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= psy818
(214 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2F4W|A Chain A, Human Ubiquitin-Conjugating Enzyme E2 J2
pdb|2F4W|B Chain B, Human Ubiquitin-Conjugating Enzyme E2 J2
Length = 187
Score = 264 bits (675), Expect = 3e-71, Method: Compositional matrix adjust.
Identities = 120/155 (77%), Positives = 137/155 (88%)
Query: 8 ATARLKQDYMKLKKDPIPYVIAEPNPANILEWFYVVIGPENTQYEGGMYLGKLVFPRDFP 67
AT RLKQDY+++KKDP+PY+ AEP P+NILEW YVV GPE T YEGG Y GKL+FPR+FP
Sbjct: 15 ATQRLKQDYLRIKKDPVPYICAEPLPSNILEWHYVVRGPEMTPYEGGYYHGKLIFPREFP 74
Query: 68 FKPPSIYMITPNGRFKTNTRLCLSMSDFHPDTWNPAWSVSTILTGLLSFMVERSPTLGSI 127
FKPPSIYMITPNGRFK NTRLCLS++DFHPDTWNPAWSVSTILTGLLSFMVE+ PTLGSI
Sbjct: 75 FKPPSIYMITPNGRFKCNTRLCLSITDFHPDTWNPAWSVSTILTGLLSFMVEKGPTLGSI 134
Query: 128 EMSDYERRQLAARSLRFNLNDKNFCELFPDLVQSI 162
E SD+ +RQLA +SL FNL DK FCELFP++V+ I
Sbjct: 135 ETSDFTKRQLAVQSLAFNLKDKVFCELFPEVVEEI 169
>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 = 73.2 bits (178), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 43/143 (30%), Positives = 72/143 (50%), Gaps = 15/143 (10%)
Query: 8 ATARLKQDYMKLKKDPIPYVIAEPNPANILEWFYVVIGPENTQYEGGMYLGKLVFPRDFP 67
A R++++ L++DP + A P ++ W ++GP ++ Y+GG++ + FP D+P
Sbjct: 8 ALKRIQKELSDLQRDPPAHCSAGPVGDDLFHWQATIMGPPDSAYQGGVFFLTVHFPTDYP 67
Query: 68 FKPPSIYMIT----PNGRFKTNTRLCLSMSDFHPDTWNPAWSVSTILTGLLSFMVERS-- 121
FKPP I T PN +N +CL D W+PA +VS +L + S + + +
Sbjct: 68 FKPPKIAFTTKIYHPN--INSNGSICL---DILRSQWSPALTVSKVLLSICSLLCDPNPD 122
Query: 122 ----PTLGSIEMSDYERRQLAAR 140
P + I SD E+ AR
Sbjct: 123 DPLVPDIAQIYKSDKEKYNRHAR 145
>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 = 72.8 bits (177), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 43/143 (30%), Positives = 72/143 (50%), Gaps = 15/143 (10%)
Query: 8 ATARLKQDYMKLKKDPIPYVIAEPNPANILEWFYVVIGPENTQYEGGMYLGKLVFPRDFP 67
A R++++ L++DP + A P ++ W ++GP ++ Y+GG++ + FP D+P
Sbjct: 4 ALKRIQKELSDLQRDPPAHCSAGPVGDDLFHWQATIMGPPDSAYQGGVFFLTVHFPTDYP 63
Query: 68 FKPPSIYMIT----PNGRFKTNTRLCLSMSDFHPDTWNPAWSVSTILTGLLSFMVERS-- 121
FKPP I T PN +N +CL D W+PA +VS +L + S + + +
Sbjct: 64 FKPPKIAFTTKIYHPN--INSNGSICL---DILRSQWSPALTVSKVLLSICSLLCDPNPD 118
Query: 122 ----PTLGSIEMSDYERRQLAAR 140
P + I SD E+ AR
Sbjct: 119 DPLVPDIAQIYKSDKEKYNRHAR 141
>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 = 72.8 bits (177), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 43/143 (30%), Positives = 72/143 (50%), Gaps = 15/143 (10%)
Query: 8 ATARLKQDYMKLKKDPIPYVIAEPNPANILEWFYVVIGPENTQYEGGMYLGKLVFPRDFP 67
A R++++ L++DP + A P ++ W ++GP ++ Y+GG++ + FP D+P
Sbjct: 20 ALKRIQKELSDLQRDPPAHCSAGPVGDDLFHWQATIMGPPDSAYQGGVFFLTVHFPTDYP 79
Query: 68 FKPPSIYMIT----PNGRFKTNTRLCLSMSDFHPDTWNPAWSVSTILTGLLSFMVERS-- 121
FKPP I T PN +N +CL D W+PA +VS +L + S + + +
Sbjct: 80 FKPPKIAFTTKIYHPN--INSNGSICL---DILRSQWSPALTVSKVLLSICSLLCDPNPD 134
Query: 122 ----PTLGSIEMSDYERRQLAAR 140
P + I SD E+ AR
Sbjct: 135 DPLVPDIAQIYKSDKEKYNRHAR 157
>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 = 72.0 bits (175), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 42/141 (29%), Positives = 69/141 (48%), Gaps = 8/141 (5%)
Query: 8 ATARLKQDYMKLKKDPIPYVIAEPNPANILEWFYVVIGPENTQYEGGMYLGKLVFPRDFP 67
+ R++++ ++ DP P A P NI EW ++GP + YEGG++ + F D+P
Sbjct: 4 SAKRIQKELAEITLDPPPNCSAGPKGDNIYEWRSTILGPPGSVYEGGVFFLDITFSPDYP 63
Query: 68 FKPPSIYMITPNGRFKTNTR--LCLSMSDFHPDTWNPAWSVSTILTGLLSFMVERSPT-- 123
FKPP + T N++ +CL D D W+PA ++S +L + S + + +P
Sbjct: 64 FKPPKVTFRTRIYHCNINSQGVICL---DILKDNWSPALTISKVLLSICSLLTDCNPADP 120
Query: 124 -LGSIEMSDYERRQLAARSLR 143
+GSI R R R
Sbjct: 121 LVGSIATQYMTNRAEHDRMAR 141
>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 = 71.6 bits (174), Expect = 3e-13, Method: Compositional matrix adjust.
Identities = 42/143 (29%), Positives = 71/143 (49%), Gaps = 15/143 (10%)
Query: 8 ATARLKQDYMKLKKDPIPYVIAEPNPANILEWFYVVIGPENTQYEGGMYLGKLVFPRDFP 67
A R+ ++ L KDP A P ++ W ++GP ++ Y GG++ + FP D+P
Sbjct: 2 ALKRINRELADLGKDPPSSSSAGPVGDDLFHWQATIMGPADSPYAGGVFFLSIHFPTDYP 61
Query: 68 FKPPSIYMIT----PNGRFKTNTRLCLSMSDFHPDTWNPAWSVSTILTGLLSFMVERS-- 121
FKPP + T PN +N +CL D D W+PA ++S +L + S + + +
Sbjct: 62 FKPPKVNFTTRIYHPN--INSNGSICL---DILRDQWSPALTISKVLLSISSLLTDPNPD 116
Query: 122 ----PTLGSIEMSDYERRQLAAR 140
P + + +D R +L+AR
Sbjct: 117 DPLVPEIAHVYKTDRSRYELSAR 139
>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 = 71.6 bits (174), Expect = 3e-13, Method: Compositional matrix adjust.
Identities = 42/143 (29%), Positives = 71/143 (49%), Gaps = 15/143 (10%)
Query: 8 ATARLKQDYMKLKKDPIPYVIAEPNPANILEWFYVVIGPENTQYEGGMYLGKLVFPRDFP 67
A R++++ L++DP A P ++ W ++GP ++ Y+GG++ + FP D+P
Sbjct: 7 ALKRIQKELQDLQRDPPAQCSAGPVGDDLFHWQATIMGPSDSPYQGGVFFLTIHFPTDYP 66
Query: 68 FKPPSIYMIT----PNGRFKTNTRLCLSMSDFHPDTWNPAWSVSTILTGLLSFMVERS-- 121
FKPP + T PN +N +CL D W+PA +VS +L + S + + +
Sbjct: 67 FKPPKVAFTTKIYHPN--INSNGSICL---DILRSQWSPALTVSKVLLSICSLLCDPNPD 121
Query: 122 ----PTLGSIEMSDYERRQLAAR 140
P + I SD E+ AR
Sbjct: 122 DPLVPDIAHIYKSDKEKYNRLAR 144
>pdb|2AYV|A Chain A, Crystal Structure Of A Putative Ubiquitin-Conjugating
Enzyme E2 From Toxoplasma Gondii
Length = 166
Score = 70.9 bits (172), Expect = 5e-13, Method: Compositional matrix adjust.
Identities = 43/144 (29%), Positives = 69/144 (47%), Gaps = 15/144 (10%)
Query: 7 GATARLKQDYMKLKKDPIPYVIAEPNPANILEWFYVVIGPENTQYEGGMYLGKLVFPRDF 66
GA R+ ++ L KDP A P ++ W ++GPE++ Y GG++ + FP D+
Sbjct: 21 GALKRINKELNDLSKDPPTNCSAGPVGDDMFHWQATIMGPEDSPYSGGVFFLNIHFPSDY 80
Query: 67 PFKPPSIYMIT----PNGRFKTNTRLCLSMSDFHPDTWNPAWSVSTILTGLLSFMVERS- 121
PFKPP + T PN + +CL D D W+PA ++S +L + S + + +
Sbjct: 81 PFKPPKVNFTTKIYHPN--INSQGAICL---DILKDQWSPALTISKVLLSISSLLTDPNP 135
Query: 122 -----PTLGSIEMSDYERRQLAAR 140
P + + SD R AR
Sbjct: 136 DDPLVPEIAHLYKSDRMRYDQTAR 159
>pdb|2AAK|A Chain A, Ubiquitin Conjugating Enzyme From Arabidopsis Thaliana
Length = 152
Score = 70.5 bits (171), Expect = 7e-13, Method: Compositional matrix adjust.
Identities = 37/120 (30%), Positives = 65/120 (54%), Gaps = 9/120 (7%)
Query: 8 ATARLKQDYMKLKKDPIPYVIAEPNPANILEWFYVVIGPENTQYEGGMYLGKLVFPRDFP 67
A RL +D+ +L++DP + P NI+ W V+ GP++T ++GG + L F D+P
Sbjct: 5 ARKRLMRDFKRLQQDPPAGISGAPQDNNIMLWNAVIFGPDDTPWDGGTFKLSLQFSEDYP 64
Query: 68 FKPPSIYMIT----PNGRFKTNTRLCLSMSDFHPDTWNPAWSVSTILTGLLSFMVERSPT 123
KPP++ ++ PN + +CL D + W+P + V+ ILT + S + + +P
Sbjct: 65 NKPPTVRFVSRMFHPN--IYADGSICL---DILQNQWSPIYDVAAILTSIQSLLCDPNPN 119
>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 = 70.1 bits (170), Expect = 9e-13, Method: Compositional matrix adjust.
Identities = 40/120 (33%), Positives = 65/120 (54%), Gaps = 9/120 (7%)
Query: 8 ATARLKQDYMKLKKDPIPYVIAEPNPANILEWFYVVIGPENTQYEGGMYLGKLVFPRDFP 67
A RL +D+ +L++DP V P+ NI++W V+ GPE T +E G + + F ++P
Sbjct: 5 ARRRLMRDFKRLQEDPPVGVSGAPSENNIMQWNAVIFGPEGTPFEDGTFKLVIEFSEEYP 64
Query: 68 FKPPSIY----MITPNGRFKTNTRLCLSMSDFHPDTWNPAWSVSTILTGLLSFMVERSPT 123
KPP++ M PN + +CL D + W+P + VS+ILT + S + E +P
Sbjct: 65 NKPPTVRFLSKMFHPN--VYADGSICL---DILQNRWSPTYDVSSILTSIQSLLDEPNPN 119
>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 = 70.1 bits (170), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 41/120 (34%), Positives = 63/120 (52%), Gaps = 9/120 (7%)
Query: 8 ATARLKQDYMKLKKDPIPYVIAEPNPANILEWFYVVIGPENTQYEGGMYLGKLVFPRDFP 67
A RL +D+ ++K+D P V A P P N++ W ++IGP +T YE G + L F ++P
Sbjct: 5 ARRRLMRDFKRMKEDAPPGVSASPLPDNVMVWNAMIIGPADTPYEDGTFRLLLEFDEEYP 64
Query: 68 FKPPSIY----MITPNGRFKTNTRLCLSMSDFHPDTWNPAWSVSTILTGLLSFMVERSPT 123
KPP + M PN N +CL D + W P + V++ILT + S + +P
Sbjct: 65 NKPPHVKFLSEMFHPN--VYANGEICL---DILQNRWTPTYDVASILTSIQSLFNDPNPA 119
>pdb|3BZH|A Chain A, Crystal Structure Of Human Ubiquitin-Conjugating Enzyme E2
E1
Length = 194
Score = 69.7 bits (169), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 41/141 (29%), Positives = 68/141 (48%), Gaps = 8/141 (5%)
Query: 8 ATARLKQDYMKLKKDPIPYVIAEPNPANILEWFYVVIGPENTQYEGGMYLGKLVFPRDFP 67
+ R++++ + DP P A P NI EW ++GP + YEGG++ + F ++P
Sbjct: 49 SAKRIQKELADITLDPPPNCSAGPKGDNIYEWRSTILGPPGSVYEGGVFFLDITFTPEYP 108
Query: 68 FKPPSIYMITPNGRFKTNTR--LCLSMSDFHPDTWNPAWSVSTILTGLLSFMVERSPT-- 123
FKPP + T N++ +CL D D W+PA ++S +L + S + + +P
Sbjct: 109 FKPPKVTFRTRIYHCNINSQGVICL---DILKDNWSPALTISKVLLSICSLLTDCNPADP 165
Query: 124 -LGSIEMSDYERRQLAARSLR 143
+GSI R R R
Sbjct: 166 LVGSIATQYMTNRAEHDRMAR 186
>pdb|4AP4|B Chain B, Rnf4 - Ubch5a - Ubiquitin Heterotrimeric Complex
pdb|4AP4|E Chain E, Rnf4 - Ubch5a - Ubiquitin Heterotrimeric Complex
Length = 153
Score = 69.3 bits (168), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 39/139 (28%), Positives = 69/139 (49%), Gaps = 7/139 (5%)
Query: 8 ATARLKQDYMKLKKDPIPYVIAEPNPANILEWFYVVIGPENTQYEGGMYLGKLVFPRDFP 67
A R++++ L++DP + A P ++ W ++GP ++ Y+GG++ + FP D+P
Sbjct: 8 ALKRIQKELSDLQRDPPAHCRAGPVGDDLFHWQATIMGPPDSAYQGGVFFLTVHFPTDYP 67
Query: 68 FKPPSIYMITPNGRFKTNTRLCLSMSDFHPDTWNPAWSVSTILTGLLSFMVERS------ 121
FKPP I T N+ + + D W+PA +VS +L + S + + +
Sbjct: 68 FKPPKIAFTTKIYHPNINSNGSIKL-DILRSQWSPALTVSKVLLSICSLLCDPNPDDPLV 126
Query: 122 PTLGSIEMSDYERRQLAAR 140
P + I SD E+ AR
Sbjct: 127 PDIAQIYKSDKEKYNRHAR 145
>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 = 68.9 bits (167), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 41/143 (28%), Positives = 69/143 (48%), Gaps = 15/143 (10%)
Query: 8 ATARLKQDYMKLKKDPIPYVIAEPNPANILEWFYVVIGPENTQYEGGMYLGKLVFPRDFP 67
A R++++ L +DP A P ++ W ++GP + Y+GG++ + FP D+P
Sbjct: 5 ALKRIQKELQDLGRDPPAQCSAGPVGDDLFHWQATIMGPPESPYQGGVFFLTIHFPTDYP 64
Query: 68 FKPPSIYMIT----PNGRFKTNTRLCLSMSDFHPDTWNPAWSVSTILTGLLSFMVERS-- 121
FKPP + T PN +N +CL D W+PA ++S +L + S + + +
Sbjct: 65 FKPPKVAFTTRIYHPN--INSNGSICL---DILRSQWSPALTISKVLLSICSLLCDPNPD 119
Query: 122 ----PTLGSIEMSDYERRQLAAR 140
P + I +D ER AR
Sbjct: 120 DPLVPEIARIYKTDRERYNQLAR 142
>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 = 68.9 bits (167), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 39/116 (33%), Positives = 62/116 (53%), Gaps = 9/116 (7%)
Query: 11 RLKQDYMKLKKDPIPYVIAEPNPANILEWFYVVIGPENTQYEGGMYLGKLVFPRDFPFKP 70
RL +D+ KL++DP V P NIL W ++ GP+ T +E G + L F ++P KP
Sbjct: 8 RLMRDFKKLQEDPPAGVSGAPTEDNILTWEAIIFGPQETPFEDGTFKLSLEFTEEYPNKP 67
Query: 71 PSIYMIT----PNGRFKTNTRLCLSMSDFHPDTWNPAWSVSTILTGLLSFMVERSP 122
P++ I+ PN + +CL D + W+P + V+ ILT + S + E +P
Sbjct: 68 PTVKFISKMFHPN--VYADGSICL---DILQNRWSPTYDVAAILTSIQSLLDEPNP 118
>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 = 68.6 bits (166), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 39/116 (33%), Positives = 62/116 (53%), Gaps = 9/116 (7%)
Query: 11 RLKQDYMKLKKDPIPYVIAEPNPANILEWFYVVIGPENTQYEGGMYLGKLVFPRDFPFKP 70
RL +D+ KL++DP V P NIL W ++ GP+ T +E G + L F ++P KP
Sbjct: 11 RLMRDFKKLQEDPPAGVSGAPTEDNILTWEAIIFGPQETPFEDGTFKLSLEFTEEYPNKP 70
Query: 71 PSIYMIT----PNGRFKTNTRLCLSMSDFHPDTWNPAWSVSTILTGLLSFMVERSP 122
P++ I+ PN + +CL D + W+P + V+ ILT + S + E +P
Sbjct: 71 PTVKFISKMFHPN--VYADGSICL---DILQNRWSPTYDVAAILTSIQSLLDEPNP 121
>pdb|3L1Y|A Chain A, Crystal Structure Of Human Ubc4 E2 Conjugating Enzyme
Length = 157
Score = 67.8 bits (164), Expect = 4e-12, Method: Compositional matrix adjust.
Identities = 40/143 (27%), Positives = 69/143 (48%), Gaps = 15/143 (10%)
Query: 8 ATARLKQDYMKLKKDPIPYVIAEPNPANILEWFYVVIGPENTQYEGGMYLGKLVFPRDFP 67
A R+ ++ L +DP A P ++ W ++GP ++ Y+GG++ + FP D+P
Sbjct: 12 ALKRIHKELNDLARDPPAQCSAGPVGDDMFHWQATIMGPNDSPYQGGVFFLTIHFPTDYP 71
Query: 68 FKPPSIYMIT----PNGRFKTNTRLCLSMSDFHPDTWNPAWSVSTILTGLLSFMVERS-- 121
FKPP + T PN +N +CL D W+PA ++S +L + S + + +
Sbjct: 72 FKPPKVAFTTRIYHPN--INSNGSICL---DILRSQWSPALTISKVLLSICSLLCDPNPD 126
Query: 122 ----PTLGSIEMSDYERRQLAAR 140
P + I +D E+ AR
Sbjct: 127 DPLVPEIARIYQTDREKYNRIAR 149
>pdb|1QCQ|A Chain A, Ubiquitin Conjugating Enzyme
Length = 148
Score = 67.8 bits (164), Expect = 4e-12, Method: Compositional matrix adjust.
Identities = 40/143 (27%), Positives = 70/143 (48%), Gaps = 15/143 (10%)
Query: 8 ATARLKQDYMKLKKDPIPYVIAEPNPANILEWFYVVIGPENTQYEGGMYLGKLVFPRDFP 67
++ R+ ++ L++DP A P ++ W ++GP ++ Y GG++ + FP D+P
Sbjct: 3 SSKRIAKELSDLERDPPTSCSAGPVGDDLYHWQASIMGPADSPYAGGVFFLSIHFPTDYP 62
Query: 68 FKPPSIYMIT----PNGRFKTNTRLCLSMSDFHPDTWNPAWSVSTILTGLLSFMVERS-- 121
FKPP I T PN N +CL D D W+PA ++S +L + S + + +
Sbjct: 63 FKPPKISFTTKIYHPN--INANGNICL---DILKDQWSPALTLSKVLLSICSLLTDANPD 117
Query: 122 ----PTLGSIEMSDYERRQLAAR 140
P + I +D + + AR
Sbjct: 118 DPLVPEIAHIYKTDRPKYEATAR 140
>pdb|3EB6|B Chain B, Structure Of The Ciap2 Ring Domain Bound To Ubch5b
Length = 149
Score = 67.4 bits (163), Expect = 5e-12, Method: Compositional matrix adjust.
Identities = 40/143 (27%), Positives = 69/143 (48%), Gaps = 15/143 (10%)
Query: 8 ATARLKQDYMKLKKDPIPYVIAEPNPANILEWFYVVIGPENTQYEGGMYLGKLVFPRDFP 67
A R+ ++ L +DP A P ++ W ++GP ++ Y+GG++ + FP D+P
Sbjct: 4 ALKRIHKELNDLARDPPAQCSAGPVGDDMFHWQATIMGPNDSPYQGGVFFLTIHFPTDYP 63
Query: 68 FKPPSIYMIT----PNGRFKTNTRLCLSMSDFHPDTWNPAWSVSTILTGLLSFMVERS-- 121
FKPP + T PN +N +CL D W+PA ++S +L + S + + +
Sbjct: 64 FKPPKVAFTTRIYHPN--INSNGSICL---DILRSQWSPALTISKVLLSICSLLCDPNPD 118
Query: 122 ----PTLGSIEMSDYERRQLAAR 140
P + I +D E+ AR
Sbjct: 119 DPLVPEIARIYKTDREKYNRIAR 141
>pdb|2ESK|A Chain A, Human Ubiquitin-Conjugating Enzyme (E2) Ubch5b, Wild-Type
Length = 149
Score = 67.4 bits (163), Expect = 5e-12, Method: Compositional matrix adjust.
Identities = 40/143 (27%), Positives = 69/143 (48%), Gaps = 15/143 (10%)
Query: 8 ATARLKQDYMKLKKDPIPYVIAEPNPANILEWFYVVIGPENTQYEGGMYLGKLVFPRDFP 67
A R+ ++ L +DP A P ++ W ++GP ++ Y+GG++ + FP D+P
Sbjct: 4 ALKRIHKELNDLARDPPAQCSAGPVGDDMFHWQATIMGPNDSPYQGGVFFLTIHFPTDYP 63
Query: 68 FKPPSIYMIT----PNGRFKTNTRLCLSMSDFHPDTWNPAWSVSTILTGLLSFMVERS-- 121
FKPP + T PN +N +CL D W+PA ++S +L + S + + +
Sbjct: 64 FKPPKVAFTTRIYHPN--INSNGSICL---DILRSQWSPALTISKVLLSICSLLCDPNPD 118
Query: 122 ----PTLGSIEMSDYERRQLAAR 140
P + I +D E+ AR
Sbjct: 119 DPLVPEIARIYKTDREKYNRIAR 141
>pdb|3TGD|A Chain A, Crystal Structure Of The Human Ubiquitin-Conjugating
Enzyme (E2) Ubch5b
Length = 152
Score = 67.4 bits (163), Expect = 6e-12, Method: Compositional matrix adjust.
Identities = 40/143 (27%), Positives = 69/143 (48%), Gaps = 15/143 (10%)
Query: 8 ATARLKQDYMKLKKDPIPYVIAEPNPANILEWFYVVIGPENTQYEGGMYLGKLVFPRDFP 67
A R+ ++ L +DP A P ++ W ++GP ++ Y+GG++ + FP D+P
Sbjct: 7 ALKRIHKELNDLARDPPAQCSAGPVGDDMFHWQATIMGPNDSPYQGGVFFLTIHFPTDYP 66
Query: 68 FKPPSIYMIT----PNGRFKTNTRLCLSMSDFHPDTWNPAWSVSTILTGLLSFMVERS-- 121
FKPP + T PN +N +CL D W+PA ++S +L + S + + +
Sbjct: 67 FKPPKVAFTTRIYHPN--INSNGSICL---DILRSQWSPALTISKVLLSICSLLCDPNPD 121
Query: 122 ----PTLGSIEMSDYERRQLAAR 140
P + I +D E+ AR
Sbjct: 122 DPLVPEIARIYKTDREKYNRIAR 144
>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 = 67.4 bits (163), Expect = 6e-12, Method: Compositional matrix adjust.
Identities = 40/143 (27%), Positives = 69/143 (48%), Gaps = 15/143 (10%)
Query: 8 ATARLKQDYMKLKKDPIPYVIAEPNPANILEWFYVVIGPENTQYEGGMYLGKLVFPRDFP 67
A R+ ++ L +DP A P ++ W ++GP ++ Y+GG++ + FP D+P
Sbjct: 2 ALKRIHKELNDLARDPPAQCSAGPVGDDMFHWQATIMGPNDSPYQGGVFFLTIHFPTDYP 61
Query: 68 FKPPSIYMIT----PNGRFKTNTRLCLSMSDFHPDTWNPAWSVSTILTGLLSFMVERS-- 121
FKPP + T PN +N +CL D W+PA ++S +L + S + + +
Sbjct: 62 FKPPKVAFTTRIYHPN--INSNGSICL---DILRSQWSPALTISKVLLSICSLLCDPNPD 116
Query: 122 ----PTLGSIEMSDYERRQLAAR 140
P + I +D E+ AR
Sbjct: 117 DPLVPEIARIYKTDREKYNRIAR 139
>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 = 67.0 bits (162), Expect = 6e-12, Method: Compositional matrix adjust.
Identities = 40/143 (27%), Positives = 69/143 (48%), Gaps = 15/143 (10%)
Query: 8 ATARLKQDYMKLKKDPIPYVIAEPNPANILEWFYVVIGPENTQYEGGMYLGKLVFPRDFP 67
A R+ ++ L +DP A P ++ W ++GP ++ Y+GG++ + FP D+P
Sbjct: 20 ALKRIHKELNDLARDPPAQCSAGPVGDDMFHWQATIMGPNDSPYQGGVFFLTIHFPTDYP 79
Query: 68 FKPPSIYMIT----PNGRFKTNTRLCLSMSDFHPDTWNPAWSVSTILTGLLSFMVERS-- 121
FKPP + T PN +N +CL D W+PA ++S +L + S + + +
Sbjct: 80 FKPPKVAFTTRIYHPN--INSNGSICL---DILRSQWSPALTISKVLLSICSLLCDPNPD 134
Query: 122 ----PTLGSIEMSDYERRQLAAR 140
P + I +D E+ AR
Sbjct: 135 DPLVPEIARIYKTDREKYNRIAR 157
>pdb|2ESQ|A Chain A, Human Ubiquitin-Conjugating Enzyme (E2) Ubch5b Mutant
Ser94gly
Length = 149
Score = 67.0 bits (162), Expect = 7e-12, Method: Compositional matrix adjust.
Identities = 40/143 (27%), Positives = 68/143 (47%), Gaps = 15/143 (10%)
Query: 8 ATARLKQDYMKLKKDPIPYVIAEPNPANILEWFYVVIGPENTQYEGGMYLGKLVFPRDFP 67
A R+ ++ L +DP A P ++ W ++GP ++ Y+GG++ + FP D+P
Sbjct: 4 ALKRIHKELNDLARDPPAQCSAGPVGDDMFHWQATIMGPNDSPYQGGVFFLTIHFPTDYP 63
Query: 68 FKPPSIYMIT----PNGRFKTNTRLCLSMSDFHPDTWNPAWSVSTILTGLLSFMVERS-- 121
FKPP + T PN +N +CL D W PA ++S +L + S + + +
Sbjct: 64 FKPPKVAFTTRIYHPN--INSNGSICL---DILRSQWGPALTISKVLLSICSLLCDPNPD 118
Query: 122 ----PTLGSIEMSDYERRQLAAR 140
P + I +D E+ AR
Sbjct: 119 DPLVPEIARIYKTDREKYNRIAR 141
>pdb|2ESP|A Chain A, Human Ubiquitin-Conjugating Enzyme (E2) Ubch5b Mutant
Ile88ala
Length = 149
Score = 66.6 bits (161), Expect = 9e-12, Method: Compositional matrix adjust.
Identities = 40/143 (27%), Positives = 69/143 (48%), Gaps = 15/143 (10%)
Query: 8 ATARLKQDYMKLKKDPIPYVIAEPNPANILEWFYVVIGPENTQYEGGMYLGKLVFPRDFP 67
A R+ ++ L +DP A P ++ W ++GP ++ Y+GG++ + FP D+P
Sbjct: 4 ALKRIHKELNDLARDPPAQCSAGPVGDDMFHWQATIMGPNDSPYQGGVFFLTIHFPTDYP 63
Query: 68 FKPPSIYMIT----PNGRFKTNTRLCLSMSDFHPDTWNPAWSVSTILTGLLSFMVERS-- 121
FKPP + T PN +N +CL D W+PA ++S +L + S + + +
Sbjct: 64 FKPPKVAFTTRIYHPN--INSNGSICL---DALRSQWSPALTISKVLLSICSLLCDPNPD 118
Query: 122 ----PTLGSIEMSDYERRQLAAR 140
P + I +D E+ AR
Sbjct: 119 DPLVPEIARIYKTDREKYNRIAR 141
>pdb|3RPG|A Chain A, Bmi1RING1B-Ubch5c Complex Structure
Length = 149
Score = 66.2 bits (160), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 35/119 (29%), Positives = 61/119 (51%), Gaps = 9/119 (7%)
Query: 8 ATARLKQDYMKLKKDPIPYVIAEPNPANILEWFYVVIGPENTQYEGGMYLGKLVFPRDFP 67
A R+ ++ L +DP A P ++ W ++GP ++ Y+GG++ + FP D+P
Sbjct: 4 ALKRINKELSDLARDPPAQCSAGPVGDDMFHWQATIMGPNDSPYQGGVFFLTIHFPTDYP 63
Query: 68 FKPPSIYMIT----PNGRFKTNTRLCLSMSDFHPDTWNPAWSVSTILTGLLSFMVERSP 122
FKPP + T PN +N +CL D W+PA ++S +L + S + + +P
Sbjct: 64 FKPPKVAFTTRIYHPN--INSNGSICL---DILRSQWSPALTISKVLLSICSLLCDPNP 117
>pdb|2ESO|A Chain A, Human Ubiquitin-Conjugating Enzyme (E2) Ubch5b Mutant
Ile37ala
Length = 149
Score = 66.2 bits (160), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 40/143 (27%), Positives = 68/143 (47%), Gaps = 15/143 (10%)
Query: 8 ATARLKQDYMKLKKDPIPYVIAEPNPANILEWFYVVIGPENTQYEGGMYLGKLVFPRDFP 67
A R+ ++ L +DP A P ++ W +GP ++ Y+GG++ + FP D+P
Sbjct: 4 ALKRIHKELNDLARDPPAQCSAGPVGDDMFHWQATAMGPNDSPYQGGVFFLTIHFPTDYP 63
Query: 68 FKPPSIYMIT----PNGRFKTNTRLCLSMSDFHPDTWNPAWSVSTILTGLLSFMVERS-- 121
FKPP + T PN +N +CL D W+PA ++S +L + S + + +
Sbjct: 64 FKPPKVAFTTRIYHPN--INSNGSICL---DILRSQWSPALTISKVLLSICSLLCDPNPD 118
Query: 122 ----PTLGSIEMSDYERRQLAAR 140
P + I +D E+ AR
Sbjct: 119 DPLVPEIARIYKTDREKYNRIAR 141
>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 = 66.2 bits (160), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 35/119 (29%), Positives = 61/119 (51%), Gaps = 9/119 (7%)
Query: 8 ATARLKQDYMKLKKDPIPYVIAEPNPANILEWFYVVIGPENTQYEGGMYLGKLVFPRDFP 67
A R+ ++ L +DP A P ++ W ++GP ++ Y+GG++ + FP D+P
Sbjct: 12 ALKRINKELSDLARDPPAQCSAGPVGDDMFHWQATIMGPNDSPYQGGVFFLTIHFPTDYP 71
Query: 68 FKPPSIYMIT----PNGRFKTNTRLCLSMSDFHPDTWNPAWSVSTILTGLLSFMVERSP 122
FKPP + T PN +N +CL D W+PA ++S +L + S + + +P
Sbjct: 72 FKPPKVAFTTRIYHPN--INSNGSICL---DILRSQWSPALTISKVLLSICSLLCDPNP 125
>pdb|2FUH|A Chain A, Solution Structure Of The Ubch5cUB NON-Covalent Complex
Length = 146
Score = 66.2 bits (160), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 35/119 (29%), Positives = 61/119 (51%), Gaps = 9/119 (7%)
Query: 8 ATARLKQDYMKLKKDPIPYVIAEPNPANILEWFYVVIGPENTQYEGGMYLGKLVFPRDFP 67
A R+ ++ L +DP A P ++ W ++GP ++ Y+GG++ + FP D+P
Sbjct: 1 ALKRINKELSDLARDPPAQCSAGPVGDDMFHWQATIMGPNDSPYQGGVFFLTIHFPTDYP 60
Query: 68 FKPPSIYMIT----PNGRFKTNTRLCLSMSDFHPDTWNPAWSVSTILTGLLSFMVERSP 122
FKPP + T PN +N +CL D W+PA ++S +L + S + + +P
Sbjct: 61 FKPPKVAFTTRIYHPN--INSNGSICL---DILRSQWSPALTISKVLLSICSLLCDPNP 114
>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 = 66.2 bits (160), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 35/119 (29%), Positives = 61/119 (51%), Gaps = 9/119 (7%)
Query: 8 ATARLKQDYMKLKKDPIPYVIAEPNPANILEWFYVVIGPENTQYEGGMYLGKLVFPRDFP 67
A R+ ++ L +DP A P ++ W ++GP ++ Y+GG++ + FP D+P
Sbjct: 10 ALKRINKELSDLARDPPAQCSAGPVGDDMFHWQATIMGPNDSPYQGGVFFLTIHFPTDYP 69
Query: 68 FKPPSIYMIT----PNGRFKTNTRLCLSMSDFHPDTWNPAWSVSTILTGLLSFMVERSP 122
FKPP + T PN +N +CL D W+PA ++S +L + S + + +P
Sbjct: 70 FKPPKVAFTTRIYHPN--INSNGSICL---DILRSQWSPALTISKVLLSICSLLCDPNP 123
>pdb|4GPR|A Chain A, Crystal Structure Of Ehubc5, A Ubiquitin Conjugating
Enzyme From Entamoeba Histolytica
Length = 151
Score = 65.9 bits (159), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 35/120 (29%), Positives = 65/120 (54%), Gaps = 9/120 (7%)
Query: 8 ATARLKQDYMKLKKDPIPYVIAEPNPANILEWFYVVIGPENTQYEGGMYLGKLVFPRDFP 67
A R++++ ++++DP A P +I W + GP+++ Y+GG++ + FP D+P
Sbjct: 5 AMRRIQKELREIQQDPPCNCSAGPVGDDIFHWTATITGPDDSPYQGGLFFLDVHFPVDYP 64
Query: 68 FKPPSIYMIT----PNGRFKTNTRLCLSMSDFHPDTWNPAWSVSTILTGLLSFMVERSPT 123
FK P + +T PN N +CL D D W+PA ++S +L + S + + +P+
Sbjct: 65 FKAPRVTFMTKVYHPN--INKNGVICL---DILKDQWSPALTLSRVLLSISSLLTDPNPS 119
>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 = 65.5 bits (158), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 37/139 (26%), Positives = 67/139 (48%), Gaps = 7/139 (5%)
Query: 8 ATARLKQDYMKLKKDPIPYVIAEPNPANILEWFYVVIGPENTQYEGGMYLGKLVFPRDFP 67
A+ R+ ++ L +DP A P ++ W ++GP ++ Y+GG++ + FP D+P
Sbjct: 1 ASKRIHKELNDLARDPPAQCSAGPVGDDMFHWQATIMGPNDSPYQGGVFFLTIHFPTDYP 60
Query: 68 FKPPSIYMITPNGRFKTNTRLCLSMSDFHPDTWNPAWSVSTILTGLLSFMVERS------ 121
FKPP + T N+ +S+ D W+PA +S +L + S + + +
Sbjct: 61 FKPPKVAFTTRIYHPNINSNGSISL-DILRSQWSPALKISKVLLSICSLLCDPNPDDPLV 119
Query: 122 PTLGSIEMSDYERRQLAAR 140
P + I +D E+ AR
Sbjct: 120 PEIARIYKTDREKYNRIAR 138
>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 = 65.5 bits (158), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 37/139 (26%), Positives = 67/139 (48%), Gaps = 7/139 (5%)
Query: 8 ATARLKQDYMKLKKDPIPYVIAEPNPANILEWFYVVIGPENTQYEGGMYLGKLVFPRDFP 67
A R+ ++ L +DP A P ++ W ++GP ++ Y+GG++ + FP D+P
Sbjct: 4 ALKRIHKELNDLARDPPAQCSAGPVGDDMFHWQATIMGPNDSPYQGGVFFLTIHFPTDYP 63
Query: 68 FKPPSIYMITPNGRFKTNTRLCLSMSDFHPDTWNPAWSVSTILTGLLSFMVERS------ 121
FKPP + T N+ +S+ D W+PA ++S +L + S + + +
Sbjct: 64 FKPPKVAFTTRIYHPNINSNGSISL-DILRSQWSPALTISKVLLSICSLLCDPNPDDPLV 122
Query: 122 PTLGSIEMSDYERRQLAAR 140
P + I +D E+ AR
Sbjct: 123 PEIARIYKTDREKYNRIAR 141
>pdb|3A33|A Chain A, Ubch5b~ubiquitin Conjugate
Length = 150
Score = 65.1 bits (157), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 37/139 (26%), Positives = 67/139 (48%), Gaps = 7/139 (5%)
Query: 8 ATARLKQDYMKLKKDPIPYVIAEPNPANILEWFYVVIGPENTQYEGGMYLGKLVFPRDFP 67
A R+ ++ L +DP A P ++ W ++GP ++ Y+GG++ + FP D+P
Sbjct: 5 ALKRIHKELNDLARDPPAQCSAGPVGDDMFHWQATIMGPNDSPYQGGVFFLTIHFPTDYP 64
Query: 68 FKPPSIYMITPNGRFKTNTRLCLSMSDFHPDTWNPAWSVSTILTGLLSFMVERS------ 121
FKPP + T N+ +S+ D W+PA ++S +L + S + + +
Sbjct: 65 FKPPKVAFTTRIYHPNINSNGSISL-DILRSQWSPALTISKVLLSICSLLCDPNPDDPLV 123
Query: 122 PTLGSIEMSDYERRQLAAR 140
P + I +D E+ AR
Sbjct: 124 PEIARIYKTDREKYNRIAR 142
>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 = 64.7 bits (156), Expect = 4e-11, Method: Compositional matrix adjust.
Identities = 37/139 (26%), Positives = 67/139 (48%), Gaps = 7/139 (5%)
Query: 8 ATARLKQDYMKLKKDPIPYVIAEPNPANILEWFYVVIGPENTQYEGGMYLGKLVFPRDFP 67
A R+ ++ L +DP A P ++ W ++GP ++ Y+GG++ + FP D+P
Sbjct: 2 ALKRIHKELNDLARDPPAQCRAGPVGDDMFHWQATIMGPNDSPYQGGVFFLTIHFPTDYP 61
Query: 68 FKPPSIYMITPNGRFKTNTRLCLSMSDFHPDTWNPAWSVSTILTGLLSFMVERS------ 121
FKPP + T N+ +S+ D W+PA ++S +L + S + + +
Sbjct: 62 FKPPKVAFTTRIYHPAINSNGSISL-DILRSQWSPALTISKVLLSICSLLCDPNPDDPLV 120
Query: 122 PTLGSIEMSDYERRQLAAR 140
P + I +D E+ AR
Sbjct: 121 PEIARIYKTDREKYNRIAR 139
>pdb|3UGB|A Chain A, Ubch5c~ubiquitin Conjugate
Length = 147
Score = 63.9 bits (154), Expect = 7e-11, Method: Compositional matrix adjust.
Identities = 32/115 (27%), Positives = 59/115 (51%), Gaps = 1/115 (0%)
Query: 8 ATARLKQDYMKLKKDPIPYVIAEPNPANILEWFYVVIGPENTQYEGGMYLGKLVFPRDFP 67
A R+ ++ L +DP A P ++ W ++GP ++ Y+GG++ + FP D+P
Sbjct: 2 ALKRINKELSDLARDPPAQCSAGPVGDDMFHWQATIMGPNDSPYQGGVFFLTIHFPTDYP 61
Query: 68 FKPPSIYMITPNGRFKTNTRLCLSMSDFHPDTWNPAWSVSTILTGLLSFMVERSP 122
FKPP + T N+ +S+ D W+PA ++S +L + S + + +P
Sbjct: 62 FKPPKVAFTTRIYHPNINSNGSISL-DILRSQWSPALTISKVLLSICSLLCDPNP 115
>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 = 63.2 bits (152), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 36/139 (25%), Positives = 66/139 (47%), Gaps = 7/139 (5%)
Query: 8 ATARLKQDYMKLKKDPIPYVIAEPNPANILEWFYVVIGPENTQYEGGMYLGKLVFPRDFP 67
A R+ ++ L +DP A P ++ W ++GP ++ Y+GG++ + FP D+P
Sbjct: 20 ALKRIHKELNDLARDPPAQCSAGPVGDDMFHWQATIMGPNDSPYQGGVFFLTIHFPTDYP 79
Query: 68 FKPPSIYMITPNGRFKTNTRLCLSMSDFHPDTWNPAWSVSTILTGLLSFMVERS------ 121
FKPP + T N+ + + D W+PA ++S +L + S + + +
Sbjct: 80 FKPPKVAFTTRIYHPNINSNGSIXL-DILRSQWSPALTISKVLLSICSLLCDPNPDDPLV 138
Query: 122 PTLGSIEMSDYERRQLAAR 140
P + I +D E+ AR
Sbjct: 139 PEIARIYKTDREKYNRIAR 157
>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 = 62.8 bits (151), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 36/120 (30%), Positives = 58/120 (48%), Gaps = 9/120 (7%)
Query: 7 GATARLKQDYMKLKKDPIPYVIAEPNPANILEWFYVVIGPENTQYEGGMYLGKLVFPRDF 66
G R+ ++ L +P P ++A P P N + ++ GP+ T YEGG Y +L P +
Sbjct: 1 GIPRRITKETQNLANEPPPGIMAVPVPENYRHFNILINGPDGTPYEGGTYKLELFLPEQY 60
Query: 67 PFKPPSIYMIT----PNGRFKTNTRLCLSMSDFHPDTWNPAWSVSTILTGLLSFMVERSP 122
P +PP + +T PN R+CL D D W+PA + T+L + + + P
Sbjct: 61 PMEPPKVRFLTKIYHPN--IDKLGRICL---DILKDKWSPALQIRTVLLSIQALLSSPEP 115
>pdb|2R0J|A Chain A, Crystal Structure Of The Putative Ubiquitin Conjugating
Enzyme, Pfe1350c, From Plasmodium Falciparum
Length = 149
Score = 62.8 bits (151), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 36/120 (30%), Positives = 58/120 (48%), Gaps = 9/120 (7%)
Query: 7 GATARLKQDYMKLKKDPIPYVIAEPNPANILEWFYVVIGPENTQYEGGMYLGKLVFPRDF 66
G R+ ++ L +P P ++A P P N + ++ GP+ T YEGG Y +L P +
Sbjct: 1 GIPRRITKETQNLANEPPPGIMAVPVPENYRHFNILINGPDGTPYEGGTYKLELFLPEQY 60
Query: 67 PFKPPSIYMIT----PNGRFKTNTRLCLSMSDFHPDTWNPAWSVSTILTGLLSFMVERSP 122
P +PP + +T PN R+CL D D W+PA + T+L + + + P
Sbjct: 61 PMEPPKVRFLTKIYHPN--IDKLGRICL---DILKDKWSPALQIRTVLLSIQALLSSPEP 115
>pdb|3HCT|B Chain B, Crystal Structure Of Traf6 In Complex With Ubc13 In The P1
Space Group
pdb|3HCU|B Chain B, Crystal Structure Of Traf6 In Complex With Ubc13 In The C2
Space Group
pdb|3HCU|D Chain D, Crystal Structure Of Traf6 In Complex With Ubc13 In The C2
Space Group
Length = 155
Score = 62.0 bits (149), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 34/125 (27%), Positives = 63/125 (50%), Gaps = 9/125 (7%)
Query: 2 SSKHCGATARLKQDYMKLKKDPIPYVIAEPNPANILEWFYVVIGPENTQYEGGMYLGKLV 61
S G R+ ++ +L +P+P + AEP+ +N + V+ GP+++ +EGG + +L
Sbjct: 1 GSHMAGLPRRIIKETQRLLAEPVPGIKAEPDESNARYFHVVIAGPQDSPFEGGTFKLELF 60
Query: 62 FPRDFPFKPPSIYMIT----PNGRFKTNTRLCLSMSDFHPDTWNPAWSVSTILTGLLSFM 117
P ++P P + +T PN R+CL D D W+PA + T+L + + +
Sbjct: 61 LPEEYPMAAPKVRFMTKIYHPN--VDKLGRICL---DILKDKWSPALQIRTVLLSIQALL 115
Query: 118 VERSP 122
+P
Sbjct: 116 SAPNP 120
>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 = 62.0 bits (149), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 42/139 (30%), Positives = 68/139 (48%), Gaps = 19/139 (13%)
Query: 5 HCGATA--RLKQDYMKLKKDPIPYVIAEP-NPANILEWFYVVIGPENTQYEGGMYLGKLV 61
H TA RL +Y +L +P ++A P N N EW +++GPE+T +E G++ L
Sbjct: 3 HMAGTALKRLMAEYKQLTLNPPEGIVAGPMNEENFFEWEALIMGPEDTCFEFGVFPAILS 62
Query: 62 FPRDFPFKPPSIY----MITPNGRFKTNTRLCLSM----------SDFHPDTWNPAWSVS 107
FP D+P PP + M PN + R+C+S+ + + W+P SV
Sbjct: 63 FPLDYPLSPPKMRFTCEMFHPN--IYPDGRVCISILHAPGDDPMGYESSAERWSPVQSVE 120
Query: 108 TILTGLLSFMVERSPTLGS 126
IL ++S + E + G+
Sbjct: 121 KILLSVVSMLAEPNDESGA 139
>pdb|2KLY|A Chain A, Solution Structure Of Human Ubiquitin Conjugating Enzyme
Ube2g2
Length = 167
Score = 62.0 bits (149), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 42/139 (30%), Positives = 68/139 (48%), Gaps = 19/139 (13%)
Query: 5 HCGATA--RLKQDYMKLKKDPIPYVIAEP-NPANILEWFYVVIGPENTQYEGGMYLGKLV 61
H TA RL +Y +L +P ++A P N N EW +++GPE+T +E G++ L
Sbjct: 2 HMAGTALKRLMAEYKQLTLNPPEGIVAGPMNEENFFEWEALIMGPEDTCFEFGVFPAILS 61
Query: 62 FPRDFPFKPPSIY----MITPNGRFKTNTRLCLSM----------SDFHPDTWNPAWSVS 107
FP D+P PP + M PN + R+C+S+ + + W+P SV
Sbjct: 62 FPLDYPLSPPKMRFTCEMFHPN--IYPDGRVCISILHAPGDDPMGYESSAERWSPVQSVE 119
Query: 108 TILTGLLSFMVERSPTLGS 126
IL ++S + E + G+
Sbjct: 120 KILLSVVSMLAEPNDESGA 138
>pdb|2E2C|A Chain A, E2-C, An Ubiquitin Conjugating Enzyme Required For The
Destruction Of Mitotic Cyclins
Length = 156
Score = 62.0 bits (149), Expect = 3e-10, Method: Compositional matrix adjust.
Identities = 37/120 (30%), Positives = 58/120 (48%), Gaps = 5/120 (4%)
Query: 2 SSKHCGATARLKQDYMKLKKDPIPYVIAEPNPANILEWFYVVIGPENTQYEGGMYLGKLV 61
S + + RL+Q+ L P + A P+ N+ +W + GP++T YE Y L
Sbjct: 4 SKERHSVSKRLQQELRTLLMSGDPGITAFPDGDNLFKWVATLDGPKDTVYESLKYKLTLE 63
Query: 62 FPRDFPFKPPSIYMITP--NGRFKTNTRLCLSMSDFHPDTWNPAWSVSTILTGLLSFMVE 119
FP D+P+KPP + TP + + +CL D + W ++ V TIL L S + E
Sbjct: 64 FPSDYPYKPPVVKFTTPCWHPNVDQSGNICL---DILKENWTASYDVRTILLSLQSLLGE 120
>pdb|2PWQ|A Chain A, Crystal Structure Of A Putative Ubiquitin Conjugating
Enzyme From Plasmodium Yoelii
Length = 216
Score = 61.2 bits (147), Expect = 4e-10, Method: Compositional matrix adjust.
Identities = 33/116 (28%), Positives = 58/116 (50%), Gaps = 8/116 (6%)
Query: 11 RLKQDYMKLKKDPIPYVIAEPNPANILEWFYVVIGPENTQYEGGMYLGKLVFPRDFPFKP 70
RL+++ ++ + + + A +N EW + GPE T YEGG + + P D+P+ P
Sbjct: 27 RLQKELKDIENENVQEIDAHIKDSNFFEWVGFIKGPEGTPYEGGHFTLAITIPNDYPYNP 86
Query: 71 PSIYMIT----PNGRFKTNTRLCLSMSDFHPDTWNPAWSVSTILTGLLSFMVERSP 122
P I +T PN +T +CL D + W+PA ++ T L + + + + P
Sbjct: 87 PKIKFVTKIWHPNISSQTGA-ICL---DVLKNEWSPALTIRTALLSIQALLSDPQP 138
>pdb|4EPO|B Chain B, Crystal Structure Of Rnf8 Bound To The Ubc13MMS2
HETERODIMER
pdb|4EPO|F Chain F, Crystal Structure Of Rnf8 Bound To The Ubc13MMS2
HETERODIMER
pdb|4EPO|J Chain J, Crystal Structure Of Rnf8 Bound To The Ubc13MMS2
HETERODIMER
Length = 155
Score = 61.2 bits (147), Expect = 4e-10, Method: Compositional matrix adjust.
Identities = 33/121 (27%), Positives = 62/121 (51%), Gaps = 9/121 (7%)
Query: 6 CGATARLKQDYMKLKKDPIPYVIAEPNPANILEWFYVVIGPENTQYEGGMYLGKLVFPRD 65
G R+ ++ +L +P+P + AEP+ +N + V+ GP+++ +EGG + +L P +
Sbjct: 7 AGLPRRIIKETQRLLAEPVPGIKAEPDESNARYFHVVIAGPQDSPFEGGTFKLELFLPEE 66
Query: 66 FPFKPPSIYMIT----PNGRFKTNTRLCLSMSDFHPDTWNPAWSVSTILTGLLSFMVERS 121
+P P + +T PN R+CL D D W+PA + T+L + + + +
Sbjct: 67 YPMAAPKVRFMTKIYHPN--VDKLGRICL---DILKDKWSPALQIRTVLLSIQALLSAPN 121
Query: 122 P 122
P
Sbjct: 122 P 122
>pdb|3H8K|A Chain A, Crystal Structure Of Ube2g2 Complxed With The G2br Domain
Of Gp78 At 1.8-A Resolution
Length = 164
Score = 61.2 bits (147), Expect = 4e-10, Method: Compositional matrix adjust.
Identities = 40/134 (29%), Positives = 66/134 (49%), Gaps = 17/134 (12%)
Query: 8 ATARLKQDYMKLKKDPIPYVIAEP-NPANILEWFYVVIGPENTQYEGGMYLGKLVFPRDF 66
A RL +Y +L +P ++A P N N EW +++GPE+T +E G++ L FP D+
Sbjct: 4 ALKRLMAEYKQLTLNPPEGIVAGPMNEENFFEWEALIMGPEDTCFEFGVFPAILSFPLDY 63
Query: 67 PFKPPSIY----MITPNGRFKTNTRLCLSM----------SDFHPDTWNPAWSVSTILTG 112
P PP + M PN + R+C+S+ + + W+P SV IL
Sbjct: 64 PLSPPKMRFTCEMFHPN--IYPDGRVCISILHAPGDDPMGYESSAERWSPVQSVEKILLS 121
Query: 113 LLSFMVERSPTLGS 126
++S + E + G+
Sbjct: 122 VVSMLAEPNDESGA 135
>pdb|2C2V|B Chain B, Crystal Structure Of The Chip-Ubc13-Uev1a Complex
pdb|2C2V|E Chain E, Crystal Structure Of The Chip-Ubc13-Uev1a Complex
pdb|2C2V|H Chain H, Crystal Structure Of The Chip-Ubc13-Uev1a Complex
pdb|2C2V|K Chain K, Crystal Structure Of The Chip-Ubc13-Uev1a Complex
Length = 154
Score = 61.2 bits (147), Expect = 4e-10, Method: Compositional matrix adjust.
Identities = 33/121 (27%), Positives = 62/121 (51%), Gaps = 9/121 (7%)
Query: 6 CGATARLKQDYMKLKKDPIPYVIAEPNPANILEWFYVVIGPENTQYEGGMYLGKLVFPRD 65
G R+ ++ +L +P+P + AEP+ +N + V+ GP+++ +EGG + +L P +
Sbjct: 4 AGLPRRIIKETQRLLAEPVPGIKAEPDESNARYFHVVIAGPQDSPFEGGTFKLELFLPEE 63
Query: 66 FPFKPPSIYMIT----PNGRFKTNTRLCLSMSDFHPDTWNPAWSVSTILTGLLSFMVERS 121
+P P + +T PN R+CL D D W+PA + T+L + + + +
Sbjct: 64 YPMAAPKVRFMTKIYHPN--VDKLGRICL---DILKDKWSPALQIRTVLLSIQALLSAPN 118
Query: 122 P 122
P
Sbjct: 119 P 119
>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 = 61.2 bits (147), Expect = 4e-10, Method: Compositional matrix adjust.
Identities = 40/134 (29%), Positives = 66/134 (49%), Gaps = 17/134 (12%)
Query: 8 ATARLKQDYMKLKKDPIPYVIAEP-NPANILEWFYVVIGPENTQYEGGMYLGKLVFPRDF 66
A RL +Y +L +P ++A P N N EW +++GPE+T +E G++ L FP D+
Sbjct: 10 ALKRLMAEYKQLTLNPPEGIVAGPMNEENFFEWEALIMGPEDTCFEFGVFPAILSFPLDY 69
Query: 67 PFKPPSIY----MITPNGRFKTNTRLCLSM----------SDFHPDTWNPAWSVSTILTG 112
P PP + M PN + R+C+S+ + + W+P SV IL
Sbjct: 70 PLSPPKMRFTCEMFHPN--IYPDGRVCISILHAPGDDPMGYESSAERWSPVQSVEKILLS 127
Query: 113 LLSFMVERSPTLGS 126
++S + E + G+
Sbjct: 128 VVSMLAEPNDESGA 141
>pdb|1J7D|B Chain B, Crystal Structure Of Hmms2-Hubc13
pdb|4DHI|D Chain D, Structure Of C. Elegans Otub1 Bound To Human Ubc13
pdb|4DHJ|C Chain C, The Structure Of A Ceotub1 Ubiquitin Aldehyde Ubc13~ub
Complex
pdb|4DHJ|K Chain K, The Structure Of A Ceotub1 Ubiquitin Aldehyde Ubc13~ub
Complex
pdb|4DHJ|G Chain G, The Structure Of A Ceotub1 Ubiquitin Aldehyde Ubc13~ub
Complex
pdb|4DHJ|N Chain N, The Structure Of A Ceotub1 Ubiquitin Aldehyde Ubc13~ub
Complex
pdb|4DHZ|F Chain F, The Structure Of HCEOTUB1-Ubiquitin Aldehyde-Ubc13~ub
Length = 152
Score = 61.2 bits (147), Expect = 4e-10, Method: Compositional matrix adjust.
Identities = 33/121 (27%), Positives = 62/121 (51%), Gaps = 9/121 (7%)
Query: 6 CGATARLKQDYMKLKKDPIPYVIAEPNPANILEWFYVVIGPENTQYEGGMYLGKLVFPRD 65
G R+ ++ +L +P+P + AEP+ +N + V+ GP+++ +EGG + +L P +
Sbjct: 2 AGLPRRIIKETQRLLAEPVPGIKAEPDESNARYFHVVIAGPQDSPFEGGTFKLELFLPEE 61
Query: 66 FPFKPPSIYMIT----PNGRFKTNTRLCLSMSDFHPDTWNPAWSVSTILTGLLSFMVERS 121
+P P + +T PN R+CL D D W+PA + T+L + + + +
Sbjct: 62 YPMAAPKVRFMTKIYHPN--VDKLGRICL---DILKDKWSPALQIRTVLLSIQALLSAPN 116
Query: 122 P 122
P
Sbjct: 117 P 117
>pdb|3VON|C Chain C, Crystalstructure Of The Ubiquitin Protease
pdb|3VON|E Chain E, Crystalstructure Of The Ubiquitin Protease
pdb|3VON|G Chain G, Crystalstructure Of The Ubiquitin Protease
pdb|3VON|J Chain J, Crystalstructure Of The Ubiquitin Protease
pdb|3VON|L Chain L, Crystalstructure Of The Ubiquitin Protease
pdb|3VON|N Chain N, Crystalstructure Of The Ubiquitin Protease
pdb|3VON|Q Chain Q, Crystalstructure Of The Ubiquitin Protease
pdb|3VON|S Chain S, Crystalstructure Of The Ubiquitin Protease
pdb|3VON|U Chain U, Crystalstructure Of The Ubiquitin Protease
pdb|3VON|X Chain X, Crystalstructure Of The Ubiquitin Protease
pdb|3VON|Z Chain Z, Crystalstructure Of The Ubiquitin Protease
pdb|3VON|BB Chain b, Crystalstructure Of The Ubiquitin Protease
pdb|3VON|EE Chain e, Crystalstructure Of The Ubiquitin Protease
pdb|3VON|GG Chain g, Crystalstructure Of The Ubiquitin Protease
pdb|3VON|II Chain i, Crystalstructure Of The Ubiquitin Protease
pdb|3VON|LL Chain l, Crystalstructure Of The Ubiquitin Protease
pdb|3VON|NN Chain n, Crystalstructure Of The Ubiquitin Protease
pdb|3VON|PP Chain p, Crystalstructure Of The Ubiquitin Protease
Length = 148
Score = 60.8 bits (146), Expect = 6e-10, Method: Compositional matrix adjust.
Identities = 33/120 (27%), Positives = 62/120 (51%), Gaps = 9/120 (7%)
Query: 7 GATARLKQDYMKLKKDPIPYVIAEPNPANILEWFYVVIGPENTQYEGGMYLGKLVFPRDF 66
G R+ ++ +L +P+P + AEP+ +N + V+ GP+++ +EGG + +L P ++
Sbjct: 1 GLPRRIIKETQRLLAEPVPGIKAEPDESNARYFHVVIAGPQDSPFEGGTFKLELFLPEEY 60
Query: 67 PFKPPSIYMIT----PNGRFKTNTRLCLSMSDFHPDTWNPAWSVSTILTGLLSFMVERSP 122
P P + +T PN R+CL D D W+PA + T+L + + + +P
Sbjct: 61 PMAAPKVRFMTKIYHPN--VDKLGRICL---DILKDKWSPALQIRTVLLSIQALLSAPNP 115
>pdb|1JAT|A Chain A, Mms2UBC13 UBIQUITIN CONJUGATING ENZYME COMPLEX
Length = 155
Score = 60.5 bits (145), Expect = 6e-10, Method: Compositional matrix adjust.
Identities = 41/138 (29%), Positives = 70/138 (50%), Gaps = 13/138 (9%)
Query: 11 RLKQDYMKLKKDPIPYVIAEPNPANILEWFYVVI-GPENTQYEGGMYLGKLVFPRDFPFK 69
R+ ++ KL DP+P + AEP+ N L +F V I GPE + YE G++ +L P D+P +
Sbjct: 9 RIIKETEKLVSDPVPGITAEPHDDN-LRYFQVTIEGPEQSPYEDGIFELELYLPDDYPME 67
Query: 70 PPSIYMIT----PNGRFKTNTRLCLSMSDFHPDTWNPAWSVSTILTGLLSFMVERSPT-- 123
P + +T PN R+CL D W+PA + T+L + + + +P
Sbjct: 68 APKVRFLTKIYHPN--IDRLGRICL---DVLKTNWSPALQIRTVLLSIQALLASPNPNDP 122
Query: 124 LGSIEMSDYERRQLAARS 141
L + D+ + + A++
Sbjct: 123 LANDVAEDWIKNEQGAKA 140
>pdb|1JBB|A Chain A, Ubiquitin Conjugating Enzyme, Ubc13
pdb|1JBB|B Chain B, Ubiquitin Conjugating Enzyme, Ubc13
Length = 153
Score = 60.5 bits (145), Expect = 7e-10, Method: Compositional matrix adjust.
Identities = 41/138 (29%), Positives = 70/138 (50%), Gaps = 13/138 (9%)
Query: 11 RLKQDYMKLKKDPIPYVIAEPNPANILEWFYVVI-GPENTQYEGGMYLGKLVFPRDFPFK 69
R+ ++ KL DP+P + AEP+ N L +F V I GPE + YE G++ +L P D+P +
Sbjct: 7 RIIKETEKLVSDPVPGITAEPHDDN-LRYFQVTIEGPEQSPYEDGIFELELYLPDDYPME 65
Query: 70 PPSIYMIT----PNGRFKTNTRLCLSMSDFHPDTWNPAWSVSTILTGLLSFMVERSPT-- 123
P + +T PN R+CL D W+PA + T+L + + + +P
Sbjct: 66 APKVRFLTKIYHPN--IDRLGRICL---DVLKTNWSPALQIRTVLLSIQALLASPNPNDP 120
Query: 124 LGSIEMSDYERRQLAARS 141
L + D+ + + A++
Sbjct: 121 LANDVAEDWIKNEQGAKA 138
>pdb|2UCZ|A Chain A, Ubiquitin Conjugating Enzyme (Ubc7) From Saccharomyces
Cerevisiae
Length = 165
Score = 60.5 bits (145), Expect = 7e-10, Method: Compositional matrix adjust.
Identities = 39/127 (30%), Positives = 62/127 (48%), Gaps = 17/127 (13%)
Query: 8 ATARLKQDYMKLKKDPIPYVIAEPNPAN-ILEWFYVVIGPENTQYEGGMYLGKLVFPRDF 66
A RL ++ +L KD P ++A P N I W ++ GP +T Y G++ KL FP+D+
Sbjct: 5 AQKRLLKELQQLIKDSPPGIVAGPKSENNIFIWDCLIQGPPDTPYADGVFNAKLEFPKDY 64
Query: 67 PFKPPSIY----MITPNGRFKTNTRLCLS----------MSDFHPDTWNPAWSVSTILTG 112
P PP + ++ PN N +C+S M + + W+P SV IL
Sbjct: 65 PLSPPKLTFTPSILHPN--IYPNGEVCISILHSPGDDPNMYELAEERWSPVQSVEKILLS 122
Query: 113 LLSFMVE 119
++S + E
Sbjct: 123 VMSMLSE 129
>pdb|2H2Y|A Chain A, Crystal Structure Of Ubiquitin Conjugating Enzyme E2 From
Plasmodium Falciparum
pdb|2H2Y|B Chain B, Crystal Structure Of Ubiquitin Conjugating Enzyme E2 From
Plasmodium Falciparum
pdb|2H2Y|C Chain C, Crystal Structure Of Ubiquitin Conjugating Enzyme E2 From
Plasmodium Falciparum
pdb|2H2Y|D Chain D, Crystal Structure Of Ubiquitin Conjugating Enzyme E2 From
Plasmodium Falciparum
Length = 136
Score = 59.7 bits (143), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 32/114 (28%), Positives = 60/114 (52%), Gaps = 6/114 (5%)
Query: 7 GATARLKQDYMKLKKDPIPYVIAEPNPANILEWFYVVIGPENTQYEGGMYLGKLVFPRDF 66
A R++++ K+P + +P+NI W +G ENT Y +Y K++FP ++
Sbjct: 20 NANYRIQKELNNFLKNPPINCTIDVHPSNIRIWIVQYVGLENTIYANEVYKIKIIFPDNY 79
Query: 67 PFKPPSIYMIT---PNGRFKTNTRLCLSMSDFHPDTWNPAWSVSTILTGLLSFM 117
P KPP +Y + + +N +CLS+ D +NP+ S+S ++ ++S +
Sbjct: 80 PLKPPIVYFLQKPPKHTHVYSNGDICLSVLG---DDYNPSLSISGLILSIISML 130
>pdb|1YH2|A Chain A, Ubiquitin-Conjugating Enzyme Hspc150
Length = 169
Score = 59.3 bits (142), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 32/117 (27%), Positives = 61/117 (52%), Gaps = 3/117 (2%)
Query: 9 TARLKQDYMKLKKDPIPYVIAEPNPANILEWFYVVIGPENTQYEGGMYLGKLVFPRDFPF 68
+RLK++ L +P P + + + + ++G NT YE G++ +++ P +PF
Sbjct: 6 ASRLKRELHMLATEPPPGITCWQDKDQMDDLRAQILGGANTPYEKGVFKLEVIIPERYPF 65
Query: 69 KPPSIYMITP--NGRFKTNTRLCLSMSDFHPD-TWNPAWSVSTILTGLLSFMVERSP 122
+PP I +TP + + R+CL + P W P+ +++T+LT + M E +P
Sbjct: 66 EPPQIRFLTPIYHPNIDSAGRICLDVLKLPPKGAWRPSLNIATVLTSIQLLMSEPNP 122
>pdb|2FO3|A Chain A, Plasmodium Vivax Ubiquitin Conjugating Enzyme E2
Length = 125
Score = 58.9 bits (141), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 32/114 (28%), Positives = 58/114 (50%), Gaps = 6/114 (5%)
Query: 7 GATARLKQDYMKLKKDPIPYVIAEPNPANILEWFYVVIGPENTQYEGGMYLGKLVFPRDF 66
A R++++ +P + +P NI W +G ENT Y +Y K++FP D+
Sbjct: 6 NANYRIQKELHNFLNNPPINCTLDVHPNNIRIWIVKYVGLENTIYANEVYKLKIIFPDDY 65
Query: 67 PFKPPSIYMIT---PNGRFKTNTRLCLSMSDFHPDTWNPAWSVSTILTGLLSFM 117
P KPP +Y + + +N +CLS+ D +NP+ S+S ++ ++S +
Sbjct: 66 PLKPPIVYFLQKPPKHTHVYSNGDICLSLLG---DDYNPSLSISGLVLSIISML 116
>pdb|2GMI|A Chain A, Mms2UBC13~UBIQUITIN
Length = 152
Score = 57.4 bits (137), Expect = 6e-09, Method: Compositional matrix adjust.
Identities = 39/135 (28%), Positives = 68/135 (50%), Gaps = 7/135 (5%)
Query: 11 RLKQDYMKLKKDPIPYVIAEPNPANILEWFYVVI-GPENTQYEGGMYLGKLVFPRDFPFK 69
R+ ++ KL DP+P + AEP+ N L +F V I GPE + YE G++ +L P D+P +
Sbjct: 7 RIIKETEKLVSDPVPGITAEPHDDN-LRYFQVTIEGPEQSPYEDGIFELELYLPDDYPME 65
Query: 70 PPSIYMITPNGRFKTNT-RLCLSMSDFHPDTWNPAWSVSTILTGLLSFMVERSPT--LGS 126
P + +T + N RL D W+PA + T+L + + + +P L +
Sbjct: 66 APKVRFLT--KIYHPNIDRLGRISLDVLKTNWSPALQIRTVLLSIQALLASPNPNDPLAN 123
Query: 127 IEMSDYERRQLAARS 141
D+ + + A++
Sbjct: 124 DVAEDWIKNEQGAKA 138
>pdb|4FH1|A Chain A, S. Cerevisiae Ubc13-N79a
Length = 153
Score = 57.0 bits (136), Expect = 8e-09, Method: Compositional matrix adjust.
Identities = 38/134 (28%), Positives = 66/134 (49%), Gaps = 5/134 (3%)
Query: 11 RLKQDYMKLKKDPIPYVIAEPNPANILEWFYVVI-GPENTQYEGGMYLGKLVFPRDFPFK 69
R+ ++ KL DP+P + AEP+ N L +F V I GPE + YE G++ +L P D+P +
Sbjct: 7 RIIKETEKLVSDPVPGITAEPHDDN-LRYFQVTIEGPEQSPYEDGIFELELYLPDDYPME 65
Query: 70 PPSIYMITPNGRFKTNTRLCLSMSDFHPDTWNPAWSVSTILTGLLSFMVERSPT--LGSI 127
P + +T RL D W+PA + T+L + + + +P L +
Sbjct: 66 APKVRFLT-KIYHPAIDRLGRISLDVLKTNWSPALQIRTVLLSIQALLASPNPNDPLAND 124
Query: 128 EMSDYERRQLAARS 141
D+ + + A++
Sbjct: 125 VAEDWIKNEQGAKA 138
>pdb|2AWF|A Chain A, Structure Of Human Ubiquitin-Conjugating Enzyme E2 G1
Length = 172
Score = 55.8 bits (133), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 33/123 (26%), Positives = 62/123 (50%), Gaps = 17/123 (13%)
Query: 12 LKQDYMKLKKDPIP-YVIAEPNPANILEWFYVVIGPENTQYEGGMYLGKLVFPRDFPFKP 70
L++ +L K+P+ + + ++ W ++IGP +T YEGG++ L FP+D+P +P
Sbjct: 22 LRRQLAELNKNPVEGFSAGLIDDNDLYRWEVLIIGPPDTLYEGGVFKAHLTFPKDYPLRP 81
Query: 71 PSIYMIT----PNGRFKTNTRLCLSM----------SDFHPDTWNPAWSVSTILTGLLSF 116
P + IT PN N +C+S+ + + W P +V TI+ ++S
Sbjct: 82 PKMKFITEIWHPN--VDKNGDVCISILHEPGEDKYGYEKPEERWLPIHTVETIMISVISM 139
Query: 117 MVE 119
+ +
Sbjct: 140 LAD 142
>pdb|2OB4|A Chain A, Human Ubiquitin-Conjugating Enzyme Cdc34
Length = 180
Score = 55.1 bits (131), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 32/102 (31%), Positives = 49/102 (48%), Gaps = 20/102 (19%)
Query: 34 ANILEWFYVVIGPENTQYEGGMYLGKLVFPRDFPFKPPSIYMIT----PNGRFKTNTRLC 89
++ W + GP NT YEGG + +L FP D+P+ PP+ +T PN +C
Sbjct: 32 GDLYNWEVAIFGPPNTYYEGGYFKARLKFPIDYPYSPPAFRFLTKMWHPN--IYETGDVC 89
Query: 90 LSMSDFHP------------DTWNPAWSVSTILTGLLSFMVE 119
+S+ HP + WNP +V TIL ++S + E
Sbjct: 90 ISI--LHPPVDDPQSGELPSERWNPTQNVRTILLSVISLLNE 129
>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 = 55.1 bits (131), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 32/102 (31%), Positives = 49/102 (48%), Gaps = 20/102 (19%)
Query: 34 ANILEWFYVVIGPENTQYEGGMYLGKLVFPRDFPFKPPSIYMIT----PNGRFKTNTRLC 89
++ W + GP NT YEGG + +L FP D+P+ PP+ +T PN +C
Sbjct: 35 GDLYNWEVAIFGPPNTYYEGGYFKARLKFPIDYPYSPPAFRFLTKMWHPN--IYETGDVC 92
Query: 90 LSMSDFHP------------DTWNPAWSVSTILTGLLSFMVE 119
+S+ HP + WNP +V TIL ++S + E
Sbjct: 93 ISI--LHPPVDDPQSGELPSERWNPTQNVRTILLSVISLLNE 132
>pdb|1PZV|A Chain A, Crystal Structures Of Two Ubc (E2) Enzymes Of The
Ubiquitin- Conjugating System In Caenorhabditis Elegans
Length = 164
Score = 55.1 bits (131), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 35/99 (35%), Positives = 52/99 (52%), Gaps = 16/99 (16%)
Query: 35 NILEWFYVVIGPENTQYEGGMYLGKLVFPRDFPFKPPSIYMIT----PNGRFKTNTRLCL 90
+I +W +VIGP +T YEGG + L FPRD+P KPP + I+ PN + N +C+
Sbjct: 32 DIYKWEVLVIGPPDTLYEGGFFKAILDFPRDYPQKPPKMKFISEIWHPNIDKEGN--VCI 89
Query: 91 S-MSDFHPDTWN---------PAWSVSTILTGLLSFMVE 119
S + D D W P +V TIL ++S + +
Sbjct: 90 SILHDPGDDKWGYERPEERWLPVHTVETILLSVISMLTD 128
>pdb|2F4Z|A Chain A, Toxoplasma Gondii Ubiquitin Conjugating Enzyme
Tgtwinscan_2721- E2 Domain
pdb|2F4Z|B Chain B, Toxoplasma Gondii Ubiquitin Conjugating Enzyme
Tgtwinscan_2721- E2 Domain
Length = 193
Score = 51.2 bits (121), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 29/94 (30%), Positives = 46/94 (48%), Gaps = 8/94 (8%)
Query: 34 ANILEWFYVVIGPENTQYEGGMYLGKLVFPRDFPFKPPSIYMIT----PNGRFKTNTRLC 89
+I W + GP T YEGG + +V P D+P+ PP + +T PN +T +C
Sbjct: 72 GDIHRWRGFIAGPLGTPYEGGHFTLDIVIPPDYPYNPPKMKFVTKIWHPNISSQTGA-IC 130
Query: 90 LSMSDFHPDTWNPAWSVSTILTGLLSFMVERSPT 123
L D W+PA ++ T L + + + + PT
Sbjct: 131 L---DILKHEWSPALTIRTALLSIQAMLADPVPT 161
>pdb|1I7K|A Chain A, Crystal Structure Of Human Mitotic-Specific Ubiquitin-
Conjugating Enzyme, Ubch10
pdb|1I7K|B Chain B, Crystal Structure Of Human Mitotic-Specific Ubiquitin-
Conjugating Enzyme, Ubch10
Length = 179
Score = 50.4 bits (119), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 31/109 (28%), Positives = 51/109 (46%), Gaps = 1/109 (0%)
Query: 11 RLKQDYMKLKKDPIPYVIAEPNPANILEWFYVVIGPENTQYEGGMYLGKLVFPRDFPFKP 70
RL+Q+ M L + A P N+ +W + G T YE Y L FP +P+
Sbjct: 34 RLQQELMTLMMSGDKGISAFPESDNLFKWVGTIHGAAGTVYEDLRYKLSLEFPSGYPYNA 93
Query: 71 PSIYMITPNGRFKTNTRLCLSMSDFHPDTWNPAWSVSTILTGLLSFMVE 119
P++ +TP +T+ +S+ D + W+ + V TIL + S + E
Sbjct: 94 PTVKFLTPCYHPNVDTQGNISL-DILKEKWSALYDVRTILLSIQSLLGE 141
>pdb|2GRP|A Chain A, Crystal Structure Of Human Rangap1-Ubc9-Y87a
Length = 161
Score = 49.7 bits (117), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 34/119 (28%), Positives = 59/119 (49%), Gaps = 8/119 (6%)
Query: 8 ATARLKQDYMKLKKD-PIPYV-IAEPNP---ANILEWFYVVIGPENTQYEGGMYLGKLVF 62
A +RL Q+ +KD P +V + NP N++ W + G + T +EGG++ +++F
Sbjct: 8 ALSRLAQERKAWRKDHPFGFVAVPTKNPDGTMNLMNWECAIPGKKGTPWEGGLFKLRMLF 67
Query: 63 PRDFPFKPPSIYMITP--NGRFKTNTRLCLSMSDFHPDTWNPAWSVSTILTGLLSFMVE 119
D+P PP P + + +CLS+ + D W PA ++ IL G+ + E
Sbjct: 68 KDDYPSSPPKCKFEPPLFHPNVAPSGTVCLSILEEDKD-WRPAITIKQILLGIQELLNE 125
>pdb|2GRO|A Chain A, Crystal Structure Of Human Rangap1-Ubc9-N85q
Length = 161
Score = 49.7 bits (117), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 34/119 (28%), Positives = 60/119 (50%), Gaps = 8/119 (6%)
Query: 8 ATARLKQDYMKLKKD-PIPYV-IAEPNP---ANILEWFYVVIGPENTQYEGGMYLGKLVF 62
A +RL Q+ +KD P +V + NP N++ W + G + T +EGG++ +++F
Sbjct: 8 ALSRLAQERKAWRKDHPFGFVAVPTKNPDGTMNLMNWECAIPGKKGTPWEGGLFKLRMLF 67
Query: 63 PRDFPFKPPSIYMITP--NGRFKTNTRLCLSMSDFHPDTWNPAWSVSTILTGLLSFMVE 119
D+P PP P + + + +CLS+ + D W PA ++ IL G+ + E
Sbjct: 68 KDDYPSSPPKCKFEPPLFHPQVYPSGTVCLSILEEDKD-WRPAITIKQILLGIQELLNE 125
>pdb|1ZDN|A Chain A, Ubiquitin-Conjugating Enzyme E2s
pdb|1ZDN|B Chain B, Ubiquitin-Conjugating Enzyme E2s
Length = 158
Score = 48.9 bits (115), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 34/139 (24%), Positives = 59/139 (42%), Gaps = 15/139 (10%)
Query: 14 QDYMKLKKDPIPYVIAEPNPANILEWFYVVIGPENTQYEGGMYLGKLVFPRDFPFKPPSI 73
++ L DP + PN ++ + + GPE T Y GG++ KL+ +DFP PP
Sbjct: 20 KEVTTLTADPPDGIKVFPNEEDLTDLQVTIEGPEGTPYAGGLFRMKLLLGKDFPASPPKG 79
Query: 74 YMIT----PNGRFKTNTRLCLSMSDFHPDTWNPAWSVSTILTGLLSFMVERSP------T 123
Y +T PN N +C+++ W + +L + ++ +P
Sbjct: 80 YFLTKIFHPN--VGANGEICVNVLK---RDWTAELGIRHVLLTIKCLLIHPNPESALNEE 134
Query: 124 LGSIEMSDYERRQLAARSL 142
G + + +YE AR L
Sbjct: 135 AGRLLLENYEEYAARARLL 153
>pdb|2GRR|A Chain A, Crystal Structure Of Human Rangap1-Ubc9-D127s
Length = 161
Score = 48.9 bits (115), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 42/153 (27%), Positives = 75/153 (49%), Gaps = 18/153 (11%)
Query: 8 ATARLKQDYMKLKKD-PIPYV-IAEPNP---ANILEWFYVVIGPENTQYEGGMYLGKLVF 62
A +RL Q+ +KD P +V + NP N++ W + G + T +EGG++ +++F
Sbjct: 8 ALSRLAQERKAWRKDHPFGFVAVPTKNPDGTMNLMNWECAIPGKKGTPWEGGLFKLRMLF 67
Query: 63 PRDFPFKPPSIYMITP--NGRFKTNTRLCLSMSDFHPDTWNPAWSVSTILTGLLSFMVE- 119
D+P PP P + + +CLS+ + D W PA ++ IL G+ + E
Sbjct: 68 KDDYPSSPPKCKFEPPLFHPNVYPSGTVCLSILEEDKD-WRPAITIKQILLGIQELLNEP 126
Query: 120 --RSP------TLGSIEMSDYERRQLAARSLRF 144
+SP T+ +YE+R + A++ +F
Sbjct: 127 NIQSPAQAEAYTIYCQNRVEYEKR-VRAQAKKF 158
>pdb|1KPS|A Chain A, Structural Basis For E2-Mediated Sumo Conjugation Revealed
By A Complex Between Ubiquitin Conjugating Enzyme Ubc9
And Rangap1
pdb|1KPS|C Chain C, Structural Basis For E2-Mediated Sumo Conjugation Revealed
By A Complex Between Ubiquitin Conjugating Enzyme Ubc9
And Rangap1
Length = 159
Score = 48.9 bits (115), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 34/119 (28%), Positives = 59/119 (49%), Gaps = 8/119 (6%)
Query: 8 ATARLKQDYMKLKKD-PIPYV-IAEPNP---ANILEWFYVVIGPENTQYEGGMYLGKLVF 62
A +RL Q+ +KD P +V + NP N++ W + G + T +EGG++ +++F
Sbjct: 6 ALSRLAQERKAWRKDHPFGFVAVPTKNPDGTMNLMNWECAIPGKKGTPWEGGLFKLRMLF 65
Query: 63 PRDFPFKPPSIYMITP--NGRFKTNTRLCLSMSDFHPDTWNPAWSVSTILTGLLSFMVE 119
D+P PP P + + +CLS+ + D W PA ++ IL G+ + E
Sbjct: 66 KDDYPSSPPKCKFEPPLFHPNVYPSGTVCLSILEEDKD-WRPAITIKQILLGIQELLNE 123
>pdb|2GRN|A Chain A, Crystal Structure Of Human Rangap1-Ubc9
pdb|2PE6|A Chain A, Non-Covalent Complex Between Human Sumo-1 And Human Ubc9
Length = 161
Score = 48.9 bits (115), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 34/119 (28%), Positives = 59/119 (49%), Gaps = 8/119 (6%)
Query: 8 ATARLKQDYMKLKKD-PIPYV-IAEPNP---ANILEWFYVVIGPENTQYEGGMYLGKLVF 62
A +RL Q+ +KD P +V + NP N++ W + G + T +EGG++ +++F
Sbjct: 8 ALSRLAQERKAWRKDHPFGFVAVPTKNPDGTMNLMNWECAIPGKKGTPWEGGLFKLRMLF 67
Query: 63 PRDFPFKPPSIYMITP--NGRFKTNTRLCLSMSDFHPDTWNPAWSVSTILTGLLSFMVE 119
D+P PP P + + +CLS+ + D W PA ++ IL G+ + E
Sbjct: 68 KDDYPSSPPKCKFEPPLFHPNVYPSGTVCLSILEEDKD-WRPAITIKQILLGIQELLNE 125
>pdb|2GRQ|A Chain A, Crystal Structure Of Human Rangap1-Ubc9-D127a
Length = 161
Score = 48.9 bits (115), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 34/119 (28%), Positives = 59/119 (49%), Gaps = 8/119 (6%)
Query: 8 ATARLKQDYMKLKKD-PIPYV-IAEPNP---ANILEWFYVVIGPENTQYEGGMYLGKLVF 62
A +RL Q+ +KD P +V + NP N++ W + G + T +EGG++ +++F
Sbjct: 8 ALSRLAQERKAWRKDHPFGFVAVPTKNPDGTMNLMNWECAIPGKKGTPWEGGLFKLRMLF 67
Query: 63 PRDFPFKPPSIYMITP--NGRFKTNTRLCLSMSDFHPDTWNPAWSVSTILTGLLSFMVE 119
D+P PP P + + +CLS+ + D W PA ++ IL G+ + E
Sbjct: 68 KDDYPSSPPKCKFEPPLFHPNVYPSGTVCLSILEEDKD-WRPAITIKQILLGIQELLNE 125
>pdb|2O25|C Chain C, Ubiquitin-Conjugating Enzyme E2-25 Kda Complexed With
Sumo-1- Conjugating Enzyme Ubc9
pdb|2O25|D Chain D, Ubiquitin-Conjugating Enzyme E2-25 Kda Complexed With
Sumo-1- Conjugating Enzyme Ubc9
pdb|1A3S|A Chain A, Human Ubc9
Length = 160
Score = 48.5 bits (114), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 34/119 (28%), Positives = 59/119 (49%), Gaps = 8/119 (6%)
Query: 8 ATARLKQDYMKLKKD-PIPYV-IAEPNP---ANILEWFYVVIGPENTQYEGGMYLGKLVF 62
A +RL Q+ +KD P +V + NP N++ W + G + T +EGG++ +++F
Sbjct: 7 ALSRLAQERKAWRKDHPFGFVAVPTKNPDGTMNLMNWECAIPGKKGTPWEGGLFKLRMLF 66
Query: 63 PRDFPFKPPSIYMITP--NGRFKTNTRLCLSMSDFHPDTWNPAWSVSTILTGLLSFMVE 119
D+P PP P + + +CLS+ + D W PA ++ IL G+ + E
Sbjct: 67 KDDYPSSPPKCKFEPPLFHPNVYPSGTVCLSILEEDKD-WRPAITIKQILLGIQELLNE 124
>pdb|1U9A|A Chain A, Human Ubiquitin-Conjugating Enzyme Ubc9
pdb|1U9B|A Chain A, MurineHUMAN UBIQUITIN-Conjugating Enzyme Ubc9
Length = 160
Score = 48.5 bits (114), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 34/119 (28%), Positives = 59/119 (49%), Gaps = 8/119 (6%)
Query: 8 ATARLKQDYMKLKKD-PIPYV-IAEPNP---ANILEWFYVVIGPENTQYEGGMYLGKLVF 62
A +RL Q+ +KD P +V + NP N++ W + G + T +EGG++ +++F
Sbjct: 7 ALSRLAQERKAWRKDHPFGFVAVPTKNPDGTMNLMNWECAIPGKKGTPWEGGLFKLRMLF 66
Query: 63 PRDFPFKPPSIYMITP--NGRFKTNTRLCLSMSDFHPDTWNPAWSVSTILTGLLSFMVE 119
D+P PP P + + +CLS+ + D W PA ++ IL G+ + E
Sbjct: 67 KDDYPSSPPKCKFEPPLFHPNVYPSGTVCLSILEEDKD-WRPAITIKQILLGIQELLNE 124
>pdb|3A4S|A Chain A, The Crystal Structure Of The Sld2:ubc9 Complex
pdb|3A4S|B Chain B, The Crystal Structure Of The Sld2:ubc9 Complex
Length = 163
Score = 48.5 bits (114), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 34/119 (28%), Positives = 59/119 (49%), Gaps = 8/119 (6%)
Query: 8 ATARLKQDYMKLKKD-PIPYV-IAEPNP---ANILEWFYVVIGPENTQYEGGMYLGKLVF 62
A +RL Q+ +KD P +V + NP N++ W + G + T +EGG++ +++F
Sbjct: 10 ALSRLAQERKAWRKDHPFGFVAVPTKNPDGTMNLMNWECAIPGKKGTPWEGGLFKLRMLF 69
Query: 63 PRDFPFKPPSIYMITP--NGRFKTNTRLCLSMSDFHPDTWNPAWSVSTILTGLLSFMVE 119
D+P PP P + + +CLS+ + D W PA ++ IL G+ + E
Sbjct: 70 KDDYPSSPPKCKFEPPLFHPNVYPSGTVCLSILEEDKD-WRPAITIKQILLGIQELLNE 127
>pdb|1Z5S|A Chain A, Crystal Structure Of A Complex Between Ubc9, Sumo-1,
Rangap1 And Nup358RANBP2
pdb|2PX9|B Chain B, The Intrinsic Affinity Between E2 And The Cys Domain Of E1
In Ubiquitin-Like Modifications
pdb|2VRR|A Chain A, Structure Of Sumo Modified Ubc9
pdb|2XWU|A Chain A, Crystal Structure Of Importin 13 - Ubc9 Complex
pdb|3UIN|A Chain A, Complex Between Human Rangap1-Sumo2, Ubc9 And The Ir1
Domain From Ranbp2
Length = 158
Score = 48.5 bits (114), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 34/119 (28%), Positives = 59/119 (49%), Gaps = 8/119 (6%)
Query: 8 ATARLKQDYMKLKKD-PIPYV-IAEPNP---ANILEWFYVVIGPENTQYEGGMYLGKLVF 62
A +RL Q+ +KD P +V + NP N++ W + G + T +EGG++ +++F
Sbjct: 5 ALSRLAQERKAWRKDHPFGFVAVPTKNPDGTMNLMNWECAIPGKKGTPWEGGLFKLRMLF 64
Query: 63 PRDFPFKPPSIYMITP--NGRFKTNTRLCLSMSDFHPDTWNPAWSVSTILTGLLSFMVE 119
D+P PP P + + +CLS+ + D W PA ++ IL G+ + E
Sbjct: 65 KDDYPSSPPKCKFEPPLFHPNVYPSGTVCLSILEEDKD-WRPAITIKQILLGIQELLNE 122
>pdb|1YRV|A Chain A, Novel Ubiquitin-Conjugating Enzyme
Length = 169
Score = 47.8 bits (112), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 31/116 (26%), Positives = 60/116 (51%), Gaps = 6/116 (5%)
Query: 2 SSKHCGATARLKQDYMKLKKDPIPYVIAEPNPANILEWFYVVIGPENTQYEGGMYLGKLV 61
S H A L +D+ LK++ + A+P +++EW + G +N+ ++G ++ +
Sbjct: 18 GSMHGRAYLLLHRDFCDLKENNYKGITAKPVSEDMMEWEVEIEGLQNSVWQGLVFQLTIH 77
Query: 62 FPRDFPFKPPSIYMIT----PNGRFKTNTRLCLSMSDFHPDTWNPAWSVSTILTGL 113
F ++ + PP + IT PN T + C+ D +P+ WN +++S+IL L
Sbjct: 78 FTSEYNYAPPVVKFITIPFHPNVDPHTG-QPCIDFLD-NPEKWNTNYTLSSILLAL 131
>pdb|2UYZ|A Chain A, Non-Covalent Complex Between Ubc9 And Sumo1
Length = 158
Score = 46.2 bits (108), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 33/118 (27%), Positives = 55/118 (46%), Gaps = 6/118 (5%)
Query: 8 ATARLKQDYMKLKKD-PIPYV-IAEPNP---ANILEWFYVVIGPENTQYEGGMYLGKLVF 62
A +RL Q+ +KD P +V + NP N++ W + G + T +EGG++ +++F
Sbjct: 5 ALSRLAQERKAWRKDHPFGFVAVPTKNPDGTMNLMNWECAIPGKKGTPWEGGLFKLRMLF 64
Query: 63 PRDFPFKPPSIYMITPNGRFKTNTRLCLSMSDFHPDT-WNPAWSVSTILTGLLSFMVE 119
D+P PP P +S+S D W PA ++ IL G+ + E
Sbjct: 65 KDDYPSSPPKCKFEPPLFHPNVYPSGTVSLSILEEDKDWRPAITIKQILLGIQELLNE 122
>pdb|3SQV|C Chain C, Crystal Structure Of E. Coli O157:h7 E3 Ubiquitin Ligase,
Nlel, With A Human E2, Ubch7
pdb|3SQV|D Chain D, Crystal Structure Of E. Coli O157:h7 E3 Ubiquitin Ligase,
Nlel, With A Human E2, Ubch7
pdb|3SY2|C Chain C, Crystal Structure Of The Salmonella E3 Ubiquitin Ligase
Sopa In Complex With The Human E2 Ubch7
pdb|3SY2|D Chain D, Crystal Structure Of The Salmonella E3 Ubiquitin Ligase
Sopa In Complex With The Human E2 Ubch7
Length = 156
Score = 46.2 bits (108), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 26/93 (27%), Positives = 47/93 (50%), Gaps = 9/93 (9%)
Query: 34 ANILEWFYVVIGPENTQYEGGMYLGKLVFPRDFPFKPPSIYMIT----PNGRFKTNTRLC 89
AN+L W +++ P+N Y+ G + ++ FP ++PFKPP I T PN ++C
Sbjct: 32 ANLLTWQGLIV-PDNPPYDKGAFRIEINFPAEYPFKPPKITFKTKIYHPN--IDEKGQVC 88
Query: 90 LSMSDFHPDTWNPAWSVSTILTGLLSFMVERSP 122
L + + W PA ++ L++ + + P
Sbjct: 89 LPV--ISAENWKPATKTDQVIQSLIALVNDPQP 119
>pdb|1C4Z|D Chain D, Structure Of E6ap: Insights Into Ubiquitination Pathway
pdb|1FBV|C Chain C, Structure Of A Cbl-Ubch7 Complex: Ring Domain Function In
Ubiquitin-Protein Ligases
Length = 154
Score = 46.2 bits (108), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 26/93 (27%), Positives = 47/93 (50%), Gaps = 9/93 (9%)
Query: 34 ANILEWFYVVIGPENTQYEGGMYLGKLVFPRDFPFKPPSIYMIT----PNGRFKTNTRLC 89
AN+L W +++ P+N Y+ G + ++ FP ++PFKPP I T PN ++C
Sbjct: 30 ANLLTWQGLIV-PDNPPYDKGAFRIEINFPAEYPFKPPKITFKTKIYHPN--IDEKGQVC 86
Query: 90 LSMSDFHPDTWNPAWSVSTILTGLLSFMVERSP 122
L + + W PA ++ L++ + + P
Sbjct: 87 LPV--ISAENWKPATKTDQVIQSLIALVNDPQP 117
>pdb|1FXT|A Chain A, Structure Of A Conjugating Enzyme-Ubiquitin Thiolester
Complex
pdb|1FZY|A Chain A, Crystal Structure Of Saccharomyces Cerevisiae Ubiquitin
Conjugating Enzyme 1
pdb|1FZY|B Chain B, Crystal Structure Of Saccharomyces Cerevisiae Ubiquitin
Conjugating Enzyme 1
Length = 149
Score = 46.2 bits (108), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 37/138 (26%), Positives = 64/138 (46%), Gaps = 16/138 (11%)
Query: 11 RLKQDYMKLKKDPIPYVIAE-PNPANILEWFYVVIGPENTQYEGGMYLGKLVFPRDFPFK 69
R+ ++ +K DP ++ E + ++I +GP T YEGG ++ + P ++PFK
Sbjct: 5 RIMKEIQAVKDDPAAHITLEFVSESDIHHLKGTFLGPPGTPYEGGKFVVDIEVPMEYPFK 64
Query: 70 PPSIYMIT----PNGRFKTNTRLCLSMSDFHPDTWNPAWSVSTILTGLLSFMVERSPTLG 125
PP + T PN T +CL D + W+P ++ + L L + L
Sbjct: 65 PPKMQFDTKVYHPNISSVTGA-ICL---DILKNAWSPVITLKSALISLQAL-------LQ 113
Query: 126 SIEMSDYERRQLAARSLR 143
S E +D + ++A LR
Sbjct: 114 SPEPNDPQDAEVAQHYLR 131
>pdb|1TTE|A Chain A, The Structure Of A Class Ii Ubiquitin-Conjugating Enzyme,
Ubc1
Length = 215
Score = 45.8 bits (107), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 37/138 (26%), Positives = 66/138 (47%), Gaps = 16/138 (11%)
Query: 11 RLKQDYMKLKKDPIPYVIAE-PNPANILEWFYVVIGPENTQYEGGMYLGKLVFPRDFPFK 69
R+ ++ +K DP ++ E + ++I +GP T YEGG ++ + P ++PFK
Sbjct: 6 RIMKEIQAVKDDPAAHITLEFVSESDIHHLKGTFLGPPGTPYEGGKFVVDIEVPMEYPFK 65
Query: 70 PPSIYMIT----PNGRFKTNTRLCLSMSDFHPDTWNPAWSVSTILTGLLSFMVERSPTLG 125
PP + T PN T +CL D + W+P ++ + L L + + +SP
Sbjct: 66 PPKMQFDTKVYHPNISSVTGA-ICL---DILRNAWSPVITLKSALISLQALL--QSP--- 116
Query: 126 SIEMSDYERRQLAARSLR 143
E +D + ++A LR
Sbjct: 117 --EPNDPQDAEVAQHYLR 132
>pdb|3UIO|A Chain A, Complex Between Human Rangap1-Sumo2, Ubc9 And The Ir1
Domain From Ranbp2 Containing Ir2 Motif Ii
pdb|3UIP|A Chain A, Complex Between Human Rangap1-Sumo1, Ubc9 And The Ir1
Domain From Ranbp2 Containing Ir2 Motif Ii
Length = 158
Score = 44.3 bits (103), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 32/118 (27%), Positives = 54/118 (45%), Gaps = 6/118 (5%)
Query: 8 ATARLKQDYMKLKKD-PIPYV-IAEPNP---ANILEWFYVVIGPENTQYEGGMYLGKLVF 62
A +RL Q+ +KD P +V + NP N++ W + G + T +EGG++ +++F
Sbjct: 5 ALSRLAQERKAWRKDHPFGFVAVPTKNPDGTMNLMNWECAIPGKKGTPWEGGLFKLRMLF 64
Query: 63 PRDFPFKPPSIYMITPNGRFKTNTRLCLSMSDFHPDT-WNPAWSVSTILTGLLSFMVE 119
D+P PP P + +S D W PA ++ IL G+ + E
Sbjct: 65 KDDYPSSPPKCKFEPPLFHPNVYPSGTVXLSILEEDKDWRPAITIKQILLGIQELLNE 122
>pdb|3RCZ|B Chain B, Rad60 Sld2 Ubc9 Complex
Length = 163
Score = 44.3 bits (103), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 22/85 (25%), Positives = 42/85 (49%), Gaps = 3/85 (3%)
Query: 35 NILEWFYVVIGPENTQYEGGMYLGKLVFPRDFPFKPPSIYMITP--NGRFKTNTRLCLSM 92
+++ W + G T +EGG+Y + FP ++P +PP P + + +CLS+
Sbjct: 43 DLMNWKVGIPGKPKTSWEGGLYKLTMAFPEEYPTRPPKCRFTPPLFHPNVYPSGTVCLSI 102
Query: 93 SDFHPDTWNPAWSVSTILTGLLSFM 117
+ + W PA ++ IL G+ +
Sbjct: 103 LN-EEEGWKPAITIKQILLGIQDLL 126
>pdb|1YF9|A Chain A, Structural Analysis Of Leishmania Major Ubiquitin
Conjugating Enzyme E2
pdb|1YF9|B Chain B, Structural Analysis Of Leishmania Major Ubiquitin
Conjugating Enzyme E2
pdb|1YF9|C Chain C, Structural Analysis Of Leishmania Major Ubiquitin
Conjugating Enzyme E2
Length = 171
Score = 44.3 bits (103), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 32/112 (28%), Positives = 54/112 (48%), Gaps = 14/112 (12%)
Query: 8 ATARLKQDYMKLKKDPIPYVIAEPNPANILEWFYVVI-GPENTQYEGGMYLGKLVFPRDF 66
+ R + DYM+L + P++ + F+V GPE T YE G ++ + P D+
Sbjct: 13 SNRRREMDYMRLCNS-----TRKVYPSDTVAEFWVEFKGPEGTPYEDGTWMLHVQLPSDY 67
Query: 67 PFKPPSI----YMITPNGRFKTNTRLCLSMSDFHPDTWNPAWSVSTILTGLL 114
PFK PSI ++ PN ++ + +CL + + TW P + + I L
Sbjct: 68 PFKSPSIGFCNRILHPNVDERSGS-VCLDVIN---QTWTPMYQLENIFDVFL 115
>pdb|1XG5|A Chain A, Structure Of Human Putative Dehydrogenase Mgc4172 In
Complex With Nadp
pdb|1XG5|B Chain B, Structure Of Human Putative Dehydrogenase Mgc4172 In
Complex With Nadp
pdb|1XG5|C Chain C, Structure Of Human Putative Dehydrogenase Mgc4172 In
Complex With Nadp
pdb|1XG5|D Chain D, Structure Of Human Putative Dehydrogenase Mgc4172 In
Complex With Nadp
Length = 279
Score = 43.9 bits (102), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 23/55 (41%), Positives = 34/55 (61%), Gaps = 4/55 (7%)
Query: 162 ISPGLVKSQIFKSSLGDK---FDKSLYEAHPCLQAEDIANTVEFILSSPPHVQVS 213
ISPG+V++Q F L DK + YE CL+ ED+A V ++LS+P H+Q+
Sbjct: 217 ISPGVVETQ-FAFKLHDKDPEKAAATYEQMKCLKPEDVAEAVIYVLSTPAHIQIG 270
>pdb|2GJD|A Chain A, Distinct Functional Domains Of Ubc9 Dictate Cell Survival
And Resistance To Genotoxic Stress
pdb|2GJD|B Chain B, Distinct Functional Domains Of Ubc9 Dictate Cell Survival
And Resistance To Genotoxic Stress
pdb|2GJD|C Chain C, Distinct Functional Domains Of Ubc9 Dictate Cell Survival
And Resistance To Genotoxic Stress
pdb|2GJD|D Chain D, Distinct Functional Domains Of Ubc9 Dictate Cell Survival
And Resistance To Genotoxic Stress
pdb|2EKE|A Chain A, Structure Of A Sumo-Binding-Motif Mimic Bound To Smt3p-
Ubc9p: Conservation Of A Noncovalent Ubiquitin-Like
Protein-E2 Complex As A Platform For Selective
Interactions Within A Sumo Pathway
pdb|2EKE|B Chain B, Structure Of A Sumo-Binding-Motif Mimic Bound To Smt3p-
Ubc9p: Conservation Of A Noncovalent Ubiquitin-Like
Protein-E2 Complex As A Platform For Selective
Interactions Within A Sumo Pathway
Length = 157
Score = 43.5 bits (101), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 32/122 (26%), Positives = 58/122 (47%), Gaps = 12/122 (9%)
Query: 11 RLKQDYMKLKKDPIPYVIAEP-----NPANILEWFYVVIGPENTQYEGGMYLGKLVFPRD 65
RL+++ K +KD A+P ++ +W + G E T + GG+Y + +P +
Sbjct: 8 RLQEERKKWRKDHPFGFYAKPVKKADGSMDLQKWEAGIPGKEGTNWAGGVYPITVEYPNE 67
Query: 66 FPFKPPSIYMITPNGRFKTNT----RLCLSMSDFHPDTWNPAWSVSTILTGLLSFMVERS 121
+P KPP + P G + N +CLS+ + D W PA ++ I+ G+ + +
Sbjct: 68 YPSKPPKVKF--PAGFYHPNVYPSGTICLSILNEDQD-WRPAITLKQIVLGVQDLLDSPN 124
Query: 122 PT 123
P
Sbjct: 125 PN 126
>pdb|3ONG|B Chain B, Crystal Structure Of Uba2ufd-ubc9: Insights Into E1-e2
Interactions In Sumo Pathways
pdb|3ONG|D Chain D, Crystal Structure Of Uba2ufd-ubc9: Insights Into E1-e2
Interactions In Sumo Pathways
Length = 159
Score = 43.5 bits (101), Expect = 9e-05, Method: Compositional matrix adjust.
Identities = 32/122 (26%), Positives = 58/122 (47%), Gaps = 12/122 (9%)
Query: 11 RLKQDYMKLKKDPIPYVIAEP-----NPANILEWFYVVIGPENTQYEGGMYLGKLVFPRD 65
RL+++ K +KD A+P ++ +W + G E T + GG+Y + +P +
Sbjct: 10 RLQEERKKWRKDHPFGFYAKPVKKADGSMDLQKWEAGIPGKEGTNWAGGVYPITVEYPNE 69
Query: 66 FPFKPPSIYMITPNGRFKTNT----RLCLSMSDFHPDTWNPAWSVSTILTGLLSFMVERS 121
+P KPP + P G + N +CLS+ + D W PA ++ I+ G+ + +
Sbjct: 70 YPSKPPKVKF--PAGFYHPNVYPSGTICLSILNEDQD-WRPAITLKQIVLGVQDLLDSPN 126
Query: 122 PT 123
P
Sbjct: 127 PN 128
>pdb|3E46|A Chain A, Crystal Structure Of Ubiquitin-Conjugating Enzyme E2-25kda
(Huntington Interacting Protein 2) M172a Mutant
pdb|3F92|A Chain A, Crystal Structure Of Ubiquitin-Conjugating Enzyme E2-25kda
(Huntington Interacting Protein 2) M172a Mutant
Crystallized At Ph 8.5
Length = 253
Score = 43.1 bits (100), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 27/79 (34%), Positives = 37/79 (46%), Gaps = 8/79 (10%)
Query: 35 NILEWFYVVIGPENTQYEGGMYLGKLVFPRDFPFKPPSIYMIT----PNGRFKTNTRLCL 90
N E + GP +T YEGG Y ++ P +PF PP + IT PN T +CL
Sbjct: 88 NFTELRGEIAGPPDTPYEGGRYQLEIKIPETYPFNPPKVRFITKIWHPNISSVTGA-ICL 146
Query: 91 SMSDFHPDTWNPAWSVSTI 109
D D W A ++ T+
Sbjct: 147 ---DILKDQWAAAMTLRTV 162
>pdb|1WZV|A Chain A, Crystal Structure Of Ubch8
pdb|1WZV|B Chain B, Crystal Structure Of Ubch8
pdb|1WZW|A Chain A, Crystal Structure Of Ubch8
Length = 155
Score = 43.1 bits (100), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 33/118 (27%), Positives = 57/118 (48%), Gaps = 11/118 (9%)
Query: 8 ATARLKQDYMKLKKDPIPYVI-AEPNPANILEWFYVVIGPENTQYEGGMYLGKLVFPRDF 66
A+ R+ ++ L+K P PY+ + AN+L W + ++ P+ Y + ++ FP ++
Sbjct: 5 ASMRVVKELEDLQKKPPPYLRNLSSDDANVLVW-HALLLPDQPPYHLKAFNLRISFPPEY 63
Query: 67 PFKPPSIYMIT----PNGRFKTNTRLCLSMSDFHPDTWNPAWSVSTILTGLLSFMVER 120
PFKPP I T PN N ++CL + + W P +L L+ +V R
Sbjct: 64 PFKPPMIKFTTKIYHPN--VDENGQICLPI--ISSENWKPCTKTCQVLEA-LNVLVNR 116
>pdb|2KJH|A Chain A, Nmr Based Structural Model Of The Ubch8-Ubiquitin Complex
Length = 152
Score = 42.7 bits (99), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 33/118 (27%), Positives = 57/118 (48%), Gaps = 11/118 (9%)
Query: 8 ATARLKQDYMKLKKDPIPYVI-AEPNPANILEWFYVVIGPENTQYEGGMYLGKLVFPRDF 66
A+ R+ ++ L+K P PY+ + AN+L W + ++ P+ Y + ++ FP ++
Sbjct: 2 ASMRVVKELEDLQKKPPPYLRNLSSDDANVLVW-HALLLPDQPPYHLKAFNLRISFPPEY 60
Query: 67 PFKPPSIYMIT----PNGRFKTNTRLCLSMSDFHPDTWNPAWSVSTILTGLLSFMVER 120
PFKPP I T PN N ++CL + + W P +L L+ +V R
Sbjct: 61 PFKPPMIKFTTKIYHPN--VDENGQICLPI--ISSENWKPCTKTCQVLEA-LNVLVNR 113
>pdb|3K9P|A Chain A, The Crystal Structure Of E2-25k And Ubiquitin Complex
Length = 217
Score = 42.7 bits (99), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 27/79 (34%), Positives = 37/79 (46%), Gaps = 8/79 (10%)
Query: 35 NILEWFYVVIGPENTQYEGGMYLGKLVFPRDFPFKPPSIYMIT----PNGRFKTNTRLCL 90
N E + GP +T YEGG Y ++ P +PF PP + IT PN T +CL
Sbjct: 52 NFTELRGEIAGPPDTPYEGGRYQLEIKIPETYPFNPPKVRFITKIWHPNISSVTGA-ICL 110
Query: 91 SMSDFHPDTWNPAWSVSTI 109
D D W A ++ T+
Sbjct: 111 ---DILKDQWAAAMTLRTV 126
>pdb|1YLA|A Chain A, Ubiquitin-Conjugating Enzyme E2-25 Kda (Huntington
Interacting Protein 2)
pdb|1YLA|B Chain B, Ubiquitin-Conjugating Enzyme E2-25 Kda (Huntington
Interacting Protein 2)
pdb|2O25|A Chain A, Ubiquitin-Conjugating Enzyme E2-25 Kda Complexed With
Sumo-1- Conjugating Enzyme Ubc9
pdb|2O25|B Chain B, Ubiquitin-Conjugating Enzyme E2-25 Kda Complexed With
Sumo-1- Conjugating Enzyme Ubc9
Length = 202
Score = 42.7 bits (99), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 25/71 (35%), Positives = 35/71 (49%), Gaps = 8/71 (11%)
Query: 43 VIGPENTQYEGGMYLGKLVFPRDFPFKPPSIYMIT----PNGRFKTNTRLCLSMSDFHPD 98
+ GP +T YEGG Y ++ P +PF PP + IT PN T +CL D D
Sbjct: 45 IAGPPDTPYEGGRYQLEIKIPETYPFNPPKVRFITKIWHPNISSVTGA-ICL---DILKD 100
Query: 99 TWNPAWSVSTI 109
W A ++ T+
Sbjct: 101 QWAAAMTLRTV 111
>pdb|3K9O|A Chain A, The Crystal Structure Of E2-25k And Ubb+1 Complex
Length = 201
Score = 42.7 bits (99), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 25/71 (35%), Positives = 35/71 (49%), Gaps = 8/71 (11%)
Query: 43 VIGPENTQYEGGMYLGKLVFPRDFPFKPPSIYMIT----PNGRFKTNTRLCLSMSDFHPD 98
+ GP +T YEGG Y ++ P +PF PP + IT PN T +CL D D
Sbjct: 44 IAGPPDTPYEGGRYQLEIKIPETYPFNPPKVRFITKIWHPNISSVTGA-ICL---DILKD 99
Query: 99 TWNPAWSVSTI 109
W A ++ T+
Sbjct: 100 QWAAAMTLRTV 110
>pdb|2BEP|A Chain A, Crystal Structure Of Ubiquitin Conjugating Enzyme E2-25k
pdb|2BF8|A Chain A, Crystal Structure Of Sumo Modified Ubiquitin Conjugating
Enzyme E2-25k
Length = 159
Score = 42.4 bits (98), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 27/79 (34%), Positives = 37/79 (46%), Gaps = 8/79 (10%)
Query: 35 NILEWFYVVIGPENTQYEGGMYLGKLVFPRDFPFKPPSIYMIT----PNGRFKTNTRLCL 90
N E + GP +T YEGG Y ++ P +PF PP + IT PN T +CL
Sbjct: 39 NFTELRGEIAGPPDTPYEGGRYQLEIKIPETYPFNPPKVRFITKIWHPNISSVTGA-ICL 97
Query: 91 SMSDFHPDTWNPAWSVSTI 109
D D W A ++ T+
Sbjct: 98 ---DILKDQWAAAMTLRTV 113
>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 = 42.4 bits (98), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 30/113 (26%), Positives = 52/113 (46%), Gaps = 9/113 (7%)
Query: 11 RLKQDYMKLKKDPIP-YVIAEPNPAN-ILEWFYVVIGPENTQYEGGMYLGKLVFPRDFPF 68
RL+++ + L+ DP P + E + N I +W + G T YEG + F +PF
Sbjct: 26 RLQKELLALQNDPPPGMTLNEKSVQNSITQWIVDMEGAPGTLYEGEKFQLLFKFSSRYPF 85
Query: 69 KPPSIYMITPN----GRFKTNTRLCLSMSDFHPDTWNPAWSVSTILTGLLSFM 117
P + N +N +CLS+ + W+PA SV ++ ++S +
Sbjct: 86 DSPQVMFTGENIPVHPHVYSNGHICLSILT---EDWSPALSVQSVCLSIISML 135
>pdb|3O2U|A Chain A, S. Cerevisiae Ubc12
pdb|3O2U|B Chain B, S. Cerevisiae Ubc12
Length = 190
Score = 42.0 bits (97), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 36/125 (28%), Positives = 54/125 (43%), Gaps = 13/125 (10%)
Query: 7 GATARLKQDYMKLKKDPIPY--VIAEPNPANILE--WFYVVIGPENTQYEGGMYLGKLVF 62
A RLK+D L P VI P+ A+ + V++ P+ Y G L F
Sbjct: 29 AARIRLKRDLDSLDLPPTVTLNVITSPDSADRSQSPKLEVIVRPDEGYYNYGSINFNLDF 88
Query: 63 PRDFPFKPPSIYMIT----PNGRFKTNTRLCLSMSDFHPDTWNPAWSVSTILTGLLSFMV 118
+P +PP + + PN K N L + D W+PA + +I+TGLL +
Sbjct: 89 NEVYPIEPPKVVCLKKIFHPNIDLKGNVCLNILRED-----WSPALDLQSIITGLLFLFL 143
Query: 119 ERSPT 123
E +P
Sbjct: 144 EPNPN 148
>pdb|2Y9O|A Chain A, Pex4p-Pex22p Mutant I Structure
Length = 172
Score = 41.2 bits (95), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 32/126 (25%), Positives = 57/126 (45%), Gaps = 18/126 (14%)
Query: 10 ARLKQDYMKLKK-----DPI--PY--VIAEPNP---ANILEWFYVVIGPENTQYEGGMYL 57
+R+ ++Y + K DPI PY +I NP ++ +W ++ GP +T YE +
Sbjct: 9 SRIVKEYKVILKTLASDDPIANPYRGIIESLNPIDETDLSKWEAIISGPSDTPYENHQFR 68
Query: 58 GKLVFPRDFPFKPPSIYMITPN---GRFKTNT-RLCLSMSDFHPDTWNPAWSVSTILTGL 113
+ P +P PP I + N K+ T +CL++ P+ W P W + + +
Sbjct: 69 ILIEVPSSYPMNPPKISFMQNNILHSNVKSATGEICLNI--LKPEEWTPVWDLLHCVHAV 126
Query: 114 LSFMVE 119
+ E
Sbjct: 127 WRLLRE 132
>pdb|2Y9P|A Chain A, Pex4p-Pex22p Mutant Ii Structure
Length = 172
Score = 40.8 bits (94), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 32/126 (25%), Positives = 57/126 (45%), Gaps = 18/126 (14%)
Query: 10 ARLKQDYMKLKK-----DPI--PY--VIAEPNP---ANILEWFYVVIGPENTQYEGGMYL 57
+R+ ++Y + K DPI PY +I NP ++ +W ++ GP +T YE +
Sbjct: 9 SRIVKEYKVILKTLASDDPIANPYRGIIESLNPIDETDLSKWEAIISGPSDTPYENHQFR 68
Query: 58 GKLVFPRDFPFKPPSIYMITPN---GRFKTNT-RLCLSMSDFHPDTWNPAWSVSTILTGL 113
+ P +P PP I + N K+ T +CL++ P+ W P W + + +
Sbjct: 69 ILIEVPSSYPMNPPKISFMQNNILHCNVKSATGEICLNI--LKPEEWTPVWDLLHCVHAV 126
Query: 114 LSFMVE 119
+ E
Sbjct: 127 WRLLRE 132
>pdb|2Y9M|A Chain A, Pex4p-Pex22p Structure
Length = 172
Score = 40.8 bits (94), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 32/126 (25%), Positives = 57/126 (45%), Gaps = 18/126 (14%)
Query: 10 ARLKQDYMKLKK-----DPI--PY--VIAEPNP---ANILEWFYVVIGPENTQYEGGMYL 57
+R+ ++Y + K DPI PY +I NP ++ +W ++ GP +T YE +
Sbjct: 9 SRIVKEYKVILKTLASDDPIANPYRGIIESLNPIDETDLSKWEAIISGPSDTPYENHQFR 68
Query: 58 GKLVFPRDFPFKPPSIYMITPN---GRFKTNT-RLCLSMSDFHPDTWNPAWSVSTILTGL 113
+ P +P PP I + N K+ T +CL++ P+ W P W + + +
Sbjct: 69 ILIEVPSSYPMNPPKISFMQNNILHCNVKSATGEICLNI--LKPEEWTPVWDLLHCVHAV 126
Query: 114 LSFMVE 119
+ E
Sbjct: 127 WRLLRE 132
>pdb|3CEG|A Chain A, Crystal Structure Of The Ubc Domain Of Baculoviral Iap
Repeat- Containing Protein 6
pdb|3CEG|B Chain B, Crystal Structure Of The Ubc Domain Of Baculoviral Iap
Repeat- Containing Protein 6
Length = 323
Score = 40.4 bits (93), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 27/87 (31%), Positives = 44/87 (50%), Gaps = 13/87 (14%)
Query: 42 VVIGPENTQYEGGMYLGKLVFPRDFPFKPPSIYMITPNG---RFKTN----TRLCLS-MS 93
++ GP +T Y G + + FP+D+P PP + + T G RF N ++CLS ++
Sbjct: 115 LITGPADTPYANGCFEFDVYFPQDYPSSPPLVNLETTGGHSVRFNPNLYNDGKVCLSILN 174
Query: 94 DFH---PDTWNPAWSVSTILTGLLSFM 117
+H + WNP S+ L L+S
Sbjct: 175 TWHGRPEEKWNP--QTSSFLQVLVSVQ 199
>pdb|2ONU|A Chain A, Plasmodium Falciparum Ubiquitin Conjugating Enzyme
Pf10_0330, Putative Homologue Of Human Ube2h
Length = 152
Score = 39.7 bits (91), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 24/74 (32%), Positives = 36/74 (48%), Gaps = 8/74 (10%)
Query: 45 GPENTQYEGGMYLGKLVFPRDFPFKPPSI----YMITPNGRFKTNTRLCLSMSDFHPDTW 100
GP T YEGG++ + P D+PF PSI ++ PN + + +CL D TW
Sbjct: 37 GPNGTAYEGGIWKVHVTLPDDYPFASPSIGFMNKLLHPNVD-EASGSVCL---DVINQTW 92
Query: 101 NPAWSVSTILTGLL 114
P +S+ + L
Sbjct: 93 TPLYSLVNVFEVFL 106
>pdb|2NWQ|A Chain A, Short Chain Dehydrogenase From Pseudomonas Aeruginosa
pdb|2NWQ|B Chain B, Short Chain Dehydrogenase From Pseudomonas Aeruginosa
pdb|2NWQ|C Chain C, Short Chain Dehydrogenase From Pseudomonas Aeruginosa
pdb|2NWQ|D Chain D, Short Chain Dehydrogenase From Pseudomonas Aeruginosa
Length = 272
Score = 38.1 bits (87), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 23/74 (31%), Positives = 41/74 (55%), Gaps = 4/74 (5%)
Query: 143 RFNLNDKNFCELFPDLVQSISPGLVKSQIFKSSLGD---KFDKSLYEAHPCLQAEDIANT 199
+F+LN + + V ++ PGL +S+ G ++DK+ AHP +Q EDIA T
Sbjct: 180 QFSLNLRCDLQGTGVRVTNLEPGLCESEFSLVRFGGDQARYDKTYAGAHP-IQPEDIAET 238
Query: 200 VEFILSSPPHVQVS 213
+ +I + P H+ ++
Sbjct: 239 IFWIXNQPAHLNIN 252
>pdb|2Z5D|A Chain A, Human Ubiquitin-Conjugating Enzyme E2 H
pdb|2Z5D|B Chain B, Human Ubiquitin-Conjugating Enzyme E2 H
Length = 179
Score = 37.4 bits (85), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 23/74 (31%), Positives = 37/74 (50%), Gaps = 8/74 (10%)
Query: 45 GPENTQYEGGMYLGKLVFPRDFPFKPPSIYMIT----PNGRFKTNTRLCLSMSDFHPDTW 100
GP+ T YEGG++ ++ P +PFK PSI + PN + T +CL + + TW
Sbjct: 59 GPQGTPYEGGVWKVRVDLPDKYPFKSPSIGFMNKIFHPNIDEASGT-VCLDVIN---QTW 114
Query: 101 NPAWSVSTILTGLL 114
+ ++ I L
Sbjct: 115 TALYDLTNIFESFL 128
>pdb|3FN1|B Chain B, E2-Ring Expansion Of The Nedd8 Cascade Confers Specificity
To Cullin Modification
Length = 167
Score = 34.3 bits (77), Expect = 0.049, Method: Compositional matrix adjust.
Identities = 26/100 (26%), Positives = 43/100 (43%), Gaps = 17/100 (17%)
Query: 31 PNPANILEWFYVVIGPENTQYEGGMYLGKLVFPRDFPFKPPSIYMIT----PNGRFKTNT 86
P+P N L F + + P+ Y+GG + + P + PP + +T PN
Sbjct: 39 PDP-NKLHCFQLTVTPDEGYYQGGKFQFETEVPDAYNMVPPKVKCLTKIWHPN--ITETG 95
Query: 87 RLCLSMSDFHP---DTWNPA-------WSVSTILTGLLSF 116
+CLS+ H W P W ++++ T LL+F
Sbjct: 96 EICLSLLREHSIDGTGWAPTRTLKDVVWGLNSLFTDLLNF 135
>pdb|1JAT|B Chain B, Mms2UBC13 UBIQUITIN CONJUGATING ENZYME COMPLEX
Length = 138
Score = 33.9 bits (76), Expect = 0.061, Method: Compositional matrix adjust.
Identities = 21/94 (22%), Positives = 42/94 (44%), Gaps = 1/94 (1%)
Query: 26 YVIAEPNPANILEWFYVVIGPENTQYEGGMYLGKLVFPRDFPFKPPSIYMITPNGRFKTN 85
Y +A+ + + +W ++GP ++ +E +Y + ++P PP + I+ N
Sbjct: 29 YGLADSDDITMTKWNGTILGPPHSNHENRIYSLSIDCGPNYPDSPPKVTFISKINLPCVN 88
Query: 86 TRLCLSMSDFHP-DTWNPAWSVSTILTGLLSFMV 118
+DFH W A+++ T+L L M
Sbjct: 89 PTTGEVQTDFHTLRDWKRAYTMETLLLDLRKEMA 122
>pdb|2EDI|A Chain A, Solution Structure Of The Uq_con Domain From Human Nedd8-
Conjugating Enzyme Nce2
Length = 173
Score = 33.9 bits (76), Expect = 0.062, Method: Compositional matrix adjust.
Identities = 26/100 (26%), Positives = 43/100 (43%), Gaps = 17/100 (17%)
Query: 31 PNPANILEWFYVVIGPENTQYEGGMYLGKLVFPRDFPFKPPSIYMIT----PNGRFKTNT 86
P+P N L F + + P+ Y+GG + + P + PP + +T PN
Sbjct: 39 PDP-NKLHCFQLTVTPDEGYYQGGKFQFETEVPDAYNMVPPKVKCLTKIWHPN--ITETG 95
Query: 87 RLCLSMSDFHP---DTWNP-------AWSVSTILTGLLSF 116
+CLS+ H W P W ++++ T LL+F
Sbjct: 96 EICLSLLREHSIDGTGWAPTRTLKDVVWGLNSLFTDLLNF 135
>pdb|2GMI|B Chain B, Mms2UBC13~UBIQUITIN
Length = 137
Score = 33.9 bits (76), Expect = 0.066, Method: Compositional matrix adjust.
Identities = 21/94 (22%), Positives = 42/94 (44%), Gaps = 1/94 (1%)
Query: 26 YVIAEPNPANILEWFYVVIGPENTQYEGGMYLGKLVFPRDFPFKPPSIYMITPNGRFKTN 85
Y +A+ + + +W ++GP ++ +E +Y + ++P PP + I+ N
Sbjct: 28 YGLADSDDITMTKWNGTILGPPHSNHENRIYSLSIDCGPNYPDSPPKVTFISKINLPCVN 87
Query: 86 TRLCLSMSDFHP-DTWNPAWSVSTILTGLLSFMV 118
+DFH W A+++ T+L L M
Sbjct: 88 PTTGEVQTDFHTLRDWKRAYTMETLLLDLRKEMA 121
>pdb|1ZGU|A Chain A, Solution Structure Of The Human Mms2-Ubiquitin Complex
Length = 139
Score = 32.7 bits (73), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 21/87 (24%), Positives = 37/87 (42%), Gaps = 2/87 (2%)
Query: 36 ILEWFYVVIGPENTQYEGGMYLGKLVFPRDFPFKPPSIYMITPNGRFKTNTRLCLSMSDF 95
+ W ++IGP T YE +Y K+ +P PPS+ +T N + +
Sbjct: 37 LTRWTGMIIGPPRTNYENRIYSLKVECGPKYPEAPPSVRFVTKINMNGINNSSGMVDARS 96
Query: 96 HP--DTWNPAWSVSTILTGLLSFMVER 120
P W ++S+ +L L M+ +
Sbjct: 97 IPVLAKWQNSYSIKVVLQELRRLMMSK 123
>pdb|1J74|A Chain A, Crystal Structure Of Mms2
pdb|1J7D|A Chain A, Crystal Structure Of Hmms2-Hubc13
Length = 145
Score = 32.7 bits (73), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 21/87 (24%), Positives = 37/87 (42%), Gaps = 2/87 (2%)
Query: 36 ILEWFYVVIGPENTQYEGGMYLGKLVFPRDFPFKPPSIYMITPNGRFKTNTRLCLSMSDF 95
+ W ++IGP T YE +Y K+ +P PPS+ +T N + +
Sbjct: 43 LTRWTGMIIGPPRTNYENRIYSLKVECGPKYPEAPPSVRFVTKINMNGINNSSGMVDARS 102
Query: 96 HP--DTWNPAWSVSTILTGLLSFMVER 120
P W ++S+ +L L M+ +
Sbjct: 103 IPVLAKWQNSYSIKVVLQELRRLMMSK 129
>pdb|3VON|B Chain B, Crystalstructure Of The Ubiquitin Protease
pdb|3VON|D Chain D, Crystalstructure Of The Ubiquitin Protease
pdb|3VON|F Chain F, Crystalstructure Of The Ubiquitin Protease
pdb|3VON|I Chain I, Crystalstructure Of The Ubiquitin Protease
pdb|3VON|K Chain K, Crystalstructure Of The Ubiquitin Protease
pdb|3VON|M Chain M, Crystalstructure Of The Ubiquitin Protease
pdb|3VON|P Chain P, Crystalstructure Of The Ubiquitin Protease
pdb|3VON|R Chain R, Crystalstructure Of The Ubiquitin Protease
pdb|3VON|T Chain T, Crystalstructure Of The Ubiquitin Protease
pdb|3VON|W Chain W, Crystalstructure Of The Ubiquitin Protease
pdb|3VON|Y Chain Y, Crystalstructure Of The Ubiquitin Protease
pdb|3VON|AA Chain a, Crystalstructure Of The Ubiquitin Protease
pdb|3VON|DD Chain d, Crystalstructure Of The Ubiquitin Protease
pdb|3VON|FF Chain f, Crystalstructure Of The Ubiquitin Protease
pdb|3VON|HH Chain h, Crystalstructure Of The Ubiquitin Protease
pdb|3VON|KK Chain k, Crystalstructure Of The Ubiquitin Protease
pdb|3VON|MM Chain m, Crystalstructure Of The Ubiquitin Protease
pdb|3VON|OO Chain o, Crystalstructure Of The Ubiquitin Protease
Length = 138
Score = 32.7 bits (73), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 21/87 (24%), Positives = 37/87 (42%), Gaps = 2/87 (2%)
Query: 36 ILEWFYVVIGPENTQYEGGMYLGKLVFPRDFPFKPPSIYMITPNGRFKTNTRLCLSMSDF 95
+ W ++IGP T YE +Y K+ +P PPS+ +T N + +
Sbjct: 38 LTRWTGMIIGPPRTNYENRIYSLKVECGPKYPEAPPSVRFVTKINMNGINNSSGMVDARS 97
Query: 96 HP--DTWNPAWSVSTILTGLLSFMVER 120
P W ++S+ +L L M+ +
Sbjct: 98 IPVLAKWQNSYSIKVVLQELRRLMMSK 124
>pdb|4EPO|A Chain A, Crystal Structure Of Rnf8 Bound To The Ubc13MMS2
HETERODIMER
pdb|4EPO|E Chain E, Crystal Structure Of Rnf8 Bound To The Ubc13MMS2
HETERODIMER
pdb|4EPO|I Chain I, Crystal Structure Of Rnf8 Bound To The Ubc13MMS2
HETERODIMER
Length = 149
Score = 32.7 bits (73), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 21/87 (24%), Positives = 37/87 (42%), Gaps = 2/87 (2%)
Query: 36 ILEWFYVVIGPENTQYEGGMYLGKLVFPRDFPFKPPSIYMITPNGRFKTNTRLCLSMSDF 95
+ W ++IGP T YE +Y K+ +P PPS+ +T N + +
Sbjct: 48 LTRWTGMIIGPPRTNYENRIYSLKVECGPKYPEAPPSVRFVTKINMNGINNSSGMVDARS 107
Query: 96 HP--DTWNPAWSVSTILTGLLSFMVER 120
P W ++S+ +L L M+ +
Sbjct: 108 IPVLAKWQNSYSIKVVLQELRRLMMSK 134
>pdb|4DS2|A Chain A, Ubiquitin Conjugating Enzyme (Putative) From Trypanosoma
Cruzi
pdb|4DS2|B Chain B, Ubiquitin Conjugating Enzyme (Putative) From Trypanosoma
Cruzi
Length = 167
Score = 32.0 bits (71), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 21/83 (25%), Positives = 36/83 (43%), Gaps = 7/83 (8%)
Query: 36 ILEWFYVVIGPENTQY--EGGMYLGKLVFPRDFPFKPPSIYMITP--NGRFKTNTRLCLS 91
I W V P ++ Y G Y ++F D+P +PP++ +TP + +C
Sbjct: 49 IYNWILKVKAPADSVYGGAGNTYQLSVLFSDDYPHEPPTVRFVTPVYSPLVTGEGGICDR 108
Query: 92 MSDFHPDTWNPAWSVSTILTGLL 114
M + D W P S ++ +L
Sbjct: 109 MVN---DFWTPDQHASDVIKLVL 128
>pdb|4AEI|H Chain H, Crystal Structure Of The Aahii-Fab4c1 Complex
pdb|4AEI|I Chain I, Crystal Structure Of The Aahii-Fab4c1 Complex
pdb|4AEI|J Chain J, Crystal Structure Of The Aahii-Fab4c1 Complex
Length = 229
Score = 31.6 bits (70), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 20/81 (24%), Positives = 38/81 (46%), Gaps = 4/81 (4%)
Query: 40 FYVVIGPENTQYEGGMYLGK--LVFPRDFPFKPPSIYMITPNGRFKTNTRLCLS--MSDF 95
Y P++ Y+G Y G+ LV PPS+Y + P +TN+ + L + +
Sbjct: 93 MYYCSRPDDYSYDGFAYWGQGTLVTVSAAKTTPPSVYPLAPGSAAQTNSMVTLGCLVKGY 152
Query: 96 HPDTWNPAWSVSTILTGLLSF 116
P+ W+ ++ +G+ +F
Sbjct: 153 FPEPVTVTWNSGSLSSGVHTF 173
>pdb|1ZUO|A Chain A, Structure Of Human Ubiquitin-Conjugating Enzyme (Ubci)
Involved In Embryo Attachment And Implantation
pdb|1ZUO|B Chain B, Structure Of Human Ubiquitin-Conjugating Enzyme (Ubci)
Involved In Embryo Attachment And Implantation
Length = 186
Score = 30.4 bits (67), Expect = 0.79, Method: Compositional matrix adjust.
Identities = 19/88 (21%), Positives = 37/88 (42%), Gaps = 16/88 (18%)
Query: 62 FPRDFPFKPPSIYMITP---NGRFKTNTRLCLSMSDFHPDTWNPAWSVSTILTGLLSFMV 118
F +FPF PP + ++ P G LC+ + W+ A+S+ +++ + + +V
Sbjct: 97 FKDNFPFDPPFVRVVLPVLSGGYVLGGGALCMEL--LTKQGWSSAYSIESVIMQINATLV 154
Query: 119 ERSPTLGSIEMSDYERRQLAARSLRFNL 146
+ R Q A ++NL
Sbjct: 155 KGKA-----------RVQFGANKNQYNL 171
>pdb|2QGX|A Chain A, Ubiquitin-Conjugating Enzyme E2q
pdb|2QGX|B Chain B, Ubiquitin-Conjugating Enzyme E2q
pdb|2QGX|C Chain C, Ubiquitin-Conjugating Enzyme E2q
pdb|2QGX|D Chain D, Ubiquitin-Conjugating Enzyme E2q
Length = 169
Score = 30.0 bits (66), Expect = 0.86, Method: Compositional matrix adjust.
Identities = 13/61 (21%), Positives = 31/61 (50%), Gaps = 5/61 (8%)
Query: 62 FPRDFPFKPPSIYMITP---NGRFKTNTRLCLSMSDFHPDTWNPAWSVSTILTGLLSFMV 118
F +FPF PP + +++P G +C+ + W+ A+S+ +++ + + +V
Sbjct: 76 FKDNFPFDPPFVRVVSPVLSGGYVLGGGAICMEL--LTKQGWSSAYSIESVIMQISATLV 133
Query: 119 E 119
+
Sbjct: 134 K 134
>pdb|2J4W|H Chain H, Structure Of A Plasmodium Vivax Apical Membrane Antigen 1-
Fab F8.12.19 Complex
pdb|2J5L|C Chain C, Structure Of A Plasmodium Falciparum Apical Membrane
Antigen 1-Fab F8.12.19 Complex
Length = 225
Score = 30.0 bits (66), Expect = 0.89, Method: Compositional matrix adjust.
Identities = 19/77 (24%), Positives = 36/77 (46%), Gaps = 5/77 (6%)
Query: 45 GPENTQYEGGMYL---GKLVFPRDFPFKPPSIYMITPNGRFKTNTRLCLS--MSDFHPDT 99
GP ++ GG G LV + PPS+Y + P +TN+ + L + + P+
Sbjct: 100 GPTDSSGYGGFGYWGQGTLVTVSEAKTTPPSVYPLAPGSAAQTNSMVTLGCLVKGYFPEP 159
Query: 100 WNPAWSVSTILTGLLSF 116
W+ ++ +G+ +F
Sbjct: 160 VTVTWNSGSLSSGVHTF 176
>pdb|2R69|H Chain H, Crystal Structure Of Fab 1a1d-2 Complexed With E-Diii Of
Dengue Virus At 3.8 Angstrom Resolution
Length = 214
Score = 29.6 bits (65), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 17/68 (25%), Positives = 31/68 (45%), Gaps = 2/68 (2%)
Query: 51 YEGGMYLGK--LVFPRDFPFKPPSIYMITPNGRFKTNTRLCLSMSDFHPDTWNPAWSVST 108
YEG Y G+ LV PPS+Y + P ++ L + + P+ W+ +
Sbjct: 100 YEGFAYWGQGTLVTVSSAKTTPPSVYPLAPGAATSSSVTLGCLVKGYFPEPVTLTWNSGS 159
Query: 109 ILTGLLSF 116
+ +G+ +F
Sbjct: 160 LSSGVHTF 167
>pdb|3MSH|A Chain A, Crystal Structure Of Hepatitis B X-Interacting Protein
At High Resolution
Length = 99
Score = 29.3 bits (64), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 15/39 (38%), Positives = 20/39 (51%), Gaps = 2/39 (5%)
Query: 1 MSSKHCGATARLKQDYMKLKKDP--IPYVIAEPNPANIL 37
+S +H G + L Q KL DP IP V E + NI+
Sbjct: 37 LSDEHAGVISVLAQQAAKLTSDPTDIPVVCLESDNGNIM 75
>pdb|2R29|H Chain H, Neutralization Of Dengue Virus By A Serotype
Cross-Reactive Antibody Elucidated By Cryoelectron
Microscopy And X-Ray Crystallography
pdb|2R6P|D Chain D, Fit Of E Protein And Fab 1a1d-2 Into 24 Angstrom
Resolution Cryoem Map Of Fab Complexed With Dengue 2
Virus.
pdb|2R6P|F Chain F, Fit Of E Protein And Fab 1a1d-2 Into 24 Angstrom
Resolution Cryoem Map Of Fab Complexed With Dengue 2
Virus
Length = 216
Score = 28.9 bits (63), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 18/70 (25%), Positives = 33/70 (47%), Gaps = 4/70 (5%)
Query: 51 YEGGMYLGK--LVFPRDFPFKPPSIYMITPNGRFKTNTRLCLS--MSDFHPDTWNPAWSV 106
YEG Y G+ LV PPS+Y + P T++ + L + + P+ W+
Sbjct: 100 YEGFAYWGQGTLVTVSSAKTTPPSVYPLAPGAAAATSSSVTLGCLVKGYFPEPVTLTWNS 159
Query: 107 STILTGLLSF 116
++ +G+ +F
Sbjct: 160 GSLSSGVHTF 169
>pdb|3OKD|B Chain B, Crystal Structure Of S25-39 In Complex With Kdo
pdb|3OKE|B Chain B, Crystal Structure Of S25-39 In Complex With Ko
Length = 222
Score = 28.9 bits (63), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 16/61 (26%), Positives = 29/61 (47%), Gaps = 2/61 (3%)
Query: 58 GKLVFPRDFPFKPPSIYMITPNGRFKTNTRLCLS--MSDFHPDTWNPAWSVSTILTGLLS 115
G LV PPS+Y + P +TN+ + L + + P+ W+ ++ TG+ +
Sbjct: 115 GTLVTVSAAATTPPSVYPLAPGSAAQTNSMVTLGCLVKGYFPEPVTVTWNSGSLSTGVHT 174
Query: 116 F 116
F
Sbjct: 175 F 175
>pdb|3OKK|B Chain B, Crystal Structure Of S25-39 In Complex With Kdo(2.4)kdo
pdb|3OKL|B Chain B, Crystal Structure Of S25-39 In Complex With Kdo(2.8)kdo
pdb|3OKM|B Chain B, Crystal Structure Of Unliganded S25-39
pdb|3OKN|B Chain B, Crystal Structure Of S25-39 In Complex With
Kdo(2.4)kdo(2.4)kdo
pdb|3OKO|B Chain B, Crystal Structure Of S25-39 In Complex With
Kdo(2.8)kdo(2.4)kdo
Length = 222
Score = 28.9 bits (63), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 16/61 (26%), Positives = 29/61 (47%), Gaps = 2/61 (3%)
Query: 58 GKLVFPRDFPFKPPSIYMITPNGRFKTNTRLCLS--MSDFHPDTWNPAWSVSTILTGLLS 115
G LV PPS+Y + P +TN+ + L + + P+ W+ ++ TG+ +
Sbjct: 115 GTLVTVSAAATTPPSVYPLAPGSAAQTNSMVTLGCLVKGYFPEPVTVTWNSGSLSTGVHT 174
Query: 116 F 116
F
Sbjct: 175 F 175
>pdb|3KJ4|H Chain H, Structure Of Rat Nogo Receptor Bound To 1d9 Antagonist
Antibody
pdb|3KJ4|C Chain C, Structure Of Rat Nogo Receptor Bound To 1d9 Antagonist
Antibody
Length = 220
Score = 28.9 bits (63), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 18/72 (25%), Positives = 33/72 (45%), Gaps = 6/72 (8%)
Query: 51 YEGGMYL----GKLVFPRDFPFKPPSIYMITPNGRFKTNTRLCLS--MSDFHPDTWNPAW 104
YEG + G LV PPS+Y + P +TN+ + L + + P+ W
Sbjct: 102 YEGAWFAYWGQGTLVTVSAAKTTPPSVYPLAPGSAAQTNSMVTLGCLVKGYFPEPVTVTW 161
Query: 105 SVSTILTGLLSF 116
+ ++ +G+ +F
Sbjct: 162 NSGSLSSGVHTF 173
>pdb|1A3L|H Chain H, Catalysis Of A Disfavored Reaction: An Antibody Exo Diels-
Alderase-Tsa-Inhibitor Complex At 1.95 A Resolution
pdb|1RUQ|H Chain H, Crystal Structure (H) Of U.V.-Irradiated Diels-Alder
Antibody 13g5 Fab At Ph 8.0 With A Data Set Collected In
House.
pdb|1RUR|H Chain H, Crystal Structure (i) Of Native Diels-alder Antibody 13g5
Fab At Ph 8.0 With A Data Set Collected At Ssrl Beamline
9- 1
Length = 218
Score = 28.5 bits (62), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 18/70 (25%), Positives = 33/70 (47%), Gaps = 4/70 (5%)
Query: 51 YEGGMYLGK--LVFPRDFPFKPPSIYMITPNGRFKTNTRLCLS--MSDFHPDTWNPAWSV 106
Y GG Y G+ V PPS+Y + P +TN+ + L + + P+ W+
Sbjct: 103 YTGGDYWGQGTSVTVSSAKTTPPSVYPLAPGSAAQTNSMVTLGCLVKGYFPEPVTVTWNS 162
Query: 107 STILTGLLSF 116
++ +G+ +F
Sbjct: 163 GSLSSGVHTF 172
>pdb|2HLW|A Chain A, Solution Structure Of The Human Ubiquitin-Conjugating
Enzyme Variant Uev1a
Length = 170
Score = 28.5 bits (62), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 22/89 (24%), Positives = 40/89 (44%), Gaps = 6/89 (6%)
Query: 36 ILEWFYVVIGPENTQYEGGMYLGKLVFPRDFPFKPPSIYMITP---NGRFKTNTRLC-LS 91
+ W ++IGP T YE +Y K+ +P PP + +T NG +N + +
Sbjct: 68 LTRWTGMIIGPPRTIYENRIYSLKIECGPKYPEAPPFVRFVTKINMNGVNSSNGVVDPRA 127
Query: 92 MSDFHPDTWNPAWSVSTILTGLLSFMVER 120
+S W ++S+ +L L M+ +
Sbjct: 128 ISVLA--KWQNSYSIKVVLQELRRLMMSK 154
>pdb|1LOF|C Chain C, X-Ray Structure Of A Biantennary Octasaccharide-Lectin
Complex At 2.3 Angstroms Resolution
Length = 181
Score = 28.5 bits (62), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 22/80 (27%), Positives = 35/80 (43%), Gaps = 19/80 (23%)
Query: 26 YVIAEPNPANILEWFYVVIGPENTQ-YEGGMYLGKLVF-PRDFPFKPPSIYMITPNGRFK 83
+VI PN N+ + F I P +T+ GG YLG VF +D+ K
Sbjct: 69 FVIDAPNSYNVADGFTFFIAPVDTKPQTGGGYLG--VFNSKDYD---------------K 111
Query: 84 TNTRLCLSMSDFHPDTWNPA 103
T+ + + F+ W+P+
Sbjct: 112 TSQTVAVEFDTFYNTAWDPS 131
>pdb|3SGD|H Chain H, Crystal Structure Of The Mouse Mab 17.2
pdb|3SGD|J Chain J, Crystal Structure Of The Mouse Mab 17.2
pdb|3SGE|H Chain H, Crystal Structure Of Mab 17.2 In Complex With R13 Peptide
pdb|3SGE|J Chain J, Crystal Structure Of Mab 17.2 In Complex With R13 Peptide
Length = 217
Score = 28.5 bits (62), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 21/79 (26%), Positives = 36/79 (45%), Gaps = 8/79 (10%)
Query: 40 FYVVIGPENTQYEGGMYLGKLVFPRDFPFKPPSIYMITPNGRFKTNTRLCLS--MSDFHP 97
+Y V G T Y G G LV PPS+Y + P +TN+ + L + + P
Sbjct: 96 YYCVRG---TTYWG---QGTLVTVSAAKTTPPSVYPLAPGSAAQTNSMVTLGCLVKGYFP 149
Query: 98 DTWNPAWSVSTILTGLLSF 116
+ W+ ++ +G+ +F
Sbjct: 150 EPVTVTWNSGSLSSGVHTF 168
>pdb|1LOA|A Chain A, Three-Dimensional Structures Of Complexes Of Lathyrus
Ochrus Isolectin I With Glucose And Mannose: Fine
Specificity Of The Monosaccharide-Binding Site
pdb|1LOA|C Chain C, Three-Dimensional Structures Of Complexes Of Lathyrus
Ochrus Isolectin I With Glucose And Mannose: Fine
Specificity Of The Monosaccharide-Binding Site
pdb|1LOA|E Chain E, Three-Dimensional Structures Of Complexes Of Lathyrus
Ochrus Isolectin I With Glucose And Mannose: Fine
Specificity Of The Monosaccharide-Binding Site
pdb|1LOA|G Chain G, Three-Dimensional Structures Of Complexes Of Lathyrus
Ochrus Isolectin I With Glucose And Mannose: Fine
Specificity Of The Monosaccharide-Binding Site
pdb|1LOB|A Chain A, Three-Dimensional Structures Of Complexes Of Lathyrus
Ochrus Isolectin I With Glucose And Mannose: Fine
Specificity Of The Monosaccharide- Binding Site
pdb|1LOB|C Chain C, Three-Dimensional Structures Of Complexes Of Lathyrus
Ochrus Isolectin I With Glucose And Mannose: Fine
Specificity Of The Monosaccharide- Binding Site
pdb|1LOB|E Chain E, Three-Dimensional Structures Of Complexes Of Lathyrus
Ochrus Isolectin I With Glucose And Mannose: Fine
Specificity Of The Monosaccharide- Binding Site
pdb|1LOB|G Chain G, Three-Dimensional Structures Of Complexes Of Lathyrus
Ochrus Isolectin I With Glucose And Mannose: Fine
Specificity Of The Monosaccharide- Binding Site
pdb|1LOC|A Chain A, Interaction Of A Legume Lectin With Two Components Of The
Bacterial Cell Wall
pdb|1LOC|C Chain C, Interaction Of A Legume Lectin With Two Components Of The
Bacterial Cell Wall
pdb|1LOC|E Chain E, Interaction Of A Legume Lectin With Two Components Of The
Bacterial Cell Wall
pdb|1LOC|G Chain G, Interaction Of A Legume Lectin With Two Components Of The
Bacterial Cell Wall
pdb|1LOD|A Chain A, Interaction Of A Legume Lectin With Two Components Of The
Bacterial Cell Wall
pdb|1LOD|C Chain C, Interaction Of A Legume Lectin With Two Components Of The
Bacterial Cell Wall
pdb|1LOD|E Chain E, Interaction Of A Legume Lectin With Two Components Of The
Bacterial Cell Wall
pdb|1LOD|G Chain G, Interaction Of A Legume Lectin With Two Components Of The
Bacterial Cell Wall
pdb|1LOE|A Chain A, X-Ray Crystal Structure Determination And Refinement At
1.9 Angstroms Resolution Of Isolectin I From The Seeds
Of Lathyrus Ochrus
pdb|1LOE|C Chain C, X-Ray Crystal Structure Determination And Refinement At
1.9 Angstroms Resolution Of Isolectin I From The Seeds
Of Lathyrus Ochrus
pdb|1LOF|A Chain A, X-Ray Structure Of A Biantennary Octasaccharide-Lectin
Complex At 2.3 Angstroms Resolution
pdb|1LOG|A Chain A, X-Ray Structure Of A
(Alpha-Man(1-3)beta-Man(1-4)glcnac)-Lectin Complex At
2.1 Angstroms Resolution
pdb|1LOG|C Chain C, X-Ray Structure Of A
(Alpha-Man(1-3)beta-Man(1-4)glcnac)-Lectin Complex At
2.1 Angstroms Resolution
Length = 181
Score = 28.5 bits (62), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 22/80 (27%), Positives = 35/80 (43%), Gaps = 19/80 (23%)
Query: 26 YVIAEPNPANILEWFYVVIGPENTQ-YEGGMYLGKLVF-PRDFPFKPPSIYMITPNGRFK 83
+VI PN N+ + F I P +T+ GG YLG VF +D+ K
Sbjct: 69 FVIDAPNSYNVADGFTFFIAPVDTKPQTGGGYLG--VFNSKDYD---------------K 111
Query: 84 TNTRLCLSMSDFHPDTWNPA 103
T+ + + F+ W+P+
Sbjct: 112 TSQTVAVEFDTFYNTAWDPS 131
>pdb|4AT6|A Chain A, Fab Fragment Of Antiporphyrin Antibody 14h7
pdb|4AT6|C Chain C, Fab Fragment Of Antiporphyrin Antibody 14h7
pdb|4AT6|E Chain E, Fab Fragment Of Antiporphyrin Antibody 14h7
pdb|4AT6|G Chain G, Fab Fragment Of Antiporphyrin Antibody 14h7
pdb|4AT6|H Chain H, Fab Fragment Of Antiporphyrin Antibody 14h7
pdb|4AT6|J Chain J, Fab Fragment Of Antiporphyrin Antibody 14h7
pdb|4AT6|M Chain M, Fab Fragment Of Antiporphyrin Antibody 14h7
pdb|4AT6|O Chain O, Fab Fragment Of Antiporphyrin Antibody 14h7
Length = 217
Score = 28.1 bits (61), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 15/61 (24%), Positives = 29/61 (47%), Gaps = 2/61 (3%)
Query: 58 GKLVFPRDFPFKPPSIYMITPNGRFKTNTRLCLS--MSDFHPDTWNPAWSVSTILTGLLS 115
G LV PPS+Y + P +TN+ + L + + P+ W+ ++ +G+ +
Sbjct: 110 GTLVTVSSAKTTPPSVYPLAPGSAAQTNSMVTLGCLVKGYFPEPVTVTWNSGSLSSGVHT 169
Query: 116 F 116
F
Sbjct: 170 F 170
>pdb|1LGC|A Chain A, Interaction Of A Legume Lectin With The N2 Fragment Of
Human Lactotransferrin Or With The Isolated Biantennary
Glycopeptide: Role Of The Fucose Moiety
pdb|1LGC|C Chain C, Interaction Of A Legume Lectin With The N2 Fragment Of
Human Lactotransferrin Or With The Isolated Biantennary
Glycopeptide: Role Of The Fucose Moiety
pdb|1LGC|E Chain E, Interaction Of A Legume Lectin With The N2 Fragment Of
Human Lactotransferrin Or With The Isolated Biantennary
Glycopeptide: Role Of The Fucose Moiety
Length = 181
Score = 28.1 bits (61), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 22/80 (27%), Positives = 35/80 (43%), Gaps = 19/80 (23%)
Query: 26 YVIAEPNPANILEWFYVVIGPENTQ-YEGGMYLGKLVF-PRDFPFKPPSIYMITPNGRFK 83
+VI PN N+ + F I P +T+ GG YLG VF +D+ K
Sbjct: 69 FVIDAPNSYNVADGFTFFIAPVDTKPQTGGGYLG--VFNSKDYD---------------K 111
Query: 84 TNTRLCLSMSDFHPDTWNPA 103
T+ + + F+ W+P+
Sbjct: 112 TSQTVAVEFDTFYNTAWDPS 131
>pdb|1LGB|A Chain A, Interaction Of A Legume Lectin With The N2 Fragment Of
Human Lactotransferrin Or With The Isolated Biantennary
Glycopeptide: Role Of The Fucose Moiety
Length = 181
Score = 28.1 bits (61), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 22/80 (27%), Positives = 35/80 (43%), Gaps = 19/80 (23%)
Query: 26 YVIAEPNPANILEWFYVVIGPENTQ-YEGGMYLGKLVF-PRDFPFKPPSIYMITPNGRFK 83
+VI PN N+ + F I P +T+ GG YLG VF +D+ K
Sbjct: 69 FVIDAPNSYNVADGFTFFIAPVDTKPQTGGGYLG--VFNSKDYD---------------K 111
Query: 84 TNTRLCLSMSDFHPDTWNPA 103
T+ + + F+ W+P+
Sbjct: 112 TSQTVAVEFDTFYNTAWDPS 131
>pdb|3PHQ|B Chain B, Crystal Structure Of S64-4 In Complex With Kdo
Length = 222
Score = 28.1 bits (61), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 15/61 (24%), Positives = 29/61 (47%), Gaps = 2/61 (3%)
Query: 58 GKLVFPRDFPFKPPSIYMITPNGRFKTNTRLCLS--MSDFHPDTWNPAWSVSTILTGLLS 115
G LV PPS+Y + P +TN+ + L + + P+ W+ ++ +G+ +
Sbjct: 115 GTLVTVSAASITPPSVYPLAPGSAAQTNSMVTLGCLVKGYFPEPVTVTWNSGSLSSGVHT 174
Query: 116 F 116
F
Sbjct: 175 F 175
>pdb|3PHO|B Chain B, Crystal Structure Of S64-4 In Complex With Psbp
Length = 222
Score = 28.1 bits (61), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 15/61 (24%), Positives = 29/61 (47%), Gaps = 2/61 (3%)
Query: 58 GKLVFPRDFPFKPPSIYMITPNGRFKTNTRLCLS--MSDFHPDTWNPAWSVSTILTGLLS 115
G LV PPS+Y + P +TN+ + L + + P+ W+ ++ +G+ +
Sbjct: 115 GTLVTVSAASITPPSVYPLAPGSAAQTNSMVTLGCLVKGYFPEPVTVTWNSGSLSSGVHT 174
Query: 116 F 116
F
Sbjct: 175 F 175
>pdb|2XZQ|H Chain H, Crystal Structure Analysis Of The Anti-(4-Hydroxy-3-
Nitrophenyl)-Acetyl Murine Germline Monoclonal Antibody
Bbe6.12h3 Fab Fragment In Complex With A Phage Display
Derived Dodecapeptide Yqlrpnaetlrf
Length = 220
Score = 27.7 bits (60), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 18/73 (24%), Positives = 32/73 (43%), Gaps = 7/73 (9%)
Query: 51 YEGGMYL-----GKLVFPRDFPFKPPSIYMITPNGRFKTNTRLCLS--MSDFHPDTWNPA 103
Y GG Y G + PPS+Y + P +TN+ + L + + P+
Sbjct: 101 YYGGSYFDYWGQGTTLTVSSAKTTPPSVYPLAPGSAAQTNSMVTLGCLVKGYFPEPVTVV 160
Query: 104 WSVSTILTGLLSF 116
W+ +I +G+ +F
Sbjct: 161 WNSGSISSGVHTF 173
>pdb|3RVT|D Chain D, Structure Of 4c1 Fab In P212121 Space Group
pdb|3RVU|D Chain D, Structure Of 4c1 Fab In C2221 Space Group
pdb|3RVV|D Chain D, Crystal Structure Of Der F 1 Complexed With Fab 4c1
pdb|3RVW|D Chain D, Crystal Structure Of Der P 1 Complexed With Fab 4c1
pdb|3RVX|D Chain D, Crystal Structure Of Der P 1 Complexed With Fab 4c1
Length = 255
Score = 27.7 bits (60), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 19/73 (26%), Positives = 33/73 (45%), Gaps = 5/73 (6%)
Query: 46 PENTQYEGGMYLGKLVFPRDFPFKPPSIYMITPNGRFKTNTRLCLS--MSDFHPDTWNPA 103
PE Y G G LV PPS+Y + P +TN+ + L + + P+
Sbjct: 105 PERAPYWG---QGTLVTVSAAKTTPPSVYPLAPGSAAQTNSMVTLGCLVKGYFPEPVTVT 161
Query: 104 WSVSTILTGLLSF 116
W+ ++ +G+ +F
Sbjct: 162 WNSGSLSSGVHTF 174
>pdb|1OPG|H Chain H, Opg2 Fab Fragment
pdb|1BM3|H Chain H, Immunoglobulin Opg2 Fab-Peptide Complex
Length = 227
Score = 27.7 bits (60), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 18/76 (23%), Positives = 34/76 (44%), Gaps = 9/76 (11%)
Query: 50 QYEGGMYL-------GKLVFPRDFPFKPPSIYMITPNGRFKTNTRLCLS--MSDFHPDTW 100
+Y+GG Y G V PPS+Y + P +TN+ + L + + P+
Sbjct: 103 RYDGGNYYAMDHWGQGTSVTVSAAKTTPPSVYPLAPGSAAQTNSMVTLGCLVKGYFPEPV 162
Query: 101 NPAWSVSTILTGLLSF 116
W+ ++ +G+ +F
Sbjct: 163 TVTWNSGSLSSGVHTF 178
>pdb|1L7T|H Chain H, Crystal Structure Analysis Of The Anti-Testosterone Fab
Fragment
pdb|1VPO|H Chain H, Crystal Structure Analysis Of The Anti-testosterone Fab In
Complex With Testosterone
Length = 221
Score = 27.7 bits (60), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 15/61 (24%), Positives = 29/61 (47%), Gaps = 2/61 (3%)
Query: 58 GKLVFPRDFPFKPPSIYMITPNGRFKTNTRLCLS--MSDFHPDTWNPAWSVSTILTGLLS 115
G LV PPS+Y + P +TN+ + L + + P+ W+ ++ +G+ +
Sbjct: 111 GTLVTVSSAKTTPPSVYPLAPGSAAQTNSMVTLGCLVKGYFPEPVTVTWNSGSLSSGVHT 170
Query: 116 F 116
F
Sbjct: 171 F 171
>pdb|1F11|B Chain B, F124 Fab Fragment From A Monoclonal Anti-Pres2 Antibody
pdb|1F11|D Chain D, F124 Fab Fragment From A Monoclonal Anti-Pres2 Antibody
Length = 221
Score = 27.7 bits (60), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 15/61 (24%), Positives = 29/61 (47%), Gaps = 2/61 (3%)
Query: 58 GKLVFPRDFPFKPPSIYMITPNGRFKTNTRLCLS--MSDFHPDTWNPAWSVSTILTGLLS 115
G LV PPS+Y + P +TN+ + L + + P+ W+ ++ +G+ +
Sbjct: 112 GTLVTVSAAKTTPPSVYPLAPGSAAQTNSMVTLGCLVKGYFPEPVTVTWNSGSLSSGVHT 171
Query: 116 F 116
F
Sbjct: 172 F 172
>pdb|1CT8|B Chain B, Catalytic Antibody 7c8 Complex
pdb|1CT8|D Chain D, Catalytic Antibody 7c8 Complex
Length = 220
Score = 27.7 bits (60), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 18/69 (26%), Positives = 33/69 (47%), Gaps = 4/69 (5%)
Query: 52 EGGMYLGK--LVFPRDFPFKPPSIYMITPNGRFKTNTRLCLS--MSDFHPDTWNPAWSVS 107
EG Y G+ LV PPS+Y + P +TN+ + L + + P+ W+
Sbjct: 103 EGFAYWGQGTLVTVSAAKTTPPSVYPLAPGSAAQTNSMVTLGCLVKGYFPEPVTVTWNSG 162
Query: 108 TILTGLLSF 116
++ +G+ +F
Sbjct: 163 SLSSGVHTF 171
>pdb|2B2X|H Chain H, Vla1 Rdeltah I-Domain Complexed With A Quadruple Mutant Of
The Aqc2 Fab
pdb|2B2X|I Chain I, Vla1 Rdeltah I-Domain Complexed With A Quadruple Mutant Of
The Aqc2 Fab
Length = 226
Score = 27.7 bits (60), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 15/61 (24%), Positives = 29/61 (47%), Gaps = 2/61 (3%)
Query: 58 GKLVFPRDFPFKPPSIYMITPNGRFKTNTRLCLS--MSDFHPDTWNPAWSVSTILTGLLS 115
G LV PPS+Y + P +TN+ + L + + P+ W+ ++ +G+ +
Sbjct: 111 GTLVTVSSAKTTPPSVYPLAPGSAAQTNSMVTLGCLVKGYFPEPVTVTWNSGSLSSGVHT 170
Query: 116 F 116
F
Sbjct: 171 F 171
>pdb|2OZ4|H Chain H, Structural Plasticity In Igsf Domain 4 Of Icam-1 Mediates
Cell Surface Dimerization
Length = 214
Score = 27.7 bits (60), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 15/61 (24%), Positives = 29/61 (47%), Gaps = 2/61 (3%)
Query: 58 GKLVFPRDFPFKPPSIYMITPNGRFKTNTRLCLS--MSDFHPDTWNPAWSVSTILTGLLS 115
G LV PPS+Y + P +TN+ + L + + P+ W+ ++ +G+ +
Sbjct: 107 GTLVTVSAAKTTPPSVYPLAPGSAAQTNSMVTLGCLVKGYFPEPVTVTWNSGSLSSGVHT 166
Query: 116 F 116
F
Sbjct: 167 F 167
>pdb|1MF2|H Chain H, Anti Hiv1 Protease Fab Complex
pdb|1MF2|N Chain N, Anti Hiv1 Protease Fab Complex
pdb|2HRP|H Chain H, Antigen-Antibody Complex
pdb|2HRP|N Chain N, Antigen-Antibody Complex
Length = 226
Score = 27.3 bits (59), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 24/111 (21%), Positives = 45/111 (40%), Gaps = 20/111 (18%)
Query: 26 YVIAEPNPANILEWFYVVIGPENT------------QYEGGMYL------GKLVFPRDFP 67
+ I+ NP N L + E+T +Y+G Y+ G V
Sbjct: 68 FTISRDNPKNTLFLQMTSLRSEDTALYYCARSGGIERYDGTYYVMDYWGQGTSVTVSSAK 127
Query: 68 FKPPSIYMITPNGRFKTNTRLCLS--MSDFHPDTWNPAWSVSTILTGLLSF 116
PPS+Y + P +TN+ + L + + P+ W+ ++ +G+ +F
Sbjct: 128 TTPPSVYPLAPGSAAQTNSMVTLGCLVKGYFPEPVTVTWNSGSLSSGVHTF 178
>pdb|3S62|H Chain H, Structure Of Fab Fragment Of Malaria Transmission Blocking
Antibody 2a8 Against P. Vivax P25 Protein
Length = 216
Score = 27.3 bits (59), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 15/61 (24%), Positives = 29/61 (47%), Gaps = 2/61 (3%)
Query: 58 GKLVFPRDFPFKPPSIYMITPNGRFKTNTRLCLS--MSDFHPDTWNPAWSVSTILTGLLS 115
G LV PPS+Y + P +TN+ + L + + P+ W+ ++ +G+ +
Sbjct: 108 GTLVTVSAAKTTPPSVYPLAPGSAAQTNSMVTLGCLVKGYFPEPVTVTWNSGSLSSGVHT 167
Query: 116 F 116
F
Sbjct: 168 F 168
>pdb|3EOT|H Chain H, Crystal Structure Of Lac031, An Engineered Anti-Vla1 Fab
Length = 226
Score = 27.3 bits (59), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 15/61 (24%), Positives = 29/61 (47%), Gaps = 2/61 (3%)
Query: 58 GKLVFPRDFPFKPPSIYMITPNGRFKTNTRLCLS--MSDFHPDTWNPAWSVSTILTGLLS 115
G LV PPS+Y + P +TN+ + L + + P+ W+ ++ +G+ +
Sbjct: 111 GTLVTVSSAKTTPPSVYPLAPGSAAQTNSMVTLGCLVKGYFPEPVTVTWNSGSLSSGVHT 170
Query: 116 F 116
F
Sbjct: 171 F 171
>pdb|2UYL|B Chain B, Crystal Structure Of A Monoclonal Antibody Directed
Against An Antigenic Determinant Common To Ogawa And
Inaba Serotypes Of Vibrio Cholerae O1
pdb|2UYL|N Chain N, Crystal Structure Of A Monoclonal Antibody Directed
Against An Antigenic Determinant Common To Ogawa And
Inaba Serotypes Of Vibrio Cholerae O1
pdb|2UYL|W Chain W, Crystal Structure Of A Monoclonal Antibody Directed
Against An Antigenic Determinant Common To Ogawa And
Inaba Serotypes Of Vibrio Cholerae O1
pdb|2UYL|Y Chain Y, Crystal Structure Of A Monoclonal Antibody Directed
Against An Antigenic Determinant Common To Ogawa And
Inaba Serotypes Of Vibrio Cholerae O1
Length = 221
Score = 27.3 bits (59), Expect = 5.9, Method: Compositional matrix adjust.
Identities = 16/66 (24%), Positives = 30/66 (45%), Gaps = 2/66 (3%)
Query: 53 GGMYLGKLVFPRDFPFKPPSIYMITPNGRFKTNTRLCLS--MSDFHPDTWNPAWSVSTIL 110
G G LV PPS+Y + P +TN+ + L + + P+ W+ ++
Sbjct: 107 GNWGQGTLVTVSAAKTTPPSVYPLAPGSAAQTNSMVTLGCLVKGYFPEPVTVTWNSGSLS 166
Query: 111 TGLLSF 116
+G+ +F
Sbjct: 167 SGVHTF 172
>pdb|1DQD|H Chain H, Crystal Structure Of Fab Hgr-2 F6, A Competitive
Antagonist Of The Glucagon Receptor
Length = 222
Score = 27.3 bits (59), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 28/109 (25%), Positives = 45/109 (41%), Gaps = 16/109 (14%)
Query: 14 QDYMKLK----KDPIPYVIAEPNPANILEWFYVVIGPENTQYEGGMYLGKLVFPRDFPFK 69
Q Y++LK +D Y A P P Y GP Y G G V
Sbjct: 77 QYYLQLKSVTPEDTATYYCASP-PG------YYGSGPYAMDYWG---QGTSVTVSSAKTT 126
Query: 70 PPSIYMITPNGRFKTNTRLCLS--MSDFHPDTWNPAWSVSTILTGLLSF 116
PPS+Y + P +TN+ + L + + P+ W+ ++ +G+ +F
Sbjct: 127 PPSVYPLAPGSAAQTNSMVTLGCLVKGYFPEPVTVTWNSGSLSSGVHTF 175
>pdb|12E8|H Chain H, 2e8 Fab Fragment
pdb|12E8|P Chain P, 2e8 Fab Fragment
Length = 221
Score = 27.3 bits (59), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 15/61 (24%), Positives = 29/61 (47%), Gaps = 2/61 (3%)
Query: 58 GKLVFPRDFPFKPPSIYMITPNGRFKTNTRLCLS--MSDFHPDTWNPAWSVSTILTGLLS 115
G LV PPS+Y + P +TN+ + L + + P+ W+ ++ +G+ +
Sbjct: 113 GTLVTVSAAKTTPPSVYPLAPGSAAQTNSMVTLGCLVKGYFPEPVTVTWNSGSLSSGVHT 172
Query: 116 F 116
F
Sbjct: 173 F 173
>pdb|2C1O|B Chain B, Enaiihis Fab Fragment In The Free Form
pdb|2C1O|H Chain H, Enaiihis Fab Fragment In The Free Form
Length = 218
Score = 27.3 bits (59), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 17/69 (24%), Positives = 32/69 (46%), Gaps = 3/69 (4%)
Query: 51 YEGGMY-LGKLVFPRDFPFKPPSIYMITPNGRFKTNTRLCLS--MSDFHPDTWNPAWSVS 107
Y+G + G LV PPS+Y + P +TN+ + L + + P W+
Sbjct: 101 YDGAFWGQGTLVTVSAAKTTPPSVYPLAPGSAAQTNSMVTLGCLVKGYFPAPVTVTWNSG 160
Query: 108 TILTGLLSF 116
++ +G+ +F
Sbjct: 161 SLSSGVHTF 169
>pdb|3I2C|H Chain H, Crystal Structure Of Anti-Il-23 Antibody Cnto4088
Length = 222
Score = 27.3 bits (59), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 15/61 (24%), Positives = 29/61 (47%), Gaps = 2/61 (3%)
Query: 58 GKLVFPRDFPFKPPSIYMITPNGRFKTNTRLCLS--MSDFHPDTWNPAWSVSTILTGLLS 115
G LV PPS+Y + P +TN+ + L + + P+ W+ ++ +G+ +
Sbjct: 113 GTLVTVSAAKTTPPSVYPLAPGSAAQTNSMVTLGCLVKGYFPEPVTVTWNSGSLSSGVHT 172
Query: 116 F 116
F
Sbjct: 173 F 173
>pdb|1YED|H Chain H, Structure Of A Catalytic Antibody Igg2a Fab Fragment
(D2.4)
pdb|1YED|B Chain B, Structure Of A Catalytic Antibody Igg2a Fab Fragment
(D2.4)
Length = 226
Score = 27.3 bits (59), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 15/61 (24%), Positives = 29/61 (47%), Gaps = 2/61 (3%)
Query: 58 GKLVFPRDFPFKPPSIYMITPNGRFKTNTRLCLS--MSDFHPDTWNPAWSVSTILTGLLS 115
G LV PPS+Y + P +TN+ + L + + P+ W+ ++ +G+ +
Sbjct: 117 GTLVTVSSAKTTPPSVYPLAPGSAAQTNSMVTLGCLVKGYFPEPVTVTWNSGSLSSGVHT 176
Query: 116 F 116
F
Sbjct: 177 F 177
>pdb|2C1P|B Chain B, Fab-Fragment Of Enantioselective Antibody Complexed With
Finrozole
pdb|2C1P|H Chain H, Fab-Fragment Of Enantioselective Antibody Complexed With
Finrozole
Length = 217
Score = 27.3 bits (59), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 17/69 (24%), Positives = 32/69 (46%), Gaps = 3/69 (4%)
Query: 51 YEGGMY-LGKLVFPRDFPFKPPSIYMITPNGRFKTNTRLCLS--MSDFHPDTWNPAWSVS 107
Y+G + G LV PPS+Y + P +TN+ + L + + P W+
Sbjct: 100 YDGAFWGQGTLVTVSAAKTTPPSVYPLAPGSAAQTNSMVTLGCLVKGYFPAPVTVTWNSG 159
Query: 108 TILTGLLSF 116
++ +G+ +F
Sbjct: 160 SLSSGVHTF 168
>pdb|1I9I|H Chain H, Native Crystal Structure Of The Recombinant Monoclonal
Wild Type Anti-Testosterone Fab Fragment
pdb|1I9J|H Chain H, Testosterone Complex Structure Of The Recombinant
Monoclonal Wild Type Anti-Testosterone Fab Fragment
Length = 220
Score = 27.3 bits (59), Expect = 6.5, Method: Compositional matrix adjust.
Identities = 19/74 (25%), Positives = 34/74 (45%), Gaps = 4/74 (5%)
Query: 47 ENTQYEGGMYLGK--LVFPRDFPFKPPSIYMITPNGRFKTNTRLCLS--MSDFHPDTWNP 102
E Y G Y G+ LV PPS+Y + P +TN+ + L + + P+
Sbjct: 98 EYYGYVGLAYWGQGTLVTVSAAKTTPPSVYPLAPGSAAQTNSMVTLGCLVKGYFPEPVTV 157
Query: 103 AWSVSTILTGLLSF 116
W+ ++ +G+ +F
Sbjct: 158 TWNSGSLSSGVHTF 171
>pdb|1FIG|H Chain H, Routes To Catalysis: Structure Of A Catalytic Antibody And
Comparison With Its Natural Counterpart
Length = 216
Score = 27.3 bits (59), Expect = 6.5, Method: Compositional matrix adjust.
Identities = 15/61 (24%), Positives = 29/61 (47%), Gaps = 2/61 (3%)
Query: 58 GKLVFPRDFPFKPPSIYMITPNGRFKTNTRLCLS--MSDFHPDTWNPAWSVSTILTGLLS 115
G LV PPS+Y + P +TN+ + L + + P+ W+ ++ +G+ +
Sbjct: 112 GTLVTVSAAKTTPPSVYPLAPGSAAQTNSMVTLGCLVKGYFPEPVTVTWNSGSLSSGVHT 171
Query: 116 F 116
F
Sbjct: 172 F 172
>pdb|3FFD|A Chain A, Structure Of Parathyroid Hormone-Related Protein Complexed
To A Neutralizing Monoclonal Antibody
Length = 218
Score = 27.3 bits (59), Expect = 6.6, Method: Compositional matrix adjust.
Identities = 15/61 (24%), Positives = 29/61 (47%), Gaps = 2/61 (3%)
Query: 58 GKLVFPRDFPFKPPSIYMITPNGRFKTNTRLCLS--MSDFHPDTWNPAWSVSTILTGLLS 115
G LV PPS+Y + P +TN+ + L + + P+ W+ ++ +G+ +
Sbjct: 111 GTLVTVSAAKTTPPSVYPLAPGSAAQTNSMVTLGCLVKGYFPEPVTVTWNSGSLSSGVHT 170
Query: 116 F 116
F
Sbjct: 171 F 171
>pdb|2A4D|A Chain A, Structure Of The Human Ubiquitin-Conjugating Enzyme E2
Variant 1 (Uev- 1)
Length = 160
Score = 27.3 bits (59), Expect = 6.7, Method: Compositional matrix adjust.
Identities = 21/88 (23%), Positives = 37/88 (42%), Gaps = 4/88 (4%)
Query: 36 ILEWFYVVIGPENTQYEGGMYLGKLVFPRDFPFKPPSIYMITP---NGRFKTNTRLCLSM 92
+ W ++IGP T YE +Y K+ +P PP + +T NG +N +
Sbjct: 58 LTRWTGMIIGPPRTIYENRIYSLKIECGPKYPEAPPFVRFVTKINMNGVNSSNGVVDPRA 117
Query: 93 SDFHPDTWNPAWSVSTILTGLLSFMVER 120
W ++S+ +L L M+ +
Sbjct: 118 ISVLAK-WQNSYSIKVVLQELRRLMMSK 144
>pdb|1V7M|H Chain H, Human Thrombopoietin Functional Domain Complexed To
Neutralizing Antibody Tn1 Fab
pdb|1V7M|I Chain I, Human Thrombopoietin Functional Domain Complexed To
Neutralizing Antibody Tn1 Fab
pdb|1V7N|H Chain H, Human Thrombopoietin Functional Domain Complexed To
Neutralizing Antibody Tn1 Fab
pdb|1V7N|I Chain I, Human Thrombopoietin Functional Domain Complexed To
Neutralizing Antibody Tn1 Fab
pdb|1V7N|J Chain J, Human Thrombopoietin Functional Domain Complexed To
Neutralizing Antibody Tn1 Fab
pdb|1V7N|K Chain K, Human Thrombopoietin Functional Domain Complexed To
Neutralizing Antibody Tn1 Fab
pdb|2ZKH|H Chain H, Human Thrombopoietin Neutralizing Antibody Tn1 Fab
Length = 217
Score = 27.3 bits (59), Expect = 6.8, Method: Compositional matrix adjust.
Identities = 15/61 (24%), Positives = 29/61 (47%), Gaps = 2/61 (3%)
Query: 58 GKLVFPRDFPFKPPSIYMITPNGRFKTNTRLCLS--MSDFHPDTWNPAWSVSTILTGLLS 115
G LV PPS+Y + P +TN+ + L + + P+ W+ ++ +G+ +
Sbjct: 109 GTLVTVSAAKTTPPSVYPLAPGSAAQTNSMVTLGCLVKGYFPEPVTVTWNSGSLSSGVHT 168
Query: 116 F 116
F
Sbjct: 169 F 169
>pdb|1Z3G|H Chain H, Crystal Structure Of Complex Between Pvs25 And Fab
Fragment Of Malaria Transmission Blocking Antibody 2a8
pdb|1Z3G|I Chain I, Crystal Structure Of Complex Between Pvs25 And Fab
Fragment Of Malaria Transmission Blocking Antibody 2a8
Length = 216
Score = 27.3 bits (59), Expect = 7.0, Method: Compositional matrix adjust.
Identities = 15/61 (24%), Positives = 29/61 (47%), Gaps = 2/61 (3%)
Query: 58 GKLVFPRDFPFKPPSIYMITPNGRFKTNTRLCLS--MSDFHPDTWNPAWSVSTILTGLLS 115
G LV PPS+Y + P +TN+ + L + + P+ W+ ++ +G+ +
Sbjct: 108 GTLVTVSAAKTTPPSVYPLAPGSAAQTNSMVTLGCLVKGYFPEPVTVTWNSGSLSSGVHT 167
Query: 116 F 116
F
Sbjct: 168 F 168
>pdb|1Q9K|B Chain B, S25-2 Fab Unliganded 1
pdb|1Q9L|B Chain B, S25-2 Fab Unliganded 2
pdb|1Q9L|D Chain D, S25-2 Fab Unliganded 2
pdb|2R1W|B Chain B, Crystal Structure Of S25-2 Fab In Complex With Kdo
Analogues
pdb|2R1X|B Chain B, Crystal Structure Of S25-2 Fab In Complex With Kdo
Analogues
pdb|2R1Y|B Chain B, Crystal Structure Of S25-2 Fab In Complex With Kdo
Analogues
pdb|2R2B|B Chain B, Crystal Structure Of S25-2 Fab In Complex With Kdo
Analogues
pdb|2R2E|B Chain B, Crystal Structure Of S25-2 Fab In Complex With Kdo
Analogues
pdb|2R2H|B Chain B, Structure Of S25-2 In Complex With Ko
pdb|3BPC|B Chain B, Co-Crystal Structure Of S25-2 Fab In Complex With
5-Deoxy-4- Epi-2,3-Dehydro Kdo (4.8) Kdo
pdb|3SY0|B Chain B, S25-2- A(2-8)-A(2-4)kdo Trisaccharide Complex
pdb|3T4Y|B Chain B, S25-2- Kdo Monosaccharide Complex
pdb|3T65|B Chain B, S25-2- A(2-8)kdo Disaccharide Complex
pdb|4HGW|B Chain B, Crystal Structure Of S25-2 In Complex With A
5,6-dehydro-kdo Disaccharide
Length = 222
Score = 26.9 bits (58), Expect = 7.6, Method: Compositional matrix adjust.
Identities = 15/61 (24%), Positives = 29/61 (47%), Gaps = 2/61 (3%)
Query: 58 GKLVFPRDFPFKPPSIYMITPNGRFKTNTRLCLS--MSDFHPDTWNPAWSVSTILTGLLS 115
G LV PPS+Y + P +TN+ + L + + P+ W+ ++ +G+ +
Sbjct: 115 GTLVTVSAAKTTPPSVYPLAPGSAAQTNSMVTLGCLVKGYFPEPVTVTWNSGSLSSGVHT 174
Query: 116 F 116
F
Sbjct: 175 F 175
>pdb|6FAB|H Chain H, Three-Dimensional Structure Of Murine Anti-P-
Azophenylarsonate Fab 36-71. 1. X-Ray Crystallography,
Site-Directed Mutagenesis, And Modeling Of The Complex
With Hapten
Length = 222
Score = 26.9 bits (58), Expect = 7.6, Method: Compositional matrix adjust.
Identities = 17/76 (22%), Positives = 34/76 (44%), Gaps = 8/76 (10%)
Query: 49 TQYEGGMY------LGKLVFPRDFPFKPPSIYMITPNGRFKTNTRLCLS--MSDFHPDTW 100
++Y GG Y G + PPS+Y + P +TN+ + L + + P+
Sbjct: 99 SEYYGGSYKFDYWGQGTTLTVSSAKTTPPSVYPLAPGSAAQTNSMVTLGCLVKGYFPEPV 158
Query: 101 NPAWSVSTILTGLLSF 116
W+ ++ +G+ +F
Sbjct: 159 TVTWNSGSLSSGVHTF 174
>pdb|3CVH|H Chain H, How Tcr-Like Antibody Recognizes Mhc-Bound Peptide
pdb|3CVH|Q Chain Q, How Tcr-Like Antibody Recognizes Mhc-Bound Peptide
pdb|3CVI|H Chain H, How Tcr-Like Antibody Recognizes Mhc-Bound Peptide
Length = 219
Score = 26.9 bits (58), Expect = 7.7, Method: Compositional matrix adjust.
Identities = 15/61 (24%), Positives = 29/61 (47%), Gaps = 2/61 (3%)
Query: 58 GKLVFPRDFPFKPPSIYMITPNGRFKTNTRLCLS--MSDFHPDTWNPAWSVSTILTGLLS 115
G LV PPS+Y + P +TN+ + L + + P+ W+ ++ +G+ +
Sbjct: 113 GTLVTVSAAKTTPPSVYPLAPGSAAQTNSMVTLGCLVKGYFPEPVTVTWNSGSLSSGVHT 172
Query: 116 F 116
F
Sbjct: 173 F 173
>pdb|2VXT|H Chain H, Crystal Structure Of Human Il-18 Complexed To Murine
Reference Antibody 125-2h Fab
pdb|2VXU|H Chain H, Crystal Structure Of Murine Reference Antibody 125-2h Fab
Fragment
pdb|2VXU|I Chain I, Crystal Structure Of Murine Reference Antibody 125-2h Fab
Fragment
Length = 216
Score = 26.9 bits (58), Expect = 7.8, Method: Compositional matrix adjust.
Identities = 15/61 (24%), Positives = 29/61 (47%), Gaps = 2/61 (3%)
Query: 58 GKLVFPRDFPFKPPSIYMITPNGRFKTNTRLCLS--MSDFHPDTWNPAWSVSTILTGLLS 115
G LV PPS+Y + P +TN+ + L + + P+ W+ ++ +G+ +
Sbjct: 106 GTLVTVSAAKTTPPSVYPLAPGSAAQTNSMVTLGCLVKGYFPEPVTVTWNSGSLSSGVHT 165
Query: 116 F 116
F
Sbjct: 166 F 166
>pdb|2W9E|H Chain H, Structure Of Icsm 18 (Anti-Prp Therapeutic Antibody) Fab
Fragment Complexed With Human Prp Fragment 119-231
Length = 215
Score = 26.9 bits (58), Expect = 7.8, Method: Compositional matrix adjust.
Identities = 17/61 (27%), Positives = 29/61 (47%), Gaps = 3/61 (4%)
Query: 58 GKLVFPRDFPFKPPSIYMITPNGRFKTN--TRLCLSMSDFHPDTWNPAWSVSTILTGLLS 115
G LV PPS+Y + P +TN T CL + + P+ W+ ++ +G+ +
Sbjct: 109 GTLVTVSSAKTTPPSVYPLAPGSAAQTNSVTLGCL-VKGYFPEPVTVTWNSGSLSSGVHT 167
Query: 116 F 116
F
Sbjct: 168 F 168
>pdb|2R23|B Chain B, Crystal Structure Of S25-2 Fab In Complex With Kdo
Analogues
pdb|3T77|B Chain B, S25-2- A(2-4)kdo Disaccharide Complex
Length = 224
Score = 26.9 bits (58), Expect = 7.8, Method: Compositional matrix adjust.
Identities = 15/61 (24%), Positives = 29/61 (47%), Gaps = 2/61 (3%)
Query: 58 GKLVFPRDFPFKPPSIYMITPNGRFKTNTRLCLS--MSDFHPDTWNPAWSVSTILTGLLS 115
G LV PPS+Y + P +TN+ + L + + P+ W+ ++ +G+ +
Sbjct: 115 GTLVTVSAAKTTPPSVYPLAPGSAAQTNSMVTLGCLVKGYFPEPVTVTWNSGSLSSGVHT 174
Query: 116 F 116
F
Sbjct: 175 F 175
>pdb|1EO8|H Chain H, Influenza Virus Hemagglutinin Complexed With A
Neutralizing Antibody
Length = 217
Score = 26.9 bits (58), Expect = 7.8, Method: Compositional matrix adjust.
Identities = 15/61 (24%), Positives = 29/61 (47%), Gaps = 2/61 (3%)
Query: 58 GKLVFPRDFPFKPPSIYMITPNGRFKTNTRLCLS--MSDFHPDTWNPAWSVSTILTGLLS 115
G LV PPS+Y + P +TN+ + L + + P+ W+ ++ +G+ +
Sbjct: 111 GTLVTVSAAKTTPPSVYPLAPGSAAQTNSMVTLGCLVKGYFPEPVTVTWNSGSLSSGVHT 170
Query: 116 F 116
F
Sbjct: 171 F 171
>pdb|2ZPK|H Chain H, Crystal Structure Of P20.1 Fab Fragment In Complex With
Its Antigen Peptide
pdb|2ZPK|I Chain I, Crystal Structure Of P20.1 Fab Fragment In Complex With
Its Antigen Peptide
Length = 216
Score = 26.9 bits (58), Expect = 7.9, Method: Compositional matrix adjust.
Identities = 15/61 (24%), Positives = 29/61 (47%), Gaps = 2/61 (3%)
Query: 58 GKLVFPRDFPFKPPSIYMITPNGRFKTNTRLCLS--MSDFHPDTWNPAWSVSTILTGLLS 115
G LV PPS+Y + P +TN+ + L + + P+ W+ ++ +G+ +
Sbjct: 109 GTLVTVSAAKTTPPSVYPLAPGSAAQTNSMVTLGCLVKGYFPEPVTVTWNSGSLSSGVHT 168
Query: 116 F 116
F
Sbjct: 169 F 169
>pdb|3I02|B Chain B, Crystal Structure Of S54-10 Antibody In Complex With
Antigen Kdo(2.4)kdo(2.4)kdo
pdb|3I02|D Chain D, Crystal Structure Of S54-10 Antibody In Complex With
Antigen Kdo(2.4)kdo(2.4)kdo
Length = 224
Score = 26.9 bits (58), Expect = 8.3, Method: Compositional matrix adjust.
Identities = 15/61 (24%), Positives = 29/61 (47%), Gaps = 2/61 (3%)
Query: 58 GKLVFPRDFPFKPPSIYMITPNGRFKTNTRLCLS--MSDFHPDTWNPAWSVSTILTGLLS 115
G LV PPS+Y + P +TN+ + L + + P+ W+ ++ +G+ +
Sbjct: 117 GTLVTVSAAKTTPPSVYPLAPGSAAQTNSMVTLGCLVKGYFPEPVTVTWNSGSLSSGVHT 176
Query: 116 F 116
F
Sbjct: 177 F 177
>pdb|1IKF|H Chain H, A Conformation Of Cyclosporin A In Aqueous Environment
Revealed By The X-Ray Structure Of A Cyclosporin-Fab
Complex
Length = 228
Score = 26.9 bits (58), Expect = 8.3, Method: Compositional matrix adjust.
Identities = 15/61 (24%), Positives = 29/61 (47%), Gaps = 2/61 (3%)
Query: 58 GKLVFPRDFPFKPPSIYMITPNGRFKTNTRLCLS--MSDFHPDTWNPAWSVSTILTGLLS 115
G LV PPS+Y + P +TN+ + L + + P+ W+ ++ +G+ +
Sbjct: 119 GTLVTVSAAKTTPPSVYPLAPGSAAQTNSMVTLGCLVKGYFPEPVTVTWNSGSLSSGVHT 178
Query: 116 F 116
F
Sbjct: 179 F 179
>pdb|3DIF|B Chain B, Crystal Structure Of Fabox117
pdb|3DIF|D Chain D, Crystal Structure Of Fabox117
Length = 229
Score = 26.9 bits (58), Expect = 8.5, Method: Compositional matrix adjust.
Identities = 15/61 (24%), Positives = 29/61 (47%), Gaps = 2/61 (3%)
Query: 58 GKLVFPRDFPFKPPSIYMITPNGRFKTNTRLCLS--MSDFHPDTWNPAWSVSTILTGLLS 115
G LV PPS+Y + P +TN+ + L + + P+ W+ ++ +G+ +
Sbjct: 112 GTLVTVSAAKTTPPSVYPLAPGSAAQTNSMVTLGCLVKGYFPEPVTVTWNSGSLSSGVHT 171
Query: 116 F 116
F
Sbjct: 172 F 172
>pdb|1JNN|H Chain H, Crystal Structure Of Fab-Estradiol Complexes
Length = 214
Score = 26.9 bits (58), Expect = 8.7, Method: Compositional matrix adjust.
Identities = 15/61 (24%), Positives = 29/61 (47%), Gaps = 2/61 (3%)
Query: 58 GKLVFPRDFPFKPPSIYMITPNGRFKTNTRLCLS--MSDFHPDTWNPAWSVSTILTGLLS 115
G LV PPS+Y + P +TN+ + L + + P+ W+ ++ +G+ +
Sbjct: 107 GTLVTVSVAKTTPPSVYPLAPGSAAQTNSMVTLGCLVKGYFPEPVTVTWNSGSLSSGVHT 166
Query: 116 F 116
F
Sbjct: 167 F 167
>pdb|3TT3|H Chain H, Crystal Structure Of Leut In The Inward-Open Conformation
In Complex With Fab
Length = 221
Score = 26.9 bits (58), Expect = 8.9, Method: Compositional matrix adjust.
Identities = 15/61 (24%), Positives = 29/61 (47%), Gaps = 2/61 (3%)
Query: 58 GKLVFPRDFPFKPPSIYMITPNGRFKTNTRLCLS--MSDFHPDTWNPAWSVSTILTGLLS 115
G LV PPS+Y + P +TN+ + L + + P+ W+ ++ +G+ +
Sbjct: 112 GTLVTVSAAKTTPPSVYPLAPGSAAQTNSMVTLGCLVKGYFPEPVTVTWNSGSLSSGVHT 171
Query: 116 F 116
F
Sbjct: 172 F 172
>pdb|2W60|A Chain A, Anti Citrullinated Collagen Type 2 Antibody Acc4
Length = 218
Score = 26.9 bits (58), Expect = 8.9, Method: Compositional matrix adjust.
Identities = 15/61 (24%), Positives = 29/61 (47%), Gaps = 2/61 (3%)
Query: 58 GKLVFPRDFPFKPPSIYMITPNGRFKTNTRLCLS--MSDFHPDTWNPAWSVSTILTGLLS 115
G LV PPS+Y + P +TN+ + L + + P+ W+ ++ +G+ +
Sbjct: 111 GTLVTVSAAKTTPPSVYPLAPGSAAQTNSMVTLGCLVKGYFPEPVTVTWNSGSLSSGVHT 170
Query: 116 F 116
F
Sbjct: 171 F 171
>pdb|1JN6|B Chain B, Crystal Structure Of Fab-Estradiol Complexes
pdb|1JNH|B Chain B, Crystal Structure Of Fab-Estradiol Complexes
pdb|1JNH|D Chain D, Crystal Structure Of Fab-Estradiol Complexes
pdb|1JNH|F Chain F, Crystal Structure Of Fab-Estradiol Complexes
pdb|1JNH|H Chain H, Crystal Structure Of Fab-Estradiol Complexes
Length = 218
Score = 26.9 bits (58), Expect = 8.9, Method: Compositional matrix adjust.
Identities = 12/49 (24%), Positives = 27/49 (55%), Gaps = 2/49 (4%)
Query: 70 PPSIYMITPNGRFKTNTRLCLS--MSDFHPDTWNPAWSVSTILTGLLSF 116
PPS+Y + P +TN+ + L + + P+ +W+ ++ +G+ +F
Sbjct: 124 PPSVYPLAPGSAAQTNSMVTLGCLVKGYFPEPVTVSWNTGSLSSGVHTF 172
>pdb|1JNL|H Chain H, Crystal Structure Of Fab-Estradiol Complexes
Length = 216
Score = 26.9 bits (58), Expect = 8.9, Method: Compositional matrix adjust.
Identities = 15/61 (24%), Positives = 29/61 (47%), Gaps = 2/61 (3%)
Query: 58 GKLVFPRDFPFKPPSIYMITPNGRFKTNTRLCLS--MSDFHPDTWNPAWSVSTILTGLLS 115
G LV PPS+Y + P +TN+ + L + + P+ W+ ++ +G+ +
Sbjct: 107 GTLVTVSVAKTTPPSVYPLAPGSAAQTNSMVTLGCLVKGYFPEPVTVTWNSGSLSSGVHT 166
Query: 116 F 116
F
Sbjct: 167 F 167
>pdb|1JFQ|H Chain H, Antigen-Binding Fragment Of The Murine Anti-Phenylarsonate
Antibody 36-71, "fab 36-71"
Length = 222
Score = 26.9 bits (58), Expect = 9.0, Method: Compositional matrix adjust.
Identities = 17/76 (22%), Positives = 34/76 (44%), Gaps = 8/76 (10%)
Query: 49 TQYEGGMY------LGKLVFPRDFPFKPPSIYMITPNGRFKTNTRLCLS--MSDFHPDTW 100
++Y GG Y G + PPS+Y + P +TN+ + L + + P+
Sbjct: 99 SEYYGGSYKFDYWGQGTTLTVSSAGTTPPSVYPLAPGSAAQTNSMVTLGCLVKGYFPEPV 158
Query: 101 NPAWSVSTILTGLLSF 116
W+ ++ +G+ +F
Sbjct: 159 TVTWNSGSLSSGVHTF 174
>pdb|3HFM|H Chain H, Structure Of An Antibody-Antigen Complex. Crystal
Structure Of The HyHEL-10 Fab-Lysozyme Complex
Length = 215
Score = 26.9 bits (58), Expect = 9.4, Method: Compositional matrix adjust.
Identities = 15/61 (24%), Positives = 29/61 (47%), Gaps = 2/61 (3%)
Query: 58 GKLVFPRDFPFKPPSIYMITPNGRFKTNTRLCLS--MSDFHPDTWNPAWSVSTILTGLLS 115
G LV PPS+Y + P +TN+ + L + + P+ W+ ++ +G+ +
Sbjct: 106 GTLVTVSAAKTTPPSVYPLAPGSAAQTNSMVTLGCLVKGYFPEPVTVTWNSGSLSSGVHT 165
Query: 116 F 116
F
Sbjct: 166 F 166
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 0.136 0.420
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,522,710
Number of Sequences: 62578
Number of extensions: 261820
Number of successful extensions: 882
Number of sequences better than 100.0: 308
Number of HSP's better than 100.0 without gapping: 112
Number of HSP's successfully gapped in prelim test: 196
Number of HSP's that attempted gapping in prelim test: 735
Number of HSP's gapped (non-prelim): 315
length of query: 214
length of database: 14,973,337
effective HSP length: 95
effective length of query: 119
effective length of database: 9,028,427
effective search space: 1074382813
effective search space used: 1074382813
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: 49 (23.5 bits)