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= psy454
(134 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1LB4|A Chain A, Traf6 Apo Structure
Length = 159
Score = 72.0 bits (175), Expect = 8e-14, Method: Compositional matrix adjust.
Identities = 46/131 (35%), Positives = 71/131 (54%), Gaps = 13/131 (9%)
Query: 8 FYSACFYSSCFGYRFCTRVNISREDAQ----YLSLFIHLVQGENDDILDWPFVGRIRFTA 63
+S FY+ GY+ C R+++ AQ Y+SLF+H +QGE D L WPF G IR T
Sbjct: 28 IHSPGFYTGKPGYKLCMRLHLQLPTAQRCANYISLFVHTMQGEYDSHLPWPFQGTIRLTI 87
Query: 64 LNTSSEFSIT---DEIQSDK-NFDSFKRPVNFFLNKKAFGFNNFIRVADVLDPGRGFLME 119
L+ SE + +EI K +F+RP N K FG+ F+ + + R F+ +
Sbjct: 88 LD-QSEAPVRQNHEEIMDAKPELLAFQRP-TIPRNPKGFGYVTFMHLEALRQ--RTFI-K 142
Query: 120 DDTFVIKTQVT 130
DDT +++ +V+
Sbjct: 143 DDTLLVRCEVS 153
>pdb|1LB5|A Chain A, Traf6-Rank Complex
pdb|1LB6|A Chain A, Traf6-Cd40 Complex
Length = 160
Score = 72.0 bits (175), Expect = 8e-14, Method: Compositional matrix adjust.
Identities = 46/131 (35%), Positives = 71/131 (54%), Gaps = 13/131 (9%)
Query: 8 FYSACFYSSCFGYRFCTRVNISREDAQ----YLSLFIHLVQGENDDILDWPFVGRIRFTA 63
+S FY+ GY+ C R+++ AQ Y+SLF+H +QGE D L WPF G IR T
Sbjct: 29 IHSPGFYTGKPGYKLCMRLHLQLPTAQRCANYISLFVHTMQGEYDSHLPWPFQGTIRLTI 88
Query: 64 LNTSSEFSIT---DEIQSDK-NFDSFKRPVNFFLNKKAFGFNNFIRVADVLDPGRGFLME 119
L+ SE + +EI K +F+RP N K FG+ F+ + + R F+ +
Sbjct: 89 LD-QSEAPVRQNHEEIMDAKPELLAFQRP-TIPRNPKGFGYVTFMHLEALRQ--RTFI-K 143
Query: 120 DDTFVIKTQVT 130
DDT +++ +V+
Sbjct: 144 DDTLLVRCEVS 154
>pdb|4GHU|A Chain A, Crystal Structure Of Traf3CARDIF
Length = 198
Score = 60.8 bits (146), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 42/126 (33%), Positives = 63/126 (50%), Gaps = 9/126 (7%)
Query: 8 FYSACFYSSCFGYRFCTRVNISRE---DAQYLSLFIHLVQGENDDILDWPFVGRIRFTAL 64
YS FY+ FGY+ C RV ++ + +LSLF +++GE D +L WPF ++ +
Sbjct: 64 LYSQPFYTGYFGYKMCARVYLNGDGMGKGTHLSLFFVIMRGEYDALLPWPFKQKVTLMLM 123
Query: 65 NT-SSEFSITDEIQSDKNFDSFKRPVNFFLNKKAFGFNNFIRVADVLDPGRGFLMEDDTF 123
+ SS + D + D N SFK+P A G F+ VL+ G ++DDT
Sbjct: 124 DQGSSRRHLGDAFKPDPNSSSFKKPTGEM--NIASGCPVFV-AQTVLE--NGTYIKDDTI 178
Query: 124 VIKTQV 129
IK V
Sbjct: 179 FIKVIV 184
>pdb|1RF3|A Chain A, Structurally Distinct Recognition Motifs In Lymphotoxin-B
Receptor And Cd40 For Traf-Mediated Signaling
Length = 200
Score = 60.8 bits (146), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 42/126 (33%), Positives = 63/126 (50%), Gaps = 9/126 (7%)
Query: 8 FYSACFYSSCFGYRFCTRVNISRE---DAQYLSLFIHLVQGENDDILDWPFVGRIRFTAL 64
YS FY+ FGY+ C RV ++ + +LSLF +++GE D +L WPF ++ +
Sbjct: 64 LYSQPFYTGYFGYKMCARVYLNGDGMGKGTHLSLFFVIMRGEYDALLPWPFKQKVTLMLM 123
Query: 65 NT-SSEFSITDEIQSDKNFDSFKRPVNFFLNKKAFGFNNFIRVADVLDPGRGFLMEDDTF 123
+ SS + D + D N SFK+P A G F+ VL+ G ++DDT
Sbjct: 124 DQGSSRRHLGDAFKPDPNSSSFKKPTGEM--NIASGCPVFV-AQTVLE--NGTYIKDDTI 178
Query: 124 VIKTQV 129
IK V
Sbjct: 179 FIKVIV 184
>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 = 60.8 bits (146), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 42/126 (33%), Positives = 63/126 (50%), Gaps = 9/126 (7%)
Query: 8 FYSACFYSSCFGYRFCTRVNISRE---DAQYLSLFIHLVQGENDDILDWPFVGRIRFTAL 64
YS FY+ FGY+ C RV ++ + +LSLF +++GE D +L WPF ++ +
Sbjct: 64 LYSQPFYTGYFGYKMCARVYLNGDGMGKGTHLSLFFVIMRGEYDALLPWPFKQKVTLMLM 123
Query: 65 NT-SSEFSITDEIQSDKNFDSFKRPVNFFLNKKAFGFNNFIRVADVLDPGRGFLMEDDTF 123
+ SS + D + D N SFK+P A G F+ VL+ G ++DDT
Sbjct: 124 DQGSSRRHLGDAFKPDPNSSSFKKPTGEM--NIASGCPVFV-AQTVLE--NGTYIKDDTI 178
Query: 124 VIKTQV 129
IK V
Sbjct: 179 FIKVIV 184
>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 = 60.5 bits (145), Expect = 3e-10, Method: Compositional matrix adjust.
Identities = 42/126 (33%), Positives = 63/126 (50%), Gaps = 9/126 (7%)
Query: 8 FYSACFYSSCFGYRFCTRVNISRE---DAQYLSLFIHLVQGENDDILDWPFVGRIRFTAL 64
YS FY+ FGY+ C RV ++ + +LSLF +++GE D +L WPF ++ +
Sbjct: 100 LYSQPFYTGYFGYKMCARVYLNGDGMGKGTHLSLFFVIMRGEYDALLPWPFKQKVTLMLM 159
Query: 65 NT-SSEFSITDEIQSDKNFDSFKRPVNFFLNKKAFGFNNFIRVADVLDPGRGFLMEDDTF 123
+ SS + D + D N SFK+P A G F+ VL+ G ++DDT
Sbjct: 160 DQGSSRRHLGDAFKPDPNSSSFKKPTGEM--NIASGCPVFV-AQTVLE--NGTYIKDDTI 214
Query: 124 VIKTQV 129
IK V
Sbjct: 215 FIKVIV 220
>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 = 60.5 bits (145), Expect = 3e-10, Method: Compositional matrix adjust.
Identities = 28/86 (32%), Positives = 49/86 (56%), Gaps = 3/86 (3%)
Query: 8 FYSACFYSSCFGYRFCTRVNISRED---AQYLSLFIHLVQGENDDILDWPFVGRIRFTAL 64
+S FY+S +GY+ C R+ ++ + +LSLF +++G ND +L WPF ++ L
Sbjct: 62 IFSPAFYTSRYGYKMCLRIYLNGDGTGRGTHLSLFFVVMKGPNDALLRWPFNQKVTLMLL 121
Query: 65 NTSSEFSITDEIQSDKNFDSFKRPVN 90
+ ++ + D + D SF+RPVN
Sbjct: 122 DQNNREHVIDAFRPDVTSSSFQRPVN 147
>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 = 60.5 bits (145), Expect = 3e-10, Method: Compositional matrix adjust.
Identities = 28/86 (32%), Positives = 49/86 (56%), Gaps = 3/86 (3%)
Query: 8 FYSACFYSSCFGYRFCTRVNISRED---AQYLSLFIHLVQGENDDILDWPFVGRIRFTAL 64
+S FY+S +GY+ C R+ ++ + +LSLF +++G ND +L WPF ++ L
Sbjct: 43 IFSPAFYTSRYGYKMCLRIYLNGDGTGRGTHLSLFFVVMKGPNDALLRWPFNQKVTLMLL 102
Query: 65 NTSSEFSITDEIQSDKNFDSFKRPVN 90
+ ++ + D + D SF+RPVN
Sbjct: 103 DQNNREHVIDAFRPDVTSSSFQRPVN 128
>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 = 60.5 bits (145), Expect = 3e-10, Method: Compositional matrix adjust.
Identities = 28/86 (32%), Positives = 49/86 (56%), Gaps = 3/86 (3%)
Query: 8 FYSACFYSSCFGYRFCTRVNISRED---AQYLSLFIHLVQGENDDILDWPFVGRIRFTAL 64
+S FY+S +GY+ C R+ ++ + +LSLF +++G ND +L WPF ++ L
Sbjct: 43 IFSPAFYTSRYGYKMCLRIYLNGDGTGRGTHLSLFFVVMKGPNDALLRWPFNQKVTLMLL 102
Query: 65 NTSSEFSITDEIQSDKNFDSFKRPVN 90
+ ++ + D + D SF+RPVN
Sbjct: 103 DQNNREHVIDAFRPDVTSSSFQRPVN 128
>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 = 60.5 bits (145), Expect = 3e-10, Method: Compositional matrix adjust.
Identities = 28/86 (32%), Positives = 49/86 (56%), Gaps = 3/86 (3%)
Query: 8 FYSACFYSSCFGYRFCTRVNISRED---AQYLSLFIHLVQGENDDILDWPFVGRIRFTAL 64
+S FY+S +GY+ C R+ ++ + +LSLF +++G ND +L WPF ++ L
Sbjct: 67 IFSPAFYTSRYGYKMCLRIYLNGDGTGRGTHLSLFFVVMKGPNDALLRWPFNQKVTLMLL 126
Query: 65 NTSSEFSITDEIQSDKNFDSFKRPVN 90
+ ++ + D + D SF+RPVN
Sbjct: 127 DQNNREHVIDAFRPDVTSSSFQRPVN 152
>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 = 58.5 bits (140), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 28/86 (32%), Positives = 48/86 (55%), Gaps = 3/86 (3%)
Query: 8 FYSACFYSSCFGYRFCTRVNISRED---AQYLSLFIHLVQGENDDILDWPFVGRIRFTAL 64
+S FY+S +GY+ C R+ ++ + +LSLF + +G ND +L WPF ++ L
Sbjct: 46 IFSPAFYTSRYGYKXCLRIYLNGDGTGRGTHLSLFFVVXKGPNDALLRWPFNQKVTLXLL 105
Query: 65 NTSSEFSITDEIQSDKNFDSFKRPVN 90
+ ++ + D + D SF+RPVN
Sbjct: 106 DQNNREHVIDAFRPDVTSSSFQRPVN 131
>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 = 58.5 bits (140), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 28/86 (32%), Positives = 48/86 (55%), Gaps = 3/86 (3%)
Query: 8 FYSACFYSSCFGYRFCTRVNISRED---AQYLSLFIHLVQGENDDILDWPFVGRIRFTAL 64
+S FY+S +GY+ C R+ ++ + +LSLF + +G ND +L WPF ++ L
Sbjct: 66 IFSPAFYTSRYGYKXCLRIYLNGDGTGRGTHLSLFFVVXKGPNDALLRWPFNQKVTLXLL 125
Query: 65 NTSSEFSITDEIQSDKNFDSFKRPVN 90
+ ++ + D + D SF+RPVN
Sbjct: 126 DQNNREHVIDAFRPDVTSSSFQRPVN 151
>pdb|4GJH|A Chain A, Crystal Structure Of The Traf Domain Of Traf5
pdb|4GJH|B Chain B, Crystal Structure Of The Traf Domain Of Traf5
pdb|4GJH|C Chain C, Crystal Structure Of The Traf Domain Of Traf5
Length = 178
Score = 57.8 bits (138), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 39/125 (31%), Positives = 65/125 (52%), Gaps = 7/125 (5%)
Query: 9 YSACFYSSCFGYRFCTRVNISREDA---QYLSLFIHLVQGENDDILDWPFVGRIRFTALN 65
+S FY+S GYR C R ++ + + +LSL+ +++GE D +L WPF R+ L+
Sbjct: 49 FSQPFYTSRCGYRLCARAYLNGDGSGKGTHLSLYFVVMRGEFDSLLQWPFRQRVTLMLLD 108
Query: 66 TSSEFS-ITDEIQSDKNFDSFKRPVNFFLNKKAFGFNNFIRVADVLDPGRGFLMEDDTFV 124
S + + I + ++D N SFKRP A G F+ + L+ + ++DDT
Sbjct: 109 QSGKKNHIVETFKADPNSSSFKRPDGEM--NIASGCPRFVSHS-TLENSKNTYIKDDTLF 165
Query: 125 IKTQV 129
+K V
Sbjct: 166 LKVAV 170
>pdb|4GWM|A Chain A, Crystal Structure Of Human Promeprin Beta
pdb|4GWM|B Chain B, Crystal Structure Of Human Promeprin Beta
Length = 592
Score = 36.2 bits (82), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 20/50 (40%), Positives = 26/50 (52%), Gaps = 3/50 (6%)
Query: 5 NRYFYSACFYSSCFGYRFCTRVNISREDAQYLSLFIHLVQGENDDILDWP 54
N YS FYSS GY F +N++ ++ HL+ G NDD L WP
Sbjct: 423 NGTLYSPPFYSS-KGYAFQIYLNLAH--VTNAGIYFHLISGANDDQLQWP 469
>pdb|4GWN|A Chain A, Crystal Structure Of Human Mature Meprin Beta
Length = 553
Score = 36.2 bits (82), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 20/50 (40%), Positives = 26/50 (52%), Gaps = 3/50 (6%)
Query: 5 NRYFYSACFYSSCFGYRFCTRVNISREDAQYLSLFIHLVQGENDDILDWP 54
N YS FYSS GY F +N++ ++ HL+ G NDD L WP
Sbjct: 384 NGTLYSPPFYSS-KGYAFQIYLNLAH--VTNAGIYFHLISGANDDQLQWP 430
>pdb|2F1Y|A Chain A, Crystal Structure Of The Traf-Like Domain Of HauspUSP7
Bound To A Mdm2 Peptide
Length = 159
Score = 32.0 bits (71), Expect = 0.096, Method: Compositional matrix adjust.
Identities = 15/39 (38%), Positives = 26/39 (66%), Gaps = 2/39 (5%)
Query: 84 SFKRPVN--FFLNKKAFGFNNFIRVADVLDPGRGFLMED 120
SF R ++ FF + +GF+NF+ ++V DP +GF+ +D
Sbjct: 101 SFSRRISHLFFHKENDWGFSNFMAWSEVTDPEKGFIDDD 139
>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 = 32.0 bits (71), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 15/39 (38%), Positives = 26/39 (66%), Gaps = 2/39 (5%)
Query: 84 SFKRPVN--FFLNKKAFGFNNFIRVADVLDPGRGFLMED 120
SF R ++ FF + +GF+NF+ ++V DP +GF+ +D
Sbjct: 99 SFSRRISHLFFHKENDWGFSNFMAWSEVTDPEKGFIDDD 137
>pdb|2F1W|A Chain A, Crystal Structure Of The Traf-Like Domain Of HauspUSP7
Length = 158
Score = 32.0 bits (71), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 15/39 (38%), Positives = 26/39 (66%), Gaps = 2/39 (5%)
Query: 84 SFKRPVN--FFLNKKAFGFNNFIRVADVLDPGRGFLMED 120
SF R ++ FF + +GF+NF+ ++V DP +GF+ +D
Sbjct: 101 SFSRRISHLFFHKENDWGFSNFMAWSEVTDPEKGFIDDD 139
>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 = 32.0 bits (71), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 15/39 (38%), Positives = 26/39 (66%), Gaps = 2/39 (5%)
Query: 84 SFKRPVN--FFLNKKAFGFNNFIRVADVLDPGRGFLMED 120
SF R ++ FF + +GF+NF+ ++V DP +GF+ +D
Sbjct: 101 SFSRRISHLFFHKENDWGFSNFMAWSEVTDPEKGFIDDD 139
>pdb|2XXN|A Chain A, Structure Of The Virf4-Hausp Traf Domain Complex
Length = 143
Score = 31.6 bits (70), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 15/39 (38%), Positives = 26/39 (66%), Gaps = 2/39 (5%)
Query: 84 SFKRPVN--FFLNKKAFGFNNFIRVADVLDPGRGFLMED 120
SF R ++ FF + +GF+NF+ ++V DP +GF+ +D
Sbjct: 87 SFSRRISHLFFHKENDWGFSNFMAWSEVTDPEKGFIDDD 125
>pdb|2F1Z|A Chain A, Crystal Structure Of Hausp
pdb|2F1Z|B Chain B, Crystal Structure Of Hausp
Length = 522
Score = 31.6 bits (70), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 15/39 (38%), Positives = 26/39 (66%), Gaps = 2/39 (5%)
Query: 84 SFKRPVN--FFLNKKAFGFNNFIRVADVLDPGRGFLMED 120
SF R ++ FF + +GF+NF+ ++V DP +GF+ +D
Sbjct: 111 SFSRRISHLFFHKENDWGFSNFMAWSEVTDPEKGFIDDD 149
>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 = 26.6 bits (57), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 20/73 (27%), Positives = 34/73 (46%), Gaps = 11/73 (15%)
Query: 58 RIRFTALNTSSEFSITDEIQSDKNFDSFKRPVNFFLNKKAFGFNNFIRVADVLDPGRGFL 117
+ +F+ LN E T ++S + + F+ K +GF FIR +LD G L
Sbjct: 80 KFKFSILNAKGE--ETKAMESQRAYR--------FVQGKDWGFKKFIRRGFLLDEANG-L 128
Query: 118 MEDDTFVIKTQVT 130
+ DD + +V+
Sbjct: 129 LPDDKLTLFCEVS 141
>pdb|1ULZ|A Chain A, Crystal Structure Of The Biotin Carboxylase Subunit Of
Pyruvate Carboxylase
Length = 451
Score = 26.6 bits (57), Expect = 4.4, Method: Composition-based stats.
Identities = 15/37 (40%), Positives = 22/37 (59%), Gaps = 2/37 (5%)
Query: 88 PVNFFLNKKAFGFNNFIRV-ADVLDPGRGFLMEDDTF 123
P++ +LNK+ N + V AD + PG GFL E+ F
Sbjct: 55 PLDTYLNKQRI-INLALEVGADAIHPGYGFLAENAEF 90
>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 = 26.6 bits (57), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 20/74 (27%), Positives = 34/74 (45%), Gaps = 11/74 (14%)
Query: 57 GRIRFTALNTSSEFSITDEIQSDKNFDSFKRPVNFFLNKKAFGFNNFIRVADVLDPGRGF 116
+ +F+ LN E T ++S + + F+ K +GF FIR +LD G
Sbjct: 75 AKFKFSILNAKGEE--TKAMESQRAYR--------FVQGKDWGFKKFIRRGFLLDEANG- 123
Query: 117 LMEDDTFVIKTQVT 130
L+ DD + +V+
Sbjct: 124 LLPDDKLTLFCEVS 137
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
0.328 0.142 0.434
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,856,987
Number of Sequences: 62578
Number of extensions: 143053
Number of successful extensions: 356
Number of sequences better than 100.0: 30
Number of HSP's better than 100.0 without gapping: 25
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 313
Number of HSP's gapped (non-prelim): 30
length of query: 134
length of database: 14,973,337
effective HSP length: 88
effective length of query: 46
effective length of database: 9,466,473
effective search space: 435457758
effective search space used: 435457758
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 46 (22.3 bits)