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= 026049
(244 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 = 70.9 bits (172), Expect = 6e-13, Method: Compositional matrix adjust.
Identities = 43/119 (36%), Positives = 67/119 (56%), Gaps = 6/119 (5%)
Query: 12 PQELQFPFELRKQISCSLQLSNKTDNYVAFKVKTTNPKKYCVRPNTGVVLPRSTCDVIVT 71
P +L+F ++ +L+L N +D V FKVKTT P++YCVRPN+G++ P ST V V
Sbjct: 15 PTDLKFKGPFTDVVTTNLKLRNPSDRKVCFKVKTTAPRRYCVRPNSGIIDPGSTVTVSVM 74
Query: 72 MQSQKEAPPDMQCKDKFLLQGVVASPGATAKDITPEMFNKEAG-HHVEECKLRVLYVAP 129
+Q + P+ + K KF++Q + A P + E KEA + + KLR ++ P
Sbjct: 75 LQPF-DYDPNEKSKHKFMVQTIFAPPNTSDM----EAVWKEAKPDELMDSKLRCVFEMP 128
>pdb|2CRI|A Chain A, Solution Structure Of The Msp Domain Of Mouse Vamp-
Associated Proteina
Length = 147
Score = 69.3 bits (168), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 42/119 (35%), Positives = 66/119 (55%), Gaps = 6/119 (5%)
Query: 12 PQELQFPFELRKQISCSLQLSNKTDNYVAFKVKTTNPKKYCVRPNTGVVLPRSTCDVIVT 71
P +L+F ++ +L+L N +D V FKVKTT P++YCVRPN+G++ P S V V
Sbjct: 20 PSDLKFKGPFTDVVTTNLKLQNPSDRKVCFKVKTTAPRRYCVRPNSGIIDPGSIVTVSVM 79
Query: 72 MQSQKEAPPDMQCKDKFLLQGVVASPGATAKDITPEMFNKEAG-HHVEECKLRVLYVAP 129
+Q + P+ + K KF++Q + A P + E KEA + + KLR ++ P
Sbjct: 80 LQPF-DYDPNEKSKHKFMVQTIFAPPNISDM----EAVWKEAKPDELMDSKLRCVFEMP 133
>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 = 68.9 bits (167), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 37/96 (38%), Positives = 61/96 (63%), Gaps = 2/96 (2%)
Query: 1 MMSTGELLNIEPQ-ELQFPFELRKQISCSLQLSNKTDNYVAFKVKTTNPKKYCVRPNTGV 59
M ++L++EPQ EL+F ++ +L+L N TD V FKVKTT P++YCVRPN+G+
Sbjct: 3 MAKVEQVLSLEPQHELKFRGPFTDVVTTNLKLGNPTDRNVCFKVKTTAPRRYCVRPNSGI 62
Query: 60 VLPRSTCDVIVTMQSQKEAPPDMQCKDKFLLQGVVA 95
+ ++ +V V +Q + P+ + K KF++Q + A
Sbjct: 63 IDAGASINVSVMLQPF-DYDPNEKSKHKFMVQSMFA 97
>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 = 68.2 bits (165), Expect = 4e-12, Method: Compositional matrix adjust.
Identities = 42/116 (36%), Positives = 65/116 (56%), Gaps = 6/116 (5%)
Query: 12 PQELQFPFELRKQISCSLQLSNKTDNYVAFKVKTTNPKKYCVRPNTGVVLPRSTCDVIVT 71
P +L+F ++ +L+L N +D V FKVKTT P++YCVRPN+GV+ P S V V
Sbjct: 16 PSDLKFKGPFTDVVTTNLKLQNPSDRKVCFKVKTTAPRRYCVRPNSGVIDPGSIVTVSVM 75
Query: 72 MQSQKEAPPDMQCKDKFLLQGVVASPGATAKDITPEMFNKEAG-HHVEECKLRVLY 126
+Q + P+ + K KF++Q + A P + E KEA + + KLR ++
Sbjct: 76 LQPF-DYDPNEKSKHKFMVQTIFAPPNISDM----EAVWKEAKPDELMDSKLRCVF 126
>pdb|1Z9L|A Chain A, 1.7 Angstrom Crystal Structure Of The Rat Vap-A Msp
Homology Domain
Length = 128
Score = 67.8 bits (164), Expect = 6e-12, Method: Compositional matrix adjust.
Identities = 42/116 (36%), Positives = 64/116 (55%), Gaps = 6/116 (5%)
Query: 12 PQELQFPFELRKQISCSLQLSNKTDNYVAFKVKTTNPKKYCVRPNTGVVLPRSTCDVIVT 71
P +L+F ++ +L+L N +D V FKVKTT P++YCVRPN+GV+ P S V V
Sbjct: 16 PSDLKFKGPFTDVVTTNLKLQNPSDRKVCFKVKTTAPRRYCVRPNSGVIDPGSIVTVSVX 75
Query: 72 MQSQKEAPPDMQCKDKFLLQGVVASPGATAKDITPEMFNKEAG-HHVEECKLRVLY 126
+Q + P+ + K KF +Q + A P + E KEA + + KLR ++
Sbjct: 76 LQPF-DYDPNEKSKHKFXVQTIFAPPNISDX----EAVWKEAKPDELXDSKLRCVF 126
>pdb|1WIC|A Chain A, Solution Structure Of The Msp Domain Of Riken Cdna
6030424e15
Length = 152
Score = 50.4 bits (119), Expect = 8e-07, Method: Compositional matrix adjust.
Identities = 43/141 (30%), Positives = 65/141 (46%), Gaps = 6/141 (4%)
Query: 5 GELLNIEP-QELQFPFELRKQISCSLQLSNKTDNYVAFKVKTTNPKKYCVRPNTGVVLPR 63
G LL+I P +EL F + + L+N T N VAFKV+TT P+KY V+P+ P
Sbjct: 16 GPLLHISPAEELYFGSIESGEKKTLIVLTNVTKNIVAFKVRTTAPEKYRVKPSNSSCDPG 75
Query: 64 STCDVIVTMQSQKEAPPDMQCKDKFLLQGVVASPGATAKDITPEMFNKEAGHH-VEECKL 122
++ D+IV+ + +D+FL+ + F KE + V E +L
Sbjct: 76 ASIDIIVSPHGGL----TVSAQDRFLIMAAEMEQSSGTGPAELSQFWKEVPRNKVMEHRL 131
Query: 123 RVLYVAPPRPPSPVHEGSEEG 143
R V +P S + G G
Sbjct: 132 RCHTVESSKPNSLMLSGPSSG 152
>pdb|1MSP|A Chain A, Major Sperm Protein, Alpha Isoform (Recombinant), Ph 4.6
pdb|1MSP|B Chain B, Major Sperm Protein, Alpha Isoform (Recombinant), Ph 4.6
pdb|3MSP|A Chain A, Motile Major Sperm Protein (Msp) Of Ascaris Suum, Nmr, 20
Structures
pdb|3MSP|B Chain B, Motile Major Sperm Protein (Msp) Of Ascaris Suum, Nmr, 20
Structures
Length = 126
Score = 33.1 bits (74), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 23/107 (21%), Positives = 49/107 (45%), Gaps = 3/107 (2%)
Query: 8 LNIEP-QELQFPFELRKQISCSLQLSNKTDNYVAFKVKTTNPKKYCVRPNTGVVLPRSTC 66
+N +P Q++ F + + ++++N + + +KTTN ++ V P GV+ P+
Sbjct: 9 INTQPSQKIVFNAPYDDKHTYHIKITNAGGRRIGWAIKTTNMRRLSVDPPCGVLDPKEKV 68
Query: 67 DVIVTMQSQKEAPPDMQCKDKFLLQGVVASPGATAKDITPEMFNKEA 113
+ V+ + A D+ D+ ++ +P AK E F +
Sbjct: 69 LMAVSCDTFNAATEDLN-NDRITIE-WTNTPDGAAKQFRREWFQGDG 113
>pdb|1ROW|A Chain A, Structure Of Ssp-19, An Msp-Domain Protein Like Family
Member In Caenorhabditis Elegans
pdb|1ROW|B Chain B, Structure Of Ssp-19, An Msp-Domain Protein Like Family
Member In Caenorhabditis Elegans
Length = 109
Score = 32.7 bits (73), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 15/47 (31%), Positives = 27/47 (57%)
Query: 25 ISCSLQLSNKTDNYVAFKVKTTNPKKYCVRPNTGVVLPRSTCDVIVT 71
+S + +L N + FK+K++N +Y + P G V P + DV++T
Sbjct: 17 VSSTHKLVNGGAEKIVFKIKSSNNNEYRIAPVFGFVDPSGSKDVVIT 63
>pdb|1M1S|A Chain A, Structure Of Wr4, A C.Elegans Msp Family Member
Length = 116
Score = 32.0 bits (71), Expect = 0.32, Method: Compositional matrix adjust.
Identities = 16/53 (30%), Positives = 32/53 (60%), Gaps = 3/53 (5%)
Query: 8 LNIEPQELQFPFELRKQISCSLQLSNKTDNYVAFKVKTTNPKKYCVRPNTGVV 60
+N++P +P + + +++++D+ +AFKVK++N + Y VRP G V
Sbjct: 11 INVDPPTGNYP---ATGGNSTHNITSESDSRLAFKVKSSNNEHYRVRPVYGFV 60
>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 = 31.2 bits (69), Expect = 0.58, Method: Compositional matrix adjust.
Identities = 19/85 (22%), Positives = 39/85 (45%), Gaps = 2/85 (2%)
Query: 29 LQLSNKTDNYVAFKVKTTNPKKYCVRPNTGVVLPRSTCDVIVTMQSQKEAPPDMQCKDKF 88
++++N + + +KTTN ++ V P +GV+ P + V+ + A D+ D+
Sbjct: 31 IKITNAGGRRIGWAIKTTNMRRLGVDPPSGVLDPSEKVLMAVSCDTFNAATEDLN-NDRI 89
Query: 89 LLQGVVASPGATAKDITPEMFNKEA 113
++ +P AK E F +
Sbjct: 90 CIE-WTNTPDGAAKQFRREWFQGDG 113
>pdb|2BVU|A Chain A, D83r Mutant Of Asaris Suum Major Sperm Protein (Msp)
pdb|2BVU|B Chain B, D83r Mutant Of Asaris Suum Major Sperm Protein (Msp)
pdb|2BVU|C Chain C, D83r Mutant Of Asaris Suum Major Sperm Protein (Msp)
pdb|2BVU|D Chain D, D83r Mutant Of Asaris Suum Major Sperm Protein (Msp)
Length = 126
Score = 30.0 bits (66), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 22/107 (20%), Positives = 48/107 (44%), Gaps = 3/107 (2%)
Query: 8 LNIEP-QELQFPFELRKQISCSLQLSNKTDNYVAFKVKTTNPKKYCVRPNTGVVLPRSTC 66
+N +P Q++ F + + ++++N + + +KTTN ++ V P GV+ P+
Sbjct: 9 INTQPSQKIVFNAPYDDKHTYHIKITNAGGRRIGWAIKTTNMRRLSVDPPCGVLDPKEKV 68
Query: 67 DVIVTMQSQKEAPPDMQCKDKFLLQGVVASPGATAKDITPEMFNKEA 113
+ V+ + A + D+ ++ +P AK E F +
Sbjct: 69 LMAVSCDTFNAATERLN-NDRITIE-WTNTPDGAAKQFRREWFQGDG 113
>pdb|3Q1P|A Chain A, Crystal Structure Of Cdp-Chase
pdb|3Q1P|B Chain B, Crystal Structure Of Cdp-Chase
Length = 205
Score = 28.9 bits (63), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 20/79 (25%), Positives = 34/79 (43%), Gaps = 1/79 (1%)
Query: 57 TGVVLPRSTCDVIVTMQSQKEAPPDMQCKDKFLLQGVVASPGATAKDITPEMFNKEAGHH 116
TG P+ +V Q++K + K+ L G A G T ++ + +E G+
Sbjct: 62 TGYQTPKVDIRAVV-FQNEKLLFVKEKSDGKWALPGGWADVGYTPTEVAAKEVFEETGYE 120
Query: 117 VEECKLRVLYVAPPRPPSP 135
V+ KL ++ PSP
Sbjct: 121 VDHFKLLAIFDKEKHQPSP 139
>pdb|3Q4I|A Chain A, Crystal Structure Of Cdp-Chase In Complex With Gd3+
pdb|3Q4I|B Chain B, Crystal Structure Of Cdp-Chase In Complex With Gd3+
Length = 205
Score = 28.5 bits (62), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 20/79 (25%), Positives = 34/79 (43%), Gaps = 1/79 (1%)
Query: 57 TGVVLPRSTCDVIVTMQSQKEAPPDMQCKDKFLLQGVVASPGATAKDITPEMFNKEAGHH 116
TG P+ +V Q++K + K+ L G A G T ++ + +E G+
Sbjct: 62 TGYQTPKVDIRAVV-FQNEKLLFVKEKSDGKWALPGGWADVGYTPTEVAAKEVFEETGYE 120
Query: 117 VEECKLRVLYVAPPRPPSP 135
V+ KL ++ PSP
Sbjct: 121 VDHFKLLAIFDKEKHQPSP 139
>pdb|1UUH|A Chain A, Hyaluronan Binding Domain Of Human Cd44
pdb|1UUH|B Chain B, Hyaluronan Binding Domain Of Human Cd44
Length = 159
Score = 27.3 bits (59), Expect = 7.2, Method: Compositional matrix adjust.
Identities = 20/77 (25%), Positives = 30/77 (38%), Gaps = 6/77 (7%)
Query: 47 NPKKYCVRPNTGVVLPRSTCDVIVTMQSQKEAPPDMQCKDKFLLQGVVASPGATAKDITP 106
+P C NTGV + S T APP+ C V P A IT
Sbjct: 73 HPNSICAANNTGVYILTSNTSQYDTYCFNASAPPEEDCT------SVTDLPNAFDGPITI 126
Query: 107 EMFNKEAGHHVEECKLR 123
+ N++ +V++ + R
Sbjct: 127 TIVNRDGTRYVQKGEYR 143
>pdb|2I83|A Chain A, Hyaluronan-Binding Domain Of Cd44 In Its Ligand-Bound Form
Length = 160
Score = 27.3 bits (59), Expect = 7.4, Method: Compositional matrix adjust.
Identities = 20/77 (25%), Positives = 30/77 (38%), Gaps = 6/77 (7%)
Query: 47 NPKKYCVRPNTGVVLPRSTCDVIVTMQSQKEAPPDMQCKDKFLLQGVVASPGATAKDITP 106
+P C NTGV + S T APP+ C V P A IT
Sbjct: 74 HPNSICAANNTGVYILTSNTSQYDTYCFNASAPPEEDCT------SVTDLPNAFDGPITI 127
Query: 107 EMFNKEAGHHVEECKLR 123
+ N++ +V++ + R
Sbjct: 128 TIVNRDGTRYVQKGEYR 144
>pdb|1POZ|A Chain A, Solution Structure Of The Hyaluronan Binding Domain Of
Human Cd44
Length = 159
Score = 27.3 bits (59), Expect = 7.5, Method: Compositional matrix adjust.
Identities = 20/77 (25%), Positives = 30/77 (38%), Gaps = 6/77 (7%)
Query: 47 NPKKYCVRPNTGVVLPRSTCDVIVTMQSQKEAPPDMQCKDKFLLQGVVASPGATAKDITP 106
+P C NTGV + S T APP+ C V P A IT
Sbjct: 73 HPNSICAANNTGVYILTSNTSQYDTYCFNASAPPEEDCT------SVTDLPNAFDGPITI 126
Query: 107 EMFNKEAGHHVEECKLR 123
+ N++ +V++ + R
Sbjct: 127 TIVNRDGTRYVQKGEYR 143
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
0.315 0.130 0.382
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,884,599
Number of Sequences: 62578
Number of extensions: 249776
Number of successful extensions: 505
Number of sequences better than 100.0: 17
Number of HSP's better than 100.0 without gapping: 11
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 494
Number of HSP's gapped (non-prelim): 17
length of query: 244
length of database: 14,973,337
effective HSP length: 96
effective length of query: 148
effective length of database: 8,965,849
effective search space: 1326945652
effective search space used: 1326945652
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 50 (23.9 bits)