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= psy437
(184 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2V1X|A Chain A, Crystal Structure Of Human Recq-Like Dna Helicase
pdb|2V1X|B Chain B, Crystal Structure Of Human Recq-Like Dna Helicase
pdb|2WWY|A Chain A, Structure Of Human Recq-Like Helicase In Complex With A
Dna Substrate
pdb|2WWY|B Chain B, Structure Of Human Recq-Like Helicase In Complex With A
Dna Substrate
Length = 591
Score = 73.9 bits (180), Expect = 5e-14, Method: Compositional matrix adjust.
Identities = 36/96 (37%), Positives = 59/96 (61%), Gaps = 4/96 (4%)
Query: 1 FISSFNRANLKYEILPK----KNVLKEVISLIKAKYSGQSGIVYCLTRKECDSVAAALAQ 56
F +SFNR NL YE+ K ++ +++++ LI +Y GQSGI+YC ++K+ + V +L
Sbjct: 230 FTASFNRPNLYYEVRQKPSNTEDFIEDIVKLINGRYKGQSGIIYCFSQKDSEQVTVSLQN 289
Query: 57 ERINAISYHAGLADKLRNEVQMKWISNKVHVGHWTV 92
I+A +YHA L + + V KW +N++ V TV
Sbjct: 290 LGIHAGAYHANLEPEDKTTVHRKWSANEIQVVVATV 325
>pdb|1OYY|A Chain A, Structure Of The Recq Catalytic Core Bound To Atp-Gamma-S
Length = 523
Score = 63.9 bits (154), Expect = 4e-11, Method: Compositional matrix adjust.
Identities = 32/91 (35%), Positives = 58/91 (63%), Gaps = 1/91 (1%)
Query: 2 ISSFNRANLKYEILPKKNVLKEVISLIKAKYSGQSGIVYCLTRKECDSVAAALAQERINA 61
ISSF+R N++Y ++ K L +++ ++ + G+SGI+YC +R + + AA L + I+A
Sbjct: 205 ISSFDRPNIRYMLMEKFKPLDQLMRYVQEQ-RGKSGIIYCNSRAKVEDTAARLQSKGISA 263
Query: 62 ISYHAGLADKLRNEVQMKWISNKVHVGHWTV 92
+YHAGL + +R +VQ K+ + + + TV
Sbjct: 264 AAYHAGLENNVRADVQEKFQRDDLQIVVATV 294
>pdb|1OYW|A Chain A, Structure Of The Recq Catalytic Core
Length = 523
Score = 62.0 bits (149), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 32/91 (35%), Positives = 56/91 (61%), Gaps = 1/91 (1%)
Query: 2 ISSFNRANLKYEILPKKNVLKEVISLIKAKYSGQSGIVYCLTRKECDSVAAALAQERINA 61
ISSF+R N++Y + K L ++ ++ + G+SGI+YC +R + + AA L + I+A
Sbjct: 205 ISSFDRPNIRYXLXEKFKPLDQLXRYVQEQ-RGKSGIIYCNSRAKVEDTAARLQSKGISA 263
Query: 62 ISYHAGLADKLRNEVQMKWISNKVHVGHWTV 92
+YHAGL + +R +VQ K+ + + + TV
Sbjct: 264 AAYHAGLENNVRADVQEKFQRDDLQIVVATV 294
>pdb|4B75|A Chain A, Discovery Of An Allosteric Mechanism For The Regulation Of
Hcv Ns3 Protein Function
pdb|4B75|B Chain B, Discovery Of An Allosteric Mechanism For The Regulation Of
Hcv Ns3 Protein Function
Length = 666
Score = 36.6 bits (83), Expect = 0.008, Method: Composition-based stats.
Identities = 14/35 (40%), Positives = 25/35 (71%)
Query: 34 GQSGIVYCLTRKECDSVAAALAQERINAISYHAGL 68
G +++C ++K+CD +AA L+ INA++Y+ GL
Sbjct: 396 GGRHLIFCHSKKKCDELAAKLSGLGINAVAYYRGL 430
Score = 29.3 bits (64), Expect = 1.2, Method: Composition-based stats.
Identities = 12/24 (50%), Positives = 18/24 (75%)
Query: 95 KECDSVAAALAQERINAISYHAGL 118
K+CD +AA L+ INA++Y+ GL
Sbjct: 407 KKCDELAAKLSGLGINAVAYYRGL 430
>pdb|4B6E|A Chain A, Discovery Of An Allosteric Mechanism For The Regulation Of
Hcv Ns3 Protein Function
pdb|4B6E|B Chain B, Discovery Of An Allosteric Mechanism For The Regulation Of
Hcv Ns3 Protein Function
pdb|4B6F|A Chain A, Discovery Of An Allosteric Mechanism For The Regulation Of
Hcv Ns3 Protein Function
pdb|4B6F|B Chain B, Discovery Of An Allosteric Mechanism For The Regulation Of
Hcv Ns3 Protein Function
Length = 683
Score = 36.6 bits (83), Expect = 0.008, Method: Composition-based stats.
Identities = 14/35 (40%), Positives = 25/35 (71%)
Query: 34 GQSGIVYCLTRKECDSVAAALAQERINAISYHAGL 68
G +++C ++K+CD +AA L+ INA++Y+ GL
Sbjct: 396 GGRHLIFCHSKKKCDELAAKLSGLGINAVAYYRGL 430
Score = 29.3 bits (64), Expect = 1.2, Method: Composition-based stats.
Identities = 12/24 (50%), Positives = 18/24 (75%)
Query: 95 KECDSVAAALAQERINAISYHAGL 118
K+CD +AA L+ INA++Y+ GL
Sbjct: 407 KKCDELAAKLSGLGINAVAYYRGL 430
>pdb|4A92|A Chain A, Full-Length Hcv Ns3-4a Protease-Helicase In Complex With A
Macrocyclic Protease Inhibitor.
pdb|4A92|B Chain B, Full-Length Hcv Ns3-4a Protease-Helicase In Complex With A
Macrocyclic Protease Inhibitor
Length = 666
Score = 36.6 bits (83), Expect = 0.008, Method: Composition-based stats.
Identities = 14/35 (40%), Positives = 25/35 (71%)
Query: 34 GQSGIVYCLTRKECDSVAAALAQERINAISYHAGL 68
G +++C ++K+CD +AA L+ INA++Y+ GL
Sbjct: 396 GGRHLIFCHSKKKCDELAAKLSGLGINAVAYYRGL 430
Score = 29.3 bits (64), Expect = 1.2, Method: Composition-based stats.
Identities = 12/24 (50%), Positives = 18/24 (75%)
Query: 95 KECDSVAAALAQERINAISYHAGL 118
K+CD +AA L+ INA++Y+ GL
Sbjct: 407 KKCDELAAKLSGLGINAVAYYRGL 430
>pdb|3O8B|A Chain A, Visualizing Atp-Dependent Rna Translocation By The Ns3
Helicase From Hcv
pdb|3O8B|B Chain B, Visualizing Atp-Dependent Rna Translocation By The Ns3
Helicase From Hcv
pdb|3O8C|A Chain A, Visualizing Atp-Dependent Rna Translocation By The Ns3
Helicase From Hcv
pdb|3O8C|B Chain B, Visualizing Atp-Dependent Rna Translocation By The Ns3
Helicase From Hcv
pdb|3O8D|A Chain A, Visualizing Atp-Dependent Rna Translocation By The Ns3
Helicase From Hcv
pdb|3O8D|B Chain B, Visualizing Atp-Dependent Rna Translocation By The Ns3
Helicase From Hcv
pdb|3O8R|A Chain A, Visualizing Atp-Dependent Rna Translocation By The Ns3
Helicase From Hcv
pdb|3O8R|B Chain B, Visualizing Atp-Dependent Rna Translocation By The Ns3
Helicase From Hcv
pdb|4B71|A Chain A, Discovery Of An Allosteric Mechanism For The Regulation Of
Hcv Ns3 Protein Function
pdb|4B71|B Chain B, Discovery Of An Allosteric Mechanism For The Regulation Of
Hcv Ns3 Protein Function
pdb|4B73|A Chain A, Discovery Of An Allosteric Mechanism For The Regulation Of
Hcv Ns3 Protein Function
pdb|4B73|B Chain B, Discovery Of An Allosteric Mechanism For The Regulation Of
Hcv Ns3 Protein Function
pdb|4B74|A Chain A, Discovery Of An Allosteric Mechanism For The Regulation Of
Hcv Ns3 Protein Function
pdb|4B74|B Chain B, Discovery Of An Allosteric Mechanism For The Regulation Of
Hcv Ns3 Protein Function
pdb|4B76|A Chain A, Discovery Of An Allosteric Mechanism For The Regulation Of
Hcv Ns3 Protein Function
pdb|4B76|B Chain B, Discovery Of An Allosteric Mechanism For The Regulation Of
Hcv Ns3 Protein Function
Length = 666
Score = 36.6 bits (83), Expect = 0.008, Method: Composition-based stats.
Identities = 14/35 (40%), Positives = 25/35 (71%)
Query: 34 GQSGIVYCLTRKECDSVAAALAQERINAISYHAGL 68
G +++C ++K+CD +AA L+ INA++Y+ GL
Sbjct: 396 GGRHLIFCHSKKKCDELAAKLSGLGINAVAYYRGL 430
Score = 29.3 bits (64), Expect = 1.2, Method: Composition-based stats.
Identities = 12/24 (50%), Positives = 18/24 (75%)
Query: 95 KECDSVAAALAQERINAISYHAGL 118
K+CD +AA L+ INA++Y+ GL
Sbjct: 407 KKCDELAAKLSGLGINAVAYYRGL 430
>pdb|1CU1|A Chain A, Crystal Structure Of An Enzyme Complex From Hepatitis C
Virus
pdb|1CU1|B Chain B, Crystal Structure Of An Enzyme Complex From Hepatitis C
Virus
Length = 645
Score = 36.6 bits (83), Expect = 0.008, Method: Composition-based stats.
Identities = 14/35 (40%), Positives = 25/35 (71%)
Query: 34 GQSGIVYCLTRKECDSVAAALAQERINAISYHAGL 68
G +++C ++K+CD +AA L+ INA++Y+ GL
Sbjct: 375 GGRHLIFCHSKKKCDELAAKLSGLGINAVAYYRGL 409
Score = 29.3 bits (64), Expect = 1.2, Method: Composition-based stats.
Identities = 12/24 (50%), Positives = 18/24 (75%)
Query: 95 KECDSVAAALAQERINAISYHAGL 118
K+CD +AA L+ INA++Y+ GL
Sbjct: 386 KKCDELAAKLSGLGINAVAYYRGL 409
>pdb|1JR6|A Chain A, Solution Structure Of An Engineered Arginine-Rich
Subdomain 2 Of The Hepatitis C Virus Ns3 Rna Helicase
pdb|1ONB|A Chain A, Solution Structure Of An Engineered Arginine-Rich
Subdomain 2 Of The Hepatitis C Virus Ns3 Rna Helicase
Length = 142
Score = 35.0 bits (79), Expect = 0.021, Method: Compositional matrix adjust.
Identities = 13/31 (41%), Positives = 23/31 (74%)
Query: 38 IVYCLTRKECDSVAAALAQERINAISYHAGL 68
+++C ++K+CD +AA L INA++Y+ GL
Sbjct: 43 LIFCHSKKKCDELAAKLVALGINAVAYYRGL 73
Score = 28.1 bits (61), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 12/24 (50%), Positives = 17/24 (70%)
Query: 95 KECDSVAAALAQERINAISYHAGL 118
K+CD +AA L INA++Y+ GL
Sbjct: 50 KKCDELAAKLVALGINAVAYYRGL 73
>pdb|1A1V|A Chain A, Hepatitis C Virus Ns3 Helicase Domain Complexed With
Single Stranded Sdna
Length = 476
Score = 35.0 bits (79), Expect = 0.024, Method: Compositional matrix adjust.
Identities = 13/31 (41%), Positives = 23/31 (74%)
Query: 38 IVYCLTRKECDSVAAALAQERINAISYHAGL 68
+++C ++K+CD +AA L INA++Y+ GL
Sbjct: 200 LIFCHSKKKCDELAAKLVALGINAVAYYRGL 230
Score = 28.5 bits (62), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 12/24 (50%), Positives = 17/24 (70%)
Query: 95 KECDSVAAALAQERINAISYHAGL 118
K+CD +AA L INA++Y+ GL
Sbjct: 207 KKCDELAAKLVALGINAVAYYRGL 230
>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 = 34.7 bits (78), Expect = 0.030, Method: Compositional matrix adjust.
Identities = 13/31 (41%), Positives = 23/31 (74%)
Query: 38 IVYCLTRKECDSVAAALAQERINAISYHAGL 68
+++C ++K+CD +AA L INA++Y+ GL
Sbjct: 186 LIFCHSKKKCDELAAKLVALGINAVAYYRGL 216
Score = 28.1 bits (61), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 12/24 (50%), Positives = 17/24 (70%)
Query: 95 KECDSVAAALAQERINAISYHAGL 118
K+CD +AA L INA++Y+ GL
Sbjct: 193 KKCDELAAKLVALGINAVAYYRGL 216
>pdb|8OHM|A Chain A, Crystal Structure Of Rna Helicase From Genotype 1b
Hepatitis C Virus: Mechanism Of Unwinding Duplex Rna
Length = 435
Score = 34.3 bits (77), Expect = 0.041, Method: Compositional matrix adjust.
Identities = 12/31 (38%), Positives = 24/31 (77%)
Query: 38 IVYCLTRKECDSVAAALAQERINAISYHAGL 68
+++C ++K+CD +AA L+ +NA++Y+ GL
Sbjct: 176 LIFCHSKKKCDELAAKLSALGLNAVAYYRGL 206
Score = 27.7 bits (60), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 11/24 (45%), Positives = 18/24 (75%)
Query: 95 KECDSVAAALAQERINAISYHAGL 118
K+CD +AA L+ +NA++Y+ GL
Sbjct: 183 KKCDELAAKLSALGLNAVAYYRGL 206
>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 = 33.9 bits (76), Expect = 0.047, Method: Compositional matrix adjust.
Identities = 12/31 (38%), Positives = 24/31 (77%)
Query: 38 IVYCLTRKECDSVAAALAQERINAISYHAGL 68
+++C ++K+CD +AA L+ +NA++Y+ GL
Sbjct: 177 LIFCHSKKKCDELAAKLSGLGLNAVAYYRGL 207
Score = 27.7 bits (60), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 11/24 (45%), Positives = 18/24 (75%)
Query: 95 KECDSVAAALAQERINAISYHAGL 118
K+CD +AA L+ +NA++Y+ GL
Sbjct: 184 KKCDELAAKLSGLGLNAVAYYRGL 207
>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 = 33.9 bits (76), Expect = 0.048, Method: Compositional matrix adjust.
Identities = 12/31 (38%), Positives = 24/31 (77%)
Query: 38 IVYCLTRKECDSVAAALAQERINAISYHAGL 68
+++C ++K+CD +AA L+ +NA++Y+ GL
Sbjct: 177 LIFCHSKKKCDELAAKLSGLGLNAVAYYRGL 207
Score = 27.3 bits (59), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 11/24 (45%), Positives = 18/24 (75%)
Query: 95 KECDSVAAALAQERINAISYHAGL 118
K+CD +AA L+ +NA++Y+ GL
Sbjct: 184 KKCDELAAKLSGLGLNAVAYYRGL 207
>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 = 33.9 bits (76), Expect = 0.059, Method: Compositional matrix adjust.
Identities = 12/31 (38%), Positives = 23/31 (74%)
Query: 38 IVYCLTRKECDSVAAALAQERINAISYHAGL 68
+++C ++K+CD +AA L +NA++Y+ GL
Sbjct: 176 LIFCHSKKKCDELAAKLTGLGLNAVAYYRGL 206
Score = 27.3 bits (59), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 11/24 (45%), Positives = 17/24 (70%)
Query: 95 KECDSVAAALAQERINAISYHAGL 118
K+CD +AA L +NA++Y+ GL
Sbjct: 183 KKCDELAAKLTGLGLNAVAYYRGL 206
>pdb|2ZJO|A Chain A, Crystal Structure Of Hepatitis C Virus Ns3 Helicase With A
Novel Inhibitor
Length = 482
Score = 33.1 bits (74), Expect = 0.095, Method: Compositional matrix adjust.
Identities = 12/31 (38%), Positives = 24/31 (77%)
Query: 38 IVYCLTRKECDSVAAALAQERINAISYHAGL 68
+++C ++K+CD +AA L+ I+A++Y+ GL
Sbjct: 210 LIFCHSKKKCDELAAKLSALGIHAVAYYRGL 240
Score = 26.6 bits (57), Expect = 9.3, Method: Compositional matrix adjust.
Identities = 11/24 (45%), Positives = 18/24 (75%)
Query: 95 KECDSVAAALAQERINAISYHAGL 118
K+CD +AA L+ I+A++Y+ GL
Sbjct: 217 KKCDELAAKLSALGIHAVAYYRGL 240
>pdb|1WSC|A Chain A, Crystal Structure Of St0229, Function Unknown Protein From
Sulfolobus Tokodaii
pdb|1WSC|B Chain B, Crystal Structure Of St0229, Function Unknown Protein From
Sulfolobus Tokodaii
Length = 230
Score = 28.9 bits (63), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 27/116 (23%), Positives = 51/116 (43%), Gaps = 21/116 (18%)
Query: 48 DSVAAALAQERINAISYHAGLADKLRNEVQMKWISNKVHVGHWT---------------- 91
DS+A L +IN Y + L D + N+ + +++ + + G+ T
Sbjct: 26 DSIANKLGILKINLEDYLSSLNDPILNKKGLAFVTLETYYGNSTSLRGCIGYVEAVAPLK 85
Query: 92 -VVSKECDSVAAALAQERINAISYHAGLADKLRNEVQMKWISNKVHLYNVWKIQWK 146
+VSK ++AAA + R +S G D + EV + ++ + N W++ K
Sbjct: 86 EIVSKA--AIAAAFSDPRFPPLS--KGEFDNIIIEVTVLTKPQEIDVENRWELPKK 137
>pdb|3GQ2|A Chain A, Crystal Structure Of The Dimer Of The P115 Tether
Globular Head Domain
pdb|3GQ2|B Chain B, Crystal Structure Of The Dimer Of The P115 Tether
Globular Head Domain
pdb|3GRL|A Chain A, Crystal Structure Of The Monomer Of The P115 Tether
Globular Head Domain
Length = 651
Score = 28.5 bits (62), Expect = 2.5, Method: Composition-based stats.
Identities = 16/45 (35%), Positives = 27/45 (60%), Gaps = 1/45 (2%)
Query: 44 RKECDSVAAA-LAQERINAISYHAGLADKLRNEVQMKWISNKVHV 87
+K CD VA++ L +R NA+ L+ K R EV ++ + + +HV
Sbjct: 24 QKLCDRVASSTLLDDRRNAVRALKSLSKKYRLEVGIQAMEHLIHV 68
Score = 27.7 bits (60), Expect = 3.8, Method: Composition-based stats.
Identities = 15/46 (32%), Positives = 27/46 (58%), Gaps = 1/46 (2%)
Query: 93 VSKECDSVAAA-LAQERINAISYHAGLADKLRNEVQMKWISNKVHL 137
+ K CD VA++ L +R NA+ L+ K R EV ++ + + +H+
Sbjct: 23 IQKLCDRVASSTLLDDRRNAVRALKSLSKKYRLEVGIQAMEHLIHV 68
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
0.320 0.134 0.404
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,290,405
Number of Sequences: 62578
Number of extensions: 185064
Number of successful extensions: 478
Number of sequences better than 100.0: 19
Number of HSP's better than 100.0 without gapping: 17
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 440
Number of HSP's gapped (non-prelim): 36
length of query: 184
length of database: 14,973,337
effective HSP length: 93
effective length of query: 91
effective length of database: 9,153,583
effective search space: 832976053
effective search space used: 832976053
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: 48 (23.1 bits)