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= 006738
(633 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1E1C|A Chain A, Methylmalonyl-Coa Mutase H244a Mutant
pdb|1E1C|C Chain C, Methylmalonyl-Coa Mutase H244a Mutant
Length = 727
Score = 31.2 bits (69), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 13/25 (52%), Positives = 16/25 (64%)
Query: 385 RPSLGGQTYNLRHESPLDMLKFDKS 409
+P +G Y L HE PLD+LK D S
Sbjct: 461 QPLIGVNKYRLEHEPPLDVLKVDNS 485
>pdb|5REQ|A Chain A, Methylmalonyl-Coa Mutase, Y89f Mutant, Substrate Complex
pdb|5REQ|C Chain C, Methylmalonyl-Coa Mutase, Y89f Mutant, Substrate Complex
Length = 727
Score = 31.2 bits (69), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 13/25 (52%), Positives = 16/25 (64%)
Query: 385 RPSLGGQTYNLRHESPLDMLKFDKS 409
+P +G Y L HE PLD+LK D S
Sbjct: 461 QPLIGVNKYRLEHEPPLDVLKVDNS 485
>pdb|1REQ|A Chain A, Methylmalonyl-Coa Mutase
pdb|1REQ|C Chain C, Methylmalonyl-Coa Mutase
pdb|2REQ|A Chain A, Methylmalonyl-Coa Mutase, Non-Productive Coa Complex, In
Open Conformation Representing Substrate-Free State
pdb|2REQ|C Chain C, Methylmalonyl-Coa Mutase, Non-Productive Coa Complex, In
Open Conformation Representing Substrate-Free State
pdb|3REQ|A Chain A, Methylmalonyl-Coa Mutase, Substrate-Free State (Poor
Quality Structure)
pdb|6REQ|A Chain A, Methylmalonyl-Coa Mutase, 3-Carboxypropyl-Coa Inhibitor
Complex
pdb|6REQ|C Chain C, Methylmalonyl-Coa Mutase, 3-Carboxypropyl-Coa Inhibitor
Complex
pdb|7REQ|A Chain A, Methylmalonyl-Coa Mutase, 2-Carboxypropyl-Coa Inhibitor
Complex
pdb|7REQ|C Chain C, Methylmalonyl-Coa Mutase, 2-Carboxypropyl-Coa Inhibitor
Complex
pdb|4REQ|A Chain A, Methylmalonyl-Coa Mutase Substrate Complex
pdb|4REQ|C Chain C, Methylmalonyl-Coa Mutase Substrate Complex
Length = 727
Score = 31.2 bits (69), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 13/25 (52%), Positives = 16/25 (64%)
Query: 385 RPSLGGQTYNLRHESPLDMLKFDKS 409
+P +G Y L HE PLD+LK D S
Sbjct: 461 QPLIGVNKYRLEHEPPLDVLKVDNS 485
>pdb|1NJ1|A Chain A, Crystal Structure Of Prolyl-Trna Synthetase From
Methanothermobacter Thermautotrophicus Bound To Cysteine
Sulfamoyl Adenylate
pdb|1NJ2|A Chain A, Crystal Structure Of Prolyl-Trna Synthetase From
Methanothermobacter Thermautotrophicus
pdb|1NJ5|A Chain A, Crystal Structure Of Prolyl-trna Synthetase From
Methanothermobacter Thermautotrophicus Bound To Proline
Sulfamoyl Adenylate
pdb|1NJ6|A Chain A, Crystal Structure Of Prolyl-Trna Synthetase From
Methanothermobacter Thermautotrophicus Bound To Alanine
Sulfamoyl Adenylate
Length = 501
Score = 30.0 bits (66), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 14/35 (40%), Positives = 20/35 (57%)
Query: 122 ESLLNELQTVEEMKRQCDEKRNVCEYMLMRQREKG 156
ES + E +T+EE R DEKR + +M + E G
Sbjct: 428 ESEIREAETLEEASRIVDEKRGIISFMWCGEEECG 462
>pdb|4F47|A Chain A, The Structure Of Enoyl-Coa Hydratase Echa19 From
Mycobacterium Marinum
Length = 278
Score = 30.0 bits (66), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 21/57 (36%), Positives = 29/57 (50%), Gaps = 4/57 (7%)
Query: 538 ARPMGLVGHSAPLLPKGQVLSAPSKSAMENVASPLPKPPQTITRSFSIPSSSHEMET 594
A+ MGLVGH ++P GQ L+ + A E +A+ P Q I R+ HE E
Sbjct: 191 AKEMGLVGH---VVPDGQALTKALEIA-EIIAANGPLAVQAILRTIRETEGMHENEA 243
>pdb|1BHM|A Chain A, Restriction Endonuclease Bamhi Complex With Dna
pdb|1BHM|B Chain B, Restriction Endonuclease Bamhi Complex With Dna
pdb|2BAM|A Chain A, Restriction Endonuclease Bamhi Complex With Dna And
Calcium Ions (Pre- Reactive Complex).
pdb|2BAM|B Chain B, Restriction Endonuclease Bamhi Complex With Dna And
Calcium Ions (Pre- Reactive Complex).
pdb|3BAM|A Chain A, Restriction Endonuclease Bamhi Complex With Dna And
Manganese Ions (Post-Reactive Complex)
pdb|3BAM|B Chain B, Restriction Endonuclease Bamhi Complex With Dna And
Manganese Ions (Post-Reactive Complex)
pdb|1ESG|A Chain A, Restriction Endonuclease Bamhi Bound To A Non-Specific
Dna.
pdb|1ESG|B Chain B, Restriction Endonuclease Bamhi Bound To A Non-Specific
Dna.
pdb|1BAM|A Chain A, Structure Of Restriction Endonuclease Bamhi Phased At 1.95
Angstroms Resolution By Mad Analysis
Length = 213
Score = 29.6 bits (65), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 12/21 (57%), Positives = 14/21 (66%)
Query: 392 TYNLRHESPLDMLKFDKSLGG 412
TYN E PLD+LK +K GG
Sbjct: 71 TYNWYREKPLDILKLEKKKGG 91
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
0.313 0.129 0.359
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 15,375,118
Number of Sequences: 62578
Number of extensions: 533723
Number of successful extensions: 1006
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: 1001
Number of HSP's gapped (non-prelim): 6
length of query: 633
length of database: 14,973,337
effective HSP length: 105
effective length of query: 528
effective length of database: 8,402,647
effective search space: 4436597616
effective search space used: 4436597616
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 54 (25.4 bits)