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= 026478
(238 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2CRI|A Chain A, Solution Structure Of The Msp Domain Of Mouse Vamp-
Associated Proteina
Length = 147
Score = 68.6 bits (166), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 37/90 (41%), Positives = 57/90 (63%), Gaps = 1/90 (1%)
Query: 6 LVNIQPSELKFPFELKKQSSCSMQLTNKTDKFVAFKVKTTNPKKYCVRPNTGIILPRTSC 65
LV PS+LKF + +++L N +D+ V FKVKTT P++YCVRPN+GII P +
Sbjct: 15 LVLDPPSDLKFKGPFTDVVTTNLKLQNPSDRKVCFKVKTTAPRRYCVRPNSGIIDPGSIV 74
Query: 66 AVTVTMQAQKEAPPDFQCKDKFLLLSVVAP 95
V+V +Q + P+ + K KF++ ++ AP
Sbjct: 75 TVSVMLQPF-DYDPNEKSKHKFMVQTIFAP 103
>pdb|2RR3|A Chain A, Solution Structure Of The Complex Between Human Vap-A
Msp Domain And Human Osbp Ffat Motif
Length = 130
Score = 67.4 bits (163), Expect = 7e-12, Method: Compositional matrix adjust.
Identities = 36/90 (40%), Positives = 58/90 (64%), Gaps = 1/90 (1%)
Query: 6 LVNIQPSELKFPFELKKQSSCSMQLTNKTDKFVAFKVKTTNPKKYCVRPNTGIILPRTSC 65
LV P++LKF + +++L N +D+ V FKVKTT P++YCVRPN+GII P ++
Sbjct: 10 LVLDPPTDLKFKGPFTDVVTTNLKLRNPSDRKVCFKVKTTAPRRYCVRPNSGIIDPGSTV 69
Query: 66 AVTVTMQAQKEAPPDFQCKDKFLLLSVVAP 95
V+V +Q + P+ + K KF++ ++ AP
Sbjct: 70 TVSVMLQPF-DYDPNEKSKHKFMVQTIFAP 98
>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 = 66.6 bits (161), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 40/106 (37%), Positives = 62/106 (58%), Gaps = 6/106 (5%)
Query: 6 LVNIQPSELKFPFELKKQSSCSMQLTNKTDKFVAFKVKTTNPKKYCVRPNTGIILPRTSC 65
LV PS+LKF + +++L N +D+ V FKVKTT P++YCVRPN+G+I P +
Sbjct: 11 LVLDPPSDLKFKGPFTDVVTTNLKLQNPSDRKVCFKVKTTAPRRYCVRPNSGVIDPGSIV 70
Query: 66 AVTVTMQAQKEAPPDFQCKDKFLLLSVVAPDG-----ATAKDIGPD 106
V+V +Q + P+ + K KF++ ++ AP A K+ PD
Sbjct: 71 TVSVMLQPF-DYDPNEKSKHKFMVQTIFAPPNISDMEAVWKEAKPD 115
>pdb|1Z9L|A Chain A, 1.7 Angstrom Crystal Structure Of The Rat Vap-A Msp
Homology Domain
Length = 128
Score = 65.5 bits (158), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 36/90 (40%), Positives = 56/90 (62%), Gaps = 1/90 (1%)
Query: 6 LVNIQPSELKFPFELKKQSSCSMQLTNKTDKFVAFKVKTTNPKKYCVRPNTGIILPRTSC 65
LV PS+LKF + +++L N +D+ V FKVKTT P++YCVRPN+G+I P +
Sbjct: 11 LVLDPPSDLKFKGPFTDVVTTNLKLQNPSDRKVCFKVKTTAPRRYCVRPNSGVIDPGSIV 70
Query: 66 AVTVTMQAQKEAPPDFQCKDKFLLLSVVAP 95
V+V +Q + P+ + K KF + ++ AP
Sbjct: 71 TVSVXLQPF-DYDPNEKSKHKFXVQTIFAP 99
>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 = 64.7 bits (156), Expect = 4e-11, Method: Compositional matrix adjust.
Identities = 37/91 (40%), Positives = 58/91 (63%), Gaps = 2/91 (2%)
Query: 6 LVNIQP-SELKFPFELKKQSSCSMQLTNKTDKFVAFKVKTTNPKKYCVRPNTGIILPRTS 64
+++++P ELKF + +++L N TD+ V FKVKTT P++YCVRPN+GII S
Sbjct: 9 VLSLEPQHELKFRGPFTDVVTTNLKLGNPTDRNVCFKVKTTAPRRYCVRPNSGIIDAGAS 68
Query: 65 CAVTVTMQAQKEAPPDFQCKDKFLLLSVVAP 95
V+V +Q + P+ + K KF++ S+ AP
Sbjct: 69 INVSVMLQPF-DYDPNEKSKHKFMVQSMFAP 98
>pdb|1WIC|A Chain A, Solution Structure Of The Msp Domain Of Riken Cdna
6030424e15
Length = 152
Score = 44.3 bits (103), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 29/89 (32%), Positives = 45/89 (50%), Gaps = 5/89 (5%)
Query: 4 GDLVNIQPSE-LKFPFELKKQSSCSMQLTNKTDKFVAFKVKTTNPKKYCVRPNTGIILPR 62
G L++I P+E L F + + LTN T VAFKV+TT P+KY V+P+ P
Sbjct: 16 GPLLHISPAEELYFGSIESGEKKTLIVLTNVTKNIVAFKVRTTAPEKYRVKPSNSSCDPG 75
Query: 63 TSCAVTVTMQAQKEAPPDFQCKDKFLLLS 91
S + V+ +D+FL+++
Sbjct: 76 ASIDIIVSPHGGL----TVSAQDRFLIMA 100
>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 = 39.3 bits (90), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 25/96 (26%), Positives = 46/96 (47%), Gaps = 3/96 (3%)
Query: 4 GDLVNIQPSE-LKFPFELKKQSSCSMQLTNKTDKFVAFKVKTTNPKKYCVRPNTGIILPR 62
GD +N QPS+ + F + + +++TN + + + +KTTN ++ V P G++ P+
Sbjct: 7 GD-INTQPSQKIVFNAPYDDKHTYHIKITNAGGRRIGWAIKTTNMRRLSVDPPCGVLDPK 65
Query: 63 TSCAVTVTMQAQKEAPPDFQCKDKFLLLSVVAPDGA 98
+ V+ A D D+ + PDGA
Sbjct: 66 EKVLMAVSCDTFNAATEDLN-NDRITIEWTNTPDGA 100
>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 = 38.9 bits (89), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 25/96 (26%), Positives = 46/96 (47%), Gaps = 3/96 (3%)
Query: 4 GDLVNIQP-SELKFPFELKKQSSCSMQLTNKTDKFVAFKVKTTNPKKYCVRPNTGIILPR 62
GD +N QP S++ F + + +++TN + + + +KTTN ++ V P +G++ P
Sbjct: 7 GD-INTQPGSKIVFNAPYDDKHTYHIKITNAGGRRIGWAIKTTNMRRLGVDPPSGVLDPS 65
Query: 63 TSCAVTVTMQAQKEAPPDFQCKDKFLLLSVVAPDGA 98
+ V+ A D D+ + PDGA
Sbjct: 66 EKVLMAVSCDTFNAATEDLN-NDRICIEWTNTPDGA 100
>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 = 36.2 bits (82), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 24/96 (25%), Positives = 45/96 (46%), Gaps = 3/96 (3%)
Query: 4 GDLVNIQPSE-LKFPFELKKQSSCSMQLTNKTDKFVAFKVKTTNPKKYCVRPNTGIILPR 62
GD +N QPS+ + F + + +++TN + + + +KTTN ++ V P G++ P+
Sbjct: 7 GD-INTQPSQKIVFNAPYDDKHTYHIKITNAGGRRIGWAIKTTNMRRLSVDPPCGVLDPK 65
Query: 63 TSCAVTVTMQAQKEAPPDFQCKDKFLLLSVVAPDGA 98
+ V+ A D+ + PDGA
Sbjct: 66 EKVLMAVSCDTFNAATERLN-NDRITIEWTNTPDGA 100
>pdb|1M1S|A Chain A, Structure Of Wr4, A C.Elegans Msp Family Member
Length = 116
Score = 34.3 bits (77), Expect = 0.061, Method: Compositional matrix adjust.
Identities = 16/53 (30%), Positives = 30/53 (56%), Gaps = 3/53 (5%)
Query: 7 VNIQPSELKFPFELKKQSSCSMQLTNKTDKFVAFKVKTTNPKKYCVRPNTGII 59
+N+ P +P + + +T+++D +AFKVK++N + Y VRP G +
Sbjct: 11 INVDPPTGNYP---ATGGNSTHNITSESDSRLAFKVKSSNNEHYRVRPVYGFV 60
>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 = 33.1 bits (74), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 21/95 (22%), Positives = 44/95 (46%), Gaps = 1/95 (1%)
Query: 4 GDLVNIQPSELKFPFELKKQSSCSMQLTNKTDKFVAFKVKTTNPKKYCVRPNTGIILPRT 63
GD+ +++ F + + +++ N + + + + +KTTN K+ V P G++ P+
Sbjct: 7 GDIQTQPGTKIVFNAPYDDKHTYHIKVINSSARRIGYGIKTTNMKRLGVDPPCGVLDPKE 66
Query: 64 SCAVTVTMQAQKEAPPDFQCKDKFLLLSVVAPDGA 98
+ + V+ A D D+ + PDGA
Sbjct: 67 AVLLAVSCDAFAFGQEDTN-NDRITVEWTNTPDGA 100
>pdb|1XZX|X Chain X, Thyroxine-Thyroid Hormone Receptor Interactions
pdb|1Y0X|X Chain X, Thyroxine-Thyroid Hormone Receptor Interactions
Length = 281
Score = 29.3 bits (64), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 13/56 (23%), Positives = 29/56 (51%)
Query: 156 NSSFDDVSKSLEVPKEKSSEAWSMISKLTEEKTSAMQQNQKLRQELEFVRKEISKS 211
S +++ KS+ E + E W +I +TE + Q +Q+ +F+ ++I ++
Sbjct: 18 GSHMEELQKSIGHKPEPTDEEWELIKTVTEAHVATNAQGSHWKQKRKFLPEDIGQA 73
>pdb|3ZVR|A Chain A, Crystal Structure Of Dynamin
Length = 772
Score = 28.9 bits (63), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 19/71 (26%), Positives = 31/71 (43%), Gaps = 10/71 (14%)
Query: 15 KFPFELKKQSSCSMQLTNKTDKFVAFKVKTTNPKKYCVRPNTGIILPRTSCAVTVTMQAQ 74
+FPFEL K +L + +++ +K + + TG+ P + TV Q Q
Sbjct: 389 RFPFELVKMEFDEKELRRE----ISYAIKNIHDIR------TGLFTPDLAFEATVKKQVQ 438
Query: 75 KEAPPDFQCKD 85
K P +C D
Sbjct: 439 KLKEPSIKCVD 449
>pdb|3JZC|A Chain A, Crystal Structure Of Tr-Beta Bound To The Selective
Thyromimetic Triac
Length = 263
Score = 28.9 bits (63), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 13/55 (23%), Positives = 29/55 (52%)
Query: 157 SSFDDVSKSLEVPKEKSSEAWSMISKLTEEKTSAMQQNQKLRQELEFVRKEISKS 211
S +++ KS+ E + E W +I +TE + Q +Q+ +F+ ++I ++
Sbjct: 1 GSMEELQKSIGHKPEPTDEEWELIKTVTEAHVATNAQGSHWKQKRKFLPEDIGQA 55
>pdb|1NQ0|A Chain A, Tr Receptor Mutations Conferring Hormone Resistance And
Reduced Corepressor Release Exhibit Decreased Stability
In The Nterminal Lbd
Length = 263
Score = 28.1 bits (61), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 12/55 (21%), Positives = 30/55 (54%)
Query: 157 SSFDDVSKSLEVPKEKSSEAWSMISKLTEEKTSAMQQNQKLRQELEFVRKEISKS 211
++ +++ KS+ E + E W +I +TE + Q +Q+ +F+ ++I ++
Sbjct: 1 AAMEELQKSIGHKPEPTDEEWELIKTVTEAHVATNTQGSHWKQKRKFLPEDIGQA 55
>pdb|3UVV|A Chain A, Crystal Structure Of The Ligand Binding Domains Of The
Thyroid Receptor:retinoid X Receptor Complexed With
3,3',5 Triiodo-L- Thyronine And 9-Cis Retinoic Acid
Length = 265
Score = 28.1 bits (61), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 15/51 (29%), Positives = 28/51 (54%)
Query: 161 DVSKSLEVPKEKSSEAWSMISKLTEEKTSAMQQNQKLRQELEFVRKEISKS 211
++ KSL+ S+E W +I +TE S Q +Q+ +F+ ++I +S
Sbjct: 4 EMIKSLQHRPSPSAEEWELIHVVTEAHRSTNAQGSHWKQKRKFLPEDIGQS 54
>pdb|1NQ2|A Chain A, Two Rth Mutants With Impaired Hormone Binding
Length = 264
Score = 28.1 bits (61), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 13/55 (23%), Positives = 30/55 (54%)
Query: 157 SSFDDVSKSLEVPKEKSSEAWSMISKLTEEKTSAMQQNQKLRQELEFVRKEISKS 211
S+ +++ KS+ E + E W +I +TE + Q +Q+ +F+ ++I ++
Sbjct: 2 SAAEELQKSIGHKPEPTDEEWELIKTVTEAHVATNAQGSHWKQKRKFLPEDIGQA 56
>pdb|1NQ1|A Chain A, Tr Receptor Mutations Conferring Hormone Resistance And
Reduced Corepressor Release Exhibit Decreased Stability
In The Nterminal Lbd
Length = 263
Score = 27.7 bits (60), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 12/55 (21%), Positives = 29/55 (52%)
Query: 157 SSFDDVSKSLEVPKEKSSEAWSMISKLTEEKTSAMQQNQKLRQELEFVRKEISKS 211
++ +++ KS+ E + E W +I +TE + Q +Q+ +F+ +I ++
Sbjct: 1 AAMEELQKSIGHKPEPTDEEWELIKTVTEAHVATNAQGSHWKQKQKFLPDDIGQA 55
>pdb|3OJY|A Chain A, Crystal Structure Of Human Complement Component C8
Length = 554
Score = 27.3 bits (59), Expect = 7.8, Method: Compositional matrix adjust.
Identities = 13/39 (33%), Positives = 20/39 (51%)
Query: 47 PKKYCVRPNTGIILPRTSCAVTVTMQAQKEAPPDFQCKD 85
P K+ +G I + SC+ + T Q + DFQCK+
Sbjct: 36 PNKFGGTICSGDIWDQASCSSSTTCVRQAQCGQDFQCKE 74
>pdb|1BSX|A Chain A, Structure And Specificity Of Nuclear Receptor-Coactivator
Interactions
pdb|1BSX|B Chain B, Structure And Specificity Of Nuclear Receptor-Coactivator
Interactions
Length = 260
Score = 27.3 bits (59), Expect = 8.0, Method: Compositional matrix adjust.
Identities = 12/52 (23%), Positives = 28/52 (53%)
Query: 160 DDVSKSLEVPKEKSSEAWSMISKLTEEKTSAMQQNQKLRQELEFVRKEISKS 211
+++ KS+ E + E W +I +TE + Q +Q+ +F+ ++I ++
Sbjct: 1 EELQKSIGHKPEPTDEEWELIKTVTEAHVATNAQGSHWKQKRKFLPEDIGQA 52
>pdb|3GWS|X Chain X, Crystal Structure Of T3-Bound Thyroid Hormone Receptor
Length = 259
Score = 27.3 bits (59), Expect = 8.6, Method: Compositional matrix adjust.
Identities = 12/52 (23%), Positives = 28/52 (53%)
Query: 160 DDVSKSLEVPKEKSSEAWSMISKLTEEKTSAMQQNQKLRQELEFVRKEISKS 211
+++ KS+ E + E W +I +TE + Q +Q+ +F+ ++I ++
Sbjct: 1 EELQKSIGHKPEPTDEEWELIKTVTEAHVATNAQGSHWKQKRKFLPEDIGQA 52
>pdb|3IMY|A Chain A, Structure Of Tr-Beta Bound To Selective Thyromimetic Gc-1
Length = 261
Score = 26.9 bits (58), Expect = 9.0, Method: Compositional matrix adjust.
Identities = 12/52 (23%), Positives = 28/52 (53%)
Query: 160 DDVSKSLEVPKEKSSEAWSMISKLTEEKTSAMQQNQKLRQELEFVRKEISKS 211
+++ KS+ E + E W +I +TE + Q +Q+ +F+ ++I ++
Sbjct: 2 EELQKSIGHKPEPTDEEWELIKTVTEAHVATNAQGSHWKQKRKFLPEDIGQA 53
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
0.313 0.127 0.357
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,750,193
Number of Sequences: 62578
Number of extensions: 190927
Number of successful extensions: 431
Number of sequences better than 100.0: 36
Number of HSP's better than 100.0 without gapping: 28
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 401
Number of HSP's gapped (non-prelim): 37
length of query: 238
length of database: 14,973,337
effective HSP length: 96
effective length of query: 142
effective length of database: 8,965,849
effective search space: 1273150558
effective search space used: 1273150558
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 50 (23.9 bits)