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= psy9488
(114 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2FNJ|B Chain B, Crystal Structure Of A B30.2SPRY DOMAIN-Containing Protein
Gustavus In Complex With Elongin B And Elongin C
Length = 118
Score = 75.9 bits (185), Expect = 5e-15, Method: Compositional matrix adjust.
Identities = 39/78 (50%), Positives = 56/78 (71%), Gaps = 2/78 (2%)
Query: 24 RYHKGITKVPPKDQKLFNKDNREMEEGNLLQEYGLTSAVAKAQSPALVGLAFRQENGEFE 83
R +GI K PP++Q+L+ KD++ +++G L E G TS A+ Q+PA VGLAFR ++ FE
Sbjct: 29 RIVEGILKRPPEEQRLY-KDDQLLDDGKTLGECGFTSQTARPQAPATVGLAFRADD-TFE 86
Query: 84 PLELTPYSSPPDLPYVMK 101
L + P+SSPP+LP VMK
Sbjct: 87 ALRIEPFSSPPELPDVMK 104
>pdb|4B9K|A Chain A, 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|D Chain D, 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|G Chain G, 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|J Chain J, 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|4AWJ|A Chain A, Pvhl:elob:eloc Complex, In Complex With Capped
Hydroxyproline
pdb|4AWJ|D Chain D, Pvhl:elob:eloc Complex, In Complex With Capped
Hydroxyproline
pdb|4AWJ|G Chain G, Pvhl:elob:eloc Complex, In Complex With Capped
Hydroxyproline
pdb|4AWJ|J Chain J, Pvhl:elob:eloc Complex, In Complex With Capped
Hydroxyproline
Length = 104
Score = 75.1 bits (183), Expect = 9e-15, Method: Compositional matrix adjust.
Identities = 39/78 (50%), Positives = 55/78 (70%), Gaps = 2/78 (2%)
Query: 24 RYHKGITKVPPKDQKLFNKDNREMEEGNLLQEYGLTSAVAKAQSPALVGLAFRQENGEFE 83
R +GI K PP +Q+L+ KD++ +++G L E G TS A+ Q+PA VGLAFR ++ FE
Sbjct: 29 RIVEGILKRPPDEQRLY-KDDQLLDDGKTLGEXGFTSQTARPQAPATVGLAFRADD-TFE 86
Query: 84 PLELTPYSSPPDLPYVMK 101
L + P+SSPP+LP VMK
Sbjct: 87 ALXIEPFSSPPELPDVMK 104
>pdb|1VCB|A Chain A, The Vhl-Elonginc-Elonginb Structure
pdb|1VCB|D Chain D, The Vhl-Elonginc-Elonginb Structure
pdb|1VCB|G Chain G, The Vhl-Elonginc-Elonginb Structure
pdb|1VCB|J Chain J, The Vhl-Elonginc-Elonginb Structure
pdb|1LM8|B Chain B, Structure Of A Hif-1a-Pvhl-Elonginb-Elonginc Complex
pdb|1LQB|A Chain A, Crystal Structure Of A Hydroxylated Hif-1 Alpha Peptide
Bound To The PvhlELONGIN-CELONGIN-B Complex
pdb|2C9W|B Chain B, Crystal Structure Of Socs-2 In Complex With Elongin-B And
Elongin-C At 1.9a Resolution
pdb|2IZV|B Chain B, Crystal Structure Of Socs-4 In Complex With Elongin-B And
Elongin-C At 2.55a Resolution
pdb|3DCG|A Chain A, Crystal Structure Of The Hiv Vif Bc-Box In Complex With
Human Elonginb And Elonginc
pdb|3DCG|C Chain C, Crystal Structure Of The Hiv Vif Bc-Box In Complex With
Human Elonginb And Elonginc
pdb|2JZ3|B Chain B, Socs Box Elonginbc Ternary Complex
pdb|3ZRC|A Chain A, 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|D Chain D, 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|G Chain G, 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|J Chain J, 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|A Chain A, Pvhl54-213-Elob-Eloc Complex_apo
pdb|3ZRF|D Chain D, Pvhl54-213-Elob-Eloc Complex_apo
pdb|3ZRF|G Chain G, Pvhl54-213-Elob-Eloc Complex_apo
pdb|3ZRF|J Chain J, Pvhl54-213-Elob-Eloc Complex_apo
pdb|3ZTC|A Chain A, 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|D Chain D, 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|G Chain G, 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|J Chain J, 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|A Chain A, 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|D Chain D, 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|G Chain G, 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|J Chain J, 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|A Chain A, 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|D Chain D, 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|G Chain G, 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|J Chain J, 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|A Chain A, Pvhl-Elob-Elob-Elocc
Complex_(2s,4r)-1-(2-Chlorophenyl)carbonyl-N-[
(4-Chlorophenyl)methyl]-4-Oxidanyl-Pyrrolidine-2-
Carboxamide Bound
pdb|4B95|D Chain D, Pvhl-Elob-Elob-Elocc
Complex_(2s,4r)-1-(2-Chlorophenyl)carbonyl-N-[
(4-Chlorophenyl)methyl]-4-Oxidanyl-Pyrrolidine-2-
Carboxamide Bound
pdb|4B95|G Chain G, Pvhl-Elob-Elob-Elocc
Complex_(2s,4r)-1-(2-Chlorophenyl)carbonyl-N-[
(4-Chlorophenyl)methyl]-4-Oxidanyl-Pyrrolidine-2-
Carboxamide Bound
pdb|4B95|J Chain J, Pvhl-Elob-Elob-Elocc
Complex_(2s,4r)-1-(2-Chlorophenyl)carbonyl-N-[
(4-Chlorophenyl)methyl]-4-Oxidanyl-Pyrrolidine-2-
Carboxamide Bound
pdb|4AJY|B Chain B, Von Hippel-Lindau Protein-Elonginb-Elonginc Complex, Bound
To Hif1- Alpha Peptide
pdb|3ZKJ|C Chain C, Crystal Structure Of Ankyrin Repeat And Socs
Box-containing Protein 9 (asb9) In Complex With Elonginb
And Elonginc
pdb|3ZKJ|F Chain F, Crystal Structure Of Ankyrin Repeat And Socs
Box-containing Protein 9 (asb9) In Complex With Elonginb
And Elonginc
Length = 118
Score = 74.7 bits (182), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 39/78 (50%), Positives = 55/78 (70%), Gaps = 2/78 (2%)
Query: 24 RYHKGITKVPPKDQKLFNKDNREMEEGNLLQEYGLTSAVAKAQSPALVGLAFRQENGEFE 83
R +GI K PP +Q+L+ KD++ +++G L E G TS A+ Q+PA VGLAFR ++ FE
Sbjct: 29 RIVEGILKRPPDEQRLY-KDDQLLDDGKTLGECGFTSQTARPQAPATVGLAFRADD-TFE 86
Query: 84 PLELTPYSSPPDLPYVMK 101
L + P+SSPP+LP VMK
Sbjct: 87 ALCIEPFSSPPELPDVMK 104
>pdb|2JNK|A Chain A, Solution Sructure Of A Dockerin-Containing Modular Pair
From A Family 84 Glycoside Hydrolase
pdb|2OZN|B Chain B, The Cohesin-Dockerin Complex Of Nagj And Nagh From
Clostridium Perfringens
Length = 140
Score = 26.2 bits (56), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 21/62 (33%), Positives = 32/62 (51%), Gaps = 10/62 (16%)
Query: 25 YHKG----ITKVPPKDQKLFNKDNREMEEGNLLQEYGLTSAVAKAQSPALVGLAFRQENG 80
YHKG +T K +++FNK++ EE NL +E L A+A+ S L + G
Sbjct: 29 YHKGAKDGLTVEINKAEEVFNKEDATEEEINLAKE-SLEGAIARFNS-----LLIEESTG 82
Query: 81 EF 82
+F
Sbjct: 83 DF 84
>pdb|1WKB|A Chain A, Crystal Structure Of Leucyl-Trna Synthetase From The
Archaeon Pyrococcus Horikoshii Reveals A Novel Editing
Domain Orientation
Length = 810
Score = 25.8 bits (55), Expect = 6.3, Method: Composition-based stats.
Identities = 10/17 (58%), Positives = 12/17 (70%)
Query: 22 RPRYHKGITKVPPKDQK 38
+ YHKGI KVPP + K
Sbjct: 402 KAEYHKGIFKVPPYEGK 418
>pdb|1WZ2|A Chain A, The Crystal Structure Of Leucyl-Trna Synthetase And
Trna(Leucine) Complex
pdb|1WZ2|B Chain B, The Crystal Structure Of Leucyl-Trna Synthetase And
Trna(Leucine) Complex
Length = 967
Score = 25.4 bits (54), Expect = 7.4, Method: Composition-based stats.
Identities = 10/17 (58%), Positives = 12/17 (70%)
Query: 22 RPRYHKGITKVPPKDQK 38
+ YHKGI KVPP + K
Sbjct: 402 KAEYHKGIFKVPPYEGK 418
>pdb|3ZF7|SS Chain s, High-resolution Cryo-electron Microscopy Structure Of
The Trypanosoma Brucei Ribosome
Length = 128
Score = 25.4 bits (54), Expect = 9.5, Method: Compositional matrix adjust.
Identities = 15/53 (28%), Positives = 24/53 (45%), Gaps = 8/53 (15%)
Query: 32 VPPKDQKLFNKDNREMEEGNLLQEYGLTSAVAKAQSPALVGLAFRQENGEFEP 84
+PP Q+L +++EEG L +Y + Q + + L R G EP
Sbjct: 36 IPPDQQRLIF-AGKQLEEGRTLADYNI-------QKESTLHLVLRLRGGVMEP 80
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 0.130 0.369
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,127,308
Number of Sequences: 62578
Number of extensions: 110450
Number of successful extensions: 161
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 149
Number of HSP's gapped (non-prelim): 8
length of query: 114
length of database: 14,973,337
effective HSP length: 77
effective length of query: 37
effective length of database: 10,154,831
effective search space: 375728747
effective search space used: 375728747
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.7 bits)
S2: 45 (21.9 bits)