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= 047194
(270 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1RV3|A Chain A, E75l Mutant Of Rabbit Cytosolic Serine
Hydroxymethyltransferase, Complex With Glycine
pdb|1RV4|A Chain A, E75l Mutant Of Rabbit Cytosolic Serine
Hydroxymethyltransferase
pdb|1RV4|B Chain B, E75l Mutant Of Rabbit Cytosolic Serine
Hydroxymethyltransferase
pdb|1RV3|B Chain B, E75l Mutant Of Rabbit Cytosolic Serine
Hydroxymethyltransferase, Complex With Glycine
Length = 483
Score = 28.9 bits (63), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 19/64 (29%), Positives = 26/64 (40%), Gaps = 6/64 (9%)
Query: 187 GFPNSWQNGATYSTSELAVL-KNNEIHTWDRGFDDDGNQVWGVKAGPYEFKPAPSSSYSD 245
G+P G T EL L + + + G D Q WGV PY PA + Y+
Sbjct: 75 GYPGQRYYGGTEHIDELETLCQKRALQAY--GLDP---QCWGVNVQPYSGSPANFAVYTA 129
Query: 246 MFSP 249
+ P
Sbjct: 130 LVEP 133
>pdb|1RVU|A Chain A, E75q Mutant Of Rabbit Cytosolic Serine
Hydroxymethyltransferase
pdb|1RVU|B Chain B, E75q Mutant Of Rabbit Cytosolic Serine
Hydroxymethyltransferase
pdb|1RVY|A Chain A, E75q Mutant Of Rabbit Cytosolic Serine
Hydroxymethyltransferase, Complex With Glycine
pdb|1RVY|B Chain B, E75q Mutant Of Rabbit Cytosolic Serine
Hydroxymethyltransferase, Complex With Glycine
Length = 483
Score = 28.9 bits (63), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 19/64 (29%), Positives = 26/64 (40%), Gaps = 6/64 (9%)
Query: 187 GFPNSWQNGATYSTSELAVL-KNNEIHTWDRGFDDDGNQVWGVKAGPYEFKPAPSSSYSD 245
G+P G T EL L + + + G D Q WGV PY PA + Y+
Sbjct: 75 GYPGQRYYGGTEHIDELETLCQKRALQAY--GLDP---QCWGVNVQPYSGSPANFAVYTA 129
Query: 246 MFSP 249
+ P
Sbjct: 130 LVEP 133
>pdb|1CJ0|A Chain A, Crystal Structure Of Rabbit Cytosolic Serine
Hydroxymethyltransferase At 2.8 Angstrom Resolution
pdb|1CJ0|B Chain B, Crystal Structure Of Rabbit Cytosolic Serine
Hydroxymethyltransferase At 2.8 Angstrom Resolution
Length = 470
Score = 28.9 bits (63), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 19/64 (29%), Positives = 26/64 (40%), Gaps = 6/64 (9%)
Query: 187 GFPNSWQNGATYSTSELAVL-KNNEIHTWDRGFDDDGNQVWGVKAGPYEFKPAPSSSYSD 245
G+P G T EL L + + + G D Q WGV PY PA + Y+
Sbjct: 62 GYPGQRYYGGTEHIDELETLCQKRALQAY--GLDP---QCWGVNVQPYSGSPANFAVYTA 116
Query: 246 MFSP 249
+ P
Sbjct: 117 LVEP 120
>pdb|1LS3|B Chain B, Crystal Structure Of The Complex Between Rabbit Cytosolic
Serine Hydroxymethyltransferase And
Triglu-5-Formyl-Tetrahydrofolate
pdb|1LS3|D Chain D, Crystal Structure Of The Complex Between Rabbit Cytosolic
Serine Hydroxymethyltransferase And
Triglu-5-Formyl-Tetrahydrofolate
pdb|1LS3|A Chain A, Crystal Structure Of The Complex Between Rabbit Cytosolic
Serine Hydroxymethyltransferase And
Triglu-5-Formyl-Tetrahydrofolate
pdb|1LS3|C Chain C, Crystal Structure Of The Complex Between Rabbit Cytosolic
Serine Hydroxymethyltransferase And
Triglu-5-Formyl-Tetrahydrofolate
Length = 483
Score = 28.9 bits (63), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 19/64 (29%), Positives = 26/64 (40%), Gaps = 6/64 (9%)
Query: 187 GFPNSWQNGATYSTSELAVL-KNNEIHTWDRGFDDDGNQVWGVKAGPYEFKPAPSSSYSD 245
G+P G T EL L + + + G D Q WGV PY PA + Y+
Sbjct: 75 GYPGQRYYGGTEHIDELETLCQKRALQAY--GLDP---QCWGVNVQPYSGSPANFAVYTA 129
Query: 246 MFSP 249
+ P
Sbjct: 130 LVEP 133
>pdb|3E0D|A Chain A, Insights Into The Replisome From The Crystral Structure Of
The Ternary Complex Of The Eubacterial Dna Polymerase Iii
Alpha-Subunit
pdb|3E0D|B Chain B, Insights Into The Replisome From The Crystral Structure Of
The Ternary Complex Of The Eubacterial Dna Polymerase Iii
Alpha-Subunit
Length = 1220
Score = 28.1 bits (61), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 26/95 (27%), Positives = 38/95 (40%), Gaps = 11/95 (11%)
Query: 84 AEMVDGSKLLYLEQAFWRTPQKPFRQRFYMVKPCPKELKCDVEVSSYAIREVEEYKNFCD 143
AE+ G +L L QA W + V PK L+ +V+ + + V K+ D
Sbjct: 1103 AEVEKGEELRVLAQAVWTLEE---------VLEAPKALEVEVDHALLDEKGVARLKSLLD 1153
Query: 144 RPRDQRPLPEEVIGDIGEHLTTIHLRRCDRGKRCL 178
P+ V+G GE L LR G+ L
Sbjct: 1154 EHPGSLPVYLRVLGPFGEALFA--LREVRVGEEAL 1186
>pdb|2HPI|A Chain A, Eubacterial And Eukaryotic Replicative Dna Polymerases Are
Not Homologous: X-Ray Structure Of Dna Polymerase Iii
pdb|2HPM|A Chain A, Eubacterial And Eukaryotic Replicative Dna Polymerases Are
Not Homologous: X-ray Structure Of Dna Polymerase Iii
Length = 1220
Score = 28.1 bits (61), Expect = 5.9, Method: Compositional matrix adjust.
Identities = 26/95 (27%), Positives = 38/95 (40%), Gaps = 11/95 (11%)
Query: 84 AEMVDGSKLLYLEQAFWRTPQKPFRQRFYMVKPCPKELKCDVEVSSYAIREVEEYKNFCD 143
AE+ G +L L QA W + V PK L+ +V+ + + V K+ D
Sbjct: 1103 AEVEKGEELRVLAQAVWTLEE---------VLEAPKALEVEVDHALLDEKGVARLKSLLD 1153
Query: 144 RPRDQRPLPEEVIGDIGEHLTTIHLRRCDRGKRCL 178
P+ V+G GE L LR G+ L
Sbjct: 1154 EHPGSLPVYLRVLGPFGEALFA--LREVRVGEEAL 1186
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 0.136 0.429
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,313,388
Number of Sequences: 62578
Number of extensions: 425798
Number of successful extensions: 819
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 818
Number of HSP's gapped (non-prelim): 7
length of query: 270
length of database: 14,973,337
effective HSP length: 97
effective length of query: 173
effective length of database: 8,903,271
effective search space: 1540265883
effective search space used: 1540265883
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: 51 (24.3 bits)