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= psy10015
(90 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3FSH|A Chain A, Crystal Structure Of The Ubiquitin Conjugating Enzyme
Ube2g2 Bound To The G2br Domain Of Ubiquitin Ligase
Gp78
pdb|3FSH|B Chain B, Crystal Structure Of The Ubiquitin Conjugating Enzyme
Ube2g2 Bound To The G2br Domain Of Ubiquitin Ligase
Gp78
Length = 168
Score = 83.2 bits (204), Expect = 3e-17, Method: Compositional matrix adjust.
Identities = 37/43 (86%), Positives = 42/43 (97%)
Query: 1 MAGSALRRLMAEYKQLTINPPEGIIAGPVNEENFFEWEALITG 43
MAG+AL+RLMAEYKQLT+NPPEGI+AGP+NEENFFEWEALI G
Sbjct: 4 MAGTALKRLMAEYKQLTLNPPEGIVAGPMNEENFFEWEALIMG 46
>pdb|2KLY|A Chain A, Solution Structure Of Human Ubiquitin Conjugating Enzyme
Ube2g2
Length = 167
Score = 83.2 bits (204), Expect = 3e-17, Method: Compositional matrix adjust.
Identities = 37/43 (86%), Positives = 42/43 (97%)
Query: 1 MAGSALRRLMAEYKQLTINPPEGIIAGPVNEENFFEWEALITG 43
MAG+AL+RLMAEYKQLT+NPPEGI+AGP+NEENFFEWEALI G
Sbjct: 3 MAGTALKRLMAEYKQLTLNPPEGIVAGPMNEENFFEWEALIMG 45
>pdb|2CYX|A Chain A, Structure Of Human Ubiquitin-Conjugating Enzyme E2 G2
(Ube2g2UBC7)
pdb|2CYX|B Chain B, Structure Of Human Ubiquitin-Conjugating Enzyme E2 G2
(Ube2g2UBC7)
pdb|2CYX|C Chain C, Structure Of Human Ubiquitin-Conjugating Enzyme E2 G2
(Ube2g2UBC7)
Length = 170
Score = 83.2 bits (204), Expect = 4e-17, Method: Compositional matrix adjust.
Identities = 37/43 (86%), Positives = 42/43 (97%)
Query: 1 MAGSALRRLMAEYKQLTINPPEGIIAGPVNEENFFEWEALITG 43
MAG+AL+RLMAEYKQLT+NPPEGI+AGP+NEENFFEWEALI G
Sbjct: 6 MAGTALKRLMAEYKQLTLNPPEGIVAGPMNEENFFEWEALIMG 48
>pdb|3H8K|A Chain A, Crystal Structure Of Ube2g2 Complxed With The G2br
Domain Of Gp78 At 1.8-A Resolution
Length = 164
Score = 81.3 bits (199), Expect = 1e-16, Method: Compositional matrix adjust.
Identities = 36/42 (85%), Positives = 41/42 (97%)
Query: 2 AGSALRRLMAEYKQLTINPPEGIIAGPVNEENFFEWEALITG 43
AG+AL+RLMAEYKQLT+NPPEGI+AGP+NEENFFEWEALI G
Sbjct: 1 AGTALKRLMAEYKQLTLNPPEGIVAGPMNEENFFEWEALIMG 42
>pdb|2UCZ|A Chain A, Ubiquitin Conjugating Enzyme (Ubc7) From Saccharomyces
Cerevisiae
Length = 165
Score = 46.2 bits (108), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 20/43 (46%), Positives = 29/43 (67%)
Query: 1 MAGSALRRLMAEYKQLTINPPEGIIAGPVNEENFFEWEALITG 43
M+ +A +RL+ E +QL + P GI+AGP +E N F W+ LI G
Sbjct: 1 MSKTAQKRLLKELQQLIKDSPPGIVAGPKSENNIFIWDCLIQG 43
>pdb|1Z3D|A Chain A, Protein Crystal Growth Improvement Leading To The 2.5a
Crystallographic Structure Of Ubiquitin-Conjugating
Enzyme (Ubc-1) From Caenorhabditis Elegans
Length = 157
Score = 40.8 bits (94), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 18/43 (41%), Positives = 26/43 (60%), Gaps = 1/43 (2%)
Query: 1 MAGSALRRLMAEYKQLTINPPEGIIAGPVNEENFFEWEALITG 43
M + RRLM ++K+L +PP G+ P E+N WEA+I G
Sbjct: 4 MTTPSRRRLMRDFKKLQEDPPAGVSGAPT-EDNILTWEAIIFG 45
>pdb|1Q34|A Chain A, Crystal Structures Of Two Ubc (E2) Enzymes Of The
Ubiquitin- Conjugating System In Caenorhabditis Elegans
pdb|1Q34|B Chain B, Crystal Structures Of Two Ubc (E2) Enzymes Of The
Ubiquitin- Conjugating System In Caenorhabditis Elegans
pdb|1Q34|C Chain C, Crystal Structures Of Two Ubc (E2) Enzymes Of The
Ubiquitin- Conjugating System In Caenorhabditis Elegans
Length = 163
Score = 40.8 bits (94), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 18/43 (41%), Positives = 26/43 (60%), Gaps = 1/43 (2%)
Query: 1 MAGSALRRLMAEYKQLTINPPEGIIAGPVNEENFFEWEALITG 43
M + RRLM ++K+L +PP G+ P E+N WEA+I G
Sbjct: 1 MTTPSRRRLMRDFKKLQEDPPAGVSGAPT-EDNILTWEAIIFG 42
>pdb|1JAS|A Chain A, Hsubc2b
pdb|2YB6|A Chain A, Native Human Rad6
pdb|2YBF|A Chain A, Complex Of Rad18 (Rad6 Binding Domain) With Rad6b
pdb|2Y4W|A Chain A, Solution Structure Of Human Ubiquitin Conjugating Enzyme
Rad6b
Length = 152
Score = 39.3 bits (90), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 18/43 (41%), Positives = 27/43 (62%), Gaps = 1/43 (2%)
Query: 1 MAGSALRRLMAEYKQLTINPPEGIIAGPVNEENFFEWEALITG 43
M+ A RRLM ++K+L +PP G+ P +E N +W A+I G
Sbjct: 1 MSTPARRRLMRDFKRLQEDPPVGVSGAP-SENNIMQWNAVIFG 42
>pdb|3RPG|A Chain A, Bmi1RING1B-Ubch5c Complex Structure
Length = 149
Score = 38.5 bits (88), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 18/41 (43%), Positives = 24/41 (58%), Gaps = 1/41 (2%)
Query: 3 GSALRRLMAEYKQLTINPPEGIIAGPVNEENFFEWEALITG 43
GSAL+R+ E L +PP AGPV ++ F W+A I G
Sbjct: 2 GSALKRINKELSDLARDPPAQCSAGPVGDD-MFHWQATIMG 41
>pdb|2AAK|A Chain A, Ubiquitin Conjugating Enzyme From Arabidopsis Thaliana
Length = 152
Score = 38.5 bits (88), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 21/63 (33%), Positives = 30/63 (47%), Gaps = 1/63 (1%)
Query: 1 MAGSALRRLMAEYKQLTINPPEGIIAGPVNEENFFEWEALITGNKLYEWMPFALNLCYFF 60
M+ A +RLM ++K+L +PP GI P + N W A+I G W L F
Sbjct: 1 MSTPARKRLMRDFKRLQQDPPAGISGAP-QDNNIMLWNAVIFGPDDTPWDGGTFKLSLQF 59
Query: 61 SKG 63
S+
Sbjct: 60 SED 62
>pdb|4GPR|A Chain A, Crystal Structure Of Ehubc5, A Ubiquitin Conjugating
Enzyme From Entamoeba Histolytica
Length = 151
Score = 38.5 bits (88), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 17/42 (40%), Positives = 25/42 (59%), Gaps = 1/42 (2%)
Query: 2 AGSALRRLMAEYKQLTINPPEGIIAGPVNEENFFEWEALITG 43
A A+RR+ E +++ +PP AGPV ++ F W A ITG
Sbjct: 2 AAMAMRRIQKELREIQQDPPCNCSAGPVGDD-IFHWTATITG 42
>pdb|2OXQ|A Chain A, Structure Of The Ubch5 :chip U-Box Complex
pdb|2OXQ|B Chain B, Structure Of The Ubch5 :chip U-Box Complex
Length = 152
Score = 37.7 bits (86), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 17/43 (39%), Positives = 24/43 (55%), Gaps = 1/43 (2%)
Query: 1 MAGSALRRLMAEYKQLTINPPEGIIAGPVNEENFFEWEALITG 43
M AL+R+ E + L +PP AGPV ++ F W+A I G
Sbjct: 3 MGSMALKRIQKELQDLQRDPPAQCSAGPVGDD-LFHWQATIMG 44
>pdb|2AWF|A Chain A, Structure Of Human Ubiquitin-Conjugating Enzyme E2 G1
Length = 172
Score = 36.6 bits (83), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 22/55 (40%), Positives = 31/55 (56%), Gaps = 5/55 (9%)
Query: 6 LRRLMAEYKQLTINPPEGIIAGPVNEENFFEWEALITG--NKLYEWMPFALNLCY 58
LRR +AE L NP EG AG +++ + + WE LI G + LYE F +L +
Sbjct: 22 LRRQLAE---LNKNPVEGFSAGLIDDNDLYRWEVLIIGPPDTLYEGGVFKAHLTF 73
>pdb|3TGD|A Chain A, Crystal Structure Of The Human Ubiquitin-Conjugating
Enzyme (E2) Ubch5b
Length = 152
Score = 36.6 bits (83), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 17/43 (39%), Positives = 23/43 (53%), Gaps = 1/43 (2%)
Query: 1 MAGSALRRLMAEYKQLTINPPEGIIAGPVNEENFFEWEALITG 43
M AL+R+ E L +PP AGPV ++ F W+A I G
Sbjct: 3 MGSMALKRIHKELNDLARDPPAQCSAGPVGDD-MFHWQATIMG 44
>pdb|3A33|A Chain A, Ubch5b~ubiquitin Conjugate
Length = 150
Score = 36.2 bits (82), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 19/43 (44%), Positives = 25/43 (58%), Gaps = 2/43 (4%)
Query: 2 AGS-ALRRLMAEYKQLTINPPEGIIAGPVNEENFFEWEALITG 43
AGS AL+R+ E L +PP AGPV ++ F W+A I G
Sbjct: 1 AGSMALKRIHKELNDLARDPPAQCSAGPVGDD-MFHWQATIMG 42
>pdb|3L1Y|A Chain A, Crystal Structure Of Human Ubc4 E2 Conjugating Enzyme
Length = 157
Score = 35.8 bits (81), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 17/43 (39%), Positives = 23/43 (53%), Gaps = 1/43 (2%)
Query: 1 MAGSALRRLMAEYKQLTINPPEGIIAGPVNEENFFEWEALITG 43
M AL+R+ E L +PP AGPV ++ F W+A I G
Sbjct: 8 MNSMALKRIHKELNDLARDPPAQCSAGPVGDD-MFHWQATIMG 49
>pdb|3OJ4|A Chain A, Crystal Structure Of The A20 Znf4, Ubiquitin And Ubch5a
Complex
pdb|3OJ4|D Chain D, Crystal Structure Of The A20 Znf4, Ubiquitin And Ubch5a
Complex
pdb|3PTF|A Chain A, X-Ray Structure Of The Non-Covalent Complex Between
Ubch5a And Ubiquitin
pdb|3PTF|B Chain B, X-Ray Structure Of The Non-Covalent Complex Between
Ubch5a And Ubiquitin
Length = 153
Score = 35.8 bits (81), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 16/39 (41%), Positives = 22/39 (56%), Gaps = 1/39 (2%)
Query: 5 ALRRLMAEYKQLTINPPEGIIAGPVNEENFFEWEALITG 43
AL+R+ E L +PP AGPV ++ F W+A I G
Sbjct: 8 ALKRIQKELSDLQRDPPAHCSAGPVGDD-LFHWQATIMG 45
>pdb|2C4P|A Chain A, Crystal Structure Of Human Ubiquitin-Conjugating Enzyme
Ubch5a
pdb|2C4P|B Chain B, Crystal Structure Of Human Ubiquitin-Conjugating Enzyme
Ubch5a
Length = 165
Score = 35.8 bits (81), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 16/39 (41%), Positives = 22/39 (56%), Gaps = 1/39 (2%)
Query: 5 ALRRLMAEYKQLTINPPEGIIAGPVNEENFFEWEALITG 43
AL+R+ E L +PP AGPV ++ F W+A I G
Sbjct: 20 ALKRIQKELSDLQRDPPAHCSAGPVGDD-LFHWQATIMG 57
>pdb|2YHO|B Chain B, The Idol-Ube2d Complex Mediates Sterol-Dependent
Degradation Of The Ldl Receptor
pdb|2YHO|D Chain D, The Idol-Ube2d Complex Mediates Sterol-Dependent
Degradation Of The Ldl Receptor
pdb|2YHO|F Chain F, The Idol-Ube2d Complex Mediates Sterol-Dependent
Degradation Of The Ldl Receptor
pdb|2YHO|H Chain H, The Idol-Ube2d Complex Mediates Sterol-Dependent
Degradation Of The Ldl Receptor
Length = 149
Score = 35.8 bits (81), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 16/39 (41%), Positives = 22/39 (56%), Gaps = 1/39 (2%)
Query: 5 ALRRLMAEYKQLTINPPEGIIAGPVNEENFFEWEALITG 43
AL+R+ E L +PP AGPV ++ F W+A I G
Sbjct: 4 ALKRIQKELSDLQRDPPAHCSAGPVGDD-LFHWQATIMG 41
>pdb|4AP4|B Chain B, Rnf4 - Ubch5a - Ubiquitin Heterotrimeric Complex
pdb|4AP4|E Chain E, Rnf4 - Ubch5a - Ubiquitin Heterotrimeric Complex
Length = 153
Score = 35.8 bits (81), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 19/45 (42%), Positives = 25/45 (55%), Gaps = 4/45 (8%)
Query: 2 AGS---ALRRLMAEYKQLTINPPEGIIAGPVNEENFFEWEALITG 43
AGS AL+R+ E L +PP AGPV ++ F W+A I G
Sbjct: 2 AGSGSMALKRIQKELSDLQRDPPAHCRAGPVGDD-LFHWQATIMG 45
>pdb|2AYV|A Chain A, Crystal Structure Of A Putative Ubiquitin-Conjugating
Enzyme E2 From Toxoplasma Gondii
Length = 166
Score = 35.8 bits (81), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 20/56 (35%), Positives = 30/56 (53%), Gaps = 3/56 (5%)
Query: 5 ALRRLMAEYKQLTINPPEGIIAGPVNEENFFEWEALITG--NKLYEWMPFALNLCY 58
AL+R+ E L+ +PP AGPV ++ F W+A I G + Y F LN+ +
Sbjct: 22 ALKRINKELNDLSKDPPTNCSAGPVGDD-MFHWQATIMGPEDSPYSGGVFFLNIHF 76
>pdb|3L1Z|A Chain A, Crystal Structure Of The U-Box Domain Of Human E4b
Ubiquitin Ligase In Complex With Ubch5c E2 Ubiquitin
Conjugating Enzyme
Length = 157
Score = 35.4 bits (80), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 17/43 (39%), Positives = 23/43 (53%), Gaps = 1/43 (2%)
Query: 1 MAGSALRRLMAEYKQLTINPPEGIIAGPVNEENFFEWEALITG 43
M AL+R+ E L +PP AGPV ++ F W+A I G
Sbjct: 8 MNSMALKRINKELSDLARDPPAQCSAGPVGDD-MFHWQATIMG 49
>pdb|1AYZ|A Chain A, Crystal Structure Of The Saccharomyces Cerevisiae
Ubiquitin- Conjugating Enzyme Rad6 (Ubc2) At 2.6a
Resolution
pdb|1AYZ|B Chain B, Crystal Structure Of The Saccharomyces Cerevisiae
Ubiquitin- Conjugating Enzyme Rad6 (Ubc2) At 2.6a
Resolution
pdb|1AYZ|C Chain C, Crystal Structure Of The Saccharomyces Cerevisiae
Ubiquitin- Conjugating Enzyme Rad6 (Ubc2) At 2.6a
Resolution
Length = 169
Score = 35.4 bits (80), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 16/43 (37%), Positives = 26/43 (60%), Gaps = 1/43 (2%)
Query: 1 MAGSALRRLMAEYKQLTINPPEGIIAGPVNEENFFEWEALITG 43
M+ A RRLM ++K++ + P G+ A P+ +N W A+I G
Sbjct: 1 MSTPARRRLMRDFKRMKEDAPPGVSASPL-PDNVMVWNAMIIG 42
>pdb|1Z2U|A Chain A, The 1.1a Crystallographic Structure Of Ubiquitin-
Conjugating Enzyme (Ubc-2) From Caenorhabditis Elegans:
Functional And Evolutionary Significance
Length = 150
Score = 35.4 bits (80), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 16/39 (41%), Positives = 23/39 (58%), Gaps = 1/39 (2%)
Query: 5 ALRRLMAEYKQLTINPPEGIIAGPVNEENFFEWEALITG 43
AL+R+ E + L +PP AGPV ++ F W+A I G
Sbjct: 5 ALKRIQKELQDLGRDPPAQCSAGPVGDD-LFHWQATIMG 42
>pdb|1Y6L|A Chain A, Human Ubiquitin Conjugating Enzyme E2e2
pdb|1Y6L|B Chain B, Human Ubiquitin Conjugating Enzyme E2e2
pdb|1Y6L|C Chain C, Human Ubiquitin Conjugating Enzyme E2e2
Length = 149
Score = 35.4 bits (80), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 17/59 (28%), Positives = 32/59 (54%), Gaps = 3/59 (5%)
Query: 2 AGSALRRLMAEYKQLTINPPEGIIAGPVNEENFFEWEALITG--NKLYEWMPFALNLCY 58
++ +R+ E ++T++PP AGP +N +EW + I G +YE F L++ +
Sbjct: 1 GSTSAKRIQKELAEITLDPPPNCSAGP-KGDNIYEWRSTILGPPGSVYEGGVFFLDITF 58
>pdb|2C4O|B Chain B, Crystal Structure Of Human Ubiquitin-Conjugating Enzyme
Ubch5b
pdb|2C4O|C Chain C, Crystal Structure Of Human Ubiquitin-Conjugating Enzyme
Ubch5b
pdb|2C4O|D Chain D, Crystal Structure Of Human Ubiquitin-Conjugating Enzyme
Ubch5b
pdb|2CLW|B Chain B, Crystal Structure Of Human Ubiquitin-Conjugating Enzyme
Ubch5b
pdb|2CLW|C Chain C, Crystal Structure Of Human Ubiquitin-Conjugating Enzyme
Ubch5b
pdb|2CLW|D Chain D, Crystal Structure Of Human Ubiquitin-Conjugating Enzyme
Ubch5b
Length = 165
Score = 35.0 bits (79), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 16/39 (41%), Positives = 22/39 (56%), Gaps = 1/39 (2%)
Query: 5 ALRRLMAEYKQLTINPPEGIIAGPVNEENFFEWEALITG 43
AL+R+ E L +PP AGPV ++ F W+A I G
Sbjct: 20 ALKRIHKELNDLARDPPAQCSAGPVGDD-MFHWQATIMG 57
>pdb|3EB6|B Chain B, Structure Of The Ciap2 Ring Domain Bound To Ubch5b
Length = 149
Score = 35.0 bits (79), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 16/39 (41%), Positives = 22/39 (56%), Gaps = 1/39 (2%)
Query: 5 ALRRLMAEYKQLTINPPEGIIAGPVNEENFFEWEALITG 43
AL+R+ E L +PP AGPV ++ F W+A I G
Sbjct: 4 ALKRIHKELNDLARDPPAQCSAGPVGDD-MFHWQATIMG 41
>pdb|2ESP|A Chain A, Human Ubiquitin-Conjugating Enzyme (E2) Ubch5b Mutant
Ile88ala
Length = 149
Score = 35.0 bits (79), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 16/39 (41%), Positives = 22/39 (56%), Gaps = 1/39 (2%)
Query: 5 ALRRLMAEYKQLTINPPEGIIAGPVNEENFFEWEALITG 43
AL+R+ E L +PP AGPV ++ F W+A I G
Sbjct: 4 ALKRIHKELNDLARDPPAQCSAGPVGDD-MFHWQATIMG 41
>pdb|1UR6|A Chain A, Nmr Based Structural Model Of The Ubch5b-Cnot4 Complex
pdb|1W4U|A Chain A, Nmr Solution Structure Of The Ubiquitin Conjugating
Enzyme Ubch5b
pdb|4A49|B Chain B, Structure Of Phosphotyr371-C-Cbl-Ubch5b Complex
pdb|4A4B|C Chain C, Structure Of Modified Phosphotyr371-C-Cbl-Ubch5b-Zap-70
Complex
pdb|4A4C|C Chain C, Structure Of Phosphotyr371-C-Cbl-Ubch5b-Zap-70 Complex
Length = 147
Score = 35.0 bits (79), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 16/39 (41%), Positives = 22/39 (56%), Gaps = 1/39 (2%)
Query: 5 ALRRLMAEYKQLTINPPEGIIAGPVNEENFFEWEALITG 43
AL+R+ E L +PP AGPV ++ F W+A I G
Sbjct: 2 ALKRIHKELNDLARDPPAQCSAGPVGDD-MFHWQATIMG 39
>pdb|2ESK|A Chain A, Human Ubiquitin-Conjugating Enzyme (E2) Ubch5b,
Wild-Type
Length = 149
Score = 35.0 bits (79), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 16/39 (41%), Positives = 22/39 (56%), Gaps = 1/39 (2%)
Query: 5 ALRRLMAEYKQLTINPPEGIIAGPVNEENFFEWEALITG 43
AL+R+ E L +PP AGPV ++ F W+A I G
Sbjct: 4 ALKRIHKELNDLARDPPAQCSAGPVGDD-MFHWQATIMG 41
>pdb|2C4O|A Chain A, Crystal Structure Of Human Ubiquitin-Conjugating Enzyme
Ubch5b
pdb|2CLW|A Chain A, Crystal Structure Of Human Ubiquitin-Conjugating Enzyme
Ubch5b
Length = 165
Score = 35.0 bits (79), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 16/39 (41%), Positives = 22/39 (56%), Gaps = 1/39 (2%)
Query: 5 ALRRLMAEYKQLTINPPEGIIAGPVNEENFFEWEALITG 43
AL+R+ E L +PP AGPV ++ F W+A I G
Sbjct: 20 ALKRIHKELNDLARDPPAQCSAGPVGDD-MFHWQATIMG 57
>pdb|2ESQ|A Chain A, Human Ubiquitin-Conjugating Enzyme (E2) Ubch5b Mutant
Ser94gly
Length = 149
Score = 35.0 bits (79), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 16/39 (41%), Positives = 22/39 (56%), Gaps = 1/39 (2%)
Query: 5 ALRRLMAEYKQLTINPPEGIIAGPVNEENFFEWEALITG 43
AL+R+ E L +PP AGPV ++ F W+A I G
Sbjct: 4 ALKRIHKELNDLARDPPAQCSAGPVGDD-MFHWQATIMG 41
>pdb|4AUQ|A Chain A, Structure Of Birc7-Ubch5b-Ub Complex.
pdb|4AUQ|D Chain D, Structure Of Birc7-Ubch5b-Ub Complex
Length = 147
Score = 34.7 bits (78), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 16/39 (41%), Positives = 22/39 (56%), Gaps = 1/39 (2%)
Query: 5 ALRRLMAEYKQLTINPPEGIIAGPVNEENFFEWEALITG 43
AL+R+ E L +PP AGPV ++ F W+A I G
Sbjct: 2 ALKRIHKELNDLARDPPAQCRAGPVGDD-MFHWQATIMG 39
>pdb|2FUH|A Chain A, Solution Structure Of The Ubch5cUB NON-Covalent Complex
Length = 146
Score = 34.7 bits (78), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 16/39 (41%), Positives = 22/39 (56%), Gaps = 1/39 (2%)
Query: 5 ALRRLMAEYKQLTINPPEGIIAGPVNEENFFEWEALITG 43
AL+R+ E L +PP AGPV ++ F W+A I G
Sbjct: 1 ALKRINKELSDLARDPPAQCSAGPVGDD-MFHWQATIMG 38
>pdb|3BZH|A Chain A, Crystal Structure Of Human Ubiquitin-Conjugating Enzyme E2
E1
Length = 194
Score = 34.7 bits (78), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 17/58 (29%), Positives = 31/58 (53%), Gaps = 3/58 (5%)
Query: 3 GSALRRLMAEYKQLTINPPEGIIAGPVNEENFFEWEALITG--NKLYEWMPFALNLCY 58
++ +R+ E +T++PP AGP +N +EW + I G +YE F L++ +
Sbjct: 47 STSAKRIQKELADITLDPPPNCSAGPKG-DNIYEWRSTILGPPGSVYEGGVFFLDITF 103
>pdb|3UGB|A Chain A, Ubch5c~ubiquitin Conjugate
Length = 147
Score = 34.7 bits (78), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 16/39 (41%), Positives = 22/39 (56%), Gaps = 1/39 (2%)
Query: 5 ALRRLMAEYKQLTINPPEGIIAGPVNEENFFEWEALITG 43
AL+R+ E L +PP AGPV ++ F W+A I G
Sbjct: 2 ALKRINKELSDLARDPPAQCSAGPVGDD-MFHWQATIMG 39
>pdb|1X23|A Chain A, Crystal Structure Of Ubch5c
pdb|1X23|B Chain B, Crystal Structure Of Ubch5c
pdb|1X23|C Chain C, Crystal Structure Of Ubch5c
pdb|1X23|D Chain D, Crystal Structure Of Ubch5c
Length = 155
Score = 34.7 bits (78), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 16/39 (41%), Positives = 22/39 (56%), Gaps = 1/39 (2%)
Query: 5 ALRRLMAEYKQLTINPPEGIIAGPVNEENFFEWEALITG 43
AL+R+ E L +PP AGPV ++ F W+A I G
Sbjct: 10 ALKRINKELSDLARDPPAQCSAGPVGDD-MFHWQATIMG 47
>pdb|4DDG|A Chain A, Crystal Structure Of Human Otub1UBCH5B~UBUB
pdb|4DDG|B Chain B, Crystal Structure Of Human Otub1UBCH5B~UBUB
pdb|4DDG|C Chain C, Crystal Structure Of Human Otub1UBCH5B~UBUB
pdb|4DDG|J Chain J, Crystal Structure Of Human Otub1UBCH5B~UBUB
pdb|4DDG|K Chain K, Crystal Structure Of Human Otub1UBCH5B~UBUB
pdb|4DDG|L Chain L, Crystal Structure Of Human Otub1UBCH5B~UBUB
pdb|4DDI|A Chain A, Crystal Structure Of Human Otub1UBCH5B~UBUB
pdb|4DDI|B Chain B, Crystal Structure Of Human Otub1UBCH5B~UBUB
pdb|4DDI|C Chain C, Crystal Structure Of Human Otub1UBCH5B~UBUB
Length = 399
Score = 34.3 bits (77), Expect = 0.021, Method: Composition-based stats.
Identities = 16/39 (41%), Positives = 22/39 (56%), Gaps = 1/39 (2%)
Query: 5 ALRRLMAEYKQLTINPPEGIIAGPVNEENFFEWEALITG 43
AL+R+ E L +PP AGPV ++ F W+A I G
Sbjct: 4 ALKRIHKELNDLARDPPAQCSAGPVGDD-MFHWQATIMG 41
>pdb|4II2|C Chain C, Crystal Structure Of Ubiquitin Activating Enzyme 1
(uba1) In Complex With The Ub E2 Ubc4, Ubiquitin, And
Atp/mg
Length = 163
Score = 33.9 bits (76), Expect = 0.021, Method: Compositional matrix adjust.
Identities = 16/39 (41%), Positives = 22/39 (56%), Gaps = 1/39 (2%)
Query: 5 ALRRLMAEYKQLTINPPEGIIAGPVNEENFFEWEALITG 43
AL+R+ E L +PP AGPV ++ F W+A I G
Sbjct: 2 ALKRINRELADLGKDPPSSSSAGPVGDD-LFHWQATIMG 39
>pdb|2Y9P|A Chain A, Pex4p-Pex22p Mutant Ii Structure
Length = 172
Score = 33.9 bits (76), Expect = 0.027, Method: Compositional matrix adjust.
Identities = 18/54 (33%), Positives = 29/54 (53%), Gaps = 11/54 (20%)
Query: 1 MAGSALRRLMAEYKQL---------TINPPEGIIAG--PVNEENFFEWEALITG 43
MA + + R++ EYK + NP GII P++E + +WEA+I+G
Sbjct: 3 MADTCMSRIVKEYKVILKTLASDDPIANPYRGIIESLNPIDETDLSKWEAIISG 56
>pdb|2Y9M|A Chain A, Pex4p-Pex22p Structure
Length = 172
Score = 33.5 bits (75), Expect = 0.027, Method: Compositional matrix adjust.
Identities = 18/54 (33%), Positives = 29/54 (53%), Gaps = 11/54 (20%)
Query: 1 MAGSALRRLMAEYKQL---------TINPPEGIIAG--PVNEENFFEWEALITG 43
MA + + R++ EYK + NP GII P++E + +WEA+I+G
Sbjct: 3 MADTCMSRIVKEYKVILKTLASDDPIANPYRGIIESLNPIDETDLSKWEAIISG 56
>pdb|2Y9O|A Chain A, Pex4p-Pex22p Mutant I Structure
Length = 172
Score = 33.5 bits (75), Expect = 0.032, Method: Compositional matrix adjust.
Identities = 18/54 (33%), Positives = 29/54 (53%), Gaps = 11/54 (20%)
Query: 1 MAGSALRRLMAEYKQL---------TINPPEGIIAG--PVNEENFFEWEALITG 43
MA + + R++ EYK + NP GII P++E + +WEA+I+G
Sbjct: 3 MADTCMSRIVKEYKVILKTLASDDPIANPYRGIIESLNPIDETDLSKWEAIISG 56
>pdb|2ESO|A Chain A, Human Ubiquitin-Conjugating Enzyme (E2) Ubch5b Mutant
Ile37ala
Length = 149
Score = 33.1 bits (74), Expect = 0.044, Method: Compositional matrix adjust.
Identities = 15/39 (38%), Positives = 21/39 (53%), Gaps = 1/39 (2%)
Query: 5 ALRRLMAEYKQLTINPPEGIIAGPVNEENFFEWEALITG 43
AL+R+ E L +PP AGPV ++ F W+A G
Sbjct: 4 ALKRIHKELNDLARDPPAQCSAGPVGDD-MFHWQATAMG 41
>pdb|3JVZ|A Chain A, E2~ubiquitin-Hect
pdb|3JVZ|B Chain B, E2~ubiquitin-Hect
pdb|3JW0|A Chain A, E2~ubiquitin-Hect
pdb|3JW0|B Chain B, E2~ubiquitin-Hect
Length = 146
Score = 32.7 bits (73), Expect = 0.051, Method: Compositional matrix adjust.
Identities = 15/39 (38%), Positives = 21/39 (53%), Gaps = 1/39 (2%)
Query: 5 ALRRLMAEYKQLTINPPEGIIAGPVNEENFFEWEALITG 43
A +R+ E L +PP AGPV ++ F W+A I G
Sbjct: 1 ASKRIHKELNDLARDPPAQCSAGPVGDD-MFHWQATIMG 38
>pdb|1QCQ|A Chain A, Ubiquitin Conjugating Enzyme
Length = 148
Score = 32.0 bits (71), Expect = 0.088, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 22/40 (55%), Gaps = 1/40 (2%)
Query: 4 SALRRLMAEYKQLTINPPEGIIAGPVNEENFFEWEALITG 43
S+ +R+ E L +PP AGPV ++ + W+A I G
Sbjct: 2 SSSKRIAKELSDLERDPPTSCSAGPVGDD-LYHWQASIMG 40
>pdb|1YRV|A Chain A, Novel Ubiquitin-Conjugating Enzyme
Length = 169
Score = 30.4 bits (67), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 20/61 (32%), Positives = 27/61 (44%), Gaps = 1/61 (1%)
Query: 1 MAGSALRRLMAEYKQLTINPPEGIIAGPVNEENFFEWEALITGNKLYEWMPFALNLCYFF 60
M G A L ++ L N +GI A PV+E+ EWE I G + W L F
Sbjct: 20 MHGRAYLLLHRDFCDLKENNYKGITAKPVSED-MMEWEVEIEGLQNSVWQGLVFQLTIHF 78
Query: 61 S 61
+
Sbjct: 79 T 79
>pdb|3E95|A Chain A, Crystal Structure Of The Plasmodium Falciparum Ubiquitin
Conjugating Enzyme Complex, Pfubc13-Pfuev1a
pdb|3E95|B Chain B, Crystal Structure Of The Plasmodium Falciparum Ubiquitin
Conjugating Enzyme Complex, Pfubc13-Pfuev1a
Length = 151
Score = 30.0 bits (66), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 16/37 (43%), Positives = 21/37 (56%), Gaps = 1/37 (2%)
Query: 7 RRLMAEYKQLTINPPEGIIAGPVNEENFFEWEALITG 43
RR+ E + L PP GI+A PV EN+ + LI G
Sbjct: 4 RRITKETQNLANEPPPGIMAVPV-PENYRHFNILING 39
>pdb|3GI9|C Chain C, Crystal Structure Of Apct Transporter Bound To 7f11
Monoclonal Fab Fragment
pdb|3GIA|A Chain A, Crystal Structure Of Apct Transporter
Length = 444
Score = 30.0 bits (66), Expect = 0.32, Method: Compositional matrix adjust.
Identities = 15/54 (27%), Positives = 31/54 (57%), Gaps = 2/54 (3%)
Query: 26 AGPVNEENFFEWEALITGN-KLYEWMPFALNLCYFFSKGNSGWYIPCLKSPSQT 78
AGP+ + + +ITG + WM + +++ F+KG +G+++P + +P T
Sbjct: 70 AGPIAFIHKAIGDNIITGALSILLWMSYVISIA-LFAKGFAGYFLPLINAPINT 122
>pdb|2R0J|A Chain A, Crystal Structure Of The Putative Ubiquitin Conjugating
Enzyme, Pfe1350c, From Plasmodium Falciparum
Length = 149
Score = 30.0 bits (66), Expect = 0.32, Method: Compositional matrix adjust.
Identities = 16/37 (43%), Positives = 21/37 (56%), Gaps = 1/37 (2%)
Query: 7 RRLMAEYKQLTINPPEGIIAGPVNEENFFEWEALITG 43
RR+ E + L PP GI+A PV EN+ + LI G
Sbjct: 4 RRITKETQNLANEPPPGIMAVPV-PENYRHFNILING 39
>pdb|3GI8|C Chain C, Crystal Structure Of Apct K158a Transporter Bound To 7f11
Monoclonal Fab Fragment
Length = 444
Score = 30.0 bits (66), Expect = 0.32, Method: Compositional matrix adjust.
Identities = 15/54 (27%), Positives = 31/54 (57%), Gaps = 2/54 (3%)
Query: 26 AGPVNEENFFEWEALITGN-KLYEWMPFALNLCYFFSKGNSGWYIPCLKSPSQT 78
AGP+ + + +ITG + WM + +++ F+KG +G+++P + +P T
Sbjct: 70 AGPIAFIHKAIGDNIITGALSILLWMSYVISIA-LFAKGFAGYFLPLINAPINT 122
>pdb|1ZDN|A Chain A, Ubiquitin-Conjugating Enzyme E2s
pdb|1ZDN|B Chain B, Ubiquitin-Conjugating Enzyme E2s
Length = 158
Score = 28.1 bits (61), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 17/48 (35%), Positives = 25/48 (52%), Gaps = 4/48 (8%)
Query: 6 LRRLMAEYKQLTINPPEGIIAGPVNEENFFEWEALITGNKLYEWMPFA 53
+R + E LT +PP+GI P NEE+ + + I G E P+A
Sbjct: 15 IRLVYKEVTTLTADPPDGIKVFP-NEEDLTDLQVTIEGP---EGTPYA 58
>pdb|2AI0|H Chain H, Anti-Cocaine Antibody 7.5.21, Crystal Form Iii
pdb|2AI0|I Chain I, Anti-Cocaine Antibody 7.5.21, Crystal Form Iii
pdb|2AI0|J Chain J, Anti-Cocaine Antibody 7.5.21, Crystal Form Iii
pdb|2AI0|K Chain K, Anti-Cocaine Antibody 7.5.21, Crystal Form Iii
Length = 224
Score = 26.9 bits (58), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 12/34 (35%), Positives = 18/34 (52%)
Query: 32 ENFFEWEALITGNKLYEWMPFALNLCYFFSKGNS 65
E EW A I+GN LY P ++ + S+ N+
Sbjct: 42 EKRLEWVAAISGNSLYTSYPDSVKGRFTISRDNA 75
>pdb|2A77|H Chain H, Anti-cocaine Antibody 7.5.21, Crystal Form Ii
Length = 222
Score = 26.9 bits (58), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 12/34 (35%), Positives = 18/34 (52%)
Query: 32 ENFFEWEALITGNKLYEWMPFALNLCYFFSKGNS 65
E EW A I+GN LY P ++ + S+ N+
Sbjct: 42 EKRLEWVAAISGNSLYTSYPDSVKGRFTISRDNA 75
>pdb|2A1W|H Chain H, Anti-Cocaine Antibody 7.5.21, Crystal Form I
pdb|2A1W|I Chain I, Anti-Cocaine Antibody 7.5.21, Crystal Form I
Length = 225
Score = 26.9 bits (58), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 12/34 (35%), Positives = 18/34 (52%)
Query: 32 ENFFEWEALITGNKLYEWMPFALNLCYFFSKGNS 65
E EW A I+GN LY P ++ + S+ N+
Sbjct: 42 EKRLEWVAAISGNSLYTSYPDSVKGRFTISRDNA 75
>pdb|3RZ3|A Chain A, Human Cdc34 E2 In Complex With Cc0651 Inhibitor
pdb|3RZ3|B Chain B, Human Cdc34 E2 In Complex With Cc0651 Inhibitor
pdb|3RZ3|C Chain C, Human Cdc34 E2 In Complex With Cc0651 Inhibitor
pdb|3RZ3|D Chain D, Human Cdc34 E2 In Complex With Cc0651 Inhibitor
Length = 183
Score = 26.6 bits (57), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 19/57 (33%), Positives = 26/57 (45%), Gaps = 2/57 (3%)
Query: 4 SALRRLMAEYKQLTINPPEGIIAGPVNEENFFEWEALITG--NKLYEWMPFALNLCY 58
S+ + L+ E K L P EG V+E + + WE I G N YE F L +
Sbjct: 7 SSQKALLLELKGLQEEPVEGFRVTLVDEGDLYNWEVAIFGPPNTYYEGGYFKARLKF 63
>pdb|2OB4|A Chain A, Human Ubiquitin-Conjugating Enzyme Cdc34
Length = 180
Score = 26.6 bits (57), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 17/47 (36%), Positives = 23/47 (48%), Gaps = 2/47 (4%)
Query: 4 SALRRLMAEYKQLTINPPEGIIAGPVNEENFFEWEALITG--NKLYE 48
S+ + L+ E K L P EG V+E + + WE I G N YE
Sbjct: 4 SSQKALLLELKGLQEEPVEGFRVTLVDEGDLYNWEVAIFGPPNTYYE 50
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
0.322 0.139 0.448
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,959,132
Number of Sequences: 62578
Number of extensions: 111088
Number of successful extensions: 203
Number of sequences better than 100.0: 59
Number of HSP's better than 100.0 without gapping: 48
Number of HSP's successfully gapped in prelim test: 11
Number of HSP's that attempted gapping in prelim test: 151
Number of HSP's gapped (non-prelim): 59
length of query: 90
length of database: 14,973,337
effective HSP length: 57
effective length of query: 33
effective length of database: 11,406,391
effective search space: 376410903
effective search space used: 376410903
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 45 (21.9 bits)