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= 041942
(498 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3KD7|A Chain A, Designed Tpr Module (Ctpr390) In Complex With Its
Peptide-Ligand (Hsp90 Peptide)
pdb|3KD7|B Chain B, Designed Tpr Module (Ctpr390) In Complex With Its
Peptide-Ligand (Hsp90 Peptide)
pdb|3KD7|C Chain C, Designed Tpr Module (Ctpr390) In Complex With Its
Peptide-Ligand (Hsp90 Peptide)
pdb|3KD7|D Chain D, Designed Tpr Module (Ctpr390) In Complex With Its
Peptide-Ligand (Hsp90 Peptide)
pdb|3KD7|E Chain E, Designed Tpr Module (Ctpr390) In Complex With Its
Peptide-Ligand (Hsp90 Peptide)
Length = 125
Score = 32.0 bits (71), Expect = 0.92, Method: Composition-based stats.
Identities = 21/92 (22%), Positives = 43/92 (46%), Gaps = 6/92 (6%)
Query: 173 AWSSLTAGYARRGELSMARSLFD---EMPVRDLVSWNVMITGYAKQGEMEKANELFN--- 226
AW +L Y ++G+ A + E+ + +W + Y KQG+ +KA E +
Sbjct: 11 AWKNLGNAYYKQGDYQKAIEYYQKALELDPNNASAWYNLGNAYYKQGDYQKAIEYYQKAL 70
Query: 227 EVPKRDVVSWNAMISGYVLCGMNKQALEMFEE 258
E+ + +W + Y G ++A+E +++
Sbjct: 71 ELDPNNAKAWYRRGNAYYKQGDYQKAIEDYQK 102
>pdb|1FCH|A Chain A, Crystal Structure Of The Pts1 Complexed To The Tpr Region
Of Human Pex5
pdb|1FCH|B Chain B, Crystal Structure Of The Pts1 Complexed To The Tpr Region
Of Human Pex5
Length = 368
Score = 29.3 bits (64), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 21/85 (24%), Positives = 44/85 (51%), Gaps = 6/85 (7%)
Query: 313 MYAKCGSIERAIEVF---LGMRDRDVSTWSTLIGGLAFHGFAEESIAMFREMQRLKVRPT 369
++ G ++A++ F L +R D W+ L LA +EE++A +R + L+++P
Sbjct: 226 LFNLSGEYDKAVDCFTAALSVRPNDYLLWNKLGATLANGNQSEEAVAAYR--RALELQPG 283
Query: 370 EI-TFVGVLVACSHAGKVEEGKKYF 393
I + + ++C + G E ++F
Sbjct: 284 YIRSRYNLGISCINLGAHREAVEHF 308
>pdb|2C0M|A Chain A, Apo Form Of The Tpr Domain Of The Pex5p Receptor
pdb|2C0M|B Chain B, Apo Form Of The Tpr Domain Of The Pex5p Receptor
pdb|2C0M|C Chain C, Apo Form Of The Tpr Domain Of The Pex5p Receptor
pdb|2C0M|F Chain F, Apo Form Of The Tpr Domain Of The Pex5p Receptor
Length = 319
Score = 29.3 bits (64), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 21/85 (24%), Positives = 44/85 (51%), Gaps = 6/85 (7%)
Query: 313 MYAKCGSIERAIEVF---LGMRDRDVSTWSTLIGGLAFHGFAEESIAMFREMQRLKVRPT 369
++ G ++A++ F L +R D W+ L LA +EE++A +R + L+++P
Sbjct: 177 LFNLSGEYDKAVDCFTAALSVRPNDYLLWNKLGATLANGNQSEEAVAAYR--RALELQPG 234
Query: 370 EI-TFVGVLVACSHAGKVEEGKKYF 393
I + + ++C + G E ++F
Sbjct: 235 YIRSRYNLGISCINLGAHREAVEHF 259
>pdb|3R9A|B Chain B, Human Alanine-Glyoxylate Aminotransferase In Complex With
The Tpr Domain Of Human Pex5p
pdb|3R9A|D Chain D, Human Alanine-Glyoxylate Aminotransferase In Complex With
The Tpr Domain Of Human Pex5p
Length = 328
Score = 29.3 bits (64), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 21/85 (24%), Positives = 44/85 (51%), Gaps = 6/85 (7%)
Query: 313 MYAKCGSIERAIEVF---LGMRDRDVSTWSTLIGGLAFHGFAEESIAMFREMQRLKVRPT 369
++ G ++A++ F L +R D W+ L LA +EE++A +R + L+++P
Sbjct: 186 LFNLSGEYDKAVDCFTAALSVRPNDYLLWNKLGATLANGNQSEEAVAAYR--RALELQPG 243
Query: 370 EI-TFVGVLVACSHAGKVEEGKKYF 393
I + + ++C + G E ++F
Sbjct: 244 YIRSRYNLGISCINLGAHREAVEHF 268
>pdb|2J9Q|A Chain A, A Novel Conformation For The Tpr Domain Of Pex5p
pdb|2J9Q|B Chain B, A Novel Conformation For The Tpr Domain Of Pex5p
Length = 328
Score = 29.3 bits (64), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 21/85 (24%), Positives = 44/85 (51%), Gaps = 6/85 (7%)
Query: 313 MYAKCGSIERAIEVF---LGMRDRDVSTWSTLIGGLAFHGFAEESIAMFREMQRLKVRPT 369
++ G ++A++ F L +R D W+ L LA +EE++A +R + L+++P
Sbjct: 186 LFNLSGEYDKAVDCFTAALSVRPNDYLLWNKLGATLANGNQSEEAVAAYR--RALELQPG 243
Query: 370 EI-TFVGVLVACSHAGKVEEGKKYF 393
I + + ++C + G E ++F
Sbjct: 244 YIRSRYNLGISCINLGAHREAVEHF 268
>pdb|2PMZ|B Chain B, Archaeal Rna Polymerase From Sulfolobus Solfataricus
pdb|2PMZ|R Chain R, Archaeal Rna Polymerase From Sulfolobus Solfataricus
pdb|3HKZ|B Chain B, The X-Ray Crystal Structure Of Rna Polymerase From Archaea
pdb|3HKZ|J Chain J, The X-Ray Crystal Structure Of Rna Polymerase From Archaea
Length = 1124
Score = 29.3 bits (64), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 15/46 (32%), Positives = 27/46 (58%), Gaps = 2/46 (4%)
Query: 388 EGKKYFKLMRDEYNIEPNIRHYGVHGDVELGRLANKRLLNMRKDES 433
+GK+Y++L+ D + P + G GDV +G+++ R L K+ S
Sbjct: 784 KGKEYYRLLEDNGVVSPEVEVKG--GDVLIGKVSPPRFLQEFKELS 827
>pdb|2WAQ|B Chain B, The Complete Structure Of The Archaeal 13-Subunit Dna-
Directed Rna Polymerase
pdb|2WB1|B Chain B, The Complete Structure Of The Archaeal 13-Subunit Dna-
Directed Rna Polymerase
pdb|2WB1|R Chain R, The Complete Structure Of The Archaeal 13-Subunit Dna-
Directed Rna Polymerase
pdb|2Y0S|B Chain B, Crystal Structure Of Sulfolobus Shibatae Rna Polymerase In
P21 Space Group
pdb|2Y0S|R Chain R, Crystal Structure Of Sulfolobus Shibatae Rna Polymerase In
P21 Space Group
pdb|4AYB|B Chain B, Rnap At 3.2ang
pdb|4B1O|B Chain B, Archaeal Rnap-Dna Binary Complex At 4.32ang
pdb|4B1P|R Chain R, Archaeal Rnap-Dna Binary Complex At 4.32ang
Length = 1131
Score = 29.3 bits (64), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 15/48 (31%), Positives = 28/48 (58%), Gaps = 2/48 (4%)
Query: 388 EGKKYFKLMRDEYNIEPNIRHYGVHGDVELGRLANKRLLNMRKDESGD 435
+GK+Y++L+ D + P + G GDV +G+++ R L K+ S +
Sbjct: 787 KGKEYYRLLEDNGVVSPEVEVKG--GDVLIGKVSPPRFLQEFKELSPE 832
>pdb|2FGZ|A Chain A, Crystal Structure Analysis Of Apo Pullulanase From
Klebsiella Pneumoniae
Length = 926
Score = 29.3 bits (64), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 14/62 (22%), Positives = 30/62 (48%)
Query: 148 YFHANCGDLNTASVLFDGDAKMDVVAWSSLTAGYARRGELSMARSLFDEMPVRDLVSWNV 207
Y H+ + + V+ D+ + W LT +A++ + +A+ E +RDL +W+
Sbjct: 223 YAHSLSTNSEYSQVVDLNDSALKPEGWDGLTMPHAQKTKADLAKMTIHESHIRDLSAWDQ 282
Query: 208 MI 209
+
Sbjct: 283 TV 284
>pdb|2FH8|A Chain A, Crystal Structure Analysis Of Klebsiella Pneumoniae
Pullulanase Complexed With Isomaltose
Length = 922
Score = 29.3 bits (64), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 14/62 (22%), Positives = 30/62 (48%)
Query: 148 YFHANCGDLNTASVLFDGDAKMDVVAWSSLTAGYARRGELSMARSLFDEMPVRDLVSWNV 207
Y H+ + + V+ D+ + W LT +A++ + +A+ E +RDL +W+
Sbjct: 219 YAHSLSTNSEYSQVVDLNDSALKPEGWDGLTMPHAQKTKADLAKMTIHESHIRDLSAWDQ 278
Query: 208 MI 209
+
Sbjct: 279 TV 280
>pdb|2FH6|A Chain A, Crystal Structure Analysis Of Klebsiella Pneumoniae
Pullulanase Complexed With Glucose
Length = 920
Score = 29.3 bits (64), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 14/62 (22%), Positives = 30/62 (48%)
Query: 148 YFHANCGDLNTASVLFDGDAKMDVVAWSSLTAGYARRGELSMARSLFDEMPVRDLVSWNV 207
Y H+ + + V+ D+ + W LT +A++ + +A+ E +RDL +W+
Sbjct: 217 YAHSLSTNSEYSQVVDLNDSALKPEGWDGLTMPHAQKTKADLAKMTIHESHIRDLSAWDQ 276
Query: 208 MI 209
+
Sbjct: 277 TV 278
>pdb|2C0L|A Chain A, Tpr Domain Of Human Pex5p In Complex With Human Mscp2
Length = 305
Score = 29.3 bits (64), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 21/85 (24%), Positives = 44/85 (51%), Gaps = 6/85 (7%)
Query: 313 MYAKCGSIERAIEVF---LGMRDRDVSTWSTLIGGLAFHGFAEESIAMFREMQRLKVRPT 369
++ G ++A++ F L +R D W+ L LA +EE++A +R + L+++P
Sbjct: 163 LFNLSGEYDKAVDCFTAALSVRPNDYLLWNKLGATLANGNQSEEAVAAYR--RALELQPG 220
Query: 370 EI-TFVGVLVACSHAGKVEEGKKYF 393
I + + ++C + G E ++F
Sbjct: 221 YIRSRYNLGISCINLGAHREAVEHF 245
>pdb|2FHB|A Chain A, Crystal Structure Analysis Of Klebsiella Pneumoniae
Pullulanase Complexed With Maltose
pdb|2FHC|A Chain A, Crystal Structure Analysis Of Klebsiella Pneumoniae
Pullulanase Complexed With Maltotriose
pdb|2FHF|A Chain A, Crystal Structure Analysis Of Klebsiella Pneumoniae
Pullulanase Complexed With Maltotetraose
Length = 1083
Score = 28.9 bits (63), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 14/62 (22%), Positives = 30/62 (48%)
Query: 148 YFHANCGDLNTASVLFDGDAKMDVVAWSSLTAGYARRGELSMARSLFDEMPVRDLVSWNV 207
Y H+ + + V+ D+ + W LT +A++ + +A+ E +RDL +W+
Sbjct: 380 YAHSLSTNSEYSQVVDLNDSALKPEGWDGLTMPHAQKTKADLAKMTIHESHIRDLSAWDQ 439
Query: 208 MI 209
+
Sbjct: 440 TV 441
>pdb|2B83|A Chain A, A Single Amino Acid Substitution In The Clostridium
Beijerinckii Alcohol Dehydrogenase Is Critical For
Thermostabilization
pdb|2B83|B Chain B, A Single Amino Acid Substitution In The Clostridium
Beijerinckii Alcohol Dehydrogenase Is Critical For
Thermostabilization
pdb|2B83|C Chain C, A Single Amino Acid Substitution In The Clostridium
Beijerinckii Alcohol Dehydrogenase Is Critical For
Thermostabilization
pdb|2B83|D Chain D, A Single Amino Acid Substitution In The Clostridium
Beijerinckii Alcohol Dehydrogenase Is Critical For
Thermostabilization
Length = 351
Score = 28.5 bits (62), Expect = 9.5, Method: Compositional matrix adjust.
Identities = 24/91 (26%), Positives = 44/91 (48%), Gaps = 9/91 (9%)
Query: 111 VLKACTRLLYRNM----GFCVHGKIVKYGFEFNRFVRNSLI--YFHANCGDLNTASVLFD 164
V+ CT +R++ GF H + G++F+ F ++ + YFH N D+N A + D
Sbjct: 81 VIVPCTTPDWRSLEVQAGFPQHSNGMLAGWKFSNF-KDGVFGEYFHVNDADMNLAILPKD 139
Query: 165 GDAKMDVVAWSSLTAGY--ARRGELSMARSL 193
+ V+ +T G+ A ++ M S+
Sbjct: 140 MPLENAVMITDMMTTGFHGAELADIQMGSSV 170
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
0.322 0.136 0.406
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 14,512,605
Number of Sequences: 62578
Number of extensions: 583759
Number of successful extensions: 1249
Number of sequences better than 100.0: 15
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 11
Number of HSP's that attempted gapping in prelim test: 1244
Number of HSP's gapped (non-prelim): 17
length of query: 498
length of database: 14,973,337
effective HSP length: 103
effective length of query: 395
effective length of database: 8,527,803
effective search space: 3368482185
effective search space used: 3368482185
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)