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= psy583
(293 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3F31|A Chain A, Crystal Structure Of The N-Terminal Region Of
Alphaii-Spectr Tetramerization Domain
pdb|3F31|B Chain B, Crystal Structure Of The N-Terminal Region Of
Alphaii-Spectr Tetramerization Domain
Length = 149
Score = 30.4 bits (67), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 16/44 (36%), Positives = 24/44 (54%)
Query: 28 LEARTKANPGAHADEQEQTNLLISKKQLALKTLREKIQDLESQL 71
EA +AN GA E NL+IS+ A +T+R ++ +L Q
Sbjct: 90 FEAEVQANSGAIVKLDETGNLMISEGHFASETIRTRLMELHRQW 133
>pdb|4B6A|TT Chain t, Cryo-Em Structure Of The 60s Ribosomal Subunit In Complex
With Arx1 And Rei1
Length = 614
Score = 29.3 bits (64), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 29/112 (25%), Positives = 53/112 (47%), Gaps = 11/112 (9%)
Query: 22 NHEKAKLEARTKANPGAHADEQEQTNL--LISKKQLALKTLREKIQDLE-SQLSTKEKDL 78
+H+ +L AR PGA+ + QT++ L + +QL K ++ + + S LS+ +
Sbjct: 368 SHKAGELIAR----PGAYVRDFAQTHILKLKTSRQLLTKIDKQGVYPFKLSHLSSNFPFV 423
Query: 79 EVNNSNLDDLKKTLANMMSDSEKLYNVYAEKRNINSGLQLDKWATETKHLIK 130
N L LKK L + ++ N Y + S +Q+ +W H++K
Sbjct: 424 HENEEELQSLKKDLKSFRLGMSEISNNYL---CVESPIQIARWV-PWDHILK 471
>pdb|4G85|A Chain A, Crystal Structure Of Human Hisrs
pdb|4G85|B Chain B, Crystal Structure Of Human Hisrs
Length = 517
Score = 28.5 bits (62), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 35/119 (29%), Positives = 56/119 (47%), Gaps = 23/119 (19%)
Query: 1 MAEMSALKAKLKEQNQRLITLNHEKAKLE---------ARTKANPGAHADEQEQTNLL-- 49
MAE +AL+ +K Q +R+ L +KA E + KA G DE +Q +L
Sbjct: 12 MAERAALEELVKLQGERVRGLKQQKASAELIEEEVAKLLKLKAQLG--PDESKQKFVLKT 69
Query: 50 ------ISKKQLALKTLREKIQDLESQLSTKEKDLEVNNSNLDDLKKTLANMMSDSEKL 102
S +Q+A +REK+ D+ + K EV ++ + +LK+TL + KL
Sbjct: 70 PKGTRDYSPRQMA---VREKVFDVIIR-CFKRHGAEVIDTPVFELKETLMGKYGEDSKL 124
>pdb|3FQL|A Chain A, Hepatitis C Virus Polymerase Ns5b (Con1 1-570) With
Hcv-796 Inhibitor
Length = 578
Score = 28.1 bits (61), Expect = 6.6, Method: Compositional matrix adjust.
Identities = 20/57 (35%), Positives = 28/57 (49%), Gaps = 7/57 (12%)
Query: 164 LTQEITEMVKLLTNAIN---LRGKQLAYKLNEICDSKQKTLNEKKVTLEQLSRLTDH 217
+T E KL NA++ LR L Y S+ +L +KKVT ++L L DH
Sbjct: 19 ITPCAAEETKLPINALSNSLLRHHNLVYATT----SRSASLRQKKVTFDRLQVLDDH 71
>pdb|3QGD|A Chain A, Crystal Structure Of The Hepatitis C Virus Ns5b
Rna-Dependent Rna Polymerase Complex With
(2e)-3-(4-{[(1-{[(13-Cyclohexyl-6-Oxo-6,7-
Dihydro-5h-Indolo[1,2-D][1,4]benzodiazepin-10-Yl)
Carbonyl]amino}cyclopentyl)carbonyl]amino}phenyl)prop-2-
Enoic Acid And
(2r)-4-(2,
6-Dimethoxypyrimidin-4-Yl)-1-[(4-Ethylphenyl)sulfonyl]-
N-(4-Methoxybenzyl)piperazine-2-Carboxamide
pdb|3QGD|B Chain B, Crystal Structure Of The Hepatitis C Virus Ns5b
Rna-Dependent Rna Polymerase Complex With
(2e)-3-(4-{[(1-{[(13-Cyclohexyl-6-Oxo-6,7-
Dihydro-5h-Indolo[1,2-D][1,4]benzodiazepin-10-Yl)
Carbonyl]amino}cyclopentyl)carbonyl]amino}phenyl)prop-2-
Enoic Acid And
(2r)-4-(2,
6-Dimethoxypyrimidin-4-Yl)-1-[(4-Ethylphenyl)sulfonyl]-
N-(4-Methoxybenzyl)piperazine-2-Carboxamide
pdb|3QGE|A Chain A, Crystal Structure Of The Hepatitis C Virus Ns5b
Rna-Dependent Rna Polymerase Complex With
(2e)-3-(4-{[(1-{[(13-Cyclohexyl-6-Oxo-6,7-
Dihydro-5h-Indolo[1,2-D][1,4]benzodiazepin-10-Yl)
Carbonyl]amino}cyclopentyl)carbonyl]amino}phenyl)prop-2-
Enoic Acid And
(2r)-4-(2,
6-Dimethoxypyrimidin-4-Yl)-N-(4-Methoxybenzyl)-1-{[4-
(Trifluoromethoxy)phenyl]sulfonyl}piperazine-2-
Carboxamide
pdb|3QGE|B Chain B, Crystal Structure Of The Hepatitis C Virus Ns5b
Rna-Dependent Rna Polymerase Complex With
(2e)-3-(4-{[(1-{[(13-Cyclohexyl-6-Oxo-6,7-
Dihydro-5h-Indolo[1,2-D][1,4]benzodiazepin-10-Yl)
Carbonyl]amino}cyclopentyl)carbonyl]amino}phenyl)prop-2-
Enoic Acid And
(2r)-4-(2,
6-Dimethoxypyrimidin-4-Yl)-N-(4-Methoxybenzyl)-1-{[4-
(Trifluoromethoxy)phenyl]sulfonyl}piperazine-2-
Carboxamide
pdb|3QGF|A Chain A, Crystal Structure Of The Hepatitis C Virus Ns5b
Rna-Dependent Rna Polymerase Complex With
(2e)-3-(4-{[(1-{[(13-Cyclohexyl-6-Oxo-6,7-
Dihydro-5h-Indolo[1,2-D][1,4]benzodiazepin-10-Yl)
Carbonyl]amino}cyclopentyl)carbonyl]amino}phenyl)prop-2-
Enoic Acid And
(2r)-4-(6-Chloropyridazin-3-Yl)-N-(4-Methoxybenzyl)-1-
{[4-
(Trifluoromethoxy)phenyl]sulfonyl}piperazine-2-
Carboxamide
pdb|3QGF|B Chain B, Crystal Structure Of The Hepatitis C Virus Ns5b
Rna-Dependent Rna Polymerase Complex With
(2e)-3-(4-{[(1-{[(13-Cyclohexyl-6-Oxo-6,7-
Dihydro-5h-Indolo[1,2-D][1,4]benzodiazepin-10-Yl)
Carbonyl]amino}cyclopentyl)carbonyl]amino}phenyl)prop-2-
Enoic Acid And
(2r)-4-(6-Chloropyridazin-3-Yl)-N-(4-Methoxybenzyl)-1-
{[4-
(Trifluoromethoxy)phenyl]sulfonyl}piperazine-2-
Carboxamide
pdb|3QGG|A Chain A, Crystal Structure Of The Hepatitis C Virus Ns5b
Rna-Dependent Rna Polymerase Complex With
(2e)-3-(4-{[(1-{[(13-Cyclohexyl-6-Oxo-6,7-
Dihydro-5h-Indolo[1,2-D][1,4]benzodiazepin-10-Yl)
Carbonyl]amino}cyclopentyl)carbonyl]amino}phenyl)prop-2-
Enoic Acid And
N-Cyclopropyl-6-[(3r)-3-{[4-
(Trifluoromethoxy)benzyl]carbamoyl}-
4-{[4-(Trifluoromethoxy)phenyl]sulfonyl}piperazin-1-
Yl]pyridazine-3- Carboxamide
pdb|3QGG|B Chain B, Crystal Structure Of The Hepatitis C Virus Ns5b
Rna-Dependent Rna Polymerase Complex With
(2e)-3-(4-{[(1-{[(13-Cyclohexyl-6-Oxo-6,7-
Dihydro-5h-Indolo[1,2-D][1,4]benzodiazepin-10-Yl)
Carbonyl]amino}cyclopentyl)carbonyl]amino}phenyl)prop-2-
Enoic Acid And
N-Cyclopropyl-6-[(3r)-3-{[4-
(Trifluoromethoxy)benzyl]carbamoyl}-
4-{[4-(Trifluoromethoxy)phenyl]sulfonyl}piperazin-1-
Yl]pyridazine-3- Carboxamide
pdb|3Q0Z|A Chain A, Crystal Structure Of The Hepatitis C Virus Ns5b
Rna-Dependent Rna Polymerase Complex With
(2e)-3-(4-{[(1-{[(13-Cyclohexyl-6-Oxo-6,7-
Dihydro-5h-Indolo[1,2-D][1,4]benzodiazepin-10-Yl)
Carbonyl]amino}cyclopentyl)carbonyl]amino}phenyl)prop-2-
Enoic Acid
pdb|3Q0Z|B Chain B, Crystal Structure Of The Hepatitis C Virus Ns5b
Rna-Dependent Rna Polymerase Complex With
(2e)-3-(4-{[(1-{[(13-Cyclohexyl-6-Oxo-6,7-
Dihydro-5h-Indolo[1,2-D][1,4]benzodiazepin-10-Yl)
Carbonyl]amino}cyclopentyl)carbonyl]amino}phenyl)prop-2-
Enoic Acid
Length = 574
Score = 28.1 bits (61), Expect = 6.8, Method: Compositional matrix adjust.
Identities = 20/57 (35%), Positives = 28/57 (49%), Gaps = 7/57 (12%)
Query: 164 LTQEITEMVKLLTNAIN---LRGKQLAYKLNEICDSKQKTLNEKKVTLEQLSRLTDH 217
+T E KL NA++ LR L Y S+ +L +KKVT ++L L DH
Sbjct: 12 ITPCAAEETKLPINALSNSLLRHHNLVYATT----SRSASLRQKKVTFDRLQVLDDH 64
>pdb|1EVS|A Chain A, Crystal Structure Of Human Oncostatin M
Length = 187
Score = 27.7 bits (60), Expect = 8.0, Method: Compositional matrix adjust.
Identities = 20/69 (28%), Positives = 32/69 (46%), Gaps = 5/69 (7%)
Query: 26 AKLEARTKANPGAHADEQEQTNL----LISKKQLALKTLREKIQDLESQLSTKEKDLEVN 81
KL + PGA E+ L + L + ++ DLE +L K +DLE +
Sbjct: 43 PKLREHCRERPGAFPSEETLRGLGRRGFLQTLNATLGCVLHRLADLEQRLP-KAQDLERS 101
Query: 82 NSNLDDLKK 90
N++DL+K
Sbjct: 102 GLNIEDLEK 110
>pdb|4A2P|A Chain A, Structure Of Duck Rig-I Helicase Domain
pdb|4A36|A Chain A, Structure Of Duck Rig-I Helicase Domain Bound To 19-Mer
Dsrna And Atp Transition State Analogue
pdb|4A36|B Chain B, Structure Of Duck Rig-I Helicase Domain Bound To 19-Mer
Dsrna And Atp Transition State Analogue
Length = 556
Score = 27.3 bits (59), Expect = 9.1, Method: Compositional matrix adjust.
Identities = 14/48 (29%), Positives = 29/48 (60%), Gaps = 1/48 (2%)
Query: 56 ALKTLREKIQDLESQLSTKEKDLEVNNSNL-DDLKKTLANMMSDSEKL 102
A+ T+RE IQ+L+ ++ E D+ + + + ++N+MS++E L
Sbjct: 202 AISTVRENIQELQRFMNKPEIDVRLVKRRIHNPFAAIISNLMSETEAL 249
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
0.310 0.126 0.327
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,548,519
Number of Sequences: 62578
Number of extensions: 232442
Number of successful extensions: 938
Number of sequences better than 100.0: 50
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 45
Number of HSP's that attempted gapping in prelim test: 919
Number of HSP's gapped (non-prelim): 58
length of query: 293
length of database: 14,973,337
effective HSP length: 98
effective length of query: 195
effective length of database: 8,840,693
effective search space: 1723935135
effective search space used: 1723935135
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 51 (24.3 bits)