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= 029961
(185 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2X5F|A Chain A, Crystal Structure Of The Methicillin-Resistant
Staphylococcus Aureus Sar2028, An
Aspartate_tyrosine_phenylalanine Pyridoxal-5'-Phosphate
Dependent Aminotransferase
pdb|2X5F|B Chain B, Crystal Structure Of The Methicillin-Resistant
Staphylococcus Aureus Sar2028, An
Aspartate_tyrosine_phenylalanine Pyridoxal-5'-Phosphate
Dependent Aminotransferase
Length = 430
Score = 30.8 bits (68), Expect = 0.44, Method: Compositional matrix adjust.
Identities = 12/32 (37%), Positives = 21/32 (65%)
Query: 119 HPDNPTGWTVCRQETSIRIKPLSALASMAEKV 150
+P+NPTG+T +E + ++ + ALA+ KV
Sbjct: 197 YPNNPTGYTPTHKEVTTIVEAIKALANKGTKV 228
>pdb|1OLA|A Chain A, The Structural Basis Of Multispecificity In The
Oligopeptide-binding Protein Oppa
pdb|2OLB|A Chain A, Oligopeptide Binding Protein (Oppa) Complexed With Tri-
Lysine
pdb|1OLC|A Chain A, Oligo-Peptide Binding Protein (Oppa) Complexed With
Lys-Lys- Lys-Ala
pdb|1JEV|A Chain A, Oligo-peptide Binding Protein (oppa) Complexed With Kwk
pdb|1JET|A Chain A, Oligo-Peptide Binding Protein (Oppa) Complexed With Kak
pdb|1JEU|A Chain A, Oligo-Peptide Binding Protein (Oppa) Complexed With Kek
pdb|2RKM|A Chain A, Structure Of Oppa Complexed With Lys-Lys
pdb|1B32|A Chain A, Oligo-Peptide Binding Protein (Oppa) Complexed With Kmk
pdb|1B3F|A Chain A, Oligo-Peptide Binding Protein (Oppa) Complexed With Khk
pdb|1B3G|A Chain A, Oligo-Peptide Binding Protein (Oppa) Complexed With Kik
pdb|1B3L|A Chain A, Oligo-Peptide Binding Protein (Oppa) Complexed With Kgk
pdb|1B3L|C Chain C, Oligo-Peptide Binding Protein (Oppa) Complexed With Kgk
pdb|1B7H|A Chain A, Oligo-Peptide Binding Protein Complexed With Lysyl-
Norleucyl-Lysine
pdb|1B0H|A Chain A, Oligo-Peptide Binding Protein Complexed With Lysyl-
Napthylalanyl-Lysine
pdb|1B1H|A Chain A, Oligo-Peptide Binding ProteinTRIPEPTIDE (LYS HPE LYS)
Complex
pdb|1B2H|A Chain A, Oligo-Peptide Binding Protein Complexed With
Lysyl-Ornithyl-Lysine
pdb|1B3H|A Chain A, Oligo-Peptide Binding Protein Complexed With Lysyl-
Cyclohexylalanyl-Lysine
pdb|1B4H|A Chain A, Oligo-Peptide Binding Protein Complexed With Lysyl-
Diaminobutyric Acid-Lysine
pdb|1B5H|A Chain A, Oligo-Peptide Binding Protein Complexed With
Lysyl-Diaminopropanoic Acid-Lysine
pdb|1B6H|A Chain A, Oligo-Peptide Binding Protein Complexed With
Lysyl-Norvalyl- Lysine
pdb|1B52|A Chain A, Oligo-Peptide Binding Protein (Oppa) Complexed With Ktk
pdb|1B51|A Chain A, Oligo-Peptide Binding Protein (Oppa) Complexed With Ksk
pdb|1B5I|A Chain A, Oligo-Peptide Binding Protein (Oppa) Complexed With Knk
pdb|1B5J|A Chain A, Oligo-Peptide Binding Protein (Oppa) Complexed With Kqk
pdb|1B46|A Chain A, Oligo-Peptide Binding Protein (Oppa) Complexed With Kpk
pdb|1B9J|A Chain A, Oligo-Peptide Binding Protein (Oppa) Complexed With Klk
pdb|1QKA|A Chain A, Oligo-Peptide Binding Protein (Oppa) Complexed With Krk
pdb|1QKB|A Chain A, Oligo-Peptide Binding Protein (Oppa) Complexed With Kvk
pdb|1B4Z|A Chain A, Oligo-Peptide Binding Protein (Oppa) Complexed With Kdk
pdb|1B58|A Chain A, Oligo-Peptide Binding Protein (Oppa) Complexed With Kyk
pdb|1B40|A Chain A, Oligo-Peptide Binding Protein (Oppa) Complexed With Kfk
pdb|1B05|A Chain A, Structure Of Oligo-Peptide Binding Protein Complexed With
Lys-Cys-Lys
pdb|1RKM|A Chain A, Structure Of Oppa
Length = 517
Score = 27.7 bits (60), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 43/179 (24%), Positives = 73/179 (40%), Gaps = 28/179 (15%)
Query: 22 SWRKFADPENKRTLSHILEVDTLNHKLDPLSGKLYTT----RALTVHA-------PGPWF 70
SW++ ADP + L+ + + D ++GK T +AL H P P+F
Sbjct: 96 SWQRLADPNTASPYASYLQYGHIANIDDIIAGKKPATDLGVKALDDHTFEVTLSEPVPYF 155
Query: 71 VRKIIGQDICHCVESTVVDAQSKSMQ----LTTRNVSLKKYIEVEEKIRYEPHPDNPTGW 126
+ ++ + +S V K Q +T LK ++ V E+I E NP W
Sbjct: 156 YKLLVHPSVSPVPKSAVEKFGDKWTQPANIVTNGAYKLKNWV-VNERIVLE---RNPQYW 211
Query: 127 ----TVCRQETSIRIKPLSALASMAEKVELRCAEKFMQNSVKGREVMERICKYLEAESR 181
TV Q T + P+S+ + + R E M + E+ +++ K + E R
Sbjct: 212 DNAKTVINQVTYL---PISSEVTDVNR--YRSGEIDMTYNNMPIELFQKLKKEIPNEVR 265
>pdb|2KNA|A Chain A, Solution Structure Of Uba Domain Of Xiap
Length = 104
Score = 26.9 bits (58), Expect = 6.8, Method: Compositional matrix adjust.
Identities = 13/31 (41%), Positives = 20/31 (64%)
Query: 85 STVVDAQSKSMQLTTRNVSLKKYIEVEEKIR 115
+ +V+AQ SMQ + SL+K I EE++R
Sbjct: 67 ADLVNAQKDSMQDESSQTSLQKEISTEEQLR 97
>pdb|3RM5|A Chain A, Structure Of Trifunctional Thi20 From Yeast
pdb|3RM5|B Chain B, Structure Of Trifunctional Thi20 From Yeast
Length = 550
Score = 26.6 bits (57), Expect = 8.3, Method: Compositional matrix adjust.
Identities = 11/28 (39%), Positives = 17/28 (60%)
Query: 13 HPWERVTSASWRKFADPENKRTLSHILE 40
H W ++SW + A E ++ L+HILE
Sbjct: 491 HEWCETYASSWYREAMDEGEKLLNHILE 518
>pdb|1BGC|A Chain A, Crystal Structure Of Canine And Bovine Granulocyte-Colony
Stimulating Factor (G-Csf)
Length = 174
Score = 26.2 bits (56), Expect = 9.9, Method: Compositional matrix adjust.
Identities = 11/35 (31%), Positives = 18/35 (51%)
Query: 139 PLSALASMAEKVELRCAEKFMQNSVKGREVMERIC 173
PL S+ + L+C E+ + G E+ ER+C
Sbjct: 2 PLGPARSLPQSFLLKCLEQVRKIQADGAELQERLC 36
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
0.318 0.130 0.394
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,307,172
Number of Sequences: 62578
Number of extensions: 188330
Number of successful extensions: 540
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 535
Number of HSP's gapped (non-prelim): 6
length of query: 185
length of database: 14,973,337
effective HSP length: 93
effective length of query: 92
effective length of database: 9,153,583
effective search space: 842129636
effective search space used: 842129636
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 48 (23.1 bits)