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= 026621
(236 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4HPV|A Chain A, Crystal Structure Of S-Adenosylmethionine Synthetase From
Sulfolobus Solfataricus 982
pdb|4HPV|B Chain B, Crystal Structure Of S-Adenosylmethionine Synthetase From
Sulfolobus Solfataricus 982
Length = 407
Score = 35.0 bits (79), Expect = 0.034, Method: Compositional matrix adjust.
Identities = 22/74 (29%), Positives = 41/74 (55%), Gaps = 6/74 (8%)
Query: 112 FSKLEAKLYESEVFVAGNQKWKIKLYPKGQ-----GVGRGSHISVYLALADLSTITRDSK 166
+KLE +YE+E + Q +K KL G+ G+ RG+ + + +A A +S + D
Sbjct: 173 LTKLEKLVYETERHLNSKQ-FKAKLPEVGEDIKVXGLRRGNEVDLTIAXATISELIEDVN 231
Query: 167 IYVHFTLRIRDQVL 180
Y++ ++R+Q+L
Sbjct: 232 HYINVKEQVRNQIL 245
>pdb|1CA4|A Chain A, Structure Of Tnf Receptor Associated Factor 2 (Traf2)
pdb|1CA4|B Chain B, Structure Of Tnf Receptor Associated Factor 2 (Traf2)
pdb|1CA4|C Chain C, Structure Of Tnf Receptor Associated Factor 2 (Traf2)
pdb|1CA4|D Chain D, Structure Of Tnf Receptor Associated Factor 2 (Traf2)
pdb|1CA4|E Chain E, Structure Of Tnf Receptor Associated Factor 2 (Traf2)
pdb|1CA4|F Chain F, Structure Of Tnf Receptor Associated Factor 2 (Traf2)
pdb|1D00|A Chain A, Structure Of Tnf Receptor Associated Factor 2 In Complex
With A 5-Residue Cd40 Peptide
pdb|1D00|B Chain B, Structure Of Tnf Receptor Associated Factor 2 In Complex
With A 5-Residue Cd40 Peptide
pdb|1D00|C Chain C, Structure Of Tnf Receptor Associated Factor 2 In Complex
With A 5-Residue Cd40 Peptide
pdb|1D00|D Chain D, Structure Of Tnf Receptor Associated Factor 2 In Complex
With A 5-Residue Cd40 Peptide
pdb|1D00|E Chain E, Structure Of Tnf Receptor Associated Factor 2 In Complex
With A 5-Residue Cd40 Peptide
pdb|1D00|F Chain F, Structure Of Tnf Receptor Associated Factor 2 In Complex
With A 5-Residue Cd40 Peptide
pdb|1D00|G Chain G, Structure Of Tnf Receptor Associated Factor 2 In Complex
With A 5-Residue Cd40 Peptide
pdb|1D00|H Chain H, Structure Of Tnf Receptor Associated Factor 2 In Complex
With A 5-Residue Cd40 Peptide
pdb|1D0J|A Chain A, Structure Of Tnf Receptor Associated Factor 2 In Complex
With A M4-1bb Peptide
pdb|1D0J|B Chain B, Structure Of Tnf Receptor Associated Factor 2 In Complex
With A M4-1bb Peptide
pdb|1D0J|C Chain C, Structure Of Tnf Receptor Associated Factor 2 In Complex
With A M4-1bb Peptide
pdb|1D0J|D Chain D, Structure Of Tnf Receptor Associated Factor 2 In Complex
With A M4-1bb Peptide
pdb|1D0J|E Chain E, Structure Of Tnf Receptor Associated Factor 2 In Complex
With A M4-1bb Peptide
pdb|1D0J|F Chain F, Structure Of Tnf Receptor Associated Factor 2 In Complex
With A M4-1bb Peptide
Length = 168
Score = 31.2 bits (69), Expect = 0.46, Method: Compositional matrix adjust.
Identities = 19/67 (28%), Positives = 32/67 (47%), Gaps = 11/67 (16%)
Query: 100 ASNYKHV--WKIENFSKLEAKLYE-------SEVFVAGNQKWK--IKLYPKGQGVGRGSH 148
AS Y V WKI +F++ + S F +K +++Y G G GRG+H
Sbjct: 14 ASTYDGVFIWKISDFARKRQEAVAGRIPAIFSPAFYTSRYGYKMCLRIYLNGDGTGRGTH 73
Query: 149 ISVYLAL 155
+S++ +
Sbjct: 74 LSLFFVV 80
>pdb|1CA9|A Chain A, Structure Of Tnf Receptor Associated Factor 2 In Complex
With A Peptide From Tnf-R2
pdb|1CA9|B Chain B, Structure Of Tnf Receptor Associated Factor 2 In Complex
With A Peptide From Tnf-R2
pdb|1CA9|C Chain C, Structure Of Tnf Receptor Associated Factor 2 In Complex
With A Peptide From Tnf-R2
pdb|1CA9|D Chain D, Structure Of Tnf Receptor Associated Factor 2 In Complex
With A Peptide From Tnf-R2
pdb|1CA9|E Chain E, Structure Of Tnf Receptor Associated Factor 2 In Complex
With A Peptide From Tnf-R2
pdb|1CA9|F Chain F, Structure Of Tnf Receptor Associated Factor 2 In Complex
With A Peptide From Tnf-R2
Length = 192
Score = 31.2 bits (69), Expect = 0.49, Method: Compositional matrix adjust.
Identities = 19/67 (28%), Positives = 32/67 (47%), Gaps = 11/67 (16%)
Query: 100 ASNYKHV--WKIENFSKLEAKLYE-------SEVFVAGNQKWK--IKLYPKGQGVGRGSH 148
AS Y V WKI +F++ + S F +K +++Y G G GRG+H
Sbjct: 38 ASTYDGVFIWKISDFARKRQEAVAGRIPAIFSPAFYTSRYGYKMCLRIYLNGDGTGRGTH 97
Query: 149 ISVYLAL 155
+S++ +
Sbjct: 98 LSLFFVV 104
>pdb|1CZY|A Chain A, Crystal Structure Of The Complex Between The Traf Domain
Of Human Traf2 And An Lmp1 Binding Peptide
pdb|1CZY|B Chain B, Crystal Structure Of The Complex Between The Traf Domain
Of Human Traf2 And An Lmp1 Binding Peptide
pdb|1CZY|C Chain C, Crystal Structure Of The Complex Between The Traf Domain
Of Human Traf2 And An Lmp1 Binding Peptide
pdb|1D0A|A Chain A, Structure Of Tnf Receptor Associated Factor 2 (Traf2) In
Complex With A Human Ox40 Peptide
pdb|1D0A|B Chain B, Structure Of Tnf Receptor Associated Factor 2 (Traf2) In
Complex With A Human Ox40 Peptide
pdb|1D0A|C Chain C, Structure Of Tnf Receptor Associated Factor 2 (Traf2) In
Complex With A Human Ox40 Peptide
pdb|1D0A|D Chain D, Structure Of Tnf Receptor Associated Factor 2 (Traf2) In
Complex With A Human Ox40 Peptide
pdb|1D0A|E Chain E, Structure Of Tnf Receptor Associated Factor 2 (Traf2) In
Complex With A Human Ox40 Peptide
pdb|1D0A|F Chain F, Structure Of Tnf Receptor Associated Factor 2 (Traf2) In
Complex With A Human Ox40 Peptide
pdb|1D01|A Chain A, Structure Of Tnf Receptor Associated Factor 2 In Complex
With A Human Cd30 Peptide
pdb|1D01|B Chain B, Structure Of Tnf Receptor Associated Factor 2 In Complex
With A Human Cd30 Peptide
pdb|1D01|C Chain C, Structure Of Tnf Receptor Associated Factor 2 In Complex
With A Human Cd30 Peptide
pdb|1D01|D Chain D, Structure Of Tnf Receptor Associated Factor 2 In Complex
With A Human Cd30 Peptide
pdb|1D01|E Chain E, Structure Of Tnf Receptor Associated Factor 2 In Complex
With A Human Cd30 Peptide
pdb|1D01|F Chain F, Structure Of Tnf Receptor Associated Factor 2 In Complex
With A Human Cd30 Peptide
Length = 168
Score = 31.2 bits (69), Expect = 0.59, Method: Compositional matrix adjust.
Identities = 19/67 (28%), Positives = 31/67 (46%), Gaps = 11/67 (16%)
Query: 100 ASNYKHV--WKIENFSKLEAKLYE-------SEVFVAGNQKWK--IKLYPKGQGVGRGSH 148
AS Y V WKI +F + + S F +K +++Y G G GRG+H
Sbjct: 14 ASTYDGVFIWKISDFPRKRQEAVAGRIPAIFSPAFYTSRYGYKMCLRIYLNGDGTGRGTH 73
Query: 149 ISVYLAL 155
+S++ +
Sbjct: 74 LSLFFVV 80
>pdb|1CZZ|A Chain A, Structure Of Tnf Receptor Associated Factor 2 In Complex
With A 17-Residue Cd40 Peptide
pdb|1CZZ|B Chain B, Structure Of Tnf Receptor Associated Factor 2 In Complex
With A 17-Residue Cd40 Peptide
pdb|1CZZ|C Chain C, Structure Of Tnf Receptor Associated Factor 2 In Complex
With A 17-Residue Cd40 Peptide
Length = 187
Score = 30.8 bits (68), Expect = 0.65, Method: Compositional matrix adjust.
Identities = 19/67 (28%), Positives = 31/67 (46%), Gaps = 11/67 (16%)
Query: 100 ASNYKHV--WKIENFSKLEAKLYE-------SEVFVAGNQKWK--IKLYPKGQGVGRGSH 148
AS Y V WKI +F + + S F +K +++Y G G GRG+H
Sbjct: 33 ASTYDGVFIWKISDFPRKRQEAVAGRIPAIFSPAFYTSRYGYKMCLRIYLNGDGTGRGTH 92
Query: 149 ISVYLAL 155
+S++ +
Sbjct: 93 LSLFFVV 99
>pdb|1QSC|A Chain A, Crystal Structure Of The Traf Domain Of Traf2 In A Complex
With A Peptide From The Cd40 Receptor
pdb|1QSC|B Chain B, Crystal Structure Of The Traf Domain Of Traf2 In A Complex
With A Peptide From The Cd40 Receptor
pdb|1QSC|C Chain C, Crystal Structure Of The Traf Domain Of Traf2 In A Complex
With A Peptide From The Cd40 Receptor
Length = 191
Score = 30.8 bits (68), Expect = 0.65, Method: Compositional matrix adjust.
Identities = 19/67 (28%), Positives = 32/67 (47%), Gaps = 11/67 (16%)
Query: 100 ASNYKHV--WKIENFSKLEAKLYE-------SEVFVAGNQKWK--IKLYPKGQGVGRGSH 148
AS Y V WKI +F++ + S F +K +++Y G G GRG+H
Sbjct: 37 ASTYDGVFIWKISDFARKRQEAVAGRIPAIFSPAFYTSRYGYKXCLRIYLNGDGTGRGTH 96
Query: 149 ISVYLAL 155
+S++ +
Sbjct: 97 LSLFFVV 103
>pdb|1F3V|B Chain B, Crystal Structure Of The Complex Between The N-Terminal
Domain Of Tradd And The Traf Domain Of Traf2
Length = 171
Score = 30.8 bits (68), Expect = 0.69, Method: Compositional matrix adjust.
Identities = 19/67 (28%), Positives = 31/67 (46%), Gaps = 11/67 (16%)
Query: 100 ASNYKHV--WKIENFSKLEAKLYE-------SEVFVAGNQKWK--IKLYPKGQGVGRGSH 148
AS Y V WKI +F + + S F +K +++Y G G GRG+H
Sbjct: 17 ASTYDGVFIWKISDFPRKRQEAVAGRIPAIFSPAFYTSRYGYKXCLRIYLNGDGTGRGTH 76
Query: 149 ISVYLAL 155
+S++ +
Sbjct: 77 LSLFFVV 83
>pdb|2XXN|A Chain A, Structure Of The Virf4-Hausp Traf Domain Complex
Length = 143
Score = 30.8 bits (68), Expect = 0.70, Method: Compositional matrix adjust.
Identities = 32/125 (25%), Positives = 49/125 (39%), Gaps = 8/125 (6%)
Query: 109 IENFSKLEAKLYESEVFVAGNQKWKIKLYPKGQGVGRGSHISV-YLALADLSTITRDSKI 167
+E FS+L + FV N WKI + P+ R SV + + + +
Sbjct: 13 VERFSRLSESVLSPPCFVR-NLPWKIMVMPRFYP-DRPHQKSVGFFLQCNAESDSTSWSC 70
Query: 168 YVHFTLRI---RDQVLSKHNEKKASTWLSTSSEDWGWSTFVELSYFNKAENGFLMNDVCI 224
+ L+I RD K ++ S DWG+S F+ S E GF+ +D
Sbjct: 71 HAQAVLKIINYRDD--EKSFSRRISHLFFHKENDWGFSNFMAWSEVTDPEKGFIDDDKVT 128
Query: 225 VEAEV 229
E V
Sbjct: 129 FEVFV 133
>pdb|4GHU|A Chain A, Crystal Structure Of Traf3CARDIF
Length = 198
Score = 30.8 bits (68), Expect = 0.71, Method: Compositional matrix adjust.
Identities = 18/68 (26%), Positives = 38/68 (55%), Gaps = 11/68 (16%)
Query: 98 TSASNYKHVWKIENFSKLEAK--------LYESEVFVAGNQKWKI--KLYPKGQGVGRGS 147
T++ N +WKI ++ + + + LY S+ F G +K+ ++Y G G+G+G+
Sbjct: 35 TASYNGVLIWKIRDYKRRKQEAVMGKTLSLY-SQPFYTGYFGYKMCARVYLNGDGMGKGT 93
Query: 148 HISVYLAL 155
H+S++ +
Sbjct: 94 HLSLFFVI 101
>pdb|1KZZ|A Chain A, Downstream Regulator Tank Binds To The Cd40 Recognition
Site On Traf3
pdb|1L0A|A Chain A, Downstream Regulator Tank Binds To The Cd40 Recognition
Site On Traf3
pdb|1ZMS|A Chain A, Lmp1 Protein Binds To Traf3 As A Structural Cd40
pdb|2GKW|A Chain A, Key Contacts Promote Recongnito Of Baff-R By Traf3
Length = 192
Score = 30.8 bits (68), Expect = 0.71, Method: Compositional matrix adjust.
Identities = 18/68 (26%), Positives = 38/68 (55%), Gaps = 11/68 (16%)
Query: 98 TSASNYKHVWKIENFSKLEAK--------LYESEVFVAGNQKWKI--KLYPKGQGVGRGS 147
T++ N +WKI ++ + + + LY S+ F G +K+ ++Y G G+G+G+
Sbjct: 35 TASYNGVLIWKIRDYKRRKQEAVMGKTLSLY-SQPFYTGYFGYKMCARVYLNGDGMGKGT 93
Query: 148 HISVYLAL 155
H+S++ +
Sbjct: 94 HLSLFFVI 101
>pdb|1RF3|A Chain A, Structurally Distinct Recognition Motifs In Lymphotoxin-B
Receptor And Cd40 For Traf-Mediated Signaling
Length = 200
Score = 30.8 bits (68), Expect = 0.72, Method: Compositional matrix adjust.
Identities = 18/68 (26%), Positives = 38/68 (55%), Gaps = 11/68 (16%)
Query: 98 TSASNYKHVWKIENFSKLEAK--------LYESEVFVAGNQKWKI--KLYPKGQGVGRGS 147
T++ N +WKI ++ + + + LY S+ F G +K+ ++Y G G+G+G+
Sbjct: 35 TASYNGVLIWKIRDYKRRKQEAVMGKTLSLY-SQPFYTGYFGYKMCARVYLNGDGMGKGT 93
Query: 148 HISVYLAL 155
H+S++ +
Sbjct: 94 HLSLFFVI 101
>pdb|2F1W|A Chain A, Crystal Structure Of The Traf-Like Domain Of HauspUSP7
Length = 158
Score = 30.4 bits (67), Expect = 0.77, Method: Compositional matrix adjust.
Identities = 31/123 (25%), Positives = 50/123 (40%), Gaps = 10/123 (8%)
Query: 109 IENFSKLEAKLYESEVFVAGNQKWKIKLYPKGQGVGRGSHISV-YLALADLSTITRDSKI 167
+E FS+L + FV N WKI + P+ R SV + + + +
Sbjct: 27 VERFSRLSESVLSPPCFVR-NLPWKIMVMPRFYP-DRPHQKSVGFFLQCNAESDSTSWSC 84
Query: 168 YVHFTLRIRDQVLSKHNEKKASTWLST----SSEDWGWSTFVELSYFNKAENGFLMNDVC 223
+ L+I + + +EK S +S DWG+S F+ S E GF+ +D
Sbjct: 85 HAQAVLKI---INYRDDEKSFSRRISHLFFHKENDWGFSNFMAWSEVTDPEKGFIDDDKV 141
Query: 224 IVE 226
E
Sbjct: 142 TFE 144
>pdb|1YY6|A Chain A, The Crystal Strucure Of The N-Terminal Domain Of HauspUSP7
Complexed With An Ebna1 Peptide
pdb|1YZE|A Chain A, Crystal Structure Of The N-Terminal Domain Of Usp7HAUSP.
pdb|1YZE|B Chain B, Crystal Structure Of The N-Terminal Domain Of Usp7HAUSP.
pdb|1YZE|C Chain C, Crystal Structure Of The N-Terminal Domain Of Usp7HAUSP.
pdb|2FOJ|A Chain A, The Crystal Strucure Of The N-Terminal Domain Of HauspUSP7
Complexed With P53 Peptide 364-367
pdb|2FOO|A Chain A, The Crystal Strucure Of The N-Terminal Domain Of HauspUSP7
Complexed With P53 Peptide 359-362
pdb|2FOP|A Chain A, The Crystal Strucure Of The N-Terminal Domain Of HauspUSP7
Complexed With Mdm2 Peptide 147-150
pdb|3MQR|A Chain A, Crystal Structure Of The Usp7:hdmx(Ahss) Complex
pdb|3MQS|C Chain C, Crystal Structure Of The Usp7:hdm2(Psts) Complex
Length = 155
Score = 30.4 bits (67), Expect = 0.81, Method: Compositional matrix adjust.
Identities = 31/122 (25%), Positives = 48/122 (39%), Gaps = 8/122 (6%)
Query: 109 IENFSKLEAKLYESEVFVAGNQKWKIKLYPKGQGVGRGSHISV-YLALADLSTITRDSKI 167
+E FS+L + FV N WKI + P+ R SV + + + +
Sbjct: 25 VERFSRLSESVLSPPCFVR-NLPWKIMVMPRFYP-DRPHQKSVGFFLQCNAESDSTSWSC 82
Query: 168 YVHFTLRI---RDQVLSKHNEKKASTWLSTSSEDWGWSTFVELSYFNKAENGFLMNDVCI 224
+ L+I RD K ++ S DWG+S F+ S E GF+ +D
Sbjct: 83 HAQAVLKIINYRDD--EKSFSRRISHLFFHKENDWGFSNFMAWSEVTDPEKGFIDDDKVT 140
Query: 225 VE 226
E
Sbjct: 141 FE 142
>pdb|2F1Y|A Chain A, Crystal Structure Of The Traf-Like Domain Of HauspUSP7
Bound To A Mdm2 Peptide
Length = 159
Score = 30.4 bits (67), Expect = 0.81, Method: Compositional matrix adjust.
Identities = 31/123 (25%), Positives = 50/123 (40%), Gaps = 10/123 (8%)
Query: 109 IENFSKLEAKLYESEVFVAGNQKWKIKLYPKGQGVGRGSHISV-YLALADLSTITRDSKI 167
+E FS+L + FV N WKI + P+ R SV + + + +
Sbjct: 27 VERFSRLSESVLSPPCFVR-NLPWKIMVMPRFYP-DRPHQKSVGFFLQCNAESDSTSWSC 84
Query: 168 YVHFTLRIRDQVLSKHNEKKASTWLST----SSEDWGWSTFVELSYFNKAENGFLMNDVC 223
+ L+I + + +EK S +S DWG+S F+ S E GF+ +D
Sbjct: 85 HAQAVLKI---INYRDDEKSFSRRISHLFFHKENDWGFSNFMAWSEVTDPEKGFIDDDKV 141
Query: 224 IVE 226
E
Sbjct: 142 TFE 144
>pdb|2F1Z|A Chain A, Crystal Structure Of Hausp
pdb|2F1Z|B Chain B, Crystal Structure Of Hausp
Length = 522
Score = 30.4 bits (67), Expect = 0.84, Method: Compositional matrix adjust.
Identities = 31/125 (24%), Positives = 51/125 (40%), Gaps = 10/125 (8%)
Query: 107 WKIENFSKLEAKLYESEVFVAGNQKWKIKLYPKGQGVGRGSHISV-YLALADLSTITRDS 165
+ +E FS+L + FV N WKI + P+ R SV + + + +
Sbjct: 35 FTVERFSRLSESVLSPPCFVR-NLPWKIMVMPRFYP-DRPHQKSVGFFLQCNAESDSTSW 92
Query: 166 KIYVHFTLRIRDQVLSKHNEKKASTWLST----SSEDWGWSTFVELSYFNKAENGFLMND 221
+ L+I + + +EK S +S DWG+S F+ S E GF+ +D
Sbjct: 93 SCHAQAVLKI---INYRDDEKSFSRRISHLFFHKENDWGFSNFMAWSEVTDPEKGFIDDD 149
Query: 222 VCIVE 226
E
Sbjct: 150 KVTFE 154
>pdb|1FLK|A Chain A, Molecular Basis For Cd40 Signaling Mediated By Traf3
pdb|1FLK|B Chain B, Molecular Basis For Cd40 Signaling Mediated By Traf3
pdb|1FLL|A Chain A, Molecular Basis For Cd40 Signaling Mediated By Traf3
pdb|1FLL|B Chain B, Molecular Basis For Cd40 Signaling Mediated By Traf3
Length = 228
Score = 30.4 bits (67), Expect = 0.92, Method: Compositional matrix adjust.
Identities = 18/68 (26%), Positives = 38/68 (55%), Gaps = 11/68 (16%)
Query: 98 TSASNYKHVWKIENFSKLEAK--------LYESEVFVAGNQKWKI--KLYPKGQGVGRGS 147
T++ N +WKI ++ + + + LY S+ F G +K+ ++Y G G+G+G+
Sbjct: 71 TASYNGVLIWKIRDYKRRKQEAVMGKTLSLY-SQPFYTGYFGYKMCARVYLNGDGMGKGT 129
Query: 148 HISVYLAL 155
H+S++ +
Sbjct: 130 HLSLFFVI 137
>pdb|2F1X|A Chain A, Crystal Structure Of The Traf-Like Domain Of HauspUSP7
Bound To A P53 Peptide
pdb|2F1X|B Chain B, Crystal Structure Of The Traf-Like Domain Of HauspUSP7
Bound To A P53 Peptide
Length = 161
Score = 30.4 bits (67), Expect = 0.94, Method: Compositional matrix adjust.
Identities = 31/123 (25%), Positives = 50/123 (40%), Gaps = 10/123 (8%)
Query: 109 IENFSKLEAKLYESEVFVAGNQKWKIKLYPKGQGVGRGSHISV-YLALADLSTITRDSKI 167
+E FS+L + FV N WKI + P+ R SV + + + +
Sbjct: 27 VERFSRLSESVLSPPCFVR-NLPWKIMVMPRFYP-DRPHQKSVGFFLQCNAESDSTSWSC 84
Query: 168 YVHFTLRIRDQVLSKHNEKKASTWLST----SSEDWGWSTFVELSYFNKAENGFLMNDVC 223
+ L+I + + +EK S +S DWG+S F+ S E GF+ +D
Sbjct: 85 HAQAVLKI---INYRDDEKSFSRRISHLFFHKENDWGFSNFMAWSEVTDPEKGFIDDDKV 141
Query: 224 IVE 226
E
Sbjct: 142 TFE 144
>pdb|3HQH|A Chain A, Structures Of Spop-Substrate Complexes: Insights Into
Molecular Architectures Of Btb-Cul3 Ubiquitin Ligases:
Spopmathx-Macroh2asbcpep1
pdb|3HQL|A Chain A, Structures Of Spop-Substrate Complexes: Insights Into
Molecular Architectures Of Btb-Cul3 Ubiquitin
Ligases:spopmathx-Pucsbc1_pep2
pdb|3HQL|B Chain B, Structures Of Spop-Substrate Complexes: Insights Into
Molecular Architectures Of Btb-Cul3 Ubiquitin
Ligases:spopmathx-Pucsbc1_pep2
pdb|3HQM|A Chain A, Structures Of Spop-Substrate Complexes: Insights Into
Molecular Architectures Of Btb-Cul3 Ubiquitin Ligases:
Spopmathx-Cisbc2
pdb|3HQM|B Chain B, Structures Of Spop-Substrate Complexes: Insights Into
Molecular Architectures Of Btb-Cul3 Ubiquitin Ligases:
Spopmathx-Cisbc2
pdb|3HSV|A Chain A, Structures Of Spop-Substrate Complexes: Insights Into
Molecular Architectures Of Btb-Cul3 Ubiquitin Ligases:
Spopmathx-Macroh2asbcpep2
pdb|3HSV|B Chain B, Structures Of Spop-Substrate Complexes: Insights Into
Molecular Architectures Of Btb-Cul3 Ubiquitin Ligases:
Spopmathx-Macroh2asbcpep2
Length = 145
Score = 29.6 bits (65), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 35/137 (25%), Positives = 56/137 (40%), Gaps = 17/137 (12%)
Query: 103 YKHVWKIENFSKLEAKLYE---SEVFVAGNQ---KWKIKLYPKGQGVGRGSHISVYLALA 156
+ ++W I NFS ++ E S F +G KW +++ PKG YL+L
Sbjct: 11 FSYMWTINNFSFCREEMGEVIKSSTFSSGANDKLKWCLRVNPKGLD----EESKDYLSLY 66
Query: 157 DLSTITRDSKIYVHFTLRIRDQVLSKHNEKKA----STWLSTSSEDWGWSTFVELSYFNK 212
L S++ F I + +K E KA + +DWG+ F+ +
Sbjct: 67 LLLVSCPKSEVRAKFKFSILN---AKGEETKAMESQRAYRFVQGKDWGFKKFIRRGFLLD 123
Query: 213 AENGFLMNDVCIVEAEV 229
NG L +D + EV
Sbjct: 124 EANGLLPDDKLTLFCEV 140
Score = 27.7 bits (60), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 21/71 (29%), Positives = 32/71 (45%), Gaps = 5/71 (7%)
Query: 12 EVYVIFRLFVLDQNKDEFLILQDAMGKERRFHVLK-LEWGFDQFIPLEEFNDASNGYLVG 70
EV F+ +L+ +E AM +R + ++ +WGF +FI D +NG L
Sbjct: 76 EVRAKFKFSILNAKGEE----TKAMESQRAYRFVQGKDWGFKKFIRRGFLLDEANGLLPD 131
Query: 71 DTCVFGAEVLV 81
D EV V
Sbjct: 132 DKLTLFCEVSV 142
>pdb|3IVB|A Chain A, Structures Of Spop-Substrate Complexes: Insights Into
Architectures Of Btb-Cul3 Ubiquitin Ligases: Spopmath-
Macroh2asbcpep1
pdb|3IVQ|A Chain A, Structures Of Spop-Substrate Complexes: Insights Into
Molecular Architectures Of Btb-Cul3 Ubiquitin Ligases:
Spopmath-Cisbc2
pdb|3IVQ|B Chain B, Structures Of Spop-Substrate Complexes: Insights Into
Molecular Architectures Of Btb-Cul3 Ubiquitin Ligases:
Spopmath-Cisbc2
pdb|3IVV|A Chain A, Structures Of Spop-Substrate Complexes: Insights Into
Molecular Architectures Of Btb-Cul3 Ubiquitin Ligases:
Spopmath-Pucsbc1_pep1
Length = 145
Score = 29.6 bits (65), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 35/137 (25%), Positives = 56/137 (40%), Gaps = 17/137 (12%)
Query: 103 YKHVWKIENFSKLEAKLYE---SEVFVAGNQ---KWKIKLYPKGQGVGRGSHISVYLALA 156
+ ++W I NFS ++ E S F +G KW +++ PKG YL+L
Sbjct: 11 FSYMWTINNFSFCREEMGEVIKSSTFSSGANDKLKWCLRVNPKGLD----EESKDYLSLY 66
Query: 157 DLSTITRDSKIYVHFTLRIRDQVLSKHNEKKA----STWLSTSSEDWGWSTFVELSYFNK 212
L S++ F I + +K E KA + +DWG+ F+ +
Sbjct: 67 LLLVSCPKSEVRAKFKFSILN---AKGEETKAMESQRAYRFVQGKDWGFKKFIRRDFLLD 123
Query: 213 AENGFLMNDVCIVEAEV 229
NG L +D + EV
Sbjct: 124 EANGLLPDDKLTLFCEV 140
Score = 29.3 bits (64), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 21/71 (29%), Positives = 33/71 (46%), Gaps = 5/71 (7%)
Query: 12 EVYVIFRLFVLDQNKDEFLILQDAMGKERRFHVLK-LEWGFDQFIPLEEFNDASNGYLVG 70
EV F+ +L+ +E AM +R + ++ +WGF +FI + D +NG L
Sbjct: 76 EVRAKFKFSILNAKGEE----TKAMESQRAYRFVQGKDWGFKKFIRRDFLLDEANGLLPD 131
Query: 71 DTCVFGAEVLV 81
D EV V
Sbjct: 132 DKLTLFCEVSV 142
>pdb|3HQI|A Chain A, Structures Of Spop-Substrate Complexes: Insights Into
Molecular Architectures Of Btb-Cul3 Ubiquitin Ligases:
SpopmathxBTB3-Box-Pucsbc1
pdb|3HQI|B Chain B, Structures Of Spop-Substrate Complexes: Insights Into
Molecular Architectures Of Btb-Cul3 Ubiquitin Ligases:
SpopmathxBTB3-Box-Pucsbc1
pdb|3HU6|A Chain A, Structures Of Spop-Substrate Complexes: Insights Into
Molecular Architectures Of Btb-Cul3 Ubiquitin Ligases:
SpopmathxBTB3-Box-Pucsbc1
pdb|3HU6|B Chain B, Structures Of Spop-Substrate Complexes: Insights Into
Molecular Architectures Of Btb-Cul3 Ubiquitin Ligases:
SpopmathxBTB3-Box-Pucsbc1
Length = 312
Score = 29.3 bits (64), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 35/137 (25%), Positives = 58/137 (42%), Gaps = 17/137 (12%)
Query: 103 YKHVWKIENFSKLEAKLYE---SEVFVAGNQ---KWKIKLYPKGQGVGRGSHISVYLALA 156
+ ++W I NFS ++ E S F +G KW +++ PKG ++S+YL L
Sbjct: 7 FSYMWTINNFSFCREEMGEVIKSSTFSSGANDKLKWCLRVNPKGLDEESKDYLSLYLLLV 66
Query: 157 DLSTITRDSKIYVHFTLRIRDQVLSKHNEKKA----STWLSTSSEDWGWSTFVELSYFNK 212
S++ F I + +K E KA + +DWG+ F+ +
Sbjct: 67 SCPK----SEVRAKFKFSILN---AKGEETKAMESQRAYRFVQGKDWGFKKFIRRGFLLD 119
Query: 213 AENGFLMNDVCIVEAEV 229
NG L +D + EV
Sbjct: 120 EANGLLPDDKLTLFCEV 136
Score = 27.3 bits (59), Expect = 7.9, Method: Compositional matrix adjust.
Identities = 21/71 (29%), Positives = 32/71 (45%), Gaps = 5/71 (7%)
Query: 12 EVYVIFRLFVLDQNKDEFLILQDAMGKERRFHVLK-LEWGFDQFIPLEEFNDASNGYLVG 70
EV F+ +L+ +E AM +R + ++ +WGF +FI D +NG L
Sbjct: 72 EVRAKFKFSILNAKGEE----TKAMESQRAYRFVQGKDWGFKKFIRRGFLLDEANGLLPD 127
Query: 71 DTCVFGAEVLV 81
D EV V
Sbjct: 128 DKLTLFCEVSV 138
>pdb|2CR2|A Chain A, Solution Structure Of N-Terminal Domain Of Speckle-Type
Poz Protein
Length = 159
Score = 29.3 bits (64), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 21/71 (29%), Positives = 33/71 (46%), Gaps = 5/71 (7%)
Query: 12 EVYVIFRLFVLDQNKDEFLILQDAMGKERRFHVLK-LEWGFDQFIPLEEFNDASNGYLVG 70
EV F+ +L+ +E AM +R + ++ +WGF +FI + D +NG L
Sbjct: 77 EVRAKFKFSILNAKGEE----TKAMESQRAYRFVQGKDWGFKKFIRRDFLLDEANGLLPD 132
Query: 71 DTCVFGAEVLV 81
D EV V
Sbjct: 133 DKLTLFCEVSV 143
Score = 28.9 bits (63), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 35/137 (25%), Positives = 56/137 (40%), Gaps = 17/137 (12%)
Query: 103 YKHVWKIENFSKLEAKLYE---SEVFVAGNQ---KWKIKLYPKGQGVGRGSHISVYLALA 156
+ ++W I NFS ++ E S F +G KW +++ PKG YL+L
Sbjct: 12 FSYMWTINNFSFCREEMGEVIKSSTFSSGANDKLKWCLRVNPKGLD----EESKDYLSLY 67
Query: 157 DLSTITRDSKIYVHFTLRIRDQVLSKHNEKKA----STWLSTSSEDWGWSTFVELSYFNK 212
L S++ F I + +K E KA + +DWG+ F+ +
Sbjct: 68 LLLVSCPKSEVRAKFKFSILN---AKGEETKAMESQRAYRFVQGKDWGFKKFIRRDFLLD 124
Query: 213 AENGFLMNDVCIVEAEV 229
NG L +D + EV
Sbjct: 125 EANGLLPDDKLTLFCEV 141
>pdb|1EHI|A Chain A, D-Alanine:d-Lactate Ligase (Lmddl2) Of
Vancomycin-Resistant Leuconostoc Mesenteroides
pdb|1EHI|B Chain B, D-Alanine:d-Lactate Ligase (Lmddl2) Of
Vancomycin-Resistant Leuconostoc Mesenteroides
Length = 377
Score = 27.7 bits (60), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 16/44 (36%), Positives = 19/44 (43%)
Query: 27 DEFLILQDAMGKERRFHVLKLEWGFDQFIPLEEFNDASNGYLVG 70
D F+ DA R H LK FD F P+ N +G L G
Sbjct: 70 DAFMKTVDASDPLARIHALKSAGDFDIFFPVVHGNLGEDGTLQG 113
>pdb|2Y7C|A Chain A, Atomic Model Of The Ocr-Bound Methylase Complex From The
Type I Restriction-Modification Enzyme Ecoki (M2s1).
Based On Fitting Into Em Map 1534.
pdb|2Y7H|A Chain A, Atomic Model Of The Dna-Bound Methylase Complex From The
Type I Restriction-Modification Enzyme Ecoki (M2s1).
Based On Fitting Into Em Map 1534
Length = 464
Score = 27.7 bits (60), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 19/58 (32%), Positives = 27/58 (46%), Gaps = 5/58 (8%)
Query: 38 KERRFHVLKLEWGFDQFIPLEEFNDASNGYLVGDTCVFGAEVLVKERNKCKGECLFLA 95
KE+ + LK D ++PL N+ NG VF + LVKE K E + +A
Sbjct: 29 KEQAINYLK-----DDYLPLIRANNIQNGKFDTTDLVFVPKNLVKESQKISPEDIVIA 81
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
0.321 0.136 0.413
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,960,879
Number of Sequences: 62578
Number of extensions: 276154
Number of successful extensions: 671
Number of sequences better than 100.0: 31
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 23
Number of HSP's that attempted gapping in prelim test: 649
Number of HSP's gapped (non-prelim): 41
length of query: 236
length of database: 14,973,337
effective HSP length: 96
effective length of query: 140
effective length of database: 8,965,849
effective search space: 1255218860
effective search space used: 1255218860
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: 50 (23.9 bits)