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= psy1907
(1320 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 = 291 bits (745), Expect = 2e-78, Method: Compositional matrix adjust.
Identities = 153/341 (44%), Positives = 219/341 (64%), Gaps = 13/341 (3%)
Query: 796 VYVIDPGFCKQNNFNSRTGMESLTVVPISKASANQXXXXXXXXXXXKCFRLYTAWAYKHE 855
VYV+DPGF KQ +N R +ESL V PISKASA Q KCFRLYT A++ E
Sbjct: 389 VYVVDPGFSKQKVYNPRIRVESLLVSPISKASAQQRAGRAGRTRPGKCFRLYTEEAFQKE 448
Query: 856 LEDNTVPEIQRINLGNAVLMLKALGINDLIHFDFLDPPPHETLVLALEQLYALGALNHHG 915
L + + PEI R NL + VL LK LGI+DL+HFDF+DPP ET++ ALE+L L L+ G
Sbjct: 449 LIEQSYPEILRSNLSSTVLELKKLGIDDLVHFDFMDPPAPETMMRALEELNYLACLDDEG 508
Query: 916 DLTKLGRRMAEFPLDPMMGKMLLASEKYKCVEEIVTIASMLSVNGAIFYRPKDKIIHADT 975
+LT LGR ++FPLDPM+ ML+ S +++C +EI+TI +MLSV +F RP AD
Sbjct: 509 NLTPLGRLASQFPLDPMLAVMLIGSFEFQCSQEILTIVAMLSVPN-VFIRPTKDKKRADD 567
Query: 976 ARKNFFMLGGDHLVLLNIYNQW-ADADFST---QWCYENFIQHRSMKRARDVREQLIGLV 1031
A+ F GDH+ LLN+Y+ + +D + +WC ++++ +RS+ A ++R QL L+
Sbjct: 568 AKNIFAHPDGDHITLLNVYHAFKSDEAYEYGIHKWCRDHYLNYRSLSAADNIRSQLERLM 627
Query: 1032 QRVEMELVSNPTETV----NIRKAITAGYFYHIAKLSKSGS--YKTAKHNQTVMIHPNSS 1085
R +EL + E+ NIRKA+ +G+F +AK +SG+ Y T K NQ V+IHP++
Sbjct: 628 NRYNLELNTTDYESPKYFDNIRKALASGFFMQVAK-KRSGAKGYITVKDNQDVLIHPSTV 686
Query: 1086 LFEELPRWVLYHELVFTTKEFMRQVTEIESKWLLEVAPHYY 1126
L + WV+Y+E V T+K ++R VT + +WL+E+AP YY
Sbjct: 687 LGHD-AEWVIYNEFVLTSKNYIRTVTSVRPEWLIEIAPAYY 726
Score = 251 bits (642), Expect = 1e-66, Method: Compositional matrix adjust.
Identities = 130/255 (50%), Positives = 174/255 (68%), Gaps = 21/255 (8%)
Query: 1 MTDGTLHREFLSEPDLASYSVMIIDEAHERTLHTDILFGLVKDIVRFRSDLKLLISSATL 60
MTDG L RE + + DL+ YS +I+DEAHERTL TDIL GL+K +V+ R DLK++I SATL
Sbjct: 191 MTDGMLLREAMEDHDLSRYSCIILDEAHERTLATDILMGLLKQVVKRRPDLKIIIMSATL 250
Query: 61 DAQKFSEFFDDAPVFRIPGRRFPVDIYYTKAPEADYIDACVVSILQIHATQPLGDILVFL 120
DA+KF +F+DAP+ +PGR +PV++YYT + DY+D+ + ++LQIHAT+ GDIL+FL
Sbjct: 251 DAEKFQRYFNDAPLLAVPGRTYPVELYYTPEFQRDYLDSAIRTVLQIHATEEAGDILLFL 310
Query: 121 TGQEEIETCNEILQDRVRRLGSKIKELI---------ILPVYSNLPTDMQTKIFLPTPPN 171
TG++EIE D VR++ + +L+ + P+Y +LP Q +IF P P +
Sbjct: 311 TGEDEIE-------DAVRKISLEGDQLVREEGCGPLSVYPLYGSLPPHQQQRIFEPAPES 363
Query: 172 -----ARKVVLATNIAETSLTIDNIIYVIDPGFCKQNNFNSRTGMESLTVVPISKASANQ 226
RKVV++TNIAETSLTID I+YV+DPGF KQ +N R +ESL V PISKASA Q
Sbjct: 364 HNGRPGRKVVISTNIAETSLTIDGIVYVVDPGFSKQKVYNPRIRVESLLVSPISKASAQQ 423
Query: 227 RAGVITGFNPLSDFR 241
RAG P FR
Sbjct: 424 RAGRAGRTRPGKCFR 438
Score = 123 bits (308), Expect = 9e-28, Method: Compositional matrix adjust.
Identities = 64/152 (42%), Positives = 95/152 (62%), Gaps = 3/152 (1%)
Query: 658 KKLNIEETKKSLPIYPFKQDLIDAVRDHQVLIIEGETGSGKTTQIPQY-LHEAGFTKDKM 716
K ++I + ++ LP++ + + + +++Q+++ GETGSGKTTQIPQ+ L + +
Sbjct: 82 KYVDILKIRRELPVHAQRDEFLKLYQNNQIMVFVGETGSGKTTQIPQFVLFDEMPHLENT 141
Query: 717 KIGCTQPXXXXXXXXXXXXXEEMGVKLGCEVGYAIRFEDCTSERTIIKYMTDGTLHREFL 776
++ CTQP EEM VKLG EVGY+IRFE+ TS +TI+KYMTDG L RE +
Sbjct: 142 QVACTQPRRVAAMSVAQRVAEEMDVKLGEEVGYSIRFENKTSNKTILKYMTDGMLLREAM 201
Query: 777 SEPDLASYSVMIIDEAHPKVYVID--PGFCKQ 806
+ DL+ YS +I+DEAH + D G KQ
Sbjct: 202 EDHDLSRYSCIILDEAHERTLATDILMGLLKQ 233
Score = 114 bits (285), Expect = 4e-25, Method: Compositional matrix adjust.
Identities = 59/152 (38%), Positives = 97/152 (63%), Gaps = 12/152 (7%)
Query: 1152 GDHLVLLNIYNQW-ADADFST---QWCYENFIQHRSMKRARDVREQLIGLVQRVEMELVS 1207
GDH+ LLN+Y+ + +D + +WC ++++ +RS+ A ++R QL L+ R +EL +
Sbjct: 577 GDHITLLNVYHAFKSDEAYEYGIHKWCRDHYLNYRSLSAADNIRSQLERLMNRYNLELNT 636
Query: 1208 NPTETV----NIRKAITAGYFYHIAKLSKSGS--YKTAKHNQTVMIHPNSSLFEELPRWV 1261
E+ NIRKA+ +G+F +AK +SG+ Y T K NQ V+IHP++ L + WV
Sbjct: 637 TDYESPKYFDNIRKALASGFFMQVAK-KRSGAKGYITVKDNQDVLIHPSTVLGHD-AEWV 694
Query: 1262 LYHELVFTTKEFMRQVTEIESKWLLEVAPHYY 1293
+Y+E V T+K ++R VT + +WL+E+AP YY
Sbjct: 695 IYNEFVLTSKNYIRTVTSVRPEWLIEIAPAYY 726
>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 = 291 bits (745), Expect = 2e-78, Method: Compositional matrix adjust.
Identities = 153/341 (44%), Positives = 219/341 (64%), Gaps = 13/341 (3%)
Query: 796 VYVIDPGFCKQNNFNSRTGMESLTVVPISKASANQXXXXXXXXXXXKCFRLYTAWAYKHE 855
VYV+DPGF KQ +N R +ESL V PISKASA Q KCFRLYT A++ E
Sbjct: 389 VYVVDPGFSKQKVYNPRIRVESLLVSPISKASAQQRAGRAGRTRPGKCFRLYTEEAFQKE 448
Query: 856 LEDNTVPEIQRINLGNAVLMLKALGINDLIHFDFLDPPPHETLVLALEQLYALGALNHHG 915
L + + PEI R NL + VL LK LGI+DL+HFDF+DPP ET++ ALE+L L L+ G
Sbjct: 449 LIEQSYPEILRSNLSSTVLELKKLGIDDLVHFDFMDPPAPETMMRALEELNYLACLDDEG 508
Query: 916 DLTKLGRRMAEFPLDPMMGKMLLASEKYKCVEEIVTIASMLSVNGAIFYRPKDKIIHADT 975
+LT LGR ++FPLDPM+ ML+ S +++C +EI+TI +MLSV +F RP AD
Sbjct: 509 NLTPLGRLASQFPLDPMLAVMLIGSFEFQCSQEILTIVAMLSVPN-VFIRPTKDKKRADD 567
Query: 976 ARKNFFMLGGDHLVLLNIYNQW-ADADFST---QWCYENFIQHRSMKRARDVREQLIGLV 1031
A+ F GDH+ LLN+Y+ + +D + +WC ++++ +RS+ A ++R QL L+
Sbjct: 568 AKNIFAHPDGDHITLLNVYHAFKSDEAYEYGIHKWCRDHYLNYRSLSAADNIRSQLERLM 627
Query: 1032 QRVEMELVSNPTETV----NIRKAITAGYFYHIAKLSKSGS--YKTAKHNQTVMIHPNSS 1085
R +EL + E+ NIRKA+ +G+F +AK +SG+ Y T K NQ V+IHP++
Sbjct: 628 NRYNLELNTTDYESPKYFDNIRKALASGFFMQVAK-KRSGAKGYITVKDNQDVLIHPSTV 686
Query: 1086 LFEELPRWVLYHELVFTTKEFMRQVTEIESKWLLEVAPHYY 1126
L + WV+Y+E V T+K ++R VT + +WL+E+AP YY
Sbjct: 687 LGHD-AEWVIYNEFVLTSKNYIRTVTSVRPEWLIEIAPAYY 726
Score = 251 bits (642), Expect = 1e-66, Method: Compositional matrix adjust.
Identities = 130/255 (50%), Positives = 174/255 (68%), Gaps = 21/255 (8%)
Query: 1 MTDGTLHREFLSEPDLASYSVMIIDEAHERTLHTDILFGLVKDIVRFRSDLKLLISSATL 60
MTDG L RE + + DL+ YS +I+DEAHERTL TDIL GL+K +V+ R DLK++I SATL
Sbjct: 191 MTDGMLLREAMEDHDLSRYSCIILDEAHERTLATDILMGLLKQVVKRRPDLKIIIMSATL 250
Query: 61 DAQKFSEFFDDAPVFRIPGRRFPVDIYYTKAPEADYIDACVVSILQIHATQPLGDILVFL 120
DA+KF +F+DAP+ +PGR +PV++YYT + DY+D+ + ++LQIHAT+ GDIL+FL
Sbjct: 251 DAEKFQRYFNDAPLLAVPGRTYPVELYYTPEFQRDYLDSAIRTVLQIHATEEAGDILLFL 310
Query: 121 TGQEEIETCNEILQDRVRRLGSKIKELI---------ILPVYSNLPTDMQTKIFLPTPPN 171
TG++EIE D VR++ + +L+ + P+Y +LP Q +IF P P +
Sbjct: 311 TGEDEIE-------DAVRKISLEGDQLVREEGCGPLSVYPLYGSLPPHQQQRIFEPAPES 363
Query: 172 -----ARKVVLATNIAETSLTIDNIIYVIDPGFCKQNNFNSRTGMESLTVVPISKASANQ 226
RKVV++TNIAETSLTID I+YV+DPGF KQ +N R +ESL V PISKASA Q
Sbjct: 364 HNGRPGRKVVISTNIAETSLTIDGIVYVVDPGFSKQKVYNPRIRVESLLVSPISKASAQQ 423
Query: 227 RAGVITGFNPLSDFR 241
RAG P FR
Sbjct: 424 RAGRAGRTRPGKCFR 438
Score = 123 bits (308), Expect = 9e-28, Method: Compositional matrix adjust.
Identities = 64/152 (42%), Positives = 95/152 (62%), Gaps = 3/152 (1%)
Query: 658 KKLNIEETKKSLPIYPFKQDLIDAVRDHQVLIIEGETGSGKTTQIPQY-LHEAGFTKDKM 716
K ++I + ++ LP++ + + + +++Q+++ GETGSGKTTQIPQ+ L + +
Sbjct: 82 KYVDILKIRRELPVHAQRDEFLKLYQNNQIMVFVGETGSGKTTQIPQFVLFDEMPHLENT 141
Query: 717 KIGCTQPXXXXXXXXXXXXXEEMGVKLGCEVGYAIRFEDCTSERTIIKYMTDGTLHREFL 776
++ CTQP EEM VKLG EVGY+IRFE+ TS +TI+KYMTDG L RE +
Sbjct: 142 QVACTQPRRVAAMSVAQRVAEEMDVKLGEEVGYSIRFENKTSNKTILKYMTDGMLLREAM 201
Query: 777 SEPDLASYSVMIIDEAHPKVYVID--PGFCKQ 806
+ DL+ YS +I+DEAH + D G KQ
Sbjct: 202 EDHDLSRYSCIILDEAHERTLATDILMGLLKQ 233
Score = 114 bits (285), Expect = 4e-25, Method: Compositional matrix adjust.
Identities = 59/152 (38%), Positives = 97/152 (63%), Gaps = 12/152 (7%)
Query: 1152 GDHLVLLNIYNQW-ADADFST---QWCYENFIQHRSMKRARDVREQLIGLVQRVEMELVS 1207
GDH+ LLN+Y+ + +D + +WC ++++ +RS+ A ++R QL L+ R +EL +
Sbjct: 577 GDHITLLNVYHAFKSDEAYEYGIHKWCRDHYLNYRSLSAADNIRSQLERLMNRYNLELNT 636
Query: 1208 NPTETV----NIRKAITAGYFYHIAKLSKSGS--YKTAKHNQTVMIHPNSSLFEELPRWV 1261
E+ NIRKA+ +G+F +AK +SG+ Y T K NQ V+IHP++ L + WV
Sbjct: 637 TDYESPKYFDNIRKALASGFFMQVAK-KRSGAKGYITVKDNQDVLIHPSTVLGHD-AEWV 694
Query: 1262 LYHELVFTTKEFMRQVTEIESKWLLEVAPHYY 1293
+Y+E V T+K ++R VT + +WL+E+AP YY
Sbjct: 695 IYNEFVLTSKNYIRTVTSVRPEWLIEIAPAYY 726
>pdb|3I4U|A Chain A, Crystal Structure Analysis Of A Helicase Associated Domain
Length = 270
Score = 265 bits (676), Expect = 2e-70, Method: Compositional matrix adjust.
Identities = 125/239 (52%), Positives = 169/239 (70%), Gaps = 1/239 (0%)
Query: 894 PHETLVLALEQLYALGALNHHGDLTKLGRRMAEFPLDPMMGKMLLASEKYKCVEEIVTIA 953
P ETL+ A+EQLY LGAL+ G LT+LGRRMAEFPL+PM+ KML+ S C EE++TI
Sbjct: 16 PMETLITAMEQLYTLGALDDEGLLTRLGRRMAEFPLEPMLCKMLIMSVHLGCSEEMLTIV 75
Query: 954 SMLSVNGAIFYRPKDKIIHADTARKNFFMLGGDHLVLLNIYNQWADADFSTQWCYENFIQ 1013
SMLSV +FYRPKDK AD + F GDHL LL +YN W + FS WCYENFIQ
Sbjct: 76 SMLSVQN-VFYRPKDKQALADQKKAKFHQTEGDHLTLLAVYNSWKNNKFSNPWCYENFIQ 134
Query: 1014 HRSMKRARDVREQLIGLVQRVEMELVSNPTETVNIRKAITAGYFYHIAKLSKSGSYKTAK 1073
RS++RA+D+R+Q++G++ R ++++VS TV ++KAI +G+F + AK Y+T
Sbjct: 135 ARSLRRAQDIRKQMLGIMDRHKLDVVSCGKSTVRVQKAICSGFFRNAAKKDPQEGYRTLI 194
Query: 1074 HNQTVMIHPNSSLFEELPRWVLYHELVFTTKEFMRQVTEIESKWLLEVAPHYYKPRELE 1132
Q V IHP+S+LF P WV+YHELV TTKE+MR+VT I+ +WL+E AP ++K E++
Sbjct: 195 DQQVVYIHPSSALFNRQPEWVVYHELVLTTKEYMREVTTIDPRWLVEFAPAFFKVLEVD 253
Score = 171 bits (433), Expect = 3e-42, Method: Compositional matrix adjust.
Identities = 79/182 (43%), Positives = 121/182 (66%), Gaps = 5/182 (2%)
Query: 1118 LLEVAPHYYKPRELEDSTNKKMPKTLGKSRAELGGDHLVLLNIYNQWADADFSTQWCYEN 1177
+L V +Y+P++ + ++K K + GDHL LL +YN W + FS WCYEN
Sbjct: 77 MLSVQNVFYRPKDKQALADQKKAKF-----HQTEGDHLTLLAVYNSWKNNKFSNPWCYEN 131
Query: 1178 FIQHRSMKRARDVREQLIGLVQRVEMELVSNPTETVNIRKAITAGYFYHIAKLSKSGSYK 1237
FIQ RS++RA+D+R+Q++G++ R ++++VS TV ++KAI +G+F + AK Y+
Sbjct: 132 FIQARSLRRAQDIRKQMLGIMDRHKLDVVSCGKSTVRVQKAICSGFFRNAAKKDPQEGYR 191
Query: 1238 TAKHNQTVMIHPNSSLFEELPRWVLYHELVFTTKEFMRQVTEIESKWLLEVAPHYYKPRE 1297
T Q V IHP+S+LF P WV+YHELV TTKE+MR+VT I+ +WL+E AP ++K E
Sbjct: 192 TLIDQQVVYIHPSSALFNRQPEWVVYHELVLTTKEYMREVTTIDPRWLVEFAPAFFKVLE 251
Query: 1298 LE 1299
++
Sbjct: 252 VD 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 = 65.5 bits (158), Expect = 2e-10, Method: Composition-based stats.
Identities = 42/138 (30%), Positives = 68/138 (49%), Gaps = 6/138 (4%)
Query: 662 IEETKKSLPIYPFKQDLIDAVRDHQVLIIEGETGSGKTTQIPQYLHEAGFTKDKM---KI 718
I + ++ LP+ F+ ++++A+ + V+II G TG GKTTQ+PQ++ + D+ I
Sbjct: 53 ILQERELLPVKKFESEILEAISQNSVVIIRGATGCGKTTQVPQFILDDFIQNDRAAECNI 112
Query: 719 GCTQPXXXXXXXXXXXXXEEMGVKLGCEVGYAIRFEDCTSE-RTIIKYMTDGTLHREFLS 777
TQP E G + G GY++RFE I + T G L R+
Sbjct: 113 VVTQPRRISAVSVAERVAFERGEEPGKSCGYSVRFESILPRPHASIXFCTVGVLLRKL-- 170
Query: 778 EPDLASYSVMIIDEAHPK 795
E + S +I+DE H +
Sbjct: 171 EAGIRGISHVIVDEIHER 188
Score = 53.5 bits (127), Expect = 8e-07, Method: Composition-based stats.
Identities = 25/76 (32%), Positives = 47/76 (61%), Gaps = 2/76 (2%)
Query: 2 TDGTLHREFLSEPDLASYSVMIIDEAHERTLHTDILFGLVKDIVRFRSDLKLLISSATLD 61
T G L R+ E + S +I+DE HER ++TD L +++D+V+ ++++++ SAT+D
Sbjct: 162 TVGVLLRKL--EAGIRGISHVIVDEIHERDINTDFLLVVLRDVVQAYPEVRIVLXSATID 219
Query: 62 AQKFSEFFDDAPVFRI 77
F E+F + P+ +
Sbjct: 220 TSXFCEYFFNCPIIEV 235
>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 = 33.5 bits (75), Expect = 0.92, Method: Compositional matrix adjust.
Identities = 19/61 (31%), Positives = 32/61 (52%), Gaps = 13/61 (21%)
Query: 671 IYPFKQDLID-------------AVRDHQVLIIEGETGSGKTTQIPQYLHEAGFTKDKMK 717
+ PF+Q+L+ AV+ +V+++ GETGSGKTT + + E F + +
Sbjct: 148 LTPFEQELLALKEAGDYMSFLRRAVQLERVIVVAGETGSGKTTLMKALMQEIPFDQRLIT 207
Query: 718 I 718
I
Sbjct: 208 I 208
>pdb|3DL8|A Chain A, Structure Of The Complex Of Aquifex Aeolicus Secyeg And
Bacillus Subtilis Seca
pdb|3DL8|B Chain B, Structure Of The Complex Of Aquifex Aeolicus Secyeg And
Bacillus Subtilis Seca
Length = 779
Score = 31.2 bits (69), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 17/47 (36%), Positives = 27/47 (57%), Gaps = 2/47 (4%)
Query: 663 EETKKSLPIYPFKQDLIDAVRDHQVLIIEGETGSGK--TTQIPQYLH 707
E +++ ++PFK L+ V H I E +TG GK T+ +P YL+
Sbjct: 71 EASRRVTGMFPFKVQLMGGVALHDGNIAEMKTGEGKTLTSTLPVYLN 117
>pdb|2IBM|A Chain A, A Novel Dimer Interface And Conformational Changes
Revealed By An X- Ray Structure Of B. Subtilis Seca
pdb|2IBM|B Chain B, A Novel Dimer Interface And Conformational Changes
Revealed By An X- Ray Structure Of B. Subtilis Seca
Length = 780
Score = 31.2 bits (69), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 17/47 (36%), Positives = 27/47 (57%), Gaps = 2/47 (4%)
Query: 663 EETKKSLPIYPFKQDLIDAVRDHQVLIIEGETGSGK--TTQIPQYLH 707
E +++ ++PFK L+ V H I E +TG GK T+ +P YL+
Sbjct: 71 EASRRVTGMFPFKVQLMGGVALHDGNIAEMKTGEGKTLTSTLPVYLN 117
>pdb|3IQY|A Chain A, Active Site Mutants Of B. Subtilis Seca
Length = 841
Score = 31.2 bits (69), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 17/47 (36%), Positives = 27/47 (57%), Gaps = 2/47 (4%)
Query: 663 EETKKSLPIYPFKQDLIDAVRDHQVLIIEGETGSGK--TTQIPQYLH 707
E +++ ++PFK L+ V H I E +TG GK T+ +P YL+
Sbjct: 71 EASRRVTGMFPFKVQLMGGVALHDGNIAEMKTGEGKTLTSTLPVYLN 117
>pdb|1TF2|A Chain A, Crystal Structure Of Seca:adp In An Open Conformation From
Bacillus Subtilis
pdb|1TF5|A Chain A, Crystal Structure Of Seca In An Open Conformation From
Bacillus Subtilis
Length = 844
Score = 31.2 bits (69), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 17/47 (36%), Positives = 27/47 (57%), Gaps = 2/47 (4%)
Query: 663 EETKKSLPIYPFKQDLIDAVRDHQVLIIEGETGSGK--TTQIPQYLH 707
E +++ ++PFK L+ V H I E +TG GK T+ +P YL+
Sbjct: 74 EASRRVTGMFPFKVQLMGGVALHDGNIAEMKTGEGKTLTSTLPVYLN 120
>pdb|3JV2|A Chain A, Crystal Structure Of B. Subtilis Seca With Bound Peptide
pdb|3JV2|B Chain B, Crystal Structure Of B. Subtilis Seca With Bound Peptide
Length = 783
Score = 31.2 bits (69), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 17/47 (36%), Positives = 27/47 (57%), Gaps = 2/47 (4%)
Query: 663 EETKKSLPIYPFKQDLIDAVRDHQVLIIEGETGSGK--TTQIPQYLH 707
E +++ ++PFK L+ V H I E +TG GK T+ +P YL+
Sbjct: 74 EASRRVTGMFPFKVQLMGGVALHDGNIAEMKTGEGKTLTSTLPVYLN 120
>pdb|1M6N|A Chain A, Crystal Structure Of The Seca Translocation Atpase From
Bacillus Subtilis
pdb|1M74|A Chain A, Crystal Structure Of Mg-Adp-Bound Seca From Bacillus
Subtilis
Length = 802
Score = 31.2 bits (69), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 17/47 (36%), Positives = 27/47 (57%), Gaps = 2/47 (4%)
Query: 663 EETKKSLPIYPFKQDLIDAVRDHQVLIIEGETGSGK--TTQIPQYLH 707
E +++ ++PFK L+ V H I E +TG GK T+ +P YL+
Sbjct: 71 EASRRVTGMFPFKVQLMGGVALHDGNIAEMKTGEGKTLTSTLPVYLN 117
>pdb|3IQM|A Chain A, Active Site Mutants Of B. Subtilis Seca
Length = 802
Score = 31.2 bits (69), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 17/47 (36%), Positives = 27/47 (57%), Gaps = 2/47 (4%)
Query: 663 EETKKSLPIYPFKQDLIDAVRDHQVLIIEGETGSGK--TTQIPQYLH 707
E +++ ++PFK L+ V H I E +TG GK T+ +P YL+
Sbjct: 71 EASRRVTGMFPFKVQLMGGVALHDGNIAEMKTGEGKTLTSTLPVYLN 117
>pdb|4B3F|X Chain X, Crystal Structure Of 1ghmbp2 Helicase
Length = 646
Score = 30.0 bits (66), Expect = 7.9, Method: Compositional matrix adjust.
Identities = 15/49 (30%), Positives = 28/49 (57%), Gaps = 2/49 (4%)
Query: 675 KQDLIDAVRDHQVLIIEGETGSGKTTQIPQYLHEAGFTKDKMKIGCTQP 723
K+ ++ A+ ++ II G G+GKTT + + + +A K +K+ C P
Sbjct: 195 KEAVLFALSQKELAIIHGPPGTGKTTTVVEIILQA--VKQGLKVLCCAP 241
>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 = 8.0, Method: Compositional matrix adjust.
Identities = 15/49 (30%), Positives = 28/49 (57%), Gaps = 2/49 (4%)
Query: 675 KQDLIDAVRDHQVLIIEGETGSGKTTQIPQYLHEAGFTKDKMKIGCTQP 723
K+ ++ A+ ++ II G G+GKTT + + + +A K +K+ C P
Sbjct: 195 KEAVLFALSQKELAIIHGPPGTGKTTTVVEIILQA--VKQGLKVLCCAP 241
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
0.319 0.135 0.401
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 36,573,056
Number of Sequences: 62578
Number of extensions: 1443758
Number of successful extensions: 3443
Number of sequences better than 100.0: 37
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 29
Number of HSP's that attempted gapping in prelim test: 3402
Number of HSP's gapped (non-prelim): 48
length of query: 1320
length of database: 14,973,337
effective HSP length: 110
effective length of query: 1210
effective length of database: 8,089,757
effective search space: 9788605970
effective search space used: 9788605970
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 57 (26.6 bits)