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= psy225
(450 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 140 bits (352), Expect = 2e-33, Method: Compositional matrix adjust.
Identities = 68/151 (45%), Positives = 102/151 (67%), Gaps = 8/151 (5%)
Query: 300 YSGTLIWKITDYSLKCQESIE-----LLSPSFYTSQFGYKLQVSLFLNGNGAGEGTHVSV 354
YSG LIWK+TDY +K +E++E + S FYTS+ GY+L +LNG+G+G+GTH+S+
Sbjct: 22 YSGKLIWKVTDYRVKKREAVEGHTVSVFSQPFYTSRCGYRLCARAYLNGDGSGKGTHLSL 81
Query: 355 YIKLLPGEYDALLKWPFSHSVSFTLFDQSEKPVNVVESFVPDPTWENFQRPSKQPDSLGF 414
Y ++ GE+D+LL+WPF V+ L DQS K ++VE+F DP +F+RP + + +
Sbjct: 82 YFVVMRGEFDSLLQWPFRQRVTLMLLDQSGKKNHIVETFKADPNSSSFKRPDGEMN-IAS 140
Query: 415 GFPRFVSLDTIR--KRQFLKDDAIFIRVKVD 443
G PRFVS T+ K ++KDD +F++V VD
Sbjct: 141 GCPRFVSHSTLENSKNTYIKDDTLFLKVAVD 171
>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 = 132 bits (333), Expect = 3e-31, Method: Compositional matrix adjust.
Identities = 64/156 (41%), Positives = 97/156 (62%), Gaps = 6/156 (3%)
Query: 297 TLNYSGTLIWKITDYSLKCQESI-----ELLSPSFYTSQFGYKLQVSLFLNGNGAGEGTH 351
T +Y+G LIWKI DY + QE++ L S FYT FGYK+ ++LNG+G G+GTH
Sbjct: 71 TASYNGVLIWKIRDYKRRKQEAVMGKTLSLYSQPFYTGYFGYKMCARVYLNGDGMGKGTH 130
Query: 352 VSVYIKLLPGEYDALLKWPFSHSVSFTLFDQSEKPVNVVESFVPDPTWENFQRPSKQPDS 411
+S++ ++ GEYDALL WPF V+ L DQ ++ ++F PDP +F++P+ + +
Sbjct: 131 LSLFFVIMRGEYDALLPWPFKQKVTLMLMDQGSSRRHLGDAFKPDPNSSSFKKPTGEMN- 189
Query: 412 LGFGFPRFVSLDTIRKRQFLKDDAIFIRVKVDPSKI 447
+ G P FV+ + ++KDD IFI+V VD S +
Sbjct: 190 IASGCPVFVAQTVLENGTYIKDDTIFIKVIVDTSDL 225
>pdb|4GHU|A Chain A, Crystal Structure Of Traf3CARDIF
Length = 198
Score = 132 bits (331), Expect = 6e-31, Method: Compositional matrix adjust.
Identities = 64/156 (41%), Positives = 97/156 (62%), Gaps = 6/156 (3%)
Query: 297 TLNYSGTLIWKITDYSLKCQESI-----ELLSPSFYTSQFGYKLQVSLFLNGNGAGEGTH 351
T +Y+G LIWKI DY + QE++ L S FYT FGYK+ ++LNG+G G+GTH
Sbjct: 35 TASYNGVLIWKIRDYKRRKQEAVMGKTLSLYSQPFYTGYFGYKMCARVYLNGDGMGKGTH 94
Query: 352 VSVYIKLLPGEYDALLKWPFSHSVSFTLFDQSEKPVNVVESFVPDPTWENFQRPSKQPDS 411
+S++ ++ GEYDALL WPF V+ L DQ ++ ++F PDP +F++P+ + +
Sbjct: 95 LSLFFVIMRGEYDALLPWPFKQKVTLMLMDQGSSRRHLGDAFKPDPNSSSFKKPTGEMN- 153
Query: 412 LGFGFPRFVSLDTIRKRQFLKDDAIFIRVKVDPSKI 447
+ G P FV+ + ++KDD IFI+V VD S +
Sbjct: 154 IASGCPVFVAQTVLENGTYIKDDTIFIKVIVDTSDL 189
>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 = 132 bits (331), Expect = 6e-31, Method: Compositional matrix adjust.
Identities = 64/156 (41%), Positives = 97/156 (62%), Gaps = 6/156 (3%)
Query: 297 TLNYSGTLIWKITDYSLKCQESI-----ELLSPSFYTSQFGYKLQVSLFLNGNGAGEGTH 351
T +Y+G LIWKI DY + QE++ L S FYT FGYK+ ++LNG+G G+GTH
Sbjct: 35 TASYNGVLIWKIRDYKRRKQEAVMGKTLSLYSQPFYTGYFGYKMCARVYLNGDGMGKGTH 94
Query: 352 VSVYIKLLPGEYDALLKWPFSHSVSFTLFDQSEKPVNVVESFVPDPTWENFQRPSKQPDS 411
+S++ ++ GEYDALL WPF V+ L DQ ++ ++F PDP +F++P+ + +
Sbjct: 95 LSLFFVIMRGEYDALLPWPFKQKVTLMLMDQGSSRRHLGDAFKPDPNSSSFKKPTGEMN- 153
Query: 412 LGFGFPRFVSLDTIRKRQFLKDDAIFIRVKVDPSKI 447
+ G P FV+ + ++KDD IFI+V VD S +
Sbjct: 154 IASGCPVFVAQTVLENGTYIKDDTIFIKVIVDTSDL 189
>pdb|1RF3|A Chain A, Structurally Distinct Recognition Motifs In Lymphotoxin-B
Receptor And Cd40 For Traf-Mediated Signaling
Length = 200
Score = 131 bits (330), Expect = 6e-31, Method: Compositional matrix adjust.
Identities = 64/156 (41%), Positives = 97/156 (62%), Gaps = 6/156 (3%)
Query: 297 TLNYSGTLIWKITDYSLKCQESI-----ELLSPSFYTSQFGYKLQVSLFLNGNGAGEGTH 351
T +Y+G LIWKI DY + QE++ L S FYT FGYK+ ++LNG+G G+GTH
Sbjct: 35 TASYNGVLIWKIRDYKRRKQEAVMGKTLSLYSQPFYTGYFGYKMCARVYLNGDGMGKGTH 94
Query: 352 VSVYIKLLPGEYDALLKWPFSHSVSFTLFDQSEKPVNVVESFVPDPTWENFQRPSKQPDS 411
+S++ ++ GEYDALL WPF V+ L DQ ++ ++F PDP +F++P+ + +
Sbjct: 95 LSLFFVIMRGEYDALLPWPFKQKVTLMLMDQGSSRRHLGDAFKPDPNSSSFKKPTGEMN- 153
Query: 412 LGFGFPRFVSLDTIRKRQFLKDDAIFIRVKVDPSKI 447
+ G P FV+ + ++KDD IFI+V VD S +
Sbjct: 154 IASGCPVFVAQTVLENGTYIKDDTIFIKVIVDTSDL 189
>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 = 127 bits (319), Expect = 1e-29, Method: Compositional matrix adjust.
Identities = 66/188 (35%), Positives = 114/188 (60%), Gaps = 18/188 (9%)
Query: 262 KHIEENVNQHMLLMCSLVSKQQQQISTLKSALNKVTLNYSGTLIWKITDYSLKCQESIE- 320
+ +E ++ L M L +Q++ ++++ Y G IWKI+D++ K QE++
Sbjct: 13 QQLERSIGLKDLAMADL----EQKVLEMEAS------TYDGVFIWKISDFARKRQEAVAG 62
Query: 321 ----LLSPSFYTSQFGYKLQVSLFLNGNGAGEGTHVSVYIKLLPGEYDALLKWPFSHSVS 376
+ SP+FYTS++GYK+ + ++LNG+G G GTH+S++ ++ G DALL+WPF+ V+
Sbjct: 63 RIPAIFSPAFYTSRYGYKMCLRIYLNGDGTGRGTHLSLFFVVMKGPNDALLRWPFNQKVT 122
Query: 377 FTLFDQSEKPVNVVESFVPDPTWENFQRPSKQPDSLGFGFPRFVSLDTIR-KRQFLKDDA 435
L DQ+ + +V+++F PD T +FQRP + + G P F + + K +++DDA
Sbjct: 123 LMLLDQNNRE-HVIDAFRPDVTSSSFQRPVNDMN-IASGCPLFCPVSKMEAKNSYVRDDA 180
Query: 436 IFIRVKVD 443
IFI+ VD
Sbjct: 181 IFIKAIVD 188
>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 = 126 bits (316), Expect = 3e-29, Method: Compositional matrix adjust.
Identities = 61/150 (40%), Positives = 98/150 (65%), Gaps = 8/150 (5%)
Query: 300 YSGTLIWKITDYSLKCQESIE-----LLSPSFYTSQFGYKLQVSLFLNGNGAGEGTHVSV 354
Y G IWKI+D++ K QE++ + SP+FYTS++GYK+ + ++LNG+G G GTH+S+
Sbjct: 17 YDGVFIWKISDFARKRQEAVAGRIPAIFSPAFYTSRYGYKMCLRIYLNGDGTGRGTHLSL 76
Query: 355 YIKLLPGEYDALLKWPFSHSVSFTLFDQSEKPVNVVESFVPDPTWENFQRPSKQPDSLGF 414
+ ++ G DALL+WPF+ V+ L DQ+ + +V+++F PD T +FQRP + +
Sbjct: 77 FFVVMKGPNDALLRWPFNQKVTLMLLDQNNRE-HVIDAFRPDVTSSSFQRPVNDMN-IAS 134
Query: 415 GFPRFVSLDTIR-KRQFLKDDAIFIRVKVD 443
G P F + + K +++DDAIFI+ VD
Sbjct: 135 GCPLFCPVSKMEAKNSYVRDDAIFIKAIVD 164
>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 = 125 bits (315), Expect = 4e-29, Method: Compositional matrix adjust.
Identities = 66/188 (35%), Positives = 113/188 (60%), Gaps = 18/188 (9%)
Query: 262 KHIEENVNQHMLLMCSLVSKQQQQISTLKSALNKVTLNYSGTLIWKITDYSLKCQESIE- 320
+ +E ++ L M L +Q++ ++++ Y G IWKI+D+ K QE++
Sbjct: 8 QQLERSIGLKDLAMADL----EQKVLEMEAS------TYDGVFIWKISDFPRKRQEAVAG 57
Query: 321 ----LLSPSFYTSQFGYKLQVSLFLNGNGAGEGTHVSVYIKLLPGEYDALLKWPFSHSVS 376
+ SP+FYTS++GYK+ + ++LNG+G G GTH+S++ ++ G DALL+WPF+ V+
Sbjct: 58 RIPAIFSPAFYTSRYGYKMCLRIYLNGDGTGRGTHLSLFFVVMKGPNDALLRWPFNQKVT 117
Query: 377 FTLFDQSEKPVNVVESFVPDPTWENFQRPSKQPDSLGFGFPRFVSLDTIR-KRQFLKDDA 435
L DQ+ + +V+++F PD T +FQRP + + G P F + + K +++DDA
Sbjct: 118 LMLLDQNNRE-HVIDAFRPDVTSSSFQRPVNDMN-IASGCPLFCPVSKMEAKNSYVRDDA 175
Query: 436 IFIRVKVD 443
IFI+ VD
Sbjct: 176 IFIKAIVD 183
>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 = 125 bits (313), Expect = 6e-29, Method: Compositional matrix adjust.
Identities = 61/150 (40%), Positives = 97/150 (64%), Gaps = 8/150 (5%)
Query: 300 YSGTLIWKITDYSLKCQESIE-----LLSPSFYTSQFGYKLQVSLFLNGNGAGEGTHVSV 354
Y G IWKI+D+ K QE++ + SP+FYTS++GYK+ + ++LNG+G G GTH+S+
Sbjct: 17 YDGVFIWKISDFPRKRQEAVAGRIPAIFSPAFYTSRYGYKMCLRIYLNGDGTGRGTHLSL 76
Query: 355 YIKLLPGEYDALLKWPFSHSVSFTLFDQSEKPVNVVESFVPDPTWENFQRPSKQPDSLGF 414
+ ++ G DALL+WPF+ V+ L DQ+ + +V+++F PD T +FQRP + +
Sbjct: 77 FFVVMKGPNDALLRWPFNQKVTLMLLDQNNRE-HVIDAFRPDVTSSSFQRPVNDMN-IAS 134
Query: 415 GFPRFVSLDTIR-KRQFLKDDAIFIRVKVD 443
G P F + + K +++DDAIFI+ VD
Sbjct: 135 GCPLFCPVSKMEAKNSYVRDDAIFIKAIVD 164
>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 = 123 bits (308), Expect = 3e-28, Method: Compositional matrix adjust.
Identities = 61/150 (40%), Positives = 95/150 (63%), Gaps = 8/150 (5%)
Query: 300 YSGTLIWKITDYSLKCQESIE-----LLSPSFYTSQFGYKLQVSLFLNGNGAGEGTHVSV 354
Y G IWKI+D++ K QE++ + SP+FYTS++GYK + ++LNG+G G GTH+S+
Sbjct: 40 YDGVFIWKISDFARKRQEAVAGRIPAIFSPAFYTSRYGYKXCLRIYLNGDGTGRGTHLSL 99
Query: 355 YIKLLPGEYDALLKWPFSHSVSFTLFDQSEKPVNVVESFVPDPTWENFQRPSKQPDSLGF 414
+ + G DALL+WPF+ V+ L DQ+ + +V+++F PD T +FQRP + +
Sbjct: 100 FFVVXKGPNDALLRWPFNQKVTLXLLDQNNRE-HVIDAFRPDVTSSSFQRPVNDXN-IAS 157
Query: 415 GFPRFVSLDTIR-KRQFLKDDAIFIRVKVD 443
G P F + K +++DDAIFI+ VD
Sbjct: 158 GCPLFCPVSKXEAKNSYVRDDAIFIKAIVD 187
>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 = 121 bits (303), Expect = 1e-27, Method: Compositional matrix adjust.
Identities = 61/150 (40%), Positives = 94/150 (62%), Gaps = 8/150 (5%)
Query: 300 YSGTLIWKITDYSLKCQESIE-----LLSPSFYTSQFGYKLQVSLFLNGNGAGEGTHVSV 354
Y G IWKI+D+ K QE++ + SP+FYTS++GYK + ++LNG+G G GTH+S+
Sbjct: 20 YDGVFIWKISDFPRKRQEAVAGRIPAIFSPAFYTSRYGYKXCLRIYLNGDGTGRGTHLSL 79
Query: 355 YIKLLPGEYDALLKWPFSHSVSFTLFDQSEKPVNVVESFVPDPTWENFQRPSKQPDSLGF 414
+ + G DALL+WPF+ V+ L DQ+ + +V+++F PD T +FQRP + +
Sbjct: 80 FFVVXKGPNDALLRWPFNQKVTLXLLDQNNRE-HVIDAFRPDVTSSSFQRPVNDXN-IAS 137
Query: 415 GFPRFVSLDTIR-KRQFLKDDAIFIRVKVD 443
G P F + K +++DDAIFI+ VD
Sbjct: 138 GCPLFCPVSKXEAKNSYVRDDAIFIKAIVD 167
>pdb|1LB5|A Chain A, Traf6-Rank Complex
pdb|1LB6|A Chain A, Traf6-Cd40 Complex
Length = 160
Score = 104 bits (260), Expect = 8e-23, Method: Compositional matrix adjust.
Identities = 58/150 (38%), Positives = 86/150 (57%), Gaps = 8/150 (5%)
Query: 301 SGTLIWKITDYS--LKCQES---IELLSPSFYTSQFGYKLQVSLFLNGNGAGE-GTHVSV 354
+G IWKI ++ LKCQE + + SP FYT + GYKL + L L A ++S+
Sbjct: 4 NGIYIWKIGNFGMHLKCQEEEKPVVIHSPGFYTGKPGYKLCMRLHLQLPTAQRCANYISL 63
Query: 355 YIKLLPGEYDALLKWPFSHSVSFTLFDQSEKPV--NVVESFVPDPTWENFQRPSKQPDSL 412
++ + GEYD+ L WPF ++ T+ DQSE PV N E P FQRP+ +
Sbjct: 64 FVHTMQGEYDSHLPWPFQGTIRLTILDQSEAPVRQNHEEIMDAKPELLAFQRPTIPRNPK 123
Query: 413 GFGFPRFVSLDTIRKRQFLKDDAIFIRVKV 442
GFG+ F+ L+ +R+R F+KDD + +R +V
Sbjct: 124 GFGYVTFMHLEALRQRTFIKDDTLLVRCEV 153
>pdb|1LB4|A Chain A, Traf6 Apo Structure
Length = 159
Score = 104 bits (260), Expect = 9e-23, Method: Compositional matrix adjust.
Identities = 58/150 (38%), Positives = 86/150 (57%), Gaps = 8/150 (5%)
Query: 301 SGTLIWKITDYS--LKCQES---IELLSPSFYTSQFGYKLQVSLFLNGNGAGE-GTHVSV 354
+G IWKI ++ LKCQE + + SP FYT + GYKL + L L A ++S+
Sbjct: 3 NGIYIWKIGNFGMHLKCQEEEKPVVIHSPGFYTGKPGYKLCMRLHLQLPTAQRCANYISL 62
Query: 355 YIKLLPGEYDALLKWPFSHSVSFTLFDQSEKPV--NVVESFVPDPTWENFQRPSKQPDSL 412
++ + GEYD+ L WPF ++ T+ DQSE PV N E P FQRP+ +
Sbjct: 63 FVHTMQGEYDSHLPWPFQGTIRLTILDQSEAPVRQNHEEIMDAKPELLAFQRPTIPRNPK 122
Query: 413 GFGFPRFVSLDTIRKRQFLKDDAIFIRVKV 442
GFG+ F+ L+ +R+R F+KDD + +R +V
Sbjct: 123 GFGYVTFMHLEALRQRTFIKDDTLLVRCEV 152
>pdb|2EOD|A Chain A, Solution Structure Of Traf-Type Zinc Finger Domains (190-
248) From Human Tnf Receptor-Associated Factor 4
Length = 66
Score = 66.6 bits (161), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 28/59 (47%), Positives = 40/59 (67%)
Query: 183 KRLVACRYCSKSYVADTLVTHQTKCTRAPIPCPNQCEMVALPREELDVHIKEHCNSLLV 241
KR C YC+K +V DT+ +HQ +C R P+ CPNQC + + RE+L H+K+ CN+ LV
Sbjct: 8 KRTQPCTYCTKEFVFDTIQSHQYQCPRLPVACPNQCGVGTVAREDLPGHLKDSCNTALV 66
Score = 30.8 bits (68), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 17/59 (28%), Positives = 25/59 (42%), Gaps = 1/59 (1%)
Query: 129 ERITTCQYCLESFSGMEMEDHTGHCSYEMVYCENKCG-HKIQRRLMAKHRANDCYKRLV 186
+R C YC + F ++ H C V C N+CG + R + H + C LV
Sbjct: 8 KRTQPCTYCTKEFVFDTIQSHQYQCPRLPVACPNQCGVGTVAREDLPGHLKDSCNTALV 66
>pdb|2YUC|A Chain A, Solution Structure Of The Traf-Type Zinc Finger Domains
(102-164) From Human Tnf Receptor Associated Factor 4
Length = 76
Score = 50.1 bits (118), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 24/63 (38%), Positives = 34/63 (53%), Gaps = 1/63 (1%)
Query: 95 GHLQTCKYDAIPC-NKCLAAIPKTLMEDHSKFTCPERITTCQYCLESFSGMEMEDHTGHC 153
GHL TC ++ IPC N+C + + + H + CP+R C++C FSG E H G C
Sbjct: 7 GHLNTCSFNVIPCPNRCPMKLSRRDLPAHLQHDCPKRRLKCEFCGCDFSGEAYESHEGMC 66
Query: 154 SYE 156
E
Sbjct: 67 PQE 69
Score = 45.8 bits (107), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 18/61 (29%), Positives = 32/61 (52%)
Query: 149 HTGHCSYEMVYCENKCGHKIQRRLMAKHRANDCYKRLVACRYCSKSYVADTLVTHQTKCT 208
H CS+ ++ C N+C K+ RR + H +DC KR + C +C + + +H+ C
Sbjct: 8 HLNTCSFNVIPCPNRCPMKLSRRDLPAHLQHDCPKRRLKCEFCGCDFSGEAYESHEGMCP 67
Query: 209 R 209
+
Sbjct: 68 Q 68
Score = 36.6 bits (83), Expect = 0.026, Method: Compositional matrix adjust.
Identities = 22/59 (37%), Positives = 29/59 (49%), Gaps = 3/59 (5%)
Query: 203 HQTKCTRAPIPCPNQCEMVALPREELDVHIKEHCNSLLVSCVFKDAGCRFKGMRGETME 261
H C+ IPCPN+C M L R +L H++ C + C F GC F G E+ E
Sbjct: 8 HLNTCSFNVIPCPNRCPM-KLSRRDLPAHLQHDCPKRRLKCEF--CGCDFSGEAYESHE 63
>pdb|4GWN|A Chain A, Crystal Structure Of Human Mature Meprin Beta
Length = 553
Score = 48.5 bits (114), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 44/162 (27%), Positives = 73/162 (45%), Gaps = 29/162 (17%)
Query: 305 IWKITDYS-LKCQESIELLSPSFYTSQFGYKLQVSLFLNGNGAGEGTHVSVYIKLLPGEY 363
IW I +++ + L SP FY+S+ GY Q+ L L T+ +Y L+ G
Sbjct: 370 IWHIRNFTQFIGSPNGTLYSPPFYSSK-GYAFQIYLNL-----AHVTNAGIYFHLISGAN 423
Query: 364 DALLKWPFS-HSVSFTLFDQS---EKPVNVVESFVPDP--TWEN----FQRPSKQPD--- 410
D L+WP + TL DQ+ + ++ S DP T +N + RPSK
Sbjct: 424 DDQLQWPCPWQQATMTLLDQNPDIRQRMSNQRSITTDPFMTTDNGNYFWDRPSKVGTVAL 483
Query: 411 ---------SLGFGFPRFVSLDTIRKRQFLKDDAIFIRVKVD 443
G+G F++ + ++ R F+K D ++I + V+
Sbjct: 484 FSNGTQFRRGGGYGTSAFITHERLKSRDFIKGDDVYILLTVE 525
>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 = 48.1 bits (113), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 44/162 (27%), Positives = 73/162 (45%), Gaps = 29/162 (17%)
Query: 305 IWKITDYS-LKCQESIELLSPSFYTSQFGYKLQVSLFLNGNGAGEGTHVSVYIKLLPGEY 363
IW I +++ + L SP FY+S+ GY Q+ L L T+ +Y L+ G
Sbjct: 409 IWHIRNFTQFIGSPNGTLYSPPFYSSK-GYAFQIYLNL-----AHVTNAGIYFHLISGAN 462
Query: 364 DALLKWPFS-HSVSFTLFDQS---EKPVNVVESFVPDP--TWEN----FQRPSKQPD--- 410
D L+WP + TL DQ+ + ++ S DP T +N + RPSK
Sbjct: 463 DDQLQWPCPWQQATMTLLDQNPDIRQRMSNQRSITTDPFMTTDNGNYFWDRPSKVGTVAL 522
Query: 411 ---------SLGFGFPRFVSLDTIRKRQFLKDDAIFIRVKVD 443
G+G F++ + ++ R F+K D ++I + V+
Sbjct: 523 FSNGTQFRRGGGYGTSAFITHERLKSRDFIKGDDVYILLTVE 564
>pdb|3HCS|A Chain A, Crystal Structure Of The N-Terminal Domain Of Traf6
pdb|3HCS|B Chain B, Crystal Structure Of The N-Terminal Domain Of Traf6
Length = 170
Score = 39.3 bits (90), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 21/74 (28%), Positives = 32/74 (43%), Gaps = 1/74 (1%)
Query: 137 CLESFSGMEMEDHTGHCSYEMVYCENKCGHKIQRRLMAKHRANDCYKRLVACRYCSKSYV 196
CL +EDH HC + ++ C +C Q+ + H DC +R V+C C+ S
Sbjct: 90 CLHKMELRHLEDHQAHCEFALMDCP-QCQRPFQKFHINIHILKDCPRRQVSCDNCAASMA 148
Query: 197 ADTLVTHQTKCTRA 210
+ H C A
Sbjct: 149 FEDKEIHDQNCPLA 162
Score = 37.0 bits (84), Expect = 0.025, Method: Compositional matrix adjust.
Identities = 25/100 (25%), Positives = 45/100 (45%), Gaps = 3/100 (3%)
Query: 58 SLTPDVSDSEKDTMGSLIHCIHYKEGCKWYDELKSLKGHLQTCKYDAIPCNKCLAAIPKT 117
L PD + ++++ + ++ C EGC EL+ L+ H C++ + C +C K
Sbjct: 67 QLFPD-NFAKREILSLMVKC--PNEGCLHKMELRHLEDHQAHCEFALMDCPQCQRPFQKF 123
Query: 118 LMEDHSKFTCPERITTCQYCLESFSGMEMEDHTGHCSYEM 157
+ H CP R +C C S + + E H +C +
Sbjct: 124 HINIHILKDCPRRQVSCDNCAASMAFEDKEIHDQNCPLAL 163
>pdb|2J6I|A Chain A, Candida Boidinii Formate Dehydrogenase (Fdh) C-Terminal
Mutant
pdb|2J6I|B Chain B, Candida Boidinii Formate Dehydrogenase (Fdh) C-Terminal
Mutant
pdb|2J6I|C Chain C, Candida Boidinii Formate Dehydrogenase (Fdh) C-Terminal
Mutant
pdb|2J6I|D Chain D, Candida Boidinii Formate Dehydrogenase (Fdh) C-Terminal
Mutant
Length = 364
Score = 33.1 bits (74), Expect = 0.37, Method: Compositional matrix adjust.
Identities = 20/53 (37%), Positives = 31/53 (58%), Gaps = 4/53 (7%)
Query: 291 SALNKVTLNYSGTLIWKITDYSLKCQESIELLSPSFYTSQFGYKLQVSLFLNG 343
A N +T +YSGT + T Y+ Q ++ +L SF+T +F Y+ Q + LNG
Sbjct: 303 GAGNAMTPHYSGTTLDAQTRYA---QGTVNILE-SFFTGKFDYRPQDIILLNG 351
>pdb|2FSS|A Chain A, Candida Boidinii Formate Dehydrogenase (Fdh) K47e Mutant
pdb|2FSS|B Chain B, Candida Boidinii Formate Dehydrogenase (Fdh) K47e Mutant
pdb|2FSS|C Chain C, Candida Boidinii Formate Dehydrogenase (Fdh) K47e Mutant
pdb|2FSS|D Chain D, Candida Boidinii Formate Dehydrogenase (Fdh) K47e Mutant
Length = 365
Score = 32.7 bits (73), Expect = 0.46, Method: Compositional matrix adjust.
Identities = 19/53 (35%), Positives = 29/53 (54%), Gaps = 4/53 (7%)
Query: 291 SALNKVTLNYSGTLIWKITDYSLKCQESIELLSPSFYTSQFGYKLQVSLFLNG 343
A N +T +YSGT + T Y+ + +E SF+T +F Y+ Q + LNG
Sbjct: 304 GAGNAMTPHYSGTTLDAQTRYAQGTKNILE----SFFTGKFDYRPQDIILLNG 352
>pdb|2D9K|A Chain A, Solution Structure Of The Zf-Traf Domain Of Fln29 Gene
Product
Length = 75
Score = 31.6 bits (70), Expect = 0.91, Method: Compositional matrix adjust.
Identities = 15/55 (27%), Positives = 27/55 (49%), Gaps = 1/55 (1%)
Query: 122 HSKFTCPERITTCQYCLESFSGMEMEDHTGHCSYEMVYCENKCGHKIQRRLMAKH 176
H + CP R+ CQ+C S +++++H +C C N CG + + + H
Sbjct: 8 HEETECPLRLAVCQHCDLELSILKLKEHEDYCGARTELCGN-CGRNVLVKDLKTH 61
>pdb|3HZL|A Chain A, Tyr258phe Mutant Of Nikd, An Unusual Amino Acid Oxidase
Essential For Nikkomycin Biosynthesis: Open Form At
1.55a Resolution
Length = 397
Score = 29.6 bits (65), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 17/68 (25%), Positives = 31/68 (45%)
Query: 349 GTHVSVYIKLLPGEYDALLKWPFSHSVSFTLFDQSEKPVNVVESFVPDPTWENFQRPSKQ 408
GT+ + + L G Y L P +++++++ + P W FQ+P+ Q
Sbjct: 193 GTYRAGKVVLACGPYTNDLLEPLGARLAYSVYEMAIAAYRQATPVTEAPFWFAFQQPTPQ 252
Query: 409 PDSLGFGF 416
+L FGF
Sbjct: 253 DTNLFFGF 260
>pdb|3S3E|A Chain A, Crystal Structure Of The Catalytic Domain Of Ptp10d From
Drosophila Melanogaster
pdb|3S3E|B Chain B, Crystal Structure Of The Catalytic Domain Of Ptp10d From
Drosophila Melanogaster
pdb|3S3F|A Chain A, Crystal Structure Of The Catalytic Domain Of Ptp10d From
Drosophila Melanogaster With A Small Molecule Inhibitor
Vanadate
pdb|3S3F|B Chain B, Crystal Structure Of The Catalytic Domain Of Ptp10d From
Drosophila Melanogaster With A Small Molecule Inhibitor
Vanadate
pdb|3S3H|A Chain A, Crystal Structure Of The Catalytic Domain Of Ptp10d From
Drosophila Melanogaster With A Phosphopeptide Substrate
Gp4
pdb|3S3H|B Chain B, Crystal Structure Of The Catalytic Domain Of Ptp10d From
Drosophila Melanogaster With A Phosphopeptide Substrate
Gp4
pdb|3S3K|A Chain A, Crystal Structure Of The Catalytic Domain Of Ptp10d From
Drosophila Melanogaster With A Small Molecular Inhibitor
Para-Nitrocatechol Sulphate
pdb|3S3K|B Chain B, Crystal Structure Of The Catalytic Domain Of Ptp10d From
Drosophila Melanogaster With A Small Molecular Inhibitor
Para-Nitrocatechol Sulphate
Length = 307
Score = 28.9 bits (63), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 14/39 (35%), Positives = 21/39 (53%), Gaps = 1/39 (2%)
Query: 87 YDELKSLKGHLQTCKYDAIPCNKCLAAIPKTLMEDHSKF 125
++ELK + G Q C + +PCN+ L DHS+F
Sbjct: 50 FEELKHV-GRDQPCTFADLPCNRPKNRFTNILPYDHSRF 87
>pdb|3RGH|A Chain A, Structure Of Filamin A Immunoglobulin-Like Repeat 10 From
Homo Sapiens
pdb|3RGH|B Chain B, Structure Of Filamin A Immunoglobulin-Like Repeat 10 From
Homo Sapiens
Length = 100
Score = 28.9 bits (63), Expect = 5.5, Method: Composition-based stats.
Identities = 11/23 (47%), Positives = 14/23 (60%)
Query: 347 GEGTHVSVYIKLLPGEYDALLKW 369
G+GTH YI L PG Y +K+
Sbjct: 61 GDGTHTITYIPLCPGAYTVTIKY 83
>pdb|2OLN|A Chain A, Nikd, An Unusual Amino Acid Oxidase Essential For
Nikkomycin Biosynthesis: Closed Form At 1.15 A
Resolution
pdb|2OLO|A Chain A, Nikd, An Unusual Amino Acid Oxidase Essential For
Nikkomycin Biosynthesis: Open Form At 1.9a Resolution
Length = 397
Score = 28.5 bits (62), Expect = 8.3, Method: Compositional matrix adjust.
Identities = 16/68 (23%), Positives = 31/68 (45%)
Query: 349 GTHVSVYIKLLPGEYDALLKWPFSHSVSFTLFDQSEKPVNVVESFVPDPTWENFQRPSKQ 408
GT+ + + L G Y L P +++++++ + P W FQ+P+ Q
Sbjct: 193 GTYRAGKVVLACGPYTNDLLEPLGARLAYSVYEMAIAAYRQATPVTEAPFWFAFQQPTPQ 252
Query: 409 PDSLGFGF 416
+L +GF
Sbjct: 253 DTNLFYGF 260
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 0.134 0.421
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,898,411
Number of Sequences: 62578
Number of extensions: 508344
Number of successful extensions: 1218
Number of sequences better than 100.0: 28
Number of HSP's better than 100.0 without gapping: 21
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 1155
Number of HSP's gapped (non-prelim): 37
length of query: 450
length of database: 14,973,337
effective HSP length: 102
effective length of query: 348
effective length of database: 8,590,381
effective search space: 2989452588
effective search space used: 2989452588
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 53 (25.0 bits)