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= 024677
(264 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 46.2 bits (108), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 32/106 (30%), Positives = 51/106 (48%), Gaps = 14/106 (13%)
Query: 97 SAVRLKNTSKSHVAFKFQTTAPKSCYMRPPGGVLAPGDSIIATVFKFVEAPENNERQPLD 156
+ ++L+N S V FK +TTAP+ +RP GV+ PG + +V QP D
Sbjct: 31 TNLKLQNPSDRKVCFKVKTTAPRRYCVRPNSGVIDPGSIVTVSVM----------LQPFD 80
Query: 157 ----QKSKDKFKIMSLKVKGGIDYVPELFDEQKDQVTVERILRVVF 198
+KSK KF + ++ I + ++ E K ++ LR VF
Sbjct: 81 YDPNEKSKHKFMVQTIFAPPNISDMEAVWKEAKPDELMDSKLRCVF 126
>pdb|2CRI|A Chain A, Solution Structure Of The Msp Domain Of Mouse Vamp-
Associated Proteina
Length = 147
Score = 45.8 bits (107), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 31/106 (29%), Positives = 51/106 (48%), Gaps = 14/106 (13%)
Query: 97 SAVRLKNTSKSHVAFKFQTTAPKSCYMRPPGGVLAPGDSIIATVFKFVEAPENNERQPLD 156
+ ++L+N S V FK +TTAP+ +RP G++ PG + +V QP D
Sbjct: 35 TNLKLQNPSDRKVCFKVKTTAPRRYCVRPNSGIIDPGSIVTVSVM----------LQPFD 84
Query: 157 ----QKSKDKFKIMSLKVKGGIDYVPELFDEQKDQVTVERILRVVF 198
+KSK KF + ++ I + ++ E K ++ LR VF
Sbjct: 85 YDPNEKSKHKFMVQTIFAPPNISDMEAVWKEAKPDELMDSKLRCVF 130
>pdb|2RR3|A Chain A, Solution Structure Of The Complex Between Human Vap-A Msp
Domain And Human Osbp Ffat Motif
Length = 130
Score = 45.8 bits (107), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 30/106 (28%), Positives = 51/106 (48%), Gaps = 14/106 (13%)
Query: 97 SAVRLKNTSKSHVAFKFQTTAPKSCYMRPPGGVLAPGDSIIATVFKFVEAPENNERQPLD 156
+ ++L+N S V FK +TTAP+ +RP G++ PG ++ +V QP D
Sbjct: 30 TNLKLRNPSDRKVCFKVKTTAPRRYCVRPNSGIIDPGSTVTVSVM----------LQPFD 79
Query: 157 ----QKSKDKFKIMSLKVKGGIDYVPELFDEQKDQVTVERILRVVF 198
+KSK KF + ++ + ++ E K ++ LR VF
Sbjct: 80 YDPNEKSKHKFMVQTIFAPPNTSDMEAVWKEAKPDELMDSKLRCVF 125
>pdb|1Z9L|A Chain A, 1.7 Angstrom Crystal Structure Of The Rat Vap-A Msp
Homology Domain
Length = 128
Score = 44.7 bits (104), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 32/106 (30%), Positives = 49/106 (46%), Gaps = 14/106 (13%)
Query: 97 SAVRLKNTSKSHVAFKFQTTAPKSCYMRPPGGVLAPGDSIIATVFKFVEAPENNERQPLD 156
+ ++L+N S V FK +TTAP+ +RP GV+ PG + +V QP D
Sbjct: 31 TNLKLQNPSDRKVCFKVKTTAPRRYCVRPNSGVIDPGSIVTVSV----------XLQPFD 80
Query: 157 ----QKSKDKFKIMSLKVKGGIDYVPELFDEQKDQVTVERILRVVF 198
+KSK KF + ++ I ++ E K + LR VF
Sbjct: 81 YDPNEKSKHKFXVQTIFAPPNISDXEAVWKEAKPDELXDSKLRCVF 126
>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 = 43.1 bits (100), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 31/106 (29%), Positives = 51/106 (48%), Gaps = 14/106 (13%)
Query: 97 SAVRLKNTSKSHVAFKFQTTAPKSCYMRPPGGVLAPGDSIIATVFKFVEAPENNERQPLD 156
+ ++L N + +V FK +TTAP+ +RP G++ G SI +V QP D
Sbjct: 30 TNLKLGNPTDRNVCFKVKTTAPRRYCVRPNSGIIDAGASINVSVM----------LQPFD 79
Query: 157 ----QKSKDKFKIMSLKVKGGIDYVPELFDEQKDQVTVERILRVVF 198
+KSK KF + S+ + ++ E K + ++ LR VF
Sbjct: 80 YDPNEKSKHKFMVQSMFAPTDTSDMEAVWKEAKPEDLMDSKLRCVF 125
>pdb|1WIC|A Chain A, Solution Structure Of The Msp Domain Of Riken Cdna
6030424e15
Length = 152
Score = 36.2 bits (82), Expect = 0.017, 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 = 33.5 bits (75), Expect = 0.11, 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 = 28.5 bits (62), Expect = 4.4, 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
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
0.317 0.134 0.405
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,274,004
Number of Sequences: 62578
Number of extensions: 200093
Number of successful extensions: 350
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 342
Number of HSP's gapped (non-prelim): 11
length of query: 264
length of database: 14,973,337
effective HSP length: 97
effective length of query: 167
effective length of database: 8,903,271
effective search space: 1486846257
effective search space used: 1486846257
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: 50 (23.9 bits)