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= 038532
(164 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2P1M|A Chain A, Tir1-ask1 Complex Structure
pdb|2P1N|A Chain A, Mechanism Of Auxin Perception By The Tir1 Ubiqutin Ligase
pdb|2P1N|D Chain D, Mechanism Of Auxin Perception By The Tir1 Ubiqutin Ligase
pdb|2P1O|A Chain A, Mechanism Of Auxin Perception By The Tir1 Ubiquitin Ligase
pdb|2P1P|A Chain A, Mechanism Of Auxin Perception By The Tir1 Ubiquitin Ligase
pdb|2P1Q|A Chain A, Mechanism Of Auxin Perception By The Tir1 Ubiquitin Ligase
pdb|3C6N|A Chain A, Small Molecule Agonists And Antagonists Of F-Box Protein-
Substrate Interactions In Auxin Perception And Signaling
pdb|3C6O|A Chain A, Small Molecule Agonists And Antagonists Of F-Box
Protein-Substrate Interactions In Auxin Perception And
Signaling
pdb|3C6P|A Chain A, Small Molecule Agonists And Antagonists Of F-Box Protein-
Substrate Interactions In Auxin Perception And Signaling
pdb|3OGK|A Chain A, Structure Of Coi1-Ask1 In Complex With Coronatine And An
Incomplete Jaz1 Degron
pdb|3OGK|C Chain C, Structure Of Coi1-Ask1 In Complex With Coronatine And An
Incomplete Jaz1 Degron
pdb|3OGK|E Chain E, Structure Of Coi1-Ask1 In Complex With Coronatine And An
Incomplete Jaz1 Degron
pdb|3OGK|G Chain G, Structure Of Coi1-Ask1 In Complex With Coronatine And An
Incomplete Jaz1 Degron
pdb|3OGK|I Chain I, Structure Of Coi1-Ask1 In Complex With Coronatine And An
Incomplete Jaz1 Degron
pdb|3OGK|K Chain K, Structure Of Coi1-Ask1 In Complex With Coronatine And An
Incomplete Jaz1 Degron
pdb|3OGK|M Chain M, Structure Of Coi1-Ask1 In Complex With Coronatine And An
Incomplete Jaz1 Degron
pdb|3OGK|O Chain O, Structure Of Coi1-Ask1 In Complex With Coronatine And An
Incomplete Jaz1 Degron
pdb|3OGL|A Chain A, Structure Of Coi1-Ask1 In Complex With Ja-Isoleucine And
The Jaz1 Degron
pdb|3OGL|C Chain C, Structure Of Coi1-Ask1 In Complex With Ja-Isoleucine And
The Jaz1 Degron
pdb|3OGL|E Chain E, Structure Of Coi1-Ask1 In Complex With Ja-Isoleucine And
The Jaz1 Degron
pdb|3OGL|G Chain G, Structure Of Coi1-Ask1 In Complex With Ja-Isoleucine And
The Jaz1 Degron
pdb|3OGL|I Chain I, Structure Of Coi1-Ask1 In Complex With Ja-Isoleucine And
The Jaz1 Degron
pdb|3OGL|K Chain K, Structure Of Coi1-Ask1 In Complex With Ja-Isoleucine And
The Jaz1 Degron
pdb|3OGL|M Chain M, Structure Of Coi1-Ask1 In Complex With Ja-Isoleucine And
The Jaz1 Degron
pdb|3OGL|O Chain O, Structure Of Coi1-Ask1 In Complex With Ja-Isoleucine And
The Jaz1 Degron
pdb|3OGM|A Chain A, Structure Of Coi1-Ask1 In Complex With Coronatine And The
Jaz1 Degron
pdb|3OGM|C Chain C, Structure Of Coi1-Ask1 In Complex With Coronatine And The
Jaz1 Degron
pdb|3OGM|E Chain E, Structure Of Coi1-Ask1 In Complex With Coronatine And The
Jaz1 Degron
pdb|3OGM|G Chain G, Structure Of Coi1-Ask1 In Complex With Coronatine And The
Jaz1 Degron
pdb|3OGM|I Chain I, Structure Of Coi1-Ask1 In Complex With Coronatine And The
Jaz1 Degron
pdb|3OGM|K Chain K, Structure Of Coi1-Ask1 In Complex With Coronatine And The
Jaz1 Degron
pdb|3OGM|M Chain M, Structure Of Coi1-Ask1 In Complex With Coronatine And The
Jaz1 Degron
pdb|3OGM|O Chain O, Structure Of Coi1-Ask1 In Complex With Coronatine And The
Jaz1 Degron
Length = 160
Score = 112 bits (281), Expect = 7e-26, Method: Compositional matrix adjust.
Identities = 69/157 (43%), Positives = 93/157 (59%), Gaps = 4/157 (2%)
Query: 7 VKLRSSDNEVFEVEKQVMIQSGTIRNMIEDDAADGEIPV-QISSRNLAKIVEWCKCMQHR 65
+ L+SSD E FEVE+ V ++S TI +M+EDD D +P+ ++S+ LAK++E+CK +H
Sbjct: 6 IVLKSSDGESFEVEEAVALESQTIAHMVEDDCVDNGVPLPNVTSKILAKVIEYCK--RHV 63
Query: 66 DRXXXXXXXXXXXXXXXXXXXXXXXXXXVSEDKDLHFGLLLAANYLEIPALLDRLCQLAA 125
+ + D+ F L+LAANYL I LLD CQ A
Sbjct: 64 E-AAASKAEAVEGAATSDDDLKAWDADFMKIDQATLFELILAANYLNIKNLLDLTCQTVA 122
Query: 126 DIVKGKTPEEIRRTFNIKKDFTPEEEKAVMDEHGWAL 162
D++KGKTPEEIR TFNIK DFTPEEE+ V E+ WA
Sbjct: 123 DMIKGKTPEEIRTTFNIKNDFTPEEEEEVRRENQWAF 159
>pdb|3L2O|A Chain A, Structure-Based Mechanism Of Dimerization-Dependent
Ubiquitination By The Scffbx4 Ubiquitin Ligase
Length = 149
Score = 107 bits (268), Expect = 2e-24, Method: Compositional matrix adjust.
Identities = 64/159 (40%), Positives = 90/159 (56%), Gaps = 18/159 (11%)
Query: 5 STVKLRSSDNEVFEVEKQVMIQSGTIRNMIEDDAADGEIPVQISSRN---LAKIVEWCKC 61
+++KL+SSD E+FEV+ ++ QS TI+ M+ED D PV + + N L K+++WC
Sbjct: 2 ASIKLQSSDGEIFEVDVEIAKQSVTIKTMLEDLGMD---PVPLPNVNAAILKKVIQWC-- 56
Query: 62 MQHRDRXXXXXXXXXXXXXXXXXXXXXXXXXXVSEDKDLHFGLLLAANYLEIPALLDRLC 121
H+D + D+ F L+LAANYL+I LLD C
Sbjct: 57 THHKD----------DPGGSGTDDIPVWDQEFLKVDQGTLFELILAANYLDIKGLLDVTC 106
Query: 122 QLAADIVKGKTPEEIRRTFNIKKDFTPEEEKAVMDEHGW 160
+ A+++KGKTPEEIR+TFNIK DFT EEE V E+ W
Sbjct: 107 KTVANMIKGKTPEEIRKTFNIKNDFTEEEEAQVRKENQW 145
>pdb|1FQV|B Chain B, Insights Into Scf Ubiquitin Ligases From The Structure Of
The Skp1-Skp2 Complex
pdb|1FQV|D Chain D, Insights Into Scf Ubiquitin Ligases From The Structure Of
The Skp1-Skp2 Complex
pdb|1FQV|F Chain F, Insights Into Scf Ubiquitin Ligases From The Structure Of
The Skp1-Skp2 Complex
pdb|1FQV|H Chain H, Insights Into Scf Ubiquitin Ligases From The Structure Of
The Skp1-Skp2 Complex
pdb|1FQV|J Chain J, Insights Into Scf Ubiquitin Ligases From The Structure Of
The Skp1-Skp2 Complex
pdb|1FQV|L Chain L, Insights Into Scf Ubiquitin Ligases From The Structure Of
The Skp1-Skp2 Complex
pdb|1FQV|N Chain N, Insights Into Scf Ubiquitin Ligases From The Structure Of
The Skp1-Skp2 Complex
pdb|1FQV|P Chain P, Insights Into Scf Ubiquitin Ligases From The Structure Of
The Skp1-Skp2 Complex
pdb|2OVP|A Chain A, Structure Of The Skp1-Fbw7 Complex
pdb|2OVQ|A Chain A, Structure Of The Skp1-Fbw7-Cyclinedegc Complex
pdb|2OVR|A Chain A, Structure Of The Skp1-Fbw7-Cyclinedegn Complex
Length = 149
Score = 107 bits (266), Expect = 4e-24, Method: Compositional matrix adjust.
Identities = 64/158 (40%), Positives = 89/158 (56%), Gaps = 18/158 (11%)
Query: 6 TVKLRSSDNEVFEVEKQVMIQSGTIRNMIEDDAADGEIPVQISSRN---LAKIVEWCKCM 62
++KL+SSD E+FEV+ ++ QS TI+ M+ED D PV + + N L K+++WC
Sbjct: 3 SIKLQSSDGEIFEVDVEIAKQSVTIKTMLEDLGMD---PVPLPNVNAAILKKVIQWC--T 57
Query: 63 QHRDRXXXXXXXXXXXXXXXXXXXXXXXXXXVSEDKDLHFGLLLAANYLEIPALLDRLCQ 122
H+D + D+ F L+LAANYL+I LLD C+
Sbjct: 58 HHKD----------DPGGSGTDDIPVWDQEFLKVDQGTLFELILAANYLDIKGLLDVTCK 107
Query: 123 LAADIVKGKTPEEIRRTFNIKKDFTPEEEKAVMDEHGW 160
A+++KGKTPEEIR+TFNIK DFT EEE V E+ W
Sbjct: 108 TVANMIKGKTPEEIRKTFNIKNDFTEEEEAQVRKENQW 145
>pdb|2ASS|A Chain A, Crystal Structure Of The Skp1-Skp2-Cks1 Complex
pdb|2AST|A Chain A, Crystal Structure Of Skp1-Skp2-Cks1 In Complex With A P27
Peptide
Length = 159
Score = 107 bits (266), Expect = 4e-24, Method: Compositional matrix adjust.
Identities = 66/162 (40%), Positives = 91/162 (56%), Gaps = 10/162 (6%)
Query: 5 STVKLRSSDNEVFEVEKQVMIQSGTIRNMIEDDAADGEI---PVQISSRN---LAKIVEW 58
+++KL+SSD E+FEV+ ++ QS TI+ M+ED D E PV + + N L K+++W
Sbjct: 1 ASIKLQSSDGEIFEVDVEIAKQSVTIKTMLEDLGMDDEGDDDPVPLPNVNAAILKKVIQW 60
Query: 59 CKCMQHRDRXXXXXXXXXXXXXXXXXXXXXXXXXXVSEDKDLHFGLLLAANYLEIPALLD 118
C H+D V D+ F L+LAANYL+I LLD
Sbjct: 61 C--THHKDDPPPPEDDENKEKRTDDIPVWDQEFLKV--DQGTLFELILAANYLDIKGLLD 116
Query: 119 RLCQLAADIVKGKTPEEIRRTFNIKKDFTPEEEKAVMDEHGW 160
C+ A+++KGKTPEEIR+TFNIK DFT EEE V E+ W
Sbjct: 117 VTCKTVANMIKGKTPEEIRKTFNIKNDFTEEEEAQVRKENQW 158
>pdb|1P22|B Chain B, Structure Of A Beta-Trcp1-Skp1-Beta-Catenin Complex:
Destruction Motif Binding And Lysine Specificity On The
Scfbeta-Trcp1 Ubiquitin Ligase
Length = 145
Score = 106 bits (265), Expect = 5e-24, Method: Compositional matrix adjust.
Identities = 64/158 (40%), Positives = 89/158 (56%), Gaps = 22/158 (13%)
Query: 6 TVKLRSSDNEVFEVEKQVMIQSGTIRNMIEDDAADGEIPVQISSRN---LAKIVEWCKCM 62
++KL+SSD E+FEV+ ++ QS TI+ M+ED D PV + + N L K+++WC
Sbjct: 3 SIKLQSSDGEIFEVDVEIAKQSVTIKTMLEDLGMD---PVPLPNVNAAILKKVIQWC--T 57
Query: 63 QHRDRXXXXXXXXXXXXXXXXXXXXXXXXXXVSEDKDLHFGLLLAANYLEIPALLDRLCQ 122
H+D + D+ F L+LAANYL+I LLD C+
Sbjct: 58 HHKD--------------DPPDDIPVWDQEFLKVDQGTLFELILAANYLDIKGLLDVTCK 103
Query: 123 LAADIVKGKTPEEIRRTFNIKKDFTPEEEKAVMDEHGW 160
A+++KGKTPEEIR+TFNIK DFT EEE V E+ W
Sbjct: 104 TVANMIKGKTPEEIRKTFNIKNDFTEEEEAQVRKENQW 141
>pdb|2E31|B Chain B, Structural Basis For Selection Of Glycosylated Substrate
By Scffbs1 Ubiquitin Ligase
pdb|2E32|B Chain B, Structural Basis For Selection Of Glycosylated Substrate
By Scffbs1 Ubiquitin Ligase
pdb|2E32|D Chain D, Structural Basis For Selection Of Glycosylated Substrate
By Scffbs1 Ubiquitin Ligase
Length = 166
Score = 106 bits (264), Expect = 7e-24, Method: Compositional matrix adjust.
Identities = 66/161 (40%), Positives = 90/161 (55%), Gaps = 10/161 (6%)
Query: 6 TVKLRSSDNEVFEVEKQVMIQSGTIRNMIEDDAADGEI---PVQISSRN---LAKIVEWC 59
++KL+SSD E+FEV+ ++ QS TI+ M+ED D E PV + + N L K+++WC
Sbjct: 6 SIKLQSSDGEIFEVDVEIAKQSVTIKTMLEDLGMDDEGDDDPVPLPNVNAAILKKVIQWC 65
Query: 60 KCMQHRDRXXXXXXXXXXXXXXXXXXXXXXXXXXVSEDKDLHFGLLLAANYLEIPALLDR 119
H+D V D+ F L+LAANYL+I LLD
Sbjct: 66 --THHKDDPPPPEDDENKEKRTDDIPVWDQEFLKV--DQGTLFELILAANYLDIKGLLDV 121
Query: 120 LCQLAADIVKGKTPEEIRRTFNIKKDFTPEEEKAVMDEHGW 160
C+ A+++KGKTPEEIR+TFNIK DFT EEE V E+ W
Sbjct: 122 TCKTVANMIKGKTPEEIRKTFNIKNDFTEEEEAQVRKENQW 162
>pdb|1FS1|B Chain B, Insights Into Scf Ubiquitin Ligases From The Structure Of
The Skp1-Skp2 Complex
pdb|1FS1|D Chain D, Insights Into Scf Ubiquitin Ligases From The Structure Of
The Skp1-Skp2 Complex
pdb|1FS2|B Chain B, Insights Into Scf Ubiquitin Ligases From The Structure Of
The Skp1-Skp2 Complex
pdb|1FS2|D Chain D, Insights Into Scf Ubiquitin Ligases From The Structure Of
The Skp1-Skp2 Complex
Length = 141
Score = 96.7 bits (239), Expect = 5e-21, Method: Compositional matrix adjust.
Identities = 59/145 (40%), Positives = 82/145 (56%), Gaps = 10/145 (6%)
Query: 6 TVKLRSSDNEVFEVEKQVMIQSGTIRNMIEDDAADGEIPVQISSRN---LAKIVEWCKCM 62
++KL+SSD E+FEV+ ++ QS TI+ M+ED D PV + + N L K+++WC
Sbjct: 3 SIKLQSSDGEIFEVDVEIAKQSVTIKTMLEDLGMD---PVPLPNVNAAILKKVIQWC--T 57
Query: 63 QHRDRXXXXXXXXXXXXXXXXXXXXXXXXXXVSEDKDLHFGLLLAANYLEIPALLDRLCQ 122
H+D V D+ F L+LAANYL+I LLD C+
Sbjct: 58 HHKDDPPPPEDDENKEKRTDDIPVWDQEFLKV--DQGTLFELILAANYLDIKGLLDVTCK 115
Query: 123 LAADIVKGKTPEEIRRTFNIKKDFT 147
A+++KGKTPEEIR+TFNIK DFT
Sbjct: 116 TVANMIKGKTPEEIRKTFNIKNDFT 140
>pdb|3MKS|A Chain A, Crystal Structure Of Yeast Cdc4SKP1 IN COMPLEX WITH AN
ALLOSTERIC Inhibitor Scf-I2
pdb|3MKS|C Chain C, Crystal Structure Of Yeast Cdc4SKP1 IN COMPLEX WITH AN
ALLOSTERIC Inhibitor Scf-I2
pdb|3V7D|A Chain A, Crystal Structure Of Scskp1-Sccdc4-Psic1 Peptide Complex
pdb|3V7D|C Chain C, Crystal Structure Of Scskp1-Sccdc4-Psic1 Peptide Complex
Length = 169
Score = 90.1 bits (222), Expect = 5e-19, Method: Compositional matrix adjust.
Identities = 58/167 (34%), Positives = 89/167 (53%), Gaps = 13/167 (7%)
Query: 3 TTSTVKLRSSDNEVFEVEKQVMIQSGTIRNMIEDDAADGE-------IPV-QISSRNLAK 54
TS V L S + E F V+K++ +S ++N + D D + +PV + S L K
Sbjct: 5 VTSNVVLVSGEGERFTVDKKIAERSLLLKNYLNDMGDDDDEDDDEIVMPVPNVRSSVLQK 64
Query: 55 IVEWCKCMQHRDRXXXXXXXXXXXXXXXXXXXXXXXXXXVSEDKDLHFGLLLAANYLEIP 114
++EW + HRD + D+++ + ++LAANYL I
Sbjct: 65 VIEWAE--HHRD---SNFPDEDDDDSRKSAPVDSWDREFLKVDQEMLYEIILAANYLNIK 119
Query: 115 ALLDRLCQLAADIVKGKTPEEIRRTFNIKKDFTPEEEKAVMDEHGWA 161
LLD C++ A++++G++PEEIRRTFNI DFTPEEE A+ E+ WA
Sbjct: 120 PLLDAGCKVVAEMIRGRSPEEIRRTFNIVNDFTPEEEAAIRRENEWA 166
>pdb|1LDK|D Chain D, Structure Of The Cul1-Rbx1-Skp1-F Boxskp2 Scf Ubiquitin
Ligase Complex
Length = 133
Score = 87.0 bits (214), Expect = 5e-18, Method: Compositional matrix adjust.
Identities = 54/139 (38%), Positives = 77/139 (55%), Gaps = 10/139 (7%)
Query: 6 TVKLRSSDNEVFEVEKQVMIQSGTIRNMIEDDAADGEIPVQISSRN---LAKIVEWCKCM 62
++KL+SSD E+FEV+ ++ QS TI+ M+ED D PV + + N L K+++WC
Sbjct: 2 SIKLQSSDGEIFEVDVEIAKQSVTIKTMLEDLGMD---PVPLPNVNAAILKKVIQWC--T 56
Query: 63 QHRDRXXXXXXXXXXXXXXXXXXXXXXXXXXVSEDKDLHFGLLLAANYLEIPALLDRLCQ 122
H+D V D+ F L+LAANYL+I LLD C+
Sbjct: 57 HHKDDPPPPEDDENKEKRTDDIPVWDQEFLKV--DQGTLFELILAANYLDIKGLLDVTCK 114
Query: 123 LAADIVKGKTPEEIRRTFN 141
A+++KGKTPEEIR+TFN
Sbjct: 115 TVANMIKGKTPEEIRKTFN 133
>pdb|1NEX|A Chain A, Crystal Structure Of Scskp1-Sccdc4-Cpd Peptide Complex
pdb|1NEX|C Chain C, Crystal Structure Of Scskp1-Sccdc4-Cpd Peptide Complex
Length = 169
Score = 84.3 bits (207), Expect = 3e-17, Method: Compositional matrix adjust.
Identities = 58/167 (34%), Positives = 86/167 (51%), Gaps = 13/167 (7%)
Query: 3 TTSTVKLRSSDNEVFEVEKQVMIQSGTIRNMIEDDAADGEI-------PV-QISSRNLAK 54
TS V L S + E F V+K++ +S ++N + D D + PV + S L K
Sbjct: 5 VTSNVVLVSGEGERFTVDKKIAERSLLLKNYLNDXGDDDDEDDDEIVXPVPNVRSSVLQK 64
Query: 55 IVEWCKCMQHRDRXXXXXXXXXXXXXXXXXXXXXXXXXXVSEDKDLHFGLLLAANYLEIP 114
++EW + HRD + D++ + ++LAANYL I
Sbjct: 65 VIEWAE--HHRD---SNFPDEDDDDSRKSAPVDSWDREFLKVDQEXLYEIILAANYLNIK 119
Query: 115 ALLDRLCQLAADIVKGKTPEEIRRTFNIKKDFTPEEEKAVMDEHGWA 161
LLD C++ A+ ++G++PEEIRRTFNI DFTPEEE A+ E+ WA
Sbjct: 120 PLLDAGCKVVAEXIRGRSPEEIRRTFNIVNDFTPEEEAAIRRENEWA 166
>pdb|3GSZ|A Chain A, Structure Of The Genotype 2b Hcv Polymerase
pdb|3GSZ|B Chain B, Structure Of The Genotype 2b Hcv Polymerase
pdb|3HVO|A Chain A, Structure Of The Genotype 2b Hcv Polymerase Bound To A Nni
pdb|3HVO|B Chain B, Structure Of The Genotype 2b Hcv Polymerase Bound To A Nni
Length = 563
Score = 28.5 bits (62), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 12/37 (32%), Positives = 23/37 (62%)
Query: 102 FGLLLAANYLEIPALLDRLCQLAADIVKGKTPEEIRR 138
+G + + N L++PA+++RL L A + +P E+ R
Sbjct: 448 YGAVYSVNPLDLPAIIERLHGLEAFSLHTYSPHELSR 484
>pdb|3GR5|A Chain A, Periplasmic Domain Of The Outer Membrane Secretin Escc
From Enteropathogenic E.Coli (Epec)
Length = 156
Score = 27.7 bits (60), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 16/45 (35%), Positives = 26/45 (57%), Gaps = 5/45 (11%)
Query: 5 STVKLRSSDNEVFEVEKQVMIQSGTIRNMIEDDAADGEIPVQISS 49
S+++ R NE F ++ +S +R ++ D AA+ IPV ISS
Sbjct: 5 SSLEKRLGKNEYF-----IITKSSPVRAILNDFAANYSIPVFISS 44
>pdb|2XWH|A Chain A, Hcv-J6 Ns5b Polymerase Structure At 1.8 Angstrom
Length = 563
Score = 27.7 bits (60), Expect = 3.0, Method: Composition-based stats.
Identities = 15/45 (33%), Positives = 28/45 (62%), Gaps = 3/45 (6%)
Query: 97 DKDLHF---GLLLAANYLEIPALLDRLCQLAADIVKGKTPEEIRR 138
D++L+F G + + + L++PA+++RL L A + TP E+ R
Sbjct: 440 DQNLNFEMYGAVYSVSPLDLPAIIERLHGLDAFSLHTYTPHELTR 484
>pdb|4ADP|A Chain A, Hcv-J6 Ns5b Polymerase V405i Mutant
Length = 579
Score = 27.7 bits (60), Expect = 3.1, Method: Composition-based stats.
Identities = 15/45 (33%), Positives = 28/45 (62%), Gaps = 3/45 (6%)
Query: 97 DKDLHF---GLLLAANYLEIPALLDRLCQLAADIVKGKTPEEIRR 138
D++L+F G + + + L++PA+++RL L A + TP E+ R
Sbjct: 442 DQNLNFEMYGAVYSVSPLDLPAIIERLHGLDAFSLHTYTPHELTR 486
>pdb|1YUY|A Chain A, Hepatitis C Virus Ns5b Rna-Dependent Rna Polymerase
Genotype 2a
pdb|1YV2|A Chain A, Hepatitis C Virus Ns5b Rna-dependent Rna Polymerase
Genotype 2a
pdb|1YVX|A Chain A, Hepatitis C Virus Rna Polymerase Genotype 2a In Complex
With Non- Nucleoside Analogue Inhibitor
pdb|1YVZ|A Chain A, Hepatitis C Virus Rna Polymerase Genotype 2a In Complex
With Non- Nucleoside Analogue Inhibitor
Length = 570
Score = 27.3 bits (59), Expect = 4.0, Method: Composition-based stats.
Identities = 15/45 (33%), Positives = 28/45 (62%), Gaps = 3/45 (6%)
Query: 97 DKDLHF---GLLLAANYLEIPALLDRLCQLAADIVKGKTPEEIRR 138
D++L+F G + + + L++PA+++RL L A + TP E+ R
Sbjct: 440 DQNLNFEMYGSVYSVSPLDLPAIIERLHGLDAFSLHTYTPHELTR 484
>pdb|1LM8|C Chain C, Structure Of A Hif-1a-Pvhl-Elonginb-Elonginc Complex
pdb|1LQB|B Chain B, Crystal Structure Of A Hydroxylated Hif-1 Alpha Peptide
Bound To The PvhlELONGIN-CELONGIN-B Complex
pdb|2FNJ|C Chain C, Crystal Structure Of A B30.2SPRY DOMAIN-Containing
Protein Gustavus In Complex With Elongin B And Elongin
C
pdb|2JZ3|C Chain C, Socs Box Elonginbc Ternary Complex
pdb|3ZKJ|B Chain B, Crystal Structure Of Ankyrin Repeat And Socs
Box-containing Protein 9 (asb9) In Complex With
Elonginb And Elonginc
pdb|3ZKJ|E Chain E, Crystal Structure Of Ankyrin Repeat And Socs
Box-containing Protein 9 (asb9) In Complex With
Elonginb And Elonginc
Length = 96
Score = 26.9 bits (58), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 14/36 (38%), Positives = 20/36 (55%)
Query: 7 VKLRSSDNEVFEVEKQVMIQSGTIRNMIEDDAADGE 42
VKL SSD F V+++ + SGTI+ M+ E
Sbjct: 3 VKLISSDGHEFIVKREHALTSGTIKAMLSGPGQFAE 38
>pdb|2C9W|C Chain C, Crystal Structure Of Socs-2 In Complex With Elongin-B
And Elongin-C At 1.9a Resolution
pdb|2IZV|C Chain C, Crystal Structure Of Socs-4 In Complex With Elongin-B
And Elongin-C At 2.55a Resolution
pdb|3DCG|B Chain B, Crystal Structure Of The Hiv Vif Bc-Box In Complex With
Human Elonginb And Elonginc
pdb|3DCG|D Chain D, Crystal Structure Of The Hiv Vif Bc-Box In Complex With
Human Elonginb And Elonginc
pdb|3ZRC|B Chain B, Pvhl54-213-Elob-Eloc Complex
(4r)-4-Hydroxy-1-[(3-Methylisoxazol-5-
Yl)acetyl]-N-[4-(1,3-Oxazol-5-Yl)benzyl]-L-Prolinamide
Bound
pdb|3ZRC|E Chain E, Pvhl54-213-Elob-Eloc Complex
(4r)-4-Hydroxy-1-[(3-Methylisoxazol-5-
Yl)acetyl]-N-[4-(1,3-Oxazol-5-Yl)benzyl]-L-Prolinamide
Bound
pdb|3ZRC|H Chain H, Pvhl54-213-Elob-Eloc Complex
(4r)-4-Hydroxy-1-[(3-Methylisoxazol-5-
Yl)acetyl]-N-[4-(1,3-Oxazol-5-Yl)benzyl]-L-Prolinamide
Bound
pdb|3ZRC|K Chain K, Pvhl54-213-Elob-Eloc Complex
(4r)-4-Hydroxy-1-[(3-Methylisoxazol-5-
Yl)acetyl]-N-[4-(1,3-Oxazol-5-Yl)benzyl]-L-Prolinamide
Bound
pdb|3ZRF|B Chain B, Pvhl54-213-Elob-Eloc Complex_apo
pdb|3ZRF|E Chain E, Pvhl54-213-Elob-Eloc Complex_apo
pdb|3ZRF|H Chain H, Pvhl54-213-Elob-Eloc Complex_apo
pdb|3ZRF|K Chain K, Pvhl54-213-Elob-Eloc Complex_apo
pdb|3ZTC|B Chain B, Pvhl54-213-Elob-Eloc Complex _
(2s,4r)-N-((1,1'-Biphenyl)-4-
Ylmethyl)-4-Hydroxy-1-(2-(3-Methylisoxazol-5-Yl)acetyl)
Pyrrolidine-2-Carboxamide
pdb|3ZTC|E Chain E, Pvhl54-213-Elob-Eloc Complex _
(2s,4r)-N-((1,1'-Biphenyl)-4-
Ylmethyl)-4-Hydroxy-1-(2-(3-Methylisoxazol-5-Yl)acetyl)
Pyrrolidine-2-Carboxamide
pdb|3ZTC|H Chain H, Pvhl54-213-Elob-Eloc Complex _
(2s,4r)-N-((1,1'-Biphenyl)-4-
Ylmethyl)-4-Hydroxy-1-(2-(3-Methylisoxazol-5-Yl)acetyl)
Pyrrolidine-2-Carboxamide
pdb|3ZTC|K Chain K, Pvhl54-213-Elob-Eloc Complex _
(2s,4r)-N-((1,1'-Biphenyl)-4-
Ylmethyl)-4-Hydroxy-1-(2-(3-Methylisoxazol-5-Yl)acetyl)
Pyrrolidine-2-Carboxamide
pdb|3ZTD|B Chain B, Pvhl54-213-Elob-Eloc Complex _ Methyl
4-(((2s,4r)-4-Hydroxy-
1-(2-(3-Methylisoxazol-5-Yl)acetyl)pyrrolidine-2-
Carboxamido)methyl)benzoate
pdb|3ZTD|E Chain E, Pvhl54-213-Elob-Eloc Complex _ Methyl
4-(((2s,4r)-4-Hydroxy-
1-(2-(3-Methylisoxazol-5-Yl)acetyl)pyrrolidine-2-
Carboxamido)methyl)benzoate
pdb|3ZTD|H Chain H, Pvhl54-213-Elob-Eloc Complex _ Methyl
4-(((2s,4r)-4-Hydroxy-
1-(2-(3-Methylisoxazol-5-Yl)acetyl)pyrrolidine-2-
Carboxamido)methyl)benzoate
pdb|3ZTD|K Chain K, Pvhl54-213-Elob-Eloc Complex _ Methyl
4-(((2s,4r)-4-Hydroxy-
1-(2-(3-Methylisoxazol-5-Yl)acetyl)pyrrolidine-2-
Carboxamido)methyl)benzoate
pdb|3ZUN|B Chain B, Pvhl54-213-Elob-Eloc Complex_(2s,4r)-4-Hydroxy-1-(2-(3-
Methylisoxazol-5-Yl)acetyl)-N-(4-
Nitrobenzyl)pyrrolidine-2- Carboxamide Bound
pdb|3ZUN|E Chain E, Pvhl54-213-Elob-Eloc Complex_(2s,4r)-4-Hydroxy-1-(2-(3-
Methylisoxazol-5-Yl)acetyl)-N-(4-
Nitrobenzyl)pyrrolidine-2- Carboxamide Bound
pdb|3ZUN|H Chain H, Pvhl54-213-Elob-Eloc Complex_(2s,4r)-4-Hydroxy-1-(2-(3-
Methylisoxazol-5-Yl)acetyl)-N-(4-
Nitrobenzyl)pyrrolidine-2- Carboxamide Bound
pdb|3ZUN|K Chain K, Pvhl54-213-Elob-Eloc Complex_(2s,4r)-4-Hydroxy-1-(2-(3-
Methylisoxazol-5-Yl)acetyl)-N-(4-
Nitrobenzyl)pyrrolidine-2- Carboxamide Bound
pdb|4B95|B Chain B, Pvhl-Elob-Elob-Elocc
Complex_(2s,4r)-1-(2-Chlorophenyl)carbonyl-N-[
(4-Chlorophenyl)methyl]-4-Oxidanyl-Pyrrolidine-2-
Carboxamide Bound
pdb|4B95|E Chain E, Pvhl-Elob-Elob-Elocc
Complex_(2s,4r)-1-(2-Chlorophenyl)carbonyl-N-[
(4-Chlorophenyl)methyl]-4-Oxidanyl-Pyrrolidine-2-
Carboxamide Bound
pdb|4B95|H Chain H, Pvhl-Elob-Elob-Elocc
Complex_(2s,4r)-1-(2-Chlorophenyl)carbonyl-N-[
(4-Chlorophenyl)methyl]-4-Oxidanyl-Pyrrolidine-2-
Carboxamide Bound
pdb|4B95|K Chain K, Pvhl-Elob-Elob-Elocc
Complex_(2s,4r)-1-(2-Chlorophenyl)carbonyl-N-[
(4-Chlorophenyl)methyl]-4-Oxidanyl-Pyrrolidine-2-
Carboxamide Bound
pdb|4B9K|B Chain B, Pvhl-Elob-Eloc
Complex_(2s,4r)-1-(3-Amino-2-Methylbenzoyl)-4-
Hydroxy-N-(4-(4-Methylthiazol-5-Yl)benzyl)
Pyrrolidine-2-Carboxamide Bound
pdb|4B9K|H Chain H, Pvhl-Elob-Eloc
Complex_(2s,4r)-1-(3-Amino-2-Methylbenzoyl)-4-
Hydroxy-N-(4-(4-Methylthiazol-5-Yl)benzyl)
Pyrrolidine-2-Carboxamide Bound
pdb|4B9K|K Chain K, Pvhl-Elob-Eloc
Complex_(2s,4r)-1-(3-Amino-2-Methylbenzoyl)-4-
Hydroxy-N-(4-(4-Methylthiazol-5-Yl)benzyl)
Pyrrolidine-2-Carboxamide Bound
pdb|4AJY|C Chain C, Von Hippel-Lindau Protein-Elonginb-Elonginc Complex,
Bound To Hif1- Alpha Peptide
pdb|4AWJ|B Chain B, Pvhl:elob:eloc Complex, In Complex With Capped
Hydroxyproline
pdb|4AWJ|E Chain E, Pvhl:elob:eloc Complex, In Complex With Capped
Hydroxyproline
pdb|4AWJ|H Chain H, Pvhl:elob:eloc Complex, In Complex With Capped
Hydroxyproline
pdb|4AWJ|K Chain K, Pvhl:elob:eloc Complex, In Complex With Capped
Hydroxyproline
Length = 97
Score = 26.9 bits (58), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 14/36 (38%), Positives = 20/36 (55%)
Query: 7 VKLRSSDNEVFEVEKQVMIQSGTIRNMIEDDAADGE 42
VKL SSD F V+++ + SGTI+ M+ E
Sbjct: 4 VKLISSDGHEFIVKREHALTSGTIKAMLSGPGQFAE 39
>pdb|4B9K|E Chain E, Pvhl-Elob-Eloc
Complex_(2s,4r)-1-(3-Amino-2-Methylbenzoyl)-4-
Hydroxy-N-(4-(4-Methylthiazol-5-Yl)benzyl)
Pyrrolidine-2-Carboxamide Bound
Length = 97
Score = 26.9 bits (58), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 14/36 (38%), Positives = 20/36 (55%)
Query: 7 VKLRSSDNEVFEVEKQVMIQSGTIRNMIEDDAADGE 42
VKL SSD F V+++ + SGTI+ M+ E
Sbjct: 4 VKLISSDGHEFIVKREHALTSGTIKAMLSGPGQFAE 39
>pdb|1VCB|B Chain B, The Vhl-Elonginc-Elonginb Structure
pdb|1VCB|E Chain E, The Vhl-Elonginc-Elonginb Structure
pdb|1VCB|H Chain H, The Vhl-Elonginc-Elonginb Structure
pdb|1VCB|K Chain K, The Vhl-Elonginc-Elonginb Structure
Length = 112
Score = 26.9 bits (58), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 13/28 (46%), Positives = 19/28 (67%)
Query: 7 VKLRSSDNEVFEVEKQVMIQSGTIRNMI 34
VKL SSD F V+++ + SGTI+ M+
Sbjct: 19 VKLISSDGHEFIVKREHALTSGTIKAML 46
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
0.318 0.133 0.384
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,910,562
Number of Sequences: 62578
Number of extensions: 121862
Number of successful extensions: 352
Number of sequences better than 100.0: 21
Number of HSP's better than 100.0 without gapping: 17
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 326
Number of HSP's gapped (non-prelim): 25
length of query: 164
length of database: 14,973,337
effective HSP length: 91
effective length of query: 73
effective length of database: 9,278,739
effective search space: 677347947
effective search space used: 677347947
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: 47 (22.7 bits)