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= 019839
(335 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3C98|A Chain A, Revised Structure Of The Munc18a-Syntaxin1 Complex
Length = 606
Score = 29.3 bits (64), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 43/180 (23%), Positives = 76/180 (42%), Gaps = 17/180 (9%)
Query: 143 WTVFLTDHGNY-ILDNCAKNVQLNSGVFSHQGSVHVRDLNWM-NPWPPIFSLGNSSASQE 200
W V + D + +L +C K + + +G V D+N P P + ++ + S++
Sbjct: 40 WKVLVVDQLSMRMLSSCCKMTDIMT-----EGITIVEDINKRREPLPSLEAVYLITPSEK 94
Query: 201 RYSWNSSELKEVQRASVLLAADVIYSDDLTDALFHTLKRLMPLGSKKVLVNM-VLYLALE 259
S+ K+ A AA V ++D DALF+ L + K L + + +L E
Sbjct: 95 SVHSLISDFKDPPTAKYR-AAHVFFTDSCPDALFNELVKSRAAKVIKTLTEINIAFLPYE 153
Query: 260 KRYNFSLNDLDVVANGYSHFRSYIMEEGEHRRFERESFPAFVGKCIDLNEFP--QYVREY 317
+ +SL+ D + YS ++ + R E+ C L E+P +Y EY
Sbjct: 154 SQV-YSLDSADSFQSFYSPHKAQMKNPILERLAEQ-----IATLCATLKEYPAVRYRGEY 207
>pdb|3PUJ|A Chain A, Crystal Structure Of The Munc18-1 And Syntaxin4 N-Peptide
Complex
pdb|3PUJ|B Chain B, Crystal Structure Of The Munc18-1 And Syntaxin4 N-Peptide
Complex
Length = 594
Score = 29.3 bits (64), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 43/180 (23%), Positives = 76/180 (42%), Gaps = 17/180 (9%)
Query: 143 WTVFLTDHGNY-ILDNCAKNVQLNSGVFSHQGSVHVRDLNWM-NPWPPIFSLGNSSASQE 200
W V + D + +L +C K + + +G V D+N P P + ++ + S++
Sbjct: 28 WKVLVVDQLSMRMLSSCCKMTDIMT-----EGITIVEDINKRREPLPSLEAVYLITPSEK 82
Query: 201 RYSWNSSELKEVQRASVLLAADVIYSDDLTDALFHTLKRLMPLGSKKVLVNM-VLYLALE 259
S+ K+ A AA V ++D DALF+ L + K L + + +L E
Sbjct: 83 SVHSLISDFKDPPTAKYR-AAHVFFTDSCPDALFNELVKSRAAKVIKTLTEINIAFLPYE 141
Query: 260 KRYNFSLNDLDVVANGYSHFRSYIMEEGEHRRFERESFPAFVGKCIDLNEFP--QYVREY 317
+ +SL+ D + YS ++ + R E+ C L E+P +Y EY
Sbjct: 142 SQV-YSLDSADSFQSFYSPHKAQMKNPILERLAEQ-----IATLCATLKEYPAVRYRGEY 195
>pdb|3UW6|A Chain A, Crystal Structure Of Engineered Protein, Northeast
Structural Genomics Consortium Target Or120
pdb|3UW6|B Chain B, Crystal Structure Of Engineered Protein, Northeast
Structural Genomics Consortium Target Or120
pdb|3UW6|C Chain C, Crystal Structure Of Engineered Protein, Northeast
Structural Genomics Consortium Target Or120
Length = 390
Score = 28.9 bits (63), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 15/53 (28%), Positives = 28/53 (52%), Gaps = 4/53 (7%)
Query: 150 HGNYILDNC----AKNVQLNSGVFSHQGSVHVRDLNWMNPWPPIFSLGNSSAS 198
H +++L+ A ++N+ FS+Q + + L W+ PP+ NS+AS
Sbjct: 155 HPHFVLEGLWTWFATADEVNTDYFSYQYTRFLHXLEWLPSRPPLVHCANSAAS 207
>pdb|1XQK|A Chain A, Effect Of A Y265f Mutant On The Transamination Based
Cycloserine Inactivation Of Alanine Racemase
pdb|1XQK|B Chain B, Effect Of A Y265f Mutant On The Transamination Based
Cycloserine Inactivation Of Alanine Racemase
pdb|1XQL|A Chain A, Effect Of A Y265f Mutant On The Transamination Based
Cycloserine Inactivation Of Alanine Racemase
pdb|1XQL|B Chain B, Effect Of A Y265f Mutant On The Transamination Based
Cycloserine Inactivation Of Alanine Racemase
Length = 388
Score = 28.9 bits (63), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 15/53 (28%), Positives = 28/53 (52%), Gaps = 4/53 (7%)
Query: 150 HGNYILDNC----AKNVQLNSGVFSHQGSVHVRDLNWMNPWPPIFSLGNSSAS 198
H +++L+ A ++N+ FS+Q + + L W+ PP+ NS+AS
Sbjct: 155 HPHFVLEGLYTHFATADEVNTDYFSYQYTRFLHMLEWLPSRPPLVHCANSAAS 207
>pdb|1SFT|A Chain A, Alanine Racemase
pdb|1SFT|B Chain B, Alanine Racemase
pdb|1BD0|A Chain A, Alanine Racemase Complexed With Alanine Phosphonate
pdb|1BD0|B Chain B, Alanine Racemase Complexed With Alanine Phosphonate
Length = 388
Score = 28.5 bits (62), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 15/53 (28%), Positives = 28/53 (52%), Gaps = 4/53 (7%)
Query: 150 HGNYILDNC----AKNVQLNSGVFSHQGSVHVRDLNWMNPWPPIFSLGNSSAS 198
H +++L+ A ++N+ FS+Q + + L W+ PP+ NS+AS
Sbjct: 155 HPHFVLEGLYTHFATADEVNTDYFSYQYTRFLHMLEWLPSRPPLVHCANSAAS 207
>pdb|2SFP|A Chain A, Alanine Racemase With Bound Propionate Inhibitor
pdb|2SFP|B Chain B, Alanine Racemase With Bound Propionate Inhibitor
pdb|1L6F|A Chain A, Alanine Racemase Bound With N-(5'-Phosphopyridoxyl)-L-
Alanine
pdb|1L6F|B Chain B, Alanine Racemase Bound With N-(5'-Phosphopyridoxyl)-L-
Alanine
pdb|1L6G|A Chain A, Alanine Racemase Bound With N-(5'-Phosphopyridoxyl)-D-
Alanine
pdb|1L6G|B Chain B, Alanine Racemase Bound With N-(5'-Phosphopyridoxyl)-D-
Alanine
pdb|1NIU|A Chain A, Alanine Racemase With Bound Inhibitor Derived From L-
Cycloserine
pdb|1NIU|B Chain B, Alanine Racemase With Bound Inhibitor Derived From L-
Cycloserine
Length = 388
Score = 28.5 bits (62), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 15/53 (28%), Positives = 28/53 (52%), Gaps = 4/53 (7%)
Query: 150 HGNYILDNC----AKNVQLNSGVFSHQGSVHVRDLNWMNPWPPIFSLGNSSAS 198
H +++L+ A ++N+ FS+Q + + L W+ PP+ NS+AS
Sbjct: 155 HPHFVLEGLYTHFATADEVNTDYFSYQYTRFLHMLEWLPSRPPLVHCANSAAS 207
>pdb|1EPV|A Chain A, Alanine Racemase With Bound Inhibitor Derived From D-
Cycloserine
pdb|1EPV|B Chain B, Alanine Racemase With Bound Inhibitor Derived From D-
Cycloserine
pdb|1FTX|A Chain A, Crystal Stucture Of Alanine Racemase In Complex With D-
Alanine Phosphonate
pdb|1FTX|B Chain B, Crystal Stucture Of Alanine Racemase In Complex With D-
Alanine Phosphonate
Length = 387
Score = 28.5 bits (62), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 15/53 (28%), Positives = 28/53 (52%), Gaps = 4/53 (7%)
Query: 150 HGNYILDNC----AKNVQLNSGVFSHQGSVHVRDLNWMNPWPPIFSLGNSSAS 198
H +++L+ A ++N+ FS+Q + + L W+ PP+ NS+AS
Sbjct: 154 HPHFVLEGLYTHFATADEVNTDYFSYQYTRFLHMLEWLPSRPPLVHCANSAAS 206
>pdb|1T72|A Chain A, Crystal Structure Of Phosphate Transport System Protein
Phou From Aquifex Aeolicus
pdb|1T72|B Chain B, Crystal Structure Of Phosphate Transport System Protein
Phou From Aquifex Aeolicus
pdb|1T72|D Chain D, Crystal Structure Of Phosphate Transport System Protein
Phou From Aquifex Aeolicus
pdb|1T72|E Chain E, Crystal Structure Of Phosphate Transport System Protein
Phou From Aquifex Aeolicus
pdb|1T72|F Chain F, Crystal Structure Of Phosphate Transport System Protein
Phou From Aquifex Aeolicus
pdb|1T72|G Chain G, Crystal Structure Of Phosphate Transport System Protein
Phou From Aquifex Aeolicus
Length = 227
Score = 27.7 bits (60), Expect = 9.0, Method: Compositional matrix adjust.
Identities = 12/22 (54%), Positives = 14/22 (63%)
Query: 218 LLAADVIYSDDLTDALFHTLKR 239
LLA VI DD D L+H L+R
Sbjct: 147 LLAKKVIEKDDTVDELYHQLER 168
>pdb|1T8B|A Chain A, Crystal Structure Of Refolded Phou-Like Protein (Gi
2983430) From Aquifex Aeolicus
pdb|1T8B|B Chain B, Crystal Structure Of Refolded Phou-Like Protein (Gi
2983430) From Aquifex Aeolicus
Length = 227
Score = 27.7 bits (60), Expect = 9.2, Method: Compositional matrix adjust.
Identities = 12/22 (54%), Positives = 14/22 (63%)
Query: 218 LLAADVIYSDDLTDALFHTLKR 239
LLA VI DD D L+H L+R
Sbjct: 147 LLAKKVIEKDDTVDELYHQLER 168
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 0.133 0.400
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,025,458
Number of Sequences: 62578
Number of extensions: 321681
Number of successful extensions: 683
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 678
Number of HSP's gapped (non-prelim): 10
length of query: 335
length of database: 14,973,337
effective HSP length: 99
effective length of query: 236
effective length of database: 8,778,115
effective search space: 2071635140
effective search space used: 2071635140
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: 52 (24.6 bits)