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= psy10936
(410 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3EY9|A Chain A, Structural Basis For Membrane Binding And Catalytic
Activation Of The Peripheral Membrane Enzyme Pyruvate
Oxidase From Escherichia Coli
pdb|3EY9|B Chain B, Structural Basis For Membrane Binding And Catalytic
Activation Of The Peripheral Membrane Enzyme Pyruvate
Oxidase From Escherichia Coli
Length = 572
Score = 34.7 bits (78), Expect = 0.088, Method: Compositional matrix adjust.
Identities = 21/75 (28%), Positives = 36/75 (48%)
Query: 326 LLDTNTTTYSILCGVTTVRLVSSGEFDNAVTVALTPAQVEDLDAASLCDKRGMPDYVQLG 385
L DTN + CG+T +R+ + E D A+ A + +D ++ +P ++L
Sbjct: 482 LHDTNFARIAEACGITGIRVEKASEVDEALQRAFSIDGPVLVDVVVAKEELAIPPQIKLE 541
Query: 386 GAEGFDLAQLSVVDS 400
A+GF L L + S
Sbjct: 542 QAKGFSLYMLRAIIS 556
>pdb|3EYA|A Chain A, Structural Basis For Membrane Binding And Catalytic
Activation Of The Peripheral Membrane Enzyme Pyruvate
Oxidase From Escherichia Coli
pdb|3EYA|B Chain B, Structural Basis For Membrane Binding And Catalytic
Activation Of The Peripheral Membrane Enzyme Pyruvate
Oxidase From Escherichia Coli
pdb|3EYA|C Chain C, Structural Basis For Membrane Binding And Catalytic
Activation Of The Peripheral Membrane Enzyme Pyruvate
Oxidase From Escherichia Coli
pdb|3EYA|D Chain D, Structural Basis For Membrane Binding And Catalytic
Activation Of The Peripheral Membrane Enzyme Pyruvate
Oxidase From Escherichia Coli
pdb|3EYA|E Chain E, Structural Basis For Membrane Binding And Catalytic
Activation Of The Peripheral Membrane Enzyme Pyruvate
Oxidase From Escherichia Coli
pdb|3EYA|F Chain F, Structural Basis For Membrane Binding And Catalytic
Activation Of The Peripheral Membrane Enzyme Pyruvate
Oxidase From Escherichia Coli
pdb|3EYA|G Chain G, Structural Basis For Membrane Binding And Catalytic
Activation Of The Peripheral Membrane Enzyme Pyruvate
Oxidase From Escherichia Coli
pdb|3EYA|H Chain H, Structural Basis For Membrane Binding And Catalytic
Activation Of The Peripheral Membrane Enzyme Pyruvate
Oxidase From Escherichia Coli
pdb|3EYA|I Chain I, Structural Basis For Membrane Binding And Catalytic
Activation Of The Peripheral Membrane Enzyme Pyruvate
Oxidase From Escherichia Coli
pdb|3EYA|J Chain J, Structural Basis For Membrane Binding And Catalytic
Activation Of The Peripheral Membrane Enzyme Pyruvate
Oxidase From Escherichia Coli
pdb|3EYA|K Chain K, Structural Basis For Membrane Binding And Catalytic
Activation Of The Peripheral Membrane Enzyme Pyruvate
Oxidase From Escherichia Coli
pdb|3EYA|L Chain L, Structural Basis For Membrane Binding And Catalytic
Activation Of The Peripheral Membrane Enzyme Pyruvate
Oxidase From Escherichia Coli
Length = 549
Score = 33.1 bits (74), Expect = 0.30, Method: Compositional matrix adjust.
Identities = 19/67 (28%), Positives = 33/67 (49%)
Query: 326 LLDTNTTTYSILCGVTTVRLVSSGEFDNAVTVALTPAQVEDLDAASLCDKRGMPDYVQLG 385
L DTN + CG+T +R+ + E D A+ A + +D ++ +P ++L
Sbjct: 482 LHDTNFARIAEACGITGIRVEKASEVDEALQRAFSIDGPVLVDVVVAKEELAIPPQIKLE 541
Query: 386 GAEGFDL 392
A+GF L
Sbjct: 542 QAKGFSL 548
>pdb|1IAK|B Chain B, Histocompatibility Antigen I-Ak
pdb|1JL4|B Chain B, Crystal Structure Of The Human Cd4 N-Terminal Two Domain
Fragment Complexed To A Class Ii Mhc Molecule
Length = 185
Score = 30.8 bits (68), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 15/43 (34%), Positives = 26/43 (60%), Gaps = 6/43 (13%)
Query: 257 NYGKSVNCSLTTLYPAQVKVLSL------GVGLSNSKIKRNQD 293
N+ ++ CS+T YPA++KV VG+S++++ RN D
Sbjct: 105 NHHNTLVCSVTDFYPAKIKVRWFRNGQEETVGVSSTQLIRNGD 147
>pdb|1D9K|D Chain D, Crystal Structure Of Complex Between D10 Tcr And Pmhc
I-AkCA
pdb|1D9K|H Chain H, Crystal Structure Of Complex Between D10 Tcr And Pmhc
I-AkCA
Length = 188
Score = 30.8 bits (68), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 15/43 (34%), Positives = 26/43 (60%), Gaps = 6/43 (13%)
Query: 257 NYGKSVNCSLTTLYPAQVKVLSL------GVGLSNSKIKRNQD 293
N+ ++ CS+T YPA++KV VG+S++++ RN D
Sbjct: 108 NHHNTLVCSVTDFYPAKIKVRWFRNGQEETVGVSSTQLIRNGD 150
>pdb|1ES0|B Chain B, Crystal Structure Of The Murine Class Ii Allele I-A(G7)
Complexed With The Glutamic Acid Decarboxylase (Gad65)
Peptide 207-220
Length = 221
Score = 30.8 bits (68), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 15/43 (34%), Positives = 26/43 (60%), Gaps = 6/43 (13%)
Query: 257 NYGKSVNCSLTTLYPAQVKVLSL------GVGLSNSKIKRNQD 293
N+ ++ CS+T YPA++KV VG+S++++ RN D
Sbjct: 135 NHHNTLVCSVTDFYPAKIKVRWFRNGQEETVGVSSTQLIRNGD 177
>pdb|1MUJ|B Chain B, Crystal Structure Of Murine Class Ii Mhc I-Ab In Complex
With A Human Clip Peptide
Length = 197
Score = 30.8 bits (68), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 15/43 (34%), Positives = 26/43 (60%), Gaps = 6/43 (13%)
Query: 257 NYGKSVNCSLTTLYPAQVKVLSL------GVGLSNSKIKRNQD 293
N+ ++ CS+T YPA++KV VG+S++++ RN D
Sbjct: 111 NHHNTLVCSVTDFYPAKIKVRWFRNGQEETVGVSSTQLIRNGD 153
>pdb|1K2D|B Chain B, Crystal Structure Of The Autoimmune Mhc Class Ii I-Au
Complexed With Myelin Basic Protein 1-11 At 2.2a
pdb|1U3H|D Chain D, Crystal Structure Of Mouse Tcr 172.10 Complexed With Mhc
Class Ii I-Au Molecule At 2.4 A
pdb|1U3H|H Chain H, Crystal Structure Of Mouse Tcr 172.10 Complexed With Mhc
Class Ii I-Au Molecule At 2.4 A
pdb|2Z31|D Chain D, Crystal Structure Of Immune Receptor Complex
Length = 189
Score = 30.4 bits (67), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 15/43 (34%), Positives = 26/43 (60%), Gaps = 6/43 (13%)
Query: 257 NYGKSVNCSLTTLYPAQVKVLSL------GVGLSNSKIKRNQD 293
N+ ++ CS+T YPA++KV VG+S++++ RN D
Sbjct: 109 NHHNTLVCSVTDFYPAKIKVRWFRNGQEETVGVSSTQLIRNGD 151
>pdb|2PXY|D Chain D, Crystal Structures Of Immune Receptor Complexes
Length = 189
Score = 30.4 bits (67), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 15/43 (34%), Positives = 26/43 (60%), Gaps = 6/43 (13%)
Query: 257 NYGKSVNCSLTTLYPAQVKVLSL------GVGLSNSKIKRNQD 293
N+ ++ CS+T YPA++KV VG+S++++ RN D
Sbjct: 108 NHHNTLVCSVTDFYPAKIKVRWFRNGQEETVGVSSTQLIRNGD 150
>pdb|3MBE|B Chain B, Tcr 21.30 In Complex With Mhc Class Ii I-Ag7hel(11-27)
pdb|3MBE|F Chain F, Tcr 21.30 In Complex With Mhc Class Ii I-Ag7hel(11-27)
Length = 201
Score = 30.4 bits (67), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 15/43 (34%), Positives = 26/43 (60%), Gaps = 6/43 (13%)
Query: 257 NYGKSVNCSLTTLYPAQVKVLSL------GVGLSNSKIKRNQD 293
N+ ++ CS+T YPA++KV VG+S++++ RN D
Sbjct: 115 NHHNTLVCSVTDFYPAKIKVRWFRNGQEETVGVSSTQLIRNGD 157
>pdb|1F3J|B Chain B, Histocompatibility Antigen I-Ag7
pdb|1F3J|E Chain E, Histocompatibility Antigen I-Ag7
Length = 187
Score = 30.4 bits (67), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 15/43 (34%), Positives = 26/43 (60%), Gaps = 6/43 (13%)
Query: 257 NYGKSVNCSLTTLYPAQVKVLSL------GVGLSNSKIKRNQD 293
N+ ++ CS+T YPA++KV VG+S++++ RN D
Sbjct: 106 NHHNTLVCSVTDFYPAKIKVRWFRNGQEETVGVSSTQLIRNGD 148
>pdb|1IAO|B Chain B, Class Ii Mhc I-Ad In Complex With Ovalbumin Peptide
323-339
Length = 222
Score = 30.4 bits (67), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 15/43 (34%), Positives = 26/43 (60%), Gaps = 6/43 (13%)
Query: 257 NYGKSVNCSLTTLYPAQVKVLSL------GVGLSNSKIKRNQD 293
N+ ++ CS+T YPA++KV VG+S++++ RN D
Sbjct: 136 NHHNTLVCSVTDFYPAKIKVRWFRNGQEETVGVSSTQLIRNGD 178
>pdb|3CUP|B Chain B, Crystal Structure Of The Mhc Class Ii Molecule I-Ag7 In
Complex With The Peptide Gad221-235
Length = 222
Score = 30.4 bits (67), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 15/43 (34%), Positives = 26/43 (60%), Gaps = 6/43 (13%)
Query: 257 NYGKSVNCSLTTLYPAQVKVLSL------GVGLSNSKIKRNQD 293
N+ ++ CS+T YPA++KV VG+S++++ RN D
Sbjct: 136 NHHNTLVCSVTDFYPAKIKVRWFRNGQEETVGVSSTQLIRNGD 178
>pdb|3RDT|D Chain D, Crystal Structure Of 809.B5 Tcr Complexed With Mhc Class
Ii I-Ab3K Peptide
Length = 217
Score = 30.4 bits (67), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 15/43 (34%), Positives = 26/43 (60%), Gaps = 6/43 (13%)
Query: 257 NYGKSVNCSLTTLYPAQVKVLSL------GVGLSNSKIKRNQD 293
N+ ++ CS+T YPA++KV VG+S++++ RN D
Sbjct: 137 NHHNTLVCSVTDFYPAKIKVRWFRNGQEETVGVSSTQLIRNGD 179
>pdb|1LNU|B Chain B, Crystal Structure Of Class Ii Mhc Molecule Iab Bound To
Ealpha3k Peptide
pdb|1LNU|D Chain D, Crystal Structure Of Class Ii Mhc Molecule Iab Bound To
Ealpha3k Peptide
pdb|1LNU|F Chain F, Crystal Structure Of Class Ii Mhc Molecule Iab Bound To
Ealpha3k Peptide
pdb|1LNU|H Chain H, Crystal Structure Of Class Ii Mhc Molecule Iab Bound To
Ealpha3k Peptide
pdb|3C5Z|D Chain D, Crystal Structure Of Mouse Mhc Class Ii I-Ab3K PEPTIDE
COMPLEXED WITH Mouse Tcr B3k506
pdb|3C5Z|H Chain H, Crystal Structure Of Mouse Mhc Class Ii I-Ab3K PEPTIDE
COMPLEXED WITH Mouse Tcr B3k506
pdb|3C60|D Chain D, Crystal Structure Of Mouse Mhc Class Ii I-Ab3K PEPTIDE
Complexed With Mouse Tcr Yae62
pdb|3C60|H Chain H, Crystal Structure Of Mouse Mhc Class Ii I-Ab3K PEPTIDE
Complexed With Mouse Tcr Yae62
pdb|3C6L|D Chain D, Crystal Structure Of Mouse Mhc Class Ii I-Ab3K PEPTIDE
Complexed With Mouse Tcr 2w20
pdb|3C6L|H Chain H, Crystal Structure Of Mouse Mhc Class Ii I-Ab3K PEPTIDE
Complexed With Mouse Tcr 2w20
Length = 217
Score = 30.4 bits (67), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 15/43 (34%), Positives = 26/43 (60%), Gaps = 6/43 (13%)
Query: 257 NYGKSVNCSLTTLYPAQVKVLSL------GVGLSNSKIKRNQD 293
N+ ++ CS+T YPA++KV VG+S++++ RN D
Sbjct: 137 NHHNTLVCSVTDFYPAKIKVRWFRNGQEETVGVSSTQLIRNGD 179
>pdb|2P24|B Chain B, I-AuMBP125-135
Length = 259
Score = 30.4 bits (67), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 15/43 (34%), Positives = 26/43 (60%), Gaps = 6/43 (13%)
Query: 257 NYGKSVNCSLTTLYPAQVKVLSL------GVGLSNSKIKRNQD 293
N+ ++ CS+T YPA++KV VG+S++++ RN D
Sbjct: 161 NHHNTLVCSVTDFYPAKIKVRWFRNGQEETVGVSSTQLIRNGD 203
>pdb|2IAD|B Chain B, Class Ii Mhc I-ad In Complex With An Influenza
Hemagglutinin Peptide 126-138
Length = 205
Score = 30.4 bits (67), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 15/43 (34%), Positives = 26/43 (60%), Gaps = 6/43 (13%)
Query: 257 NYGKSVNCSLTTLYPAQVKVLSL------GVGLSNSKIKRNQD 293
N+ ++ CS+T YPA++KV VG+S++++ RN D
Sbjct: 125 NHHNTLVCSVTDFYPAKIKVRWFRNGQEETVGVSSTQLIRNGD 167
>pdb|3SBG|A Chain A, Crystal Structure Of A Prp8 C-Terminal Fragment
Length = 565
Score = 29.3 bits (64), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 13/51 (25%), Positives = 25/51 (49%)
Query: 255 LRNYGKSVNCSLTTLYPAQVKVLSLGVGLSNSKIKRNQDVEVETGTLHKAD 305
L YG+ N +++ L ++K + LG + +KR + E+E K +
Sbjct: 228 LTEYGRKYNVNISALTQTEIKDIILGQNIKAPSVKRQKMAELEAARSEKQN 278
>pdb|3ZEF|B Chain B, Crystal Structure Of Prp8:aar2 Complex: Second Crystal Form
At 3.1 Angstrom Resolution
pdb|3ZEF|E Chain E, Crystal Structure Of Prp8:aar2 Complex: Second Crystal Form
At 3.1 Angstrom Resolution
Length = 1531
Score = 28.9 bits (63), Expect = 5.9, Method: Composition-based stats.
Identities = 13/51 (25%), Positives = 25/51 (49%)
Query: 255 LRNYGKSVNCSLTTLYPAQVKVLSLGVGLSNSKIKRNQDVEVETGTLHKAD 305
L YG+ N +++ L ++K + LG + +KR + E+E K +
Sbjct: 1178 LTEYGRKYNVNISALTQTEIKDIILGQNIKAPSVKRQKMAELEAARSEKQN 1228
>pdb|4I43|B Chain B, Crystal Structure Of Prp8:aar2 Complex
Length = 1564
Score = 28.9 bits (63), Expect = 5.9, Method: Composition-based stats.
Identities = 13/51 (25%), Positives = 25/51 (49%)
Query: 255 LRNYGKSVNCSLTTLYPAQVKVLSLGVGLSNSKIKRNQDVEVETGTLHKAD 305
L YG+ N +++ L ++K + LG + +KR + E+E K +
Sbjct: 1211 LTEYGRKYNVNISALTQTEIKDIILGQNIKAPSVKRQKMAELEAARSEKQN 1261
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
0.319 0.137 0.410
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,399,611
Number of Sequences: 62578
Number of extensions: 533998
Number of successful extensions: 2125
Number of sequences better than 100.0: 19
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 14
Number of HSP's that attempted gapping in prelim test: 2118
Number of HSP's gapped (non-prelim): 33
length of query: 410
length of database: 14,973,337
effective HSP length: 101
effective length of query: 309
effective length of database: 8,652,959
effective search space: 2673764331
effective search space used: 2673764331
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 53 (25.0 bits)