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= 029170
(198 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2RR3|A Chain A, Solution Structure Of The Complex Between Human Vap-A Msp
Domain And Human Osbp Ffat Motif
Length = 130
Score = 42.4 bits (98), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 24/76 (31%), Positives = 40/76 (52%), Gaps = 14/76 (18%)
Query: 97 SAVRLKNTSKSHVAFKFQTTAPKSCYMRPPGGVLAPGDSIIATVFKFVEAPENNERQPLD 156
+ ++L+N S V FK +TTAP+ +RP G++ PG ++ +V QP D
Sbjct: 30 TNLKLRNPSDRKVCFKVKTTAPRRYCVRPNSGIIDPGSTVTVSVM----------LQPFD 79
Query: 157 ----QKSKDKFKIMSL 168
+KSK KF + ++
Sbjct: 80 YDPNEKSKHKFMVQTI 95
>pdb|1Z9O|A Chain A, 1.9 Angstrom Crystal Structure Of The Rat Vap-a Msp
Homology Domain In Complex With The Rat Orp1 Ffat Motif
pdb|1Z9O|B Chain B, 1.9 Angstrom Crystal Structure Of The Rat Vap-a Msp
Homology Domain In Complex With The Rat Orp1 Ffat Motif
pdb|1Z9O|C Chain C, 1.9 Angstrom Crystal Structure Of The Rat Vap-a Msp
Homology Domain In Complex With The Rat Orp1 Ffat Motif
pdb|1Z9O|D Chain D, 1.9 Angstrom Crystal Structure Of The Rat Vap-a Msp
Homology Domain In Complex With The Rat Orp1 Ffat Motif
pdb|1Z9O|E Chain E, 1.9 Angstrom Crystal Structure Of The Rat Vap-a Msp
Homology Domain In Complex With The Rat Orp1 Ffat Motif
pdb|1Z9O|F Chain F, 1.9 Angstrom Crystal Structure Of The Rat Vap-a Msp
Homology Domain In Complex With The Rat Orp1 Ffat Motif
Length = 128
Score = 41.2 bits (95), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 25/76 (32%), Positives = 39/76 (51%), Gaps = 14/76 (18%)
Query: 97 SAVRLKNTSKSHVAFKFQTTAPKSCYMRPPGGVLAPGDSIIATVFKFVEAPENNERQPLD 156
+ ++L+N S V FK +TTAP+ +RP GV+ PG + +V QP D
Sbjct: 31 TNLKLQNPSDRKVCFKVKTTAPRRYCVRPNSGVIDPGSIVTVSVM----------LQPFD 80
Query: 157 ----QKSKDKFKIMSL 168
+KSK KF + ++
Sbjct: 81 YDPNEKSKHKFMVQTI 96
>pdb|1Z9L|A Chain A, 1.7 Angstrom Crystal Structure Of The Rat Vap-A Msp
Homology Domain
Length = 128
Score = 40.8 bits (94), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 25/76 (32%), Positives = 39/76 (51%), Gaps = 14/76 (18%)
Query: 97 SAVRLKNTSKSHVAFKFQTTAPKSCYMRPPGGVLAPGDSIIATVFKFVEAPENNERQPLD 156
+ ++L+N S V FK +TTAP+ +RP GV+ PG + +V QP D
Sbjct: 31 TNLKLQNPSDRKVCFKVKTTAPRRYCVRPNSGVIDPGSIVTVSV----------XLQPFD 80
Query: 157 ----QKSKDKFKIMSL 168
+KSK KF + ++
Sbjct: 81 YDPNEKSKHKFXVQTI 96
>pdb|2CRI|A Chain A, Solution Structure Of The Msp Domain Of Mouse Vamp-
Associated Proteina
Length = 147
Score = 40.4 bits (93), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 24/76 (31%), Positives = 39/76 (51%), Gaps = 14/76 (18%)
Query: 97 SAVRLKNTSKSHVAFKFQTTAPKSCYMRPPGGVLAPGDSIIATVFKFVEAPENNERQPLD 156
+ ++L+N S V FK +TTAP+ +RP G++ PG + +V QP D
Sbjct: 35 TNLKLQNPSDRKVCFKVKTTAPRRYCVRPNSGIIDPGSIVTVSVM----------LQPFD 84
Query: 157 ----QKSKDKFKIMSL 168
+KSK KF + ++
Sbjct: 85 YDPNEKSKHKFMVQTI 100
>pdb|3IKK|A Chain A, Crystal Structure Analysis Of Msp Domain
pdb|3IKK|B Chain B, Crystal Structure Analysis Of Msp Domain
Length = 127
Score = 38.9 bits (89), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 25/76 (32%), Positives = 39/76 (51%), Gaps = 14/76 (18%)
Query: 97 SAVRLKNTSKSHVAFKFQTTAPKSCYMRPPGGVLAPGDSIIATVFKFVEAPENNERQPLD 156
+ ++L N + +V FK +TTAP+ +RP G++ G SI +V QP D
Sbjct: 30 TNLKLGNPTDRNVCFKVKTTAPRRYCVRPNSGIIDAGASINVSVM----------LQPFD 79
Query: 157 ----QKSKDKFKIMSL 168
+KSK KF + S+
Sbjct: 80 YDPNEKSKHKFMVQSM 95
>pdb|1WIC|A Chain A, Solution Structure Of The Msp Domain Of Riken Cdna
6030424e15
Length = 152
Score = 36.2 bits (82), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 24/86 (27%), Positives = 43/86 (50%), Gaps = 9/86 (10%)
Query: 86 YFPYEPGKQTRSAVRLKNTSKSHVAFKFQTTAPKSCYMRPPGGVLAPGDSIIATVFKFVE 145
YF + ++ + L N +K+ VAFK +TTAP+ ++P PG SI +
Sbjct: 28 YFGSIESGEKKTLIVLTNVTKNIVAFKVRTTAPEKYRVKPSNSSCDPGASI-----DIIV 82
Query: 146 APENNERQPLDQKSKDKFKIMSLKVK 171
+P L ++D+F IM+ +++
Sbjct: 83 SPHGG----LTVSAQDRFLIMAAEME 104
>pdb|1GRW|A Chain A, C. Elegans Major Sperm Protein
pdb|1GRW|B Chain B, C. Elegans Major Sperm Protein
pdb|1GRW|C Chain C, C. Elegans Major Sperm Protein
pdb|1GRW|D Chain D, C. Elegans Major Sperm Protein
Length = 126
Score = 33.9 bits (76), Expect = 0.066, Method: Compositional matrix adjust.
Identities = 17/58 (29%), Positives = 31/58 (53%), Gaps = 4/58 (6%)
Query: 99 VRLKNTSKSHVAFKFQTTAPKSCYMRPPGGVLAPGDSIIATV----FKFVEAPENNER 152
+++ N+S + + +TT K + PP GVL P ++++ V F F + NN+R
Sbjct: 31 IKVINSSARRIGYGIKTTNMKRLGVDPPCGVLDPKEAVLLAVSCDAFAFGQEDTNNDR 88
>pdb|2MSP|A Chain A, Major Sperm Protein, Beta Isoform, Engineered C59sT90C
Mutant, Putative Subfilament Structure, Ph 8.5
pdb|2MSP|B Chain B, Major Sperm Protein, Beta Isoform, Engineered C59sT90C
Mutant, Putative Subfilament Structure, Ph 8.5
pdb|2MSP|C Chain C, Major Sperm Protein, Beta Isoform, Engineered C59sT90C
Mutant, Putative Subfilament Structure, Ph 8.5
pdb|2MSP|D Chain D, Major Sperm Protein, Beta Isoform, Engineered C59sT90C
Mutant, Putative Subfilament Structure, Ph 8.5
pdb|2MSP|E Chain E, Major Sperm Protein, Beta Isoform, Engineered C59sT90C
Mutant, Putative Subfilament Structure, Ph 8.5
pdb|2MSP|F Chain F, Major Sperm Protein, Beta Isoform, Engineered C59sT90C
Mutant, Putative Subfilament Structure, Ph 8.5
pdb|2MSP|G Chain G, Major Sperm Protein, Beta Isoform, Engineered C59sT90C
Mutant, Putative Subfilament Structure, Ph 8.5
pdb|2MSP|H Chain H, Major Sperm Protein, Beta Isoform, Engineered C59sT90C
Mutant, Putative Subfilament Structure, Ph 8.5
Length = 126
Score = 29.3 bits (64), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 14/58 (24%), Positives = 26/58 (44%), Gaps = 4/58 (6%)
Query: 99 VRLKNTSKSHVAFKFQTTAPKSCYMRPPGGVLAPGDSIIATV----FKFVEAPENNER 152
+++ N + + +TT + + PP GVL P + ++ V F NN+R
Sbjct: 31 IKITNAGGRRIGWAIKTTNMRRLGVDPPSGVLDPSEKVLMAVSCDTFNAATEDLNNDR 88
>pdb|1P0C|A Chain A, Crystal Structure Of The Nadp(H)-Dependent Vertebrate
Alcohol Dehydrogenase (Adh8)
pdb|1P0C|B Chain B, Crystal Structure Of The Nadp(H)-Dependent Vertebrate
Alcohol Dehydrogenase (Adh8)
pdb|1P0F|A Chain A, Crystal Structure Of The Binary Complex: Nadp(H)-Dependent
Vertebrate Alcohol Dehydrogenase (Adh8) With The
Cofactor Nadp
pdb|1P0F|B Chain B, Crystal Structure Of The Binary Complex: Nadp(H)-Dependent
Vertebrate Alcohol Dehydrogenase (Adh8) With The
Cofactor Nadp
Length = 373
Score = 27.3 bits (59), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 15/45 (33%), Positives = 23/45 (51%), Gaps = 2/45 (4%)
Query: 142 KFVEAPENNERQPLDQKSKDK--FKIMSLKVKGGIDYVPELVSHI 184
KF +A E + L+ K DK ++++ K GG+DY E I
Sbjct: 228 KFPKAIELGATECLNPKDYDKPIYEVICEKTNGGVDYAVECAGRI 272
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
0.320 0.135 0.420
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,747,296
Number of Sequences: 62578
Number of extensions: 153009
Number of successful extensions: 255
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 9
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 246
Number of HSP's gapped (non-prelim): 11
length of query: 198
length of database: 14,973,337
effective HSP length: 94
effective length of query: 104
effective length of database: 9,091,005
effective search space: 945464520
effective search space used: 945464520
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 49 (23.5 bits)