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= psy3659
(78 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3BZH|A Chain A, Crystal Structure Of Human Ubiquitin-Conjugating Enzyme
E2 E1
Length = 194
Score = 67.4 bits (163), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 32/34 (94%), Positives = 33/34 (97%)
Query: 2 SKALSTSAKRIQKELAEITLDPPPNCSAGPKGDN 35
SK LSTSAKRIQKELA+ITLDPPPNCSAGPKGDN
Sbjct: 43 SKLLSTSAKRIQKELADITLDPPPNCSAGPKGDN 76
>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 = 63.9 bits (154), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 30/30 (100%), Positives = 30/30 (100%)
Query: 6 STSAKRIQKELAEITLDPPPNCSAGPKGDN 35
STSAKRIQKELAEITLDPPPNCSAGPKGDN
Sbjct: 2 STSAKRIQKELAEITLDPPPNCSAGPKGDN 31
>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 = 43.5 bits (101), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 19/34 (55%), Positives = 25/34 (73%)
Query: 2 SKALSTSAKRIQKELAEITLDPPPNCSAGPKGDN 35
S L + KRIQKEL+++ DPP +CSAGP GD+
Sbjct: 2 SHMLEMALKRIQKELSDLQRDPPAHCSAGPVGDD 35
>pdb|4GPR|A Chain A, Crystal Structure Of Ehubc5, A Ubiquitin Conjugating
Enzyme From Entamoeba Histolytica
Length = 151
Score = 42.7 bits (99), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 19/30 (63%), Positives = 23/30 (76%)
Query: 6 STSAKRIQKELAEITLDPPPNCSAGPKGDN 35
+ + +RIQKEL EI DPP NCSAGP GD+
Sbjct: 3 AMAMRRIQKELREIQQDPPCNCSAGPVGDD 32
>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 = 42.4 bits (98), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 18/30 (60%), Positives = 24/30 (80%)
Query: 6 STSAKRIQKELAEITLDPPPNCSAGPKGDN 35
S + KRIQKEL+++ DPP +CSAGP GD+
Sbjct: 18 SMALKRIQKELSDLQRDPPAHCSAGPVGDD 47
>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 = 41.2 bits (95), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 17/30 (56%), Positives = 24/30 (80%)
Query: 6 STSAKRIQKELAEITLDPPPNCSAGPKGDN 35
+ + KRIQKEL+++ DPP +CSAGP GD+
Sbjct: 2 AMALKRIQKELSDLQRDPPAHCSAGPVGDD 31
>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 = 41.2 bits (95), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 18/30 (60%), Positives = 22/30 (73%)
Query: 6 STSAKRIQKELAEITLDPPPNCSAGPKGDN 35
S + KRIQKEL ++ DPP CSAGP GD+
Sbjct: 5 SMALKRIQKELQDLQRDPPAQCSAGPVGDD 34
>pdb|3RPG|A Chain A, Bmi1RING1B-Ubch5c Complex Structure
Length = 149
Score = 40.8 bits (94), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 17/31 (54%), Positives = 23/31 (74%)
Query: 5 LSTSAKRIQKELAEITLDPPPNCSAGPKGDN 35
L ++ KRI KEL+++ DPP CSAGP GD+
Sbjct: 1 LGSALKRINKELSDLARDPPAQCSAGPVGDD 31
>pdb|1QCQ|A Chain A, Ubiquitin Conjugating Enzyme
Length = 148
Score = 40.4 bits (93), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 17/29 (58%), Positives = 24/29 (82%)
Query: 7 TSAKRIQKELAEITLDPPPNCSAGPKGDN 35
+S+KRI KEL+++ DPP +CSAGP GD+
Sbjct: 2 SSSKRIAKELSDLERDPPTSCSAGPVGDD 30
>pdb|2AYV|A Chain A, Crystal Structure Of A Putative Ubiquitin-Conjugating
Enzyme E2 From Toxoplasma Gondii
Length = 166
Score = 40.4 bits (93), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 17/26 (65%), Positives = 21/26 (80%)
Query: 10 KRIQKELAEITLDPPPNCSAGPKGDN 35
KRI KEL +++ DPP NCSAGP GD+
Sbjct: 24 KRINKELNDLSKDPPTNCSAGPVGDD 49
>pdb|4AP4|B Chain B, Rnf4 - Ubch5a - Ubiquitin Heterotrimeric Complex
pdb|4AP4|E Chain E, Rnf4 - Ubch5a - Ubiquitin Heterotrimeric Complex
Length = 153
Score = 40.4 bits (93), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 17/30 (56%), Positives = 23/30 (76%)
Query: 6 STSAKRIQKELAEITLDPPPNCSAGPKGDN 35
S + KRIQKEL+++ DPP +C AGP GD+
Sbjct: 6 SMALKRIQKELSDLQRDPPAHCRAGPVGDD 35
>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 = 40.0 bits (92), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 17/30 (56%), Positives = 22/30 (73%)
Query: 6 STSAKRIQKELAEITLDPPPNCSAGPKGDN 35
S + KRI KEL+++ DPP CSAGP GD+
Sbjct: 10 SMALKRINKELSDLARDPPAQCSAGPVGDD 39
>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 = 40.0 bits (92), Expect = 4e-04, Method: Composition-based stats.
Identities = 16/30 (53%), Positives = 21/30 (70%)
Query: 6 STSAKRIQKELAEITLDPPPNCSAGPKGDN 35
+ + KRI KEL ++ DPP CSAGP GD+
Sbjct: 2 AMALKRIHKELNDLARDPPAQCSAGPVGDD 31
>pdb|3A33|A Chain A, Ubch5b~ubiquitin Conjugate
Length = 150
Score = 39.7 bits (91), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 18/32 (56%), Positives = 22/32 (68%)
Query: 4 ALSTSAKRIQKELAEITLDPPPNCSAGPKGDN 35
A S + KRI KEL ++ DPP CSAGP GD+
Sbjct: 1 AGSMALKRIHKELNDLARDPPAQCSAGPVGDD 32
>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 = 39.7 bits (91), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 17/28 (60%), Positives = 21/28 (75%)
Query: 8 SAKRIQKELAEITLDPPPNCSAGPKGDN 35
+ KRIQKEL ++ DPP CSAGP GD+
Sbjct: 5 ALKRIQKELQDLGRDPPAQCSAGPVGDD 32
>pdb|3L1Y|A Chain A, Crystal Structure Of Human Ubc4 E2 Conjugating Enzyme
Length = 157
Score = 39.7 bits (91), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 17/30 (56%), Positives = 21/30 (70%)
Query: 6 STSAKRIQKELAEITLDPPPNCSAGPKGDN 35
S + KRI KEL ++ DPP CSAGP GD+
Sbjct: 10 SMALKRIHKELNDLARDPPAQCSAGPVGDD 39
>pdb|3TGD|A Chain A, Crystal Structure Of The Human Ubiquitin-Conjugating
Enzyme (E2) Ubch5b
Length = 152
Score = 39.3 bits (90), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 17/30 (56%), Positives = 21/30 (70%)
Query: 6 STSAKRIQKELAEITLDPPPNCSAGPKGDN 35
S + KRI KEL ++ DPP CSAGP GD+
Sbjct: 5 SMALKRIHKELNDLARDPPAQCSAGPVGDD 34
>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 = 39.3 bits (90), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 17/30 (56%), Positives = 21/30 (70%)
Query: 6 STSAKRIQKELAEITLDPPPNCSAGPKGDN 35
S + KRI KEL ++ DPP CSAGP GD+
Sbjct: 18 SMALKRIHKELNDLARDPPAQCSAGPVGDD 47
>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 = 39.3 bits (90), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 17/30 (56%), Positives = 21/30 (70%)
Query: 6 STSAKRIQKELAEITLDPPPNCSAGPKGDN 35
S + KRI KEL ++ DPP CSAGP GD+
Sbjct: 18 SMALKRIHKELNDLARDPPAQCSAGPVGDD 47
>pdb|3EB6|B Chain B, Structure Of The Ciap2 Ring Domain Bound To Ubch5b
Length = 149
Score = 39.3 bits (90), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 17/30 (56%), Positives = 21/30 (70%)
Query: 6 STSAKRIQKELAEITLDPPPNCSAGPKGDN 35
S + KRI KEL ++ DPP CSAGP GD+
Sbjct: 2 SMALKRIHKELNDLARDPPAQCSAGPVGDD 31
>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 = 38.9 bits (89), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 16/28 (57%), Positives = 21/28 (75%)
Query: 8 SAKRIQKELAEITLDPPPNCSAGPKGDN 35
++KRI KEL ++ DPP CSAGP GD+
Sbjct: 1 ASKRIHKELNDLARDPPAQCSAGPVGDD 28
>pdb|3UGB|A Chain A, Ubch5c~ubiquitin Conjugate
Length = 147
Score = 38.9 bits (89), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 16/26 (61%), Positives = 20/26 (76%)
Query: 10 KRIQKELAEITLDPPPNCSAGPKGDN 35
KRI KEL+++ DPP CSAGP GD+
Sbjct: 4 KRINKELSDLARDPPAQCSAGPVGDD 29
>pdb|2FUH|A Chain A, Solution Structure Of The Ubch5cUB NON-Covalent Complex
Length = 146
Score = 38.5 bits (88), Expect = 9e-04, Method: Compositional matrix adjust.
Identities = 16/26 (61%), Positives = 20/26 (76%)
Query: 10 KRIQKELAEITLDPPPNCSAGPKGDN 35
KRI KEL+++ DPP CSAGP GD+
Sbjct: 3 KRINKELSDLARDPPAQCSAGPVGDD 28
>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 = 38.5 bits (88), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 16/26 (61%), Positives = 20/26 (76%)
Query: 10 KRIQKELAEITLDPPPNCSAGPKGDN 35
KRI KEL+++ DPP CSAGP GD+
Sbjct: 12 KRINKELSDLARDPPAQCSAGPVGDD 37
>pdb|2ESQ|A Chain A, Human Ubiquitin-Conjugating Enzyme (E2) Ubch5b Mutant
Ser94gly
Length = 149
Score = 38.1 bits (87), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 16/30 (53%), Positives = 21/30 (70%)
Query: 6 STSAKRIQKELAEITLDPPPNCSAGPKGDN 35
+ + KRI KEL ++ DPP CSAGP GD+
Sbjct: 2 AMALKRIHKELNDLARDPPAQCSAGPVGDD 31
>pdb|2ESK|A Chain A, Human Ubiquitin-Conjugating Enzyme (E2) Ubch5b,
Wild-Type
Length = 149
Score = 38.1 bits (87), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 16/30 (53%), Positives = 21/30 (70%)
Query: 6 STSAKRIQKELAEITLDPPPNCSAGPKGDN 35
+ + KRI KEL ++ DPP CSAGP GD+
Sbjct: 2 AMALKRIHKELNDLARDPPAQCSAGPVGDD 31
>pdb|2ESP|A Chain A, Human Ubiquitin-Conjugating Enzyme (E2) Ubch5b Mutant
Ile88ala
Length = 149
Score = 38.1 bits (87), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 16/30 (53%), Positives = 21/30 (70%)
Query: 6 STSAKRIQKELAEITLDPPPNCSAGPKGDN 35
+ + KRI KEL ++ DPP CSAGP GD+
Sbjct: 2 AMALKRIHKELNDLARDPPAQCSAGPVGDD 31
>pdb|2ESO|A Chain A, Human Ubiquitin-Conjugating Enzyme (E2) Ubch5b Mutant
Ile37ala
Length = 149
Score = 38.1 bits (87), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 16/30 (53%), Positives = 21/30 (70%)
Query: 6 STSAKRIQKELAEITLDPPPNCSAGPKGDN 35
+ + KRI KEL ++ DPP CSAGP GD+
Sbjct: 2 AMALKRIHKELNDLARDPPAQCSAGPVGDD 31
>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 = 38.1 bits (87), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 16/28 (57%), Positives = 20/28 (71%)
Query: 8 SAKRIQKELAEITLDPPPNCSAGPKGDN 35
+ KRI KEL ++ DPP CSAGP GD+
Sbjct: 2 ALKRIHKELNDLARDPPAQCSAGPVGDD 29
>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 = 36.2 bits (82), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 15/28 (53%), Positives = 19/28 (67%)
Query: 8 SAKRIQKELAEITLDPPPNCSAGPKGDN 35
+ KRI KEL ++ DPP C AGP GD+
Sbjct: 2 ALKRIHKELNDLARDPPAQCRAGPVGDD 29
>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 = 35.4 bits (80), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 15/26 (57%), Positives = 20/26 (76%)
Query: 10 KRIQKELAEITLDPPPNCSAGPKGDN 35
KRI +ELA++ DPP + SAGP GD+
Sbjct: 4 KRINRELADLGKDPPSSSSAGPVGDD 29
>pdb|2UCZ|A Chain A, Ubiquitin Conjugating Enzyme (Ubc7) From Saccharomyces
Cerevisiae
Length = 165
Score = 32.0 bits (71), Expect = 0.082, Method: Compositional matrix adjust.
Identities = 17/35 (48%), Positives = 22/35 (62%), Gaps = 3/35 (8%)
Query: 1 MSKALSTSAKRIQKELAEITLDPPPNCSAGPKGDN 35
MSK T+ KR+ KEL ++ D PP AGPK +N
Sbjct: 1 MSK---TAQKRLLKELQQLIKDSPPGIVAGPKSEN 32
>pdb|2E2C|A Chain A, E2-C, An Ubiquitin Conjugating Enzyme Required For The
Destruction Of Mitotic Cyclins
Length = 156
Score = 28.1 bits (61), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 13/34 (38%), Positives = 20/34 (58%)
Query: 2 SKALSTSAKRIQKELAEITLDPPPNCSAGPKGDN 35
SK + +KR+Q+EL + + P +A P GDN
Sbjct: 4 SKERHSVSKRLQQELRTLLMSGDPGITAFPDGDN 37
>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 = 27.7 bits (60), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 12/33 (36%), Positives = 18/33 (54%)
Query: 2 SKALSTSAKRIQKELAEITLDPPPNCSAGPKGD 34
S T+ KR+ E ++TL+PP AGP +
Sbjct: 2 SHMAGTALKRLMAEYKQLTLNPPEGIVAGPMNE 34
>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 = 27.3 bits (59), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 11/26 (42%), Positives = 16/26 (61%)
Query: 6 STSAKRIQKELAEITLDPPPNCSAGP 31
T+ KR+ E ++TL+PP AGP
Sbjct: 8 GTALKRLMAEYKQLTLNPPEGIVAGP 33
>pdb|2KLY|A Chain A, Solution Structure Of Human Ubiquitin Conjugating Enzyme
Ube2g2
Length = 167
Score = 27.3 bits (59), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 11/29 (37%), Positives = 17/29 (58%)
Query: 6 STSAKRIQKELAEITLDPPPNCSAGPKGD 34
T+ KR+ E ++TL+PP AGP +
Sbjct: 5 GTALKRLMAEYKQLTLNPPEGIVAGPMNE 33
>pdb|3H8K|A Chain A, Crystal Structure Of Ube2g2 Complxed With The G2br
Domain Of Gp78 At 1.8-A Resolution
Length = 164
Score = 27.3 bits (59), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 11/28 (39%), Positives = 17/28 (60%)
Query: 7 TSAKRIQKELAEITLDPPPNCSAGPKGD 34
T+ KR+ E ++TL+PP AGP +
Sbjct: 3 TALKRLMAEYKQLTLNPPEGIVAGPMNE 30
>pdb|2A7L|A Chain A, Structure Of The Human Hypothetical
Ubiquitin-Conjugating Enzyme, Loc55284
pdb|2A7L|B Chain B, Structure Of The Human Hypothetical
Ubiquitin-Conjugating Enzyme, Loc55284
Length = 136
Score = 26.9 bits (58), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 11/29 (37%), Positives = 18/29 (62%)
Query: 4 ALSTSAKRIQKELAEITLDPPPNCSAGPK 32
++++ KR+QKEL + DPPP + K
Sbjct: 19 SMASMQKRLQKELLALQNDPPPGMTLNEK 47
>pdb|4FH1|A Chain A, S. Cerevisiae Ubc13-N79a
Length = 153
Score = 26.6 bits (57), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 12/31 (38%), Positives = 18/31 (58%)
Query: 5 LSTSAKRIQKELAEITLDPPPNCSAGPKGDN 35
+++ KRI KE ++ DP P +A P DN
Sbjct: 1 MASLPKRIIKETEKLVSDPVPGITAEPHDDN 31
>pdb|2GMI|A Chain A, Mms2UBC13~UBIQUITIN
Length = 152
Score = 26.6 bits (57), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 12/31 (38%), Positives = 18/31 (58%)
Query: 5 LSTSAKRIQKELAEITLDPPPNCSAGPKGDN 35
+++ KRI KE ++ DP P +A P DN
Sbjct: 1 MASLPKRIIKETEKLVSDPVPGITAEPHDDN 31
>pdb|1JBB|A Chain A, Ubiquitin Conjugating Enzyme, Ubc13
pdb|1JBB|B Chain B, Ubiquitin Conjugating Enzyme, Ubc13
Length = 153
Score = 26.6 bits (57), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 12/31 (38%), Positives = 18/31 (58%)
Query: 5 LSTSAKRIQKELAEITLDPPPNCSAGPKGDN 35
+++ KRI KE ++ DP P +A P DN
Sbjct: 1 MASLPKRIIKETEKLVSDPVPGITAEPHDDN 31
>pdb|1JAT|A Chain A, Mms2UBC13 UBIQUITIN CONJUGATING ENZYME COMPLEX
Length = 155
Score = 25.8 bits (55), Expect = 6.5, Method: Compositional matrix adjust.
Identities = 12/26 (46%), Positives = 15/26 (57%)
Query: 10 KRIQKELAEITLDPPPNCSAGPKGDN 35
KRI KE ++ DP P +A P DN
Sbjct: 8 KRIIKETEKLVSDPVPGITAEPHDDN 33
>pdb|3UXF|A Chain A, Structure Of The Fimbrial Protein Fimp From Actonomyces
Oris
Length = 488
Score = 25.8 bits (55), Expect = 7.3, Method: Composition-based stats.
Identities = 17/49 (34%), Positives = 22/49 (44%), Gaps = 3/49 (6%)
Query: 5 LSTSAKRIQKELAEITLDPPPNCSAGPKGDNPGIPCTTTRARYALDIFT 53
LS +A I + T DP + G D PGIP T ++Y I T
Sbjct: 314 LSNTAGLIPNDSPNFTWDPN---NPGTTTDIPGIPTTPVLSKYGKVILT 359
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 0.135 0.427
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,309,847
Number of Sequences: 62578
Number of extensions: 77048
Number of successful extensions: 157
Number of sequences better than 100.0: 43
Number of HSP's better than 100.0 without gapping: 42
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 115
Number of HSP's gapped (non-prelim): 43
length of query: 78
length of database: 14,973,337
effective HSP length: 47
effective length of query: 31
effective length of database: 12,032,171
effective search space: 372997301
effective search space used: 372997301
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: 45 (21.9 bits)