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= psy8232
(249 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2XQ2|A Chain A, Structure Of The K294a Mutant Of Vsglt
Length = 593
Score = 48.9 bits (115), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 54/225 (24%), Positives = 90/225 (40%), Gaps = 16/225 (7%)
Query: 10 LSSITFIGQPAEVYKFGPQL----WMFGVSCFFVIPIVGYIFVPFFQKNNFTSAYQYFGE 65
+S+ FIG Y G + WM ++ IVG F+P F + + ++ +
Sbjct: 65 ISAEQFIGMSGSGYSIGLAIASYEWMSAITLI----IVGKYFLPIFIEKGIYTIPEFVEK 120
Query: 66 RFSRNLQ-LLASTMFTVQXXXXXXXXXXXXXXXXHQVTGLNTMMVVSVMFLVCIFYTTIG 124
RF++ L+ +LA ++ + G+ M + + L + Y+ G
Sbjct: 121 RFNKKLKTILAVFWISLYIFVNLTSVLYLGGLALETILGIPLMYSILGLALFALVYSIYG 180
Query: 125 GMKAVVWTDSFQVVVLYFAMF-----AILCKGTLD--IGGFSVVWQRNAAYNRTTLLSWN 177
G+ AVVWTD QV L F A+ G D G S + + L N
Sbjct: 181 GLSAVVWTDVIQVFFLVLGGFMTTYMAVSFIGGTDGWFAGVSKMVDAAPGHFEMILDQSN 240
Query: 178 PDPTERYSIWSALFGSAFLHIVFYGGNQLQIQRYLTVDSAAKARQ 222
P I + G ++ ++G NQ IQR L S ++A++
Sbjct: 241 PQYMNLPGIAVLIGGLWVANLYYWGFNQYIIQRTLAAKSVSEAQK 285
>pdb|2XQ2|B Chain B, Structure Of The K294a Mutant Of Vsglt
Length = 593
Score = 48.9 bits (115), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 54/225 (24%), Positives = 90/225 (40%), Gaps = 16/225 (7%)
Query: 10 LSSITFIGQPAEVYKFGPQL----WMFGVSCFFVIPIVGYIFVPFFQKNNFTSAYQYFGE 65
+S+ FIG Y G + WM ++ IVG F+P F + + ++ +
Sbjct: 65 ISAEQFIGMSGSGYSIGLAIASYEWMSAITLI----IVGKYFLPIFIEKGIYTIPEFVEK 120
Query: 66 RFSRNLQ-LLASTMFTVQXXXXXXXXXXXXXXXXHQVTGLNTMMVVSVMFLVCIFYTTIG 124
RF++ L+ +LA ++ + G+ M + + L + Y+ G
Sbjct: 121 RFNKKLKTILAVFWISLYIFVNLTSVLYLGGLALETILGIPLMYSILGLALFALVYSIYG 180
Query: 125 GMKAVVWTDSFQVVVLYFAMF-----AILCKGTLD--IGGFSVVWQRNAAYNRTTLLSWN 177
G+ AVVWTD QV L F A+ G D G S + + L N
Sbjct: 181 GLSAVVWTDVIQVFFLVLGGFMTTYMAVSFIGGTDGWFAGVSKMVDAAPGHFEMILDQSN 240
Query: 178 PDPTERYSIWSALFGSAFLHIVFYGGNQLQIQRYLTVDSAAKARQ 222
P I + G ++ ++G NQ IQR L S ++A++
Sbjct: 241 PQYMNLPGIAVLIGGLWVANLYYWGFNQYIIQRTLAAKSVSEAQK 285
>pdb|3DH4|A Chain A, Crystal Structure Of SodiumSUGAR SYMPORTER WITH BOUND
GALACTOSE FROM Vibrio Parahaemolyticus
pdb|3DH4|B Chain B, Crystal Structure Of SodiumSUGAR SYMPORTER WITH BOUND
GALACTOSE FROM Vibrio Parahaemolyticus
pdb|3DH4|C Chain C, Crystal Structure Of SodiumSUGAR SYMPORTER WITH BOUND
GALACTOSE FROM Vibrio Parahaemolyticus
pdb|3DH4|D Chain D, Crystal Structure Of SodiumSUGAR SYMPORTER WITH BOUND
GALACTOSE FROM Vibrio Parahaemolyticus
Length = 530
Score = 48.5 bits (114), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 54/225 (24%), Positives = 90/225 (40%), Gaps = 16/225 (7%)
Query: 10 LSSITFIGQPAEVYKFGPQL----WMFGVSCFFVIPIVGYIFVPFFQKNNFTSAYQYFGE 65
+S+ FIG Y G + WM ++ IVG F+P F + + ++ +
Sbjct: 36 ISAEQFIGMSGSGYSIGLAIASYEWMSAITLI----IVGKYFLPIFIEKGIYTIPEFVEK 91
Query: 66 RFSRNLQ-LLASTMFTVQXXXXXXXXXXXXXXXXHQVTGLNTMMVVSVMFLVCIFYTTIG 124
RF++ L+ +LA ++ + G+ M + + L + Y+ G
Sbjct: 92 RFNKKLKTILAVFWISLYIFVNLTSVLYLGGLALETILGIPLMYSILGLALFALVYSIYG 151
Query: 125 GMKAVVWTDSFQVVVLYFAMF-----AILCKGTLD--IGGFSVVWQRNAAYNRTTLLSWN 177
G+ AVVWTD QV L F A+ G D G S + + L N
Sbjct: 152 GLSAVVWTDVIQVFFLVLGGFMTTYMAVSFIGGTDGWFAGVSKMVDAAPGHFEMILDQSN 211
Query: 178 PDPTERYSIWSALFGSAFLHIVFYGGNQLQIQRYLTVDSAAKARQ 222
P I + G ++ ++G NQ IQR L S ++A++
Sbjct: 212 PQYMNLPGIAVLIGGLWVANLYYWGFNQYIIQRTLAAKSVSEAQK 256
>pdb|3Q8N|A Chain A, Crystal Structure Of 4-Aminobutyrate Transaminase From
Mycobacterium Smegmatis
pdb|3Q8N|B Chain B, Crystal Structure Of 4-Aminobutyrate Transaminase From
Mycobacterium Smegmatis
pdb|3Q8N|C Chain C, Crystal Structure Of 4-Aminobutyrate Transaminase From
Mycobacterium Smegmatis
pdb|3Q8N|D Chain D, Crystal Structure Of 4-Aminobutyrate Transaminase From
Mycobacterium Smegmatis
Length = 453
Score = 29.6 bits (65), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 19/50 (38%), Positives = 27/50 (54%), Gaps = 4/50 (8%)
Query: 3 GDQILNFLSSI--TFIGQ--PAEVYKFGPQLWMFGVSCFFVIPIVGYIFV 48
G+Q+++F S I T +G PA V Q+ F +CF V P GY+ V
Sbjct: 67 GNQLIDFGSGIAVTTVGNSAPAVVDAVTQQVAAFTHTCFMVTPYEGYVKV 116
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
0.330 0.141 0.441
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,615,499
Number of Sequences: 62578
Number of extensions: 244666
Number of successful extensions: 827
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 816
Number of HSP's gapped (non-prelim): 9
length of query: 249
length of database: 14,973,337
effective HSP length: 96
effective length of query: 153
effective length of database: 8,965,849
effective search space: 1371774897
effective search space used: 1371774897
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.9 bits)
S2: 50 (23.9 bits)