTVTSVRPEWLIEIAPAYYDLSNFQ 732
>pdb|2XAU|A Chain A, Crystal Structure Of The Prp43p Deah-Box Rna Helicase In
Complex With Adp
pdb|2XAU|B Chain B, Crystal Structure Of The Prp43p Deah-Box Rna Helicase In
Complex With Adp
Length = 773
Score = 616 bits (1588), Expect = e-176, Method: Compositional matrix adjust.
Identities = 332/653 (50%), Positives = 433/653 (66%), Gaps = 35/653 (5%)
Query: 127 RKTLPIYPYRDELLQAVNEYQVLVIVGETGSGKTTQIPQYL--HEAGYTKQGKVGCTQPX 184
R+ LP++ RDE L+ Q++V VGETGSGKTTQIPQ++ E + + +V CTQP
Sbjct: 90 RRELPVHAQRDEFLKLYQNNQIMVFVGETGSGKTTQIPQFVLFDEMPHLENTQVACTQPR 149
Query: 185 XXXXXXXXXXXXQEMGVKLGHEVGYSIRFEDCTSEKTILKYMTDGMLLREILSEPNLESY 244
+EM VKLG EVGYSIRFE+ TS KTILKYMTDGMLLRE + + +L Y
Sbjct: 150 RVAAMSVAQRVAEEMDVKLGEEVGYSIRFENKTSNKTILKYMTDGMLLREAMEDHDLSRY 209
Query: 245 SVLMVDEAHERTLSTDILFGLLKDLIKFRSDLKLLISSATLDAEKFSDYFGSAPIFKIPG 304
S +++DEAHERTL+TDIL GLLK ++K R DLK++I SATLDAEKF YF AP+ +PG
Sbjct: 210 SCIILDEAHERTLATDILMGLLKQVVKRRPDLKIIIMSATLDAEKFQRYFNDAPLLAVPG 269
Query: 305 RRYPVEIHYTKAPEADYIDAAIVTVLQIHVTQSPGDILVFLTGQEEIETA--------DE 356
R YPVE++YT + DY+D+AI TVLQIH T+ GDIL+FLTG++EIE A D+
Sbjct: 270 RTYPVELYYTPEFQRDYLDSAIRTVLQIHATEEAGDILLFLTGEDEIEDAVRKISLEGDQ 329
Query: 357 ILKHRTRGLGSKIAELIICPIYANLPTELQAKIFEPTPEG-----ARKVVLATNIAETSL 411
++ R G G L + P+Y +LP Q +IFEP PE RKVV++TNIAETSL
Sbjct: 330 LV--REEGCGP----LSVYPLYGSLPPHQQQRIFEPAPESHNGRPGRKVVISTNIAETSL 383
Query: 412 TIDGIKYVIDPGFSKVKSYNPRTGMESLLVHPISKASAMQRAGRSGRTGPGKCFRLYTLH 471
TIDGI YV+DPGFSK K YNPR +ESLLV PISKASA QRAGR+GRT PGKCFRLYT
Sbjct: 384 TIDGIVYVVDPGFSKQKVYNPRIRVESLLVSPISKASAQQRAGRAGRTRPGKCFRLYTEE 443
Query: 472 NYHKDMDDNTVPEIQRTNLANVVLILKSLGIDDLVNFDFIDPPPXXXXXXXXXXXXXXXX 531
+ K++ + + PEI R+NL++ VL LK LGIDDLV+FDF+DPP
Sbjct: 444 AFQKELIEQSYPEILRSNLSSTVLELKKLGIDDLVHFDFMDPPAPETMMRALEELNYLAC 503
Query: 532 XXXXGELTKVGRRMAEFPLDPMLSKMIVASDKDKCSDEIITIAAMLSVGNSIFYRPKDKQ 591
G LT +GR ++FPLDPML+ M++ S + +CS EI+TI AMLSV N +F RP +
Sbjct: 504 LDDEGNLTPLGRLASQFPLDPMLAVMLIGSFEFQCSQEILTIVAMLSVPN-VFIRPTKDK 562
Query: 592 VHADNARMNFHLGNVGDHIALLRVYNSWRE---CNYST-QWCYENYIQVRSMKRARDIRD 647
AD+A+ N GDHI LL VY++++ Y +WC ++Y+ RS+ A +IR
Sbjct: 563 KRADDAK-NIFAHPDGDHITLLNVYHAFKSDEAYEYGIHKWCRDHYLNYRSLSAADNIRS 621
Query: 648 QLEGLLERVEIEVTSNLND----LDAIKKAITSGFFPHSAKLQKNGS--YWTVKHPQRVH 701
QLE L+ R +E+ + + D I+KA+ SGFF AK +++G+ Y TVK Q V
Sbjct: 622 QLERLMNRYNLELNTTDYESPKYFDNIRKALASGFFMQVAK-KRSGAKGYITVKDNQDVL 680
Query: 702 IHPSSGLAQVLPRWVVYHELVLTTKEYMRQVTELKPEWLVEIAPHYYQLKDVE 754
IHPS+ L WV+Y+E VLT+K Y+R VT ++PEWL+EIAP YY L + +
Sbjct: 681 IHPSTVLGHD-AEWVIYNEFVLTSKNYIRTVTSVRPEWLIEIAPAYYDLSNFQ 732
>pdb|3I4U|A Chain A, Crystal Structure Analysis Of A Helicase Associated Domain
Length = 270
Score = 240 bits (613), Expect = 2e-63, Method: Compositional matrix adjust.
Identities = 116/219 (52%), Positives = 155/219 (70%), Gaps = 2/219 (0%)
Query: 536 GELTKVGRRMAEFPLDPMLSKMIVASDKDKCSDEIITIAAMLSVGNSIFYRPKDKQVHAD 595
G LT++GRRMAEFPL+PML KM++ S CS+E++TI +MLSV N +FYRPKDKQ AD
Sbjct: 37 GLLTRLGRRMAEFPLEPMLCKMLIMSVHLGCSEEMLTIVSMLSVQN-VFYRPKDKQALAD 95
Query: 596 NARMNFHLGNVGDHIALLRVYNSWRECNYSTQWCYENYIQVRSMKRARDIRDQLEGLLER 655
+ FH GDH+ LL VYNSW+ +S WCYEN+IQ RS++RA+DIR Q+ G+++R
Sbjct: 96 QKKAKFHQTE-GDHLTLLAVYNSWKNNKFSNPWCYENFIQARSLRRAQDIRKQMLGIMDR 154
Query: 656 VEIEVTSNLNDLDAIKKAITSGFFPHSAKLQKNGSYWTVKHPQRVHIHPSSGLAQVLPRW 715
+++V S ++KAI SGFF ++AK Y T+ Q V+IHPSS L P W
Sbjct: 155 HKLDVVSCGKSTVRVQKAICSGFFRNAAKKDPQEGYRTLIDQQVVYIHPSSALFNRQPEW 214
Query: 716 VVYHELVLTTKEYMRQVTELKPEWLVEIAPHYYQLKDVE 754
VVYHELVLTTKEYMR+VT + P WLVE AP ++++ +V+
Sbjct: 215 VVYHELVLTTKEYMREVTTIDPRWLVEFAPAFFKVLEVD 253
>pdb|3LLM|A Chain A, Crystal Structure Analysis Of A Rna Helicase
pdb|3LLM|B Chain B, Crystal Structure Analysis Of A Rna Helicase
Length = 235
Score = 113 bits (283), Expect = 3e-25, Method: Composition-based stats.
Identities = 63/203 (31%), Positives = 113/203 (55%), Gaps = 7/203 (3%)
Query: 105 ELHSELPDKSKEKSALEMLQEERKTLPIYPYRDELLQAVNEYQVLVIVGETGSGKTTQIP 164
+L +EL + ++ L+ + +ER+ LP+ + E+L+A+++ V++I G TG GKTTQ+P
Sbjct: 35 DLKNELXYQLEQDHDLQAILQERELLPVKKFESEILEAISQNSVVIIRGATGCGKTTQVP 94
Query: 165 QYLHEAGYTKQGKVGC----TQPXXXXXXXXXXXXXQEMGVKLGHEVGYSIRFEDCTSE- 219
Q++ + C TQP E G + G GYS+RFE
Sbjct: 95 QFILDDFIQNDRAAECNIVVTQPRRISAVSVAERVAFERGEEPGKSCGYSVRFESILPRP 154
Query: 220 KTILKYMTDGMLLREILSEPNLESYSVLMVDEAHERTLSTDILFGLLKDLIKFRSDLKLL 279
+ + T G+LLR++ E + S ++VDE HER ++TD L +L+D+++ +++++
Sbjct: 155 HASIXFCTVGVLLRKL--EAGIRGISHVIVDEIHERDINTDFLLVVLRDVVQAYPEVRIV 212
Query: 280 ISSATLDAEKFSDYFGSAPIFKI 302
+ SAT+D F +YF + PI ++
Sbjct: 213 LXSATIDTSXFCEYFFNCPIIEV 235
>pdb|3RC8|A Chain A, Human Mitochondrial Helicase Suv3 In Complex With Short
Rna Fragment
Length = 677
Score = 38.9 bits (89), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 47/160 (29%), Positives = 75/160 (46%), Gaps = 26/160 (16%)
Query: 309 VEIHYTKAPEADYIDAAIVTVLQI--HVTQS-----PGDILVFLTGQEEIETADEILKHR 361
+E+ YT E + D +T + + H +S PGD +V + + + +I
Sbjct: 285 MELMYTTGEEVEVRDYKRLTPISVLDHALESLDNLRPGDCIVCFSKNDIYSVSRQI---E 341
Query: 362 TRGLGSKIAELIICPIYANLP--TEL-QAKIFEPTPEGARKVVLATNIAETSLTIDGIKY 418
RGL S + IY +LP T+L QAK F P K+++AT+ L + I+
Sbjct: 342 IRGLESAV-------IYGSLPPGTKLAQAKKFN-DPNDPCKILVATDAIGMGLNL-SIRR 392
Query: 419 VIDPGFSKVKSYNPRTGMESLLVHPISKASAMQRAGRSGR 458
+I +S +K G L PI+ + A+Q AGR+GR
Sbjct: 393 II--FYSLIKPSINEKGEREL--EPITTSQALQIAGRAGR 428
>pdb|3RC3|A Chain A, Human Mitochondrial Helicase Suv3
Length = 677
Score = 38.9 bits (89), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 47/159 (29%), Positives = 74/159 (46%), Gaps = 26/159 (16%)
Query: 310 EIHYTKAPEADYIDAAIVTVLQI--HVTQS-----PGDILVFLTGQEEIETADEILKHRT 362
E+ YT E + D +T + + H +S PGD +V + + + +I
Sbjct: 286 ELXYTTGEEVEVRDYKRLTPISVLDHALESLDNLRPGDCIVCFSKNDIYSVSRQI---EI 342
Query: 363 RGLGSKIAELIICPIYANLP--TEL-QAKIFEPTPEGARKVVLATNIAETSLTIDGIKYV 419
RGL S + IY +LP T+L QAK F P K+++AT+ L + I+ +
Sbjct: 343 RGLESAV-------IYGSLPPGTKLAQAKKFN-DPNDPCKILVATDAIGXGLNL-SIRRI 393
Query: 420 IDPGFSKVKSYNPRTGMESLLVHPISKASAMQRAGRSGR 458
I +S +K G L PI+ + A+Q AGR+GR
Sbjct: 394 I--FYSLIKPSINEKGEREL--EPITTSQALQIAGRAGR 428
>pdb|2GZA|A Chain A, Crystal Structure Of The Virb11 Atpase From The Brucella
Suis Type Iv Secretion System In Complex With Sulphate
pdb|2GZA|B Chain B, Crystal Structure Of The Virb11 Atpase From The Brucella
Suis Type Iv Secretion System In Complex With Sulphate
pdb|2GZA|C Chain C, Crystal Structure Of The Virb11 Atpase From The Brucella
Suis Type Iv Secretion System In Complex With Sulphate
Length = 361
Score = 33.1 bits (74), Expect = 0.65, Method: Compositional matrix adjust.
Identities = 16/41 (39%), Positives = 25/41 (60%)
Query: 135 YRDELLQAVNEYQVLVIVGETGSGKTTQIPQYLHEAGYTKQ 175
Y L +AV +V+V+ GETGSGKTT + + E + ++
Sbjct: 164 YMSFLRRAVQLERVIVVAGETGSGKTTLMKALMQEIPFDQR 204
>pdb|2ZJO|A Chain A, Crystal Structure Of Hepatitis C Virus Ns3 Helicase With A
Novel Inhibitor
Length = 482
Score = 32.3 bits (72), Expect = 0.93, Method: Compositional matrix adjust.
Identities = 50/207 (24%), Positives = 81/207 (39%), Gaps = 35/207 (16%)
Query: 146 YQVLVIVGETGSGKTTQIPQYLHEAGYTKQG-KVGCTQPXXXXXXXXXXXXXQEMGVKLG 204
+QV + TGSGK+T++P A Y QG KV P + GV
Sbjct: 42 FQVAHLHAPTGSGKSTKVP-----AAYAAQGYKVLVLNPSVAATLGFGAYMSKAHGVDPN 96
Query: 205 HEVGY-SIRFEDCTSEKTILKYMTDGMLLREILSEPNLESYSVLMVDEAHERTLSTDILF 263
G +I + T K++ DG + +Y ++M DE H +T +
Sbjct: 97 IRTGVRTITTGAPITYSTYGKFLADGGC--------SGGAYDIIMCDECHSTDSTTILGI 148
Query: 264 GLLKDLIKFRSDLKLLISSAT----------------LDAEKFSDYFGSA-PIFKIPGRR 306
G + D + +++++AT L ++G A PI I G R
Sbjct: 149 GTVLDQAETAGARLVVLATATPPGSVTVPHPNIEEIALSNTGEIPFYGKAIPIETIKGGR 208
Query: 307 YPVEIHYTKAPEADYIDAAIVTVLQIH 333
+ + H K + D + AA ++ L IH
Sbjct: 209 HLIFCHSKK--KCDEL-AAKLSALGIH 232
>pdb|3EWS|A Chain A, Human Dead-Box Rna-Helicase Ddx19 In Complex With Adp
pdb|3EWS|B Chain B, Human Dead-Box Rna-Helicase Ddx19 In Complex With Adp
Length = 445
Score = 31.2 bits (69), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 20/78 (25%), Positives = 33/78 (42%), Gaps = 12/78 (15%)
Query: 383 TELQAKIFEPTPEGARKVVLATNIAETSLTIDGIKYVIDPGFSKVKSYNPRTGMESLLVH 442
E +A + E EG KV++ TN+ + ++ + VI+ K NP
Sbjct: 339 VEQRAAVIERFREGKEKVLVTTNVCARGIDVEQVSVVINFDLPVDKDGNP---------- 388
Query: 443 PISKASAMQRAGRSGRTG 460
+ + R GR+GR G
Sbjct: 389 --DNETYLHRIGRTGRFG 404
>pdb|1A1V|A Chain A, Hepatitis C Virus Ns3 Helicase Domain Complexed With
Single Stranded Sdna
Length = 476
Score = 31.2 bits (69), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 50/232 (21%), Positives = 88/232 (37%), Gaps = 44/232 (18%)
Query: 144 NEYQVLVIVGETGSGKTTQIPQYLHEAGYTKQG-KVGCTQPXXXXXXXXXXXXXQEMGVK 202
+QV + TGSGK+T++P A Y QG KV P + GV
Sbjct: 30 QSFQVAHLHAPTGSGKSTKVP-----AAYAAQGYKVLVLNPSVAATLGFGAYMSKAHGVD 84
Query: 203 LGHEVGY-SIRFEDCTSEKTILKYMTDGMLLREILSEPNLESYSVLMVDEAHERTLSTDI 261
G +I + T K++ DG + +Y +++ DE H ++ +
Sbjct: 85 PNIRTGVRTITTGSPITYSTYGKFLADGGX--------SGGAYDIIICDECHSTDATSIL 136
Query: 262 LFGLLKDLIKFRSDLKLLISSAT----------------LDAEKFSDYFGSA-PIFKIPG 304
G + D + +++++AT L ++G A P+ I G
Sbjct: 137 GIGTVLDQAETAGARLVVLATATPPGSVTVPHPNIEEVALSTTGEIPFYGKAIPLEVIKG 196
Query: 305 RRYPVEIHYTKAPEADYIDAAIVTV----------LQIHVTQSPGDILVFLT 346
R+ + H K + D + A +V + L + V + GD++V T
Sbjct: 197 GRHLIFCHSKK--KCDELAAKLVALGINAVAYYRGLDVSVIPTSGDVVVVAT 246
>pdb|3G0H|A Chain A, Human Dead-box Rna Helicase Ddx19, In Complex With An
Atp-analogue And Rna
Length = 424
Score = 31.2 bits (69), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 20/78 (25%), Positives = 33/78 (42%), Gaps = 12/78 (15%)
Query: 383 TELQAKIFEPTPEGARKVVLATNIAETSLTIDGIKYVIDPGFSKVKSYNPRTGMESLLVH 442
E +A + E EG KV++ TN+ + ++ + VI+ K NP
Sbjct: 318 VEQRAAVIERFREGKEKVLVTTNVCARGIDVEQVSVVINFDLPVDKDGNP---------- 367
Query: 443 PISKASAMQRAGRSGRTG 460
+ + R GR+GR G
Sbjct: 368 --DNETYLHRIGRTGRFG 383
>pdb|3FHT|A Chain A, Crystal Structure Of Human Dbp5 In Complex With Amppnp And
Rna
pdb|3FHT|B Chain B, Crystal Structure Of Human Dbp5 In Complex With Amppnp And
Rna
Length = 412
Score = 31.2 bits (69), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 20/78 (25%), Positives = 33/78 (42%), Gaps = 12/78 (15%)
Query: 383 TELQAKIFEPTPEGARKVVLATNIAETSLTIDGIKYVIDPGFSKVKSYNPRTGMESLLVH 442
E +A + E EG KV++ TN+ + ++ + VI+ K NP
Sbjct: 302 VEQRAAVIERFREGKEKVLVTTNVCARGIDVEQVSVVINFDLPVDKDGNP---------- 351
Query: 443 PISKASAMQRAGRSGRTG 460
+ + R GR+GR G
Sbjct: 352 --DNETYLHRIGRTGRFG 367
>pdb|2F55|A Chain A, Two Hepatitis C Virus Ns3 Helicase Domains Complexed With
The Same Strand Of Dna
pdb|2F55|B Chain B, Two Hepatitis C Virus Ns3 Helicase Domains Complexed With
The Same Strand Of Dna
pdb|2F55|C Chain C, Two Hepatitis C Virus Ns3 Helicase Domains Complexed With
The Same Strand Of Dna
Length = 435
Score = 31.2 bits (69), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 32/141 (22%), Positives = 57/141 (40%), Gaps = 15/141 (10%)
Query: 146 YQVLVIVGETGSGKTTQIPQYLHEAGYTKQG-KVGCTQPXXXXXXXXXXXXXQEMGVKLG 204
+QV + TGSGK+T++P A Y QG KV P + G+
Sbjct: 8 FQVAHLHAPTGSGKSTKVP-----AAYAAQGYKVLVLNPSVAATLGFGAYMSKAHGIDPN 62
Query: 205 HEVGY-SIRFEDCTSEKTILKYMTDGMLLREILSEPNLESYSVLMVDEAHERTLSTDILF 263
G +I + T K++ DG + +Y +++ DE H +T +
Sbjct: 63 IRTGVRTITTGGSITYSTYGKFLADGGC--------SGGAYDIIICDECHSTDSTTILGI 114
Query: 264 GLLKDLIKFRSDLKLLISSAT 284
G + D + +++++AT
Sbjct: 115 GTVLDQAETAGARLVVLATAT 135
>pdb|2OG2|A Chain A, Crystal Structure Of Chloroplast Ftsy From Arabidopsis
Thaliana
Length = 359
Score = 31.2 bits (69), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 22/61 (36%), Positives = 31/61 (50%), Gaps = 8/61 (13%)
Query: 108 SELPDKSKEKSALEMLQEERKTLPIYPYRDELLQAVNEYQVLVIVGETGSGKTTQIPQYL 167
SE+ D KE S LEML ++ + EL + V++IVG G GKTT + +
Sbjct: 127 SEIKDALKE-SVLEMLAKKNS-------KTELQLGFRKPAVIMIVGVNGGGKTTSLGKLA 178
Query: 168 H 168
H
Sbjct: 179 H 179
>pdb|3B9Q|A Chain A, The Crystal Structure Of Cpftsy From Arabidopsis Thaliana
Length = 302
Score = 31.2 bits (69), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 22/61 (36%), Positives = 31/61 (50%), Gaps = 8/61 (13%)
Query: 108 SELPDKSKEKSALEMLQEERKTLPIYPYRDELLQAVNEYQVLVIVGETGSGKTTQIPQYL 167
SE+ D KE S LEML ++ + EL + V++IVG G GKTT + +
Sbjct: 70 SEIKDALKE-SVLEMLAKKNS-------KTELQLGFRKPAVIMIVGVNGGGKTTSLGKLA 121
Query: 168 H 168
H
Sbjct: 122 H 122
>pdb|3FMP|B Chain B, Crystal Structure Of The Nucleoporin Nup214 In Complex
With The Dead- Box Helicase Ddx19
pdb|3FMP|D Chain D, Crystal Structure Of The Nucleoporin Nup214 In Complex
With The Dead- Box Helicase Ddx19
Length = 479
Score = 30.8 bits (68), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 20/78 (25%), Positives = 33/78 (42%), Gaps = 12/78 (15%)
Query: 383 TELQAKIFEPTPEGARKVVLATNIAETSLTIDGIKYVIDPGFSKVKSYNPRTGMESLLVH 442
E +A + E EG KV++ TN+ + ++ + VI+ K NP
Sbjct: 369 VEQRAAVIERFREGKEKVLVTTNVCARGIDVEQVSVVINFDLPVDKDGNP---------- 418
Query: 443 PISKASAMQRAGRSGRTG 460
+ + R GR+GR G
Sbjct: 419 --DNETYLHRIGRTGRFG 434
>pdb|3KQL|A Chain A, Three Conformational Snapshots Of The Hepatitis C Virus
Ns3 Helicase Reveal A Ratchet Translocation Mechanism
pdb|3KQL|B Chain B, Three Conformational Snapshots Of The Hepatitis C Virus
Ns3 Helicase Reveal A Ratchet Translocation Mechanism
pdb|3KQN|A Chain A, Three Conformational Snapshots Of The Hepatitis C Virus
Ns3 Helicase Reveal A Ratchet Translocation Mechanism
pdb|3KQU|A Chain A, Three Conformational Snapshots Of The Hepatitis C Virus
Ns3 Helicase Reveal A Ratchet Translocation Mechanism
pdb|3KQU|B Chain B, Three Conformational Snapshots Of The Hepatitis C Virus
Ns3 Helicase Reveal A Ratchet Translocation Mechanism
pdb|3KQU|C Chain C, Three Conformational Snapshots Of The Hepatitis C Virus
Ns3 Helicase Reveal A Ratchet Translocation Mechanism
pdb|3KQU|D Chain D, Three Conformational Snapshots Of The Hepatitis C Virus
Ns3 Helicase Reveal A Ratchet Translocation Mechanism
pdb|3KQU|E Chain E, Three Conformational Snapshots Of The Hepatitis C Virus
Ns3 Helicase Reveal A Ratchet Translocation Mechanism
pdb|3KQU|F Chain F, Three Conformational Snapshots Of The Hepatitis C Virus
Ns3 Helicase Reveal A Ratchet Translocation Mechanism
Length = 437
Score = 30.8 bits (68), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 50/230 (21%), Positives = 88/230 (38%), Gaps = 44/230 (19%)
Query: 146 YQVLVIVGETGSGKTTQIPQYLHEAGYTKQG-KVGCTQPXXXXXXXXXXXXXQEMGVKLG 204
+QV + TGSGK+T++P A Y QG KV P + G+
Sbjct: 9 FQVAHLHAPTGSGKSTKVP-----AAYAAQGYKVLVLNPSVAATLGFGAYMSKAHGIDPN 63
Query: 205 HEVGY-SIRFEDCTSEKTILKYMTDGMLLREILSEPNLESYSVLMVDEAHERTLSTDILF 263
G +I + T K++ DG + +Y +++ DE H +T +
Sbjct: 64 IRTGVRTITTGAPITYSTYGKFLADGGC--------SGGAYDIIICDECHSTDSTTILGI 115
Query: 264 GLLKDLIKFRSDLKLLISSAT----------------LDAEKFSDYFGSA-PIFKIPGRR 306
G + D + +++++AT L + ++G A PI I G R
Sbjct: 116 GTVLDQAETAGARLVVLATATPPGSVTVPHPNIEEVALSSTGEIPFYGKAIPIETIKGGR 175
Query: 307 YPVEIHYTKAPEADYIDAAIVTV----------LQIHVTQSPGDILVFLT 346
+ + H K + D + A + + L + V + GD++V T
Sbjct: 176 HLIFCHSKK--KCDELAAKLSGLGLNAVAYYRGLDVSVIPTSGDVIVVAT 223
>pdb|1HEI|A Chain A, Structure Of The Hepatitis C Virus Rna Helicase Domain
pdb|1HEI|B Chain B, Structure Of The Hepatitis C Virus Rna Helicase Domain
Length = 451
Score = 30.8 bits (68), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 50/231 (21%), Positives = 88/231 (38%), Gaps = 44/231 (19%)
Query: 145 EYQVLVIVGETGSGKTTQIPQYLHEAGYTKQG-KVGCTQPXXXXXXXXXXXXXQEMGVKL 203
+QV + TGSGK+T++P A Y QG KV P + GV
Sbjct: 17 SFQVAHLHAPTGSGKSTKVP-----AAYAAQGYKVLVLNPSVAATLGFGAYMSKAHGVDP 71
Query: 204 GHEVGY-SIRFEDCTSEKTILKYMTDGMLLREILSEPNLESYSVLMVDEAHERTLSTDIL 262
G +I + T K++ DG + +Y +++ DE H ++ +
Sbjct: 72 NIRTGVRTITTGSPITYSTYGKFLADGGC--------SGGAYDIIICDECHSTDATSILG 123
Query: 263 FGLLKDLIKFRSDLKLLISSAT----------------LDAEKFSDYFGSA-PIFKIPGR 305
G + D + +++++AT L ++G A P+ I G
Sbjct: 124 IGTVLDQAETAGARLVVLATATPPGSVTVSHPNIEEVALSTTGEIPFYGKAIPLEVIKGG 183
Query: 306 RYPVEIHYTKAPEADYIDAAIVTV----------LQIHVTQSPGDILVFLT 346
R+ + H K + D + A +V + L + V + GD++V T
Sbjct: 184 RHLIFCHSKK--KCDELAAKLVALGINAVAYYRGLDVSVIPTNGDVVVVST 232
>pdb|3KQH|A Chain A, Three Conformational Snapshots Of The Hepatitis C Virus
Ns3 Helicase Reveal A Ratchet Translocation Mechanism
pdb|3KQH|B Chain B, Three Conformational Snapshots Of The Hepatitis C Virus
Ns3 Helicase Reveal A Ratchet Translocation Mechanism
pdb|3KQK|A Chain A, Three Conformational Snapshots Of The Hepatitis C Virus
Ns3 Helicase Reveal A Ratchet Translocation Mechanism
pdb|3KQK|B Chain B, Three Conformational Snapshots Of The Hepatitis C Virus
Ns3 Helicase Reveal A Ratchet Translocation Mechanism
Length = 436
Score = 30.8 bits (68), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 50/230 (21%), Positives = 88/230 (38%), Gaps = 44/230 (19%)
Query: 146 YQVLVIVGETGSGKTTQIPQYLHEAGYTKQG-KVGCTQPXXXXXXXXXXXXXQEMGVKLG 204
+QV + TGSGK+T++P A Y QG KV P + G+
Sbjct: 9 FQVAHLHAPTGSGKSTKVP-----AAYAAQGYKVLVLNPSVAATLGFGAYMSKAHGIDPN 63
Query: 205 HEVGY-SIRFEDCTSEKTILKYMTDGMLLREILSEPNLESYSVLMVDEAHERTLSTDILF 263
G +I + T K++ DG + +Y +++ DE H +T +
Sbjct: 64 IRTGVRTITTGAPITYSTYGKFLADGGC--------SGGAYDIIICDECHSTDSTTILGI 115
Query: 264 GLLKDLIKFRSDLKLLISSAT----------------LDAEKFSDYFGSA-PIFKIPGRR 306
G + D + +++++AT L + ++G A PI I G R
Sbjct: 116 GTVLDQAETAGARLVVLATATPPGSVTVPHPNIEEVALSSTGEIPFYGKAIPIETIKGGR 175
Query: 307 YPVEIHYTKAPEADYIDAAIVTV----------LQIHVTQSPGDILVFLT 346
+ + H K + D + A + + L + V + GD++V T
Sbjct: 176 HLIFCHSKK--KCDELAAKLSGLGLNAVAYYRGLDVSVIPTSGDVIVVAT 223
>pdb|3I44|A Chain A, Crystal Structure Of Aldehyde Dehydrogenase From
Bartonella Henselae At 2.0a Resolution
Length = 497
Score = 30.4 bits (67), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 39/154 (25%), Positives = 62/154 (40%), Gaps = 20/154 (12%)
Query: 588 KDKQVHADNA--RMNFHLGNVGDHI--------ALLR-----VYNSWRECNYSTQWCYEN 632
KD +A N R+ LG G +I AL R YNS + CN T+ E
Sbjct: 254 KDISKNASNTLKRVCLELGGKGANIIFADADIDALQRGVRHCFYNSGQSCNAPTRMLVEQ 313
Query: 633 YIQVRSMKRARDIRDQLE---GLLERVEIEVTSNLNDLDAIKKAITSGFFPHSAKLQKNG 689
I +++K A+DI ++ + G I + D I+ I SG A L G
Sbjct: 314 AIYDKAIKTAKDIAEKTQVGPGHQTGNHIGPVVSKEQYDKIQDLIQSG-IDEGATLVTGG 372
Query: 690 SYWTVKHPQRVHIHPSSGLAQVLPRWVVYHELVL 723
+ + + ++ P+ A V P ++ E +
Sbjct: 373 TGLPMGMERGYYVRPTV-FADVKPHMRIFREEIF 405
>pdb|2DB3|A Chain A, Structural Basis For Rna Unwinding By The Dead-Box Protein
Drosophila Vasa
pdb|2DB3|B Chain B, Structural Basis For Rna Unwinding By The Dead-Box Protein
Drosophila Vasa
pdb|2DB3|C Chain C, Structural Basis For Rna Unwinding By The Dead-Box Protein
Drosophila Vasa
pdb|2DB3|D Chain D, Structural Basis For Rna Unwinding By The Dead-Box Protein
Drosophila Vasa
Length = 434
Score = 30.4 bits (67), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 32/107 (29%), Positives = 43/107 (40%), Gaps = 32/107 (29%)
Query: 396 GARKVVLATNIAETSLTIDGIKYVIDPGF-SKVKSYNPRTGMESLLVHPISKASAMQRAG 454
G+ KV++AT++A L I IK+VI+ SK+ Y R G R G
Sbjct: 349 GSMKVLIATSVASRGLDIKNIKHVINYDMPSKIDDYVHRIG----------------RTG 392
Query: 455 RSGRTGPGKCFRLYTLHNYHKDMDDNTVPEIQRTNLANVVLILKSLG 501
R G G F D PE R A++V IL+ G
Sbjct: 393 RVGNNGRATSF-----------FD----PEKDRAIAADLVKILEGSG 424
>pdb|4B3G|A Chain A, Crystal Structure Of Ighmbp2 Helicase In Complex With Rna
pdb|4B3G|B Chain B, Crystal Structure Of Ighmbp2 Helicase In Complex With Rna
Length = 646
Score = 30.0 bits (66), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 17/49 (34%), Positives = 31/49 (63%), Gaps = 3/49 (6%)
Query: 136 RDELLQAVNEYQVLVIVGETGSGKTTQIPQYLHEAGYTKQG-KVGCTQP 183
++ +L A+++ ++ +I G G+GKTT + + + +A KQG KV C P
Sbjct: 195 KEAVLFALSQKELAIIHGPPGTGKTTTVVEIILQA--VKQGLKVLCCAP 241
>pdb|4B3F|X Chain X, Crystal Structure Of 1ghmbp2 Helicase
Length = 646
Score = 30.0 bits (66), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 17/49 (34%), Positives = 31/49 (63%), Gaps = 3/49 (6%)
Query: 136 RDELLQAVNEYQVLVIVGETGSGKTTQIPQYLHEAGYTKQG-KVGCTQP 183
++ +L A+++ ++ +I G G+GKTT + + + +A KQG KV C P
Sbjct: 195 KEAVLFALSQKELAIIHGPPGTGKTTTVVEIILQA--VKQGLKVLCCAP 241
>pdb|3VH2|A Chain A, Crystal Structure Of Saccharomyces Cerevisiae Atg7 (1-613)
Length = 616
Score = 29.6 bits (65), Expect = 7.2, Method: Compositional matrix adjust.
Identities = 17/60 (28%), Positives = 27/60 (45%), Gaps = 2/60 (3%)
Query: 9 NNVKSLQYRIPDAYDEEGHV--NQEKRFAVSLQRYNLDSAGDKMNPFAEQEAWEEHQMGK 66
N + LQY +PD D + + E FA++ ++D NP + WE + GK
Sbjct: 224 NFLSVLQYDVPDLIDFKLLIIRQNEGSFALNATFASIDPQSSSSNPDMKVSGWERNVQGK 283
>pdb|3VH1|A Chain A, Crystal Structure Of Saccharomyces Cerevisiae Atg7 (1-595)
Length = 598
Score = 29.6 bits (65), Expect = 7.2, Method: Compositional matrix adjust.
Identities = 17/60 (28%), Positives = 27/60 (45%), Gaps = 2/60 (3%)
Query: 9 NNVKSLQYRIPDAYDEEGHV--NQEKRFAVSLQRYNLDSAGDKMNPFAEQEAWEEHQMGK 66
N + LQY +PD D + + E FA++ ++D NP + WE + GK
Sbjct: 224 NFLSVLQYDVPDLIDFKLLIIRQNEGSFALNATFASIDPQSSSSNPDMKVSGWERNVQGK 283
>pdb|4GSL|A Chain A, Crystal Structure Of An Atg7-Atg3 Crosslinked Complex
pdb|4GSL|B Chain B, Crystal Structure Of An Atg7-Atg3 Crosslinked Complex
Length = 615
Score = 29.6 bits (65), Expect = 7.4, Method: Compositional matrix adjust.
Identities = 17/60 (28%), Positives = 27/60 (45%), Gaps = 2/60 (3%)
Query: 9 NNVKSLQYRIPDAYDEEGHV--NQEKRFAVSLQRYNLDSAGDKMNPFAEQEAWEEHQMGK 66
N + LQY +PD D + + E FA++ ++D NP + WE + GK
Sbjct: 223 NFLSVLQYDVPDLIDFKLLIIRQNEGSFALNATFASIDPQSSSSNPDMKVSGWERNVQGK 282
>pdb|4GSK|A Chain A, Crystal Structure Of An Atg7-Atg10 Crosslinked Complex
pdb|4GSK|B Chain B, Crystal Structure Of An Atg7-Atg10 Crosslinked Complex
Length = 615
Score = 29.3 bits (64), Expect = 7.8, Method: Compositional matrix adjust.
Identities = 17/60 (28%), Positives = 27/60 (45%), Gaps = 2/60 (3%)
Query: 9 NNVKSLQYRIPDAYDEEGHV--NQEKRFAVSLQRYNLDSAGDKMNPFAEQEAWEEHQMGK 66
N + LQY +PD D + + E FA++ ++D NP + WE + GK
Sbjct: 223 NFLSVLQYDVPDLIDFKLLIIRQNEGSFALNATFASIDPQSSSSNPDMKVSGWERNVQGK 282
>pdb|1TKL|A Chain A, Yeast Oxygen-Dependent Coproporphyrinogen Oxidase
pdb|1TKL|B Chain B, Yeast Oxygen-Dependent Coproporphyrinogen Oxidase
pdb|1TLB|A Chain A, Yeast Coproporphyrinogen Oxidase
pdb|1TLB|D Chain D, Yeast Coproporphyrinogen Oxidase
pdb|1TLB|Q Chain Q, Yeast Coproporphyrinogen Oxidase
pdb|1TLB|S Chain S, Yeast Coproporphyrinogen Oxidase
pdb|1TLB|U Chain U, Yeast Coproporphyrinogen Oxidase
pdb|1TLB|W Chain W, Yeast Coproporphyrinogen Oxidase
Length = 326
Score = 29.3 bits (64), Expect = 8.8, Method: Compositional matrix adjust.
Identities = 11/27 (40%), Positives = 17/27 (62%)
Query: 645 IRDQLEGLLERVEIEVTSNLNDLDAIK 671
IR Q+E L+ R + E+T L +D +K
Sbjct: 10 IRQQMEALIRRKQAEITQGLESIDTVK 36
>pdb|3RUJ|A Chain A, Crystal Structure Of N-Terminal Region Of Yeast Atg7
Length = 296
Score = 29.3 bits (64), Expect = 9.5, Method: Compositional matrix adjust.
Identities = 17/60 (28%), Positives = 27/60 (45%), Gaps = 2/60 (3%)
Query: 9 NNVKSLQYRIPDAYDEEGHV--NQEKRFAVSLQRYNLDSAGDKMNPFAEQEAWEEHQMGK 66
N + LQY +PD D + + E FA++ ++D NP + WE + GK
Sbjct: 223 NFLSVLQYDVPDLIDFKLLIIRQNEGSFALNATFASIDPQSSSSNPDXKVSGWERNVQGK 282
>pdb|1TK1|A Chain A, Yeast Oxygen-Dependent Coproporphyrinogen Oxidase
Length = 260
Score = 29.3 bits (64), Expect = 9.5, Method: Compositional matrix adjust.
Identities = 11/27 (40%), Positives = 17/27 (62%)
Query: 645 IRDQLEGLLERVEIEVTSNLNDLDAIK 671
IR Q+E L+ R + E+T L +D +K
Sbjct: 7 IRQQMEALIRRKQAEITQGLESIDTVK 33
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.317 0.135 0.394
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 21,900,273
Number of Sequences: 62578
Number of extensions: 895466
Number of successful extensions: 2680
Number of sequences better than 100.0: 49
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 42
Number of HSP's that attempted gapping in prelim test: 2649
Number of HSP's gapped (non-prelim): 52
length of query: 755
length of database: 14,973,337
effective HSP length: 106
effective length of query: 649
effective length of database: 8,340,069
effective search space: 5412704781
effective search space used: 5412704781
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 55 (25.8 bits)