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= psy11336
(194 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4EGC|B Chain B, Crystal Structure Of Mbp-fused Human Six1 Bound To Human
Eya2 Eya Domain
Length = 294
Score = 199 bits (505), Expect = 1e-51, Method: Compositional matrix adjust.
Identities = 92/145 (63%), Positives = 119/145 (82%), Gaps = 10/145 (6%)
Query: 48 AGDSRILDRVFIWDLDETIIIFHSLLTGSYATKHGKCPQTVIQLGYKMEEMIFGVADNHF 107
AGD+ I +RVF+WDLDETIIIFHSLLTG++A+++GK T +++G MEEMIF +AD H
Sbjct: 18 AGDNEI-ERVFVWDLDETIIIFHSLLTGTFASRYGKDTTTSVRIGLMMEEMIFNLADTHL 76
Query: 108 FFNEVEDCDQVHIDDISTDDNGQDLNGYNFSADGFRASVLNVPSGPPG--LCVASGVRGG 165
FFN++EDCDQ+H+DD+S+DDNGQDL+ YNFSADGF +S PG LC+ SGV GG
Sbjct: 77 FFNDLEDCDQIHVDDVSSDDNGQDLSTYNFSADGFHSSA-------PGANLCLGSGVHGG 129
Query: 166 VDWMRKLAFRYRKIKDIYNNYRNSV 190
VDWMRKLAFRYR++K++YN Y+N+V
Sbjct: 130 VDWMRKLAFRYRRVKEMYNTYKNNV 154
>pdb|3HB0|A Chain A, Structure Of Edeya2 Complexed With Bef3
pdb|3HB0|B Chain B, Structure Of Edeya2 Complexed With Bef3
pdb|3HB0|C Chain C, Structure Of Edeya2 Complexed With Bef3
pdb|3HB0|D Chain D, Structure Of Edeya2 Complexed With Bef3
pdb|3HB1|A Chain A, Crystal Structure Of Ed-Eya2 Complexed With Alf3
pdb|3HB1|B Chain B, Crystal Structure Of Ed-Eya2 Complexed With Alf3
pdb|3HB1|C Chain C, Crystal Structure Of Ed-Eya2 Complexed With Alf3
pdb|3HB1|D Chain D, Crystal Structure Of Ed-Eya2 Complexed With Alf3
Length = 274
Score = 197 bits (500), Expect = 4e-51, Method: Compositional matrix adjust.
Identities = 86/137 (62%), Positives = 114/137 (83%), Gaps = 5/137 (3%)
Query: 54 LDRVFIWDLDETIIIFHSLLTGSYATKHGKCPQTVIQLGYKMEEMIFGVADNHFFFNEVE 113
++RVF+WDLDETIIIFHSLLTG++A+++GK T +++G MEEMIF +AD H FFN++E
Sbjct: 3 MERVFVWDLDETIIIFHSLLTGTFASRYGKDTTTSVRIGLMMEEMIFNLADTHLFFNDLE 62
Query: 114 DCDQVHIDDISTDDNGQDLNGYNFSADGFRASVLNVPSGPPGLCVASGVRGGVDWMRKLA 173
DCDQ+H+DD+S+DDNGQDL+ YNFSADGF +S + LC+ SGV GGVDWMRKLA
Sbjct: 63 DCDQIHVDDVSSDDNGQDLSTYNFSADGFHSS-----APAANLCLGSGVHGGVDWMRKLA 117
Query: 174 FRYRKIKDIYNNYRNSV 190
FRYR++K++YN Y+N+V
Sbjct: 118 FRYRRVKEMYNTYKNNV 134
>pdb|3GEB|A Chain A, Crystal Structure Of Edeya2
pdb|3GEB|B Chain B, Crystal Structure Of Edeya2
pdb|3GEB|C Chain C, Crystal Structure Of Edeya2
pdb|3GEB|D Chain D, Crystal Structure Of Edeya2
Length = 274
Score = 197 bits (500), Expect = 4e-51, Method: Compositional matrix adjust.
Identities = 88/139 (63%), Positives = 115/139 (82%), Gaps = 9/139 (6%)
Query: 54 LDRVFIWDLDETIIIFHSLLTGSYATKHGKCPQTVIQLGYKMEEMIFGVADNHFFFNEVE 113
++RVF+WDLDETIIIFHSLLTG++A+++GK T +++G MEEMIF +AD H FFN++E
Sbjct: 3 MERVFVWDLDETIIIFHSLLTGTFASRYGKDTTTSVRIGLMMEEMIFNLADTHLFFNDLE 62
Query: 114 DCDQVHIDDISTDDNGQDLNGYNFSADGFRASVLNVPSGPPG--LCVASGVRGGVDWMRK 171
DCDQ+H+DD+S+DDNGQDL+ YNFSADGF +S PG LC+ SGV GGVDWMRK
Sbjct: 63 DCDQIHVDDVSSDDNGQDLSTYNFSADGFHSSA-------PGANLCLGSGVHGGVDWMRK 115
Query: 172 LAFRYRKIKDIYNNYRNSV 190
LAFRYR++K++YN Y+N+V
Sbjct: 116 LAFRYRRVKEMYNTYKNNV 134
>pdb|1EQB|A Chain A, X-Ray Crystal Structure At 2.7 Angstroms Resolution Of
Ternary Complex Between The Y65f Mutant Of E-Coli Serine
Hydroxymethyltransferase, Glycine And 5-Formyl
Tetrahydrofolate
pdb|1EQB|B Chain B, X-Ray Crystal Structure At 2.7 Angstroms Resolution Of
Ternary Complex Between The Y65f Mutant Of E-Coli Serine
Hydroxymethyltransferase, Glycine And 5-Formyl
Tetrahydrofolate
pdb|1EQB|C Chain C, X-Ray Crystal Structure At 2.7 Angstroms Resolution Of
Ternary Complex Between The Y65f Mutant Of E-Coli Serine
Hydroxymethyltransferase, Glycine And 5-Formyl
Tetrahydrofolate
pdb|1EQB|D Chain D, X-Ray Crystal Structure At 2.7 Angstroms Resolution Of
Ternary Complex Between The Y65f Mutant Of E-Coli Serine
Hydroxymethyltransferase, Glycine And 5-Formyl
Tetrahydrofolate
Length = 417
Score = 29.3 bits (64), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 24/101 (23%), Positives = 44/101 (43%), Gaps = 22/101 (21%)
Query: 86 QTVIQLGYKMEEMIFGVADNHFFFNEVEDCDQVHIDDISTDDNGQDLNGYNFSADGFRAS 145
+ ++ GYK+ + G DNH F ++ D ++L G A RA+
Sbjct: 300 EVFLERGYKV---VSGGTDNHLFLVDLVD---------------KNLTGKEADAALGRAN 341
Query: 146 VL----NVPSGPPGLCVASGVRGGVDWMRKLAFRYRKIKDI 182
+ +VP+ P V SG+R G + + F+ + K++
Sbjct: 342 ITVNKNSVPNDPKSPFVTSGIRVGTPAITRRGFKEAEAKEL 382
>pdb|3G8M|A Chain A, Serine Hydroxymethyltransferase Y55f Mutant
Length = 417
Score = 29.3 bits (64), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 24/101 (23%), Positives = 44/101 (43%), Gaps = 22/101 (21%)
Query: 86 QTVIQLGYKMEEMIFGVADNHFFFNEVEDCDQVHIDDISTDDNGQDLNGYNFSADGFRAS 145
+ ++ GYK+ + G DNH F ++ D ++L G A RA+
Sbjct: 300 EVFLERGYKV---VSGGTDNHLFLVDLVD---------------KNLTGKEADAALGRAN 341
Query: 146 VL----NVPSGPPGLCVASGVRGGVDWMRKLAFRYRKIKDI 182
+ +VP+ P V SG+R G + + F+ + K++
Sbjct: 342 ITVNKNSVPNDPKSPFVTSGIRVGTPAITRRGFKEAEAKEL 382
>pdb|1DFO|A Chain A, Crystal Structure At 2.4 Angstrom Resolution Of E. Coli
Serine Hydroxymethyltransferase In Complex With Glycine
And 5-Formyl Tetrahydrofolate
pdb|1DFO|B Chain B, Crystal Structure At 2.4 Angstrom Resolution Of E. Coli
Serine Hydroxymethyltransferase In Complex With Glycine
And 5-Formyl Tetrahydrofolate
pdb|1DFO|C Chain C, Crystal Structure At 2.4 Angstrom Resolution Of E. Coli
Serine Hydroxymethyltransferase In Complex With Glycine
And 5-Formyl Tetrahydrofolate
pdb|1DFO|D Chain D, Crystal Structure At 2.4 Angstrom Resolution Of E. Coli
Serine Hydroxymethyltransferase In Complex With Glycine
And 5-Formyl Tetrahydrofolate
Length = 417
Score = 29.3 bits (64), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 24/101 (23%), Positives = 44/101 (43%), Gaps = 22/101 (21%)
Query: 86 QTVIQLGYKMEEMIFGVADNHFFFNEVEDCDQVHIDDISTDDNGQDLNGYNFSADGFRAS 145
+ ++ GYK+ + G DNH F ++ D ++L G A RA+
Sbjct: 300 EVFLERGYKV---VSGGTDNHLFLVDLVD---------------KNLTGKEADAALGRAN 341
Query: 146 VL----NVPSGPPGLCVASGVRGGVDWMRKLAFRYRKIKDI 182
+ +VP+ P V SG+R G + + F+ + K++
Sbjct: 342 ITVNKNSVPNDPKSPFVTSGIRVGTPAITRRGFKEAEAKEL 382
>pdb|3GBX|A Chain A, Serine Hydroxymethyltransferase From Salmonella
Typhimurium
pdb|3GBX|B Chain B, Serine Hydroxymethyltransferase From Salmonella
Typhimurium
Length = 420
Score = 26.9 bits (58), Expect = 7.6, Method: Compositional matrix adjust.
Identities = 23/101 (22%), Positives = 44/101 (43%), Gaps = 22/101 (21%)
Query: 86 QTVIQLGYKMEEMIFGVADNHFFFNEVEDCDQVHIDDISTDDNGQDLNGYNFSADGFRAS 145
+ + GYK+ + G +NH F ++ D ++L G A RA+
Sbjct: 303 EVFLNRGYKV---VSGGTENHLFLLDLVD---------------KNLTGKEADAALGRAN 344
Query: 146 VL----NVPSGPPGLCVASGVRGGVDWMRKLAFRYRKIKDI 182
+ +VP+ P V SG+R G + + F+ ++K++
Sbjct: 345 ITVNKNSVPNDPKSPFVTSGIRIGSPAVTRRGFKEAEVKEL 385
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
0.324 0.142 0.445
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,125,730
Number of Sequences: 62578
Number of extensions: 212060
Number of successful extensions: 334
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 328
Number of HSP's gapped (non-prelim): 7
length of query: 194
length of database: 14,973,337
effective HSP length: 94
effective length of query: 100
effective length of database: 9,091,005
effective search space: 909100500
effective search space used: 909100500
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 49 (23.5 bits)