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= psy13236
(280 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1IZN|A Chain A, Crystal Structure Of Actin Filament Capping Protein Capz
pdb|1IZN|C Chain C, Crystal Structure Of Actin Filament Capping Protein Capz
pdb|3LK2|A Chain A, Crystal Structure Of Capz Bound To The Uncapping Motif
From Carmil
pdb|3LK3|A Chain A, Crystal Structure Of Capz Bound To The Cpi And Csi
Uncapping Motifs From Carmil
pdb|3LK4|A Chain A, Crystal Structure Of Capz Bound To The Uncapping Motif
From Cd2ap
pdb|3LK4|D Chain D, Crystal Structure Of Capz Bound To The Uncapping Motif
From Cd2ap
pdb|3LK4|G Chain G, Crystal Structure Of Capz Bound To The Uncapping Motif
From Cd2ap
pdb|3LK4|J Chain J, Crystal Structure Of Capz Bound To The Uncapping Motif
From Cd2ap
pdb|3LK4|M Chain M, Crystal Structure Of Capz Bound To The Uncapping Motif
From Cd2ap
pdb|3LK4|P Chain P, Crystal Structure Of Capz Bound To The Uncapping Motif
From Cd2ap
pdb|3LK4|S Chain S, Crystal Structure Of Capz Bound To The Uncapping Motif
From Cd2ap
pdb|3LK4|V Chain V, Crystal Structure Of Capz Bound To The Uncapping Motif
From Cd2ap
pdb|3LK4|Y Chain Y, Crystal Structure Of Capz Bound To The Uncapping Motif
From Cd2ap
pdb|3LK4|1 Chain 1, Crystal Structure Of Capz Bound To The Uncapping Motif
From Cd2ap
pdb|3LK4|4 Chain 4, Crystal Structure Of Capz Bound To The Uncapping Motif
From Cd2ap
pdb|3LK4|7 Chain 7, Crystal Structure Of Capz Bound To The Uncapping Motif
From Cd2ap
pdb|2KZ7|A Chain A, Solution Structure Of The Carmil Cah3aB DOMAIN BOUND TO
CAPPING Protein (Cp)
pdb|3AA0|A Chain A, Crystal Structure Of Actin Capping Protein In Complex With
The Cp- Binding Motif Derived From Carmil
pdb|3AA1|A Chain A, Crystal Structure Of Actin Capping Protein In Complex With
The Cp- Binding Motif Derived From Ckip-1
pdb|3AA6|A Chain A, Crystal Structure Of Actin Capping Protein In Complex With
The Cp- Binding Motif Derived From Cd2ap
pdb|3AA7|A Chain A, Crystal Structure Of Actin Capping Protein
pdb|3AAA|A Chain A, Crystal Structure Of Actin Capping Protein In Complex With
V-1
pdb|3AAE|A Chain A, Crystal Structure Of Actin Capping Protein In Complex With
Carmil Fragment
pdb|3AAE|C Chain C, Crystal Structure Of Actin Capping Protein In Complex With
Carmil Fragment
pdb|3AAE|E Chain E, Crystal Structure Of Actin Capping Protein In Complex With
Carmil Fragment
pdb|3AAE|G Chain G, Crystal Structure Of Actin Capping Protein In Complex With
Carmil Fragment
pdb|3AAE|I Chain I, Crystal Structure Of Actin Capping Protein In Complex With
Carmil Fragment
Length = 286
Score = 340 bits (873), Expect = 4e-94, Method: Compositional matrix adjust.
Identities = 162/278 (58%), Positives = 197/278 (70%)
Query: 2 LTDQEKVRVVSGFILHSPPGEFNEVFNDVRGXXXXXXXXXXXXSKAFVQYNKEQLTPVKL 61
++D+EKVR+ + FI H+PPGEFNEVFNDVR + AF QYN +Q TPVK+
Sbjct: 8 VSDEEKVRIAAKFITHAPPGEFNEVFNDVRLLLNNDNLLREGAAHAFAQYNMDQFTPVKI 67
Query: 62 NNSDLPVLISEHNDLGNGRFYDPRSKQSFKFDHLRIEASDLESWEPDNSTETWRSLIELE 121
D VLI+EH DLGNGRF DPR+K SFKFDHLR EASD + + +++ + WR +
Sbjct: 68 EGYDDQVLITEHGDLGNGRFLDPRNKISFKFDHLRKEASDPQPEDTESALKQWRDACDSA 127
Query: 122 LDTYTASHYKNGTSSVFAKKQGETLQINACIEDHQFQPKNYWNGRWRSYWTINIEGNNVE 181
L Y HY NG +V+ K I ACIE HQFQPKN+WNGRWRS W I +
Sbjct: 128 LRAYVKDHYPNGFCTVYGKSIDGQQTIIACIESHQFQPKNFWNGRWRSEWKFTITPPTAQ 187
Query: 182 VKGNLKVQVHYYEDGNVQLVSSKDIKETVVVTSEEQTAREIVKLIEESETAYQQAISENY 241
V LK+QVHYYEDGNVQLVS KDI+++V V+S+ QTA+E +K+IE +E YQ AISENY
Sbjct: 188 VAAVLKIQVHYYEDGNVQLVSHKDIQDSVQVSSDVQTAKEFIKIIENAENEYQTAISENY 247
Query: 242 MTMSDTTFKALRRQLPVTRMKIDWNKIVSYSIGKELKN 279
TMSDTTFKALRRQLPVTR KIDWNKI+SY IGKE++N
Sbjct: 248 QTMSDTTFKALRRQLPVTRTKIDWNKILSYKIGKEMQN 285
>pdb|2KXP|A Chain A, Solution Nmr Structure Of V-1 Bound To Capping Protein
(Cp)
Length = 275
Score = 334 bits (857), Expect = 3e-92, Method: Compositional matrix adjust.
Identities = 160/274 (58%), Positives = 193/274 (70%)
Query: 2 LTDQEKVRVVSGFILHSPPGEFNEVFNDVRGXXXXXXXXXXXXSKAFVQYNKEQLTPVKL 61
++D+EKVR+ + FI H+PPGEFNEVFNDVR + AF QYN +Q TPVK+
Sbjct: 2 VSDEEKVRIAAKFITHAPPGEFNEVFNDVRLLLNNDNLLREGAAHAFAQYNMDQFTPVKI 61
Query: 62 NNSDLPVLISEHNDLGNGRFYDPRSKQSFKFDHLRIEASDLESWEPDNSTETWRSLIELE 121
D VLI+EH DLGNGRF DPR+K SFKFDHLR EASD + + +++ + WR +
Sbjct: 62 EGYDDQVLITEHGDLGNGRFLDPRNKISFKFDHLRKEASDPQPEDTESALKQWRDACDSA 121
Query: 122 LDTYTASHYKNGTSSVFAKKQGETLQINACIEDHQFQPKNYWNGRWRSYWTINIEGNNVE 181
L Y HY NG +V+ K I ACIE HQFQPKN+WNGRWRS W I +
Sbjct: 122 LRAYVKDHYPNGFCTVYGKSIDGQQTIIACIESHQFQPKNFWNGRWRSEWKFTITPPTAQ 181
Query: 182 VKGNLKVQVHYYEDGNVQLVSSKDIKETVVVTSEEQTAREIVKLIEESETAYQQAISENY 241
V LK+QVHYYEDGNVQLVS KDI+++V V+S+ QTA+E +K+IE +E YQ AISENY
Sbjct: 182 VAAVLKIQVHYYEDGNVQLVSHKDIQDSVQVSSDVQTAKEFIKIIENAENEYQTAISENY 241
Query: 242 MTMSDTTFKALRRQLPVTRMKIDWNKIVSYSIGK 275
TMSDTTFKALRRQLPVTR KIDWNKI+SY IGK
Sbjct: 242 QTMSDTTFKALRRQLPVTRTKIDWNKILSYKIGK 275
>pdb|4AKR|A Chain A, Crystal Structure Of The Cytoplasmic Actin Capping Protein
Cap32_34 From Dictyostelium Discoideum
pdb|4AKR|C Chain C, Crystal Structure Of The Cytoplasmic Actin Capping Protein
Cap32_34 From Dictyostelium Discoideum
Length = 281
Score = 189 bits (481), Expect = 1e-48, Method: Compositional matrix adjust.
Identities = 99/281 (35%), Positives = 151/281 (53%), Gaps = 6/281 (2%)
Query: 1 MLTDQEKVRVVSGFILHSPPGEFNEVFNDVRGXXXXXXXXXXXXSKAFVQYNKEQLTPVK 60
M ++QE V++ + F+L++PP EF EV +DVR F +YN Q+ V
Sbjct: 1 MASNQELVQIATNFLLNAPPCEFMEVVSDVRALLPSESLLNASAGSTFREYNTSQM--VS 58
Query: 61 LNNSDLPVLISEHNDLGNGRFYDPRSKQSFKFDHLRIEASD--LESWEPDNSTETWRSLI 118
+ S LI++ ++ N + DP++KQ +DH++ E + S E + E +R+
Sbjct: 59 VQTSKGSALITKEGEISNNEYLDPKNKQVITYDHIKQEVTGERSASGEIEQDIEQYRAAF 118
Query: 119 ELELDTYTASHYKNGTSSVFAKKQGETLQINACIEDHQFQPKNYWNGRWRSYWTINIE-- 176
+ E Y +Y NG S+V+ K E ++I CI ++P +++GRWRS WT +
Sbjct: 119 DEEATKYCNEYYPNGVSAVYGTKVSEGIKITVCISTCIYKPNAFYSGRWRSVWTCTFKPG 178
Query: 177 GNNVEVKGNLKVQVHYYEDGNVQLVSSKDIKETVVVTSEEQTAREIVKLIEESETAYQQA 236
NV G ++V VHY+EDGNVQL + + T + TA K I ++E A
Sbjct: 179 SGNVTSNGKVQVNVHYFEDGNVQLNTVTQKQTTSPSADAQSTAVNAFKAIGKAELNLHTA 238
Query: 237 ISENYMTMSDTTFKALRRQLPVTRMKIDWNKIVSYSIGKEL 277
+ NY TM DTTFKALRR LP+ R KI+W K+ ++ I EL
Sbjct: 239 LDNNYSTMGDTTFKALRRALPINRTKINWQKVKNFKIANEL 279
>pdb|1J1J|A Chain A, Crystal Structure Of Human Translin
pdb|1J1J|B Chain B, Crystal Structure Of Human Translin
pdb|1J1J|C Chain C, Crystal Structure Of Human Translin
pdb|1J1J|D Chain D, Crystal Structure Of Human Translin
Length = 240
Score = 28.5 bits (62), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 15/30 (50%), Positives = 22/30 (73%), Gaps = 2/30 (6%)
Query: 200 LVSSKDIKETV--VVTSEEQTAREIVKLIE 227
L + +DI+E + VV S EQTAREI+ L++
Sbjct: 26 LAAEQDIREEIRKVVQSLEQTAREILTLLQ 55
>pdb|1KEY|A Chain A, Crystal Structure Of Mouse TestisBRAIN RNA-Binding Protein
(Tb-Rbp)
pdb|1KEY|B Chain B, Crystal Structure Of Mouse TestisBRAIN RNA-Binding Protein
(Tb-Rbp)
pdb|1KEY|C Chain C, Crystal Structure Of Mouse TestisBRAIN RNA-Binding Protein
(Tb-Rbp)
pdb|1KEY|D Chain D, Crystal Structure Of Mouse TestisBRAIN RNA-Binding Protein
(Tb-Rbp)
Length = 235
Score = 28.5 bits (62), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 15/30 (50%), Positives = 22/30 (73%), Gaps = 2/30 (6%)
Query: 200 LVSSKDIKETV--VVTSEEQTAREIVKLIE 227
L + +DI+E + VV S EQTAREI+ L++
Sbjct: 21 LAAEQDIREEIRKVVQSLEQTAREILTLLQ 50
>pdb|3PJA|A Chain A, Crystal Structure Of Human C3po Complex
pdb|3PJA|B Chain B, Crystal Structure Of Human C3po Complex
pdb|3PJA|C Chain C, Crystal Structure Of Human C3po Complex
pdb|3PJA|D Chain D, Crystal Structure Of Human C3po Complex
pdb|3PJA|E Chain E, Crystal Structure Of Human C3po Complex
pdb|3PJA|F Chain F, Crystal Structure Of Human C3po Complex
pdb|3PJA|G Chain G, Crystal Structure Of Human C3po Complex
pdb|3PJA|H Chain H, Crystal Structure Of Human C3po Complex
pdb|3PJA|I Chain I, Crystal Structure Of Human C3po Complex
pdb|3QB5|A Chain A, Human C3po Complex In The Presence Of Mnso4
pdb|3QB5|B Chain B, Human C3po Complex In The Presence Of Mnso4
pdb|3QB5|C Chain C, Human C3po Complex In The Presence Of Mnso4
Length = 228
Score = 28.5 bits (62), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 15/30 (50%), Positives = 22/30 (73%), Gaps = 2/30 (6%)
Query: 200 LVSSKDIKETV--VVTSEEQTAREIVKLIE 227
L + +DI+E + VV S EQTAREI+ L++
Sbjct: 14 LAAEQDIREEIRKVVQSLEQTAREILTLLQ 43
>pdb|2HNA|A Chain A, Solution Structure Of A Bacterial Apo-Flavodoxin
pdb|2HNB|A Chain A, Solution Structure Of A Bacterial Holo-Flavodoxin
Length = 147
Score = 28.1 bits (61), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 13/29 (44%), Positives = 15/29 (51%)
Query: 139 AKKQGETLQINACIEDHQFQPKNYWNGRW 167
AK+ GETL+IN D P W G W
Sbjct: 114 AKQTGETLKINILDHDIPEDPAEEWLGSW 142
>pdb|3NL0|A Chain A, Mutant P44s M296i Of Foot-And-Mouth Disease Virus
Rna-Dependent Rna Polymerase
Length = 475
Score = 27.7 bits (60), Expect = 7.4, Method: Compositional matrix adjust.
Identities = 12/30 (40%), Positives = 18/30 (60%)
Query: 3 TDQEKVRVVSGFILHSPPGEFNEVFNDVRG 32
T QEK+ V+G +HS P E+ +F +G
Sbjct: 419 TIQEKLISVAGLAVHSGPDEYRRLFEPFQG 448
>pdb|3NMA|A Chain A, Mutant P169s Of Foot-And-Mouth Disease Virus Rna Dependent
Rna- Polymerase
Length = 476
Score = 27.7 bits (60), Expect = 7.4, Method: Compositional matrix adjust.
Identities = 12/30 (40%), Positives = 18/30 (60%)
Query: 3 TDQEKVRVVSGFILHSPPGEFNEVFNDVRG 32
T QEK+ V+G +HS P E+ +F +G
Sbjct: 419 TIQEKLISVAGLAVHSGPDEYRRLFEPFQG 448
>pdb|4IQX|A Chain A, Mutant P44s P169s M296i Of Foot-and-mouth Disease Virus
Rna-dependent Rna Polymerase
Length = 481
Score = 27.7 bits (60), Expect = 7.5, Method: Compositional matrix adjust.
Identities = 12/30 (40%), Positives = 18/30 (60%)
Query: 3 TDQEKVRVVSGFILHSPPGEFNEVFNDVRG 32
T QEK+ V+G +HS P E+ +F +G
Sbjct: 419 TIQEKLISVAGLAVHSGPDEYRRLFEPFQG 448
>pdb|3NKY|A Chain A, Structure Of A Mutant P44s Of Foot-And-Mouth Disease Virus
Rna- Dependent Rna Polymerase
Length = 476
Score = 27.7 bits (60), Expect = 7.5, Method: Compositional matrix adjust.
Identities = 12/30 (40%), Positives = 18/30 (60%)
Query: 3 TDQEKVRVVSGFILHSPPGEFNEVFNDVRG 32
T QEK+ V+G +HS P E+ +F +G
Sbjct: 419 TIQEKLISVAGLAVHSGPDEYRRLFEPFQG 448
>pdb|3KMQ|A Chain A, G62s Mutant Of Foot-And-Mouth Disease Virus Rna-Polymerase
In Complex With A Template- Primer Rna, Tetragonal
Structure
pdb|3KMS|A Chain A, G62s Mutant Of Foot-And-Mouth Disease Virus Rna-Polymerase
In Complex With A Template- Primer Rna Trigonal
Structure
Length = 476
Score = 27.7 bits (60), Expect = 7.6, Method: Compositional matrix adjust.
Identities = 12/30 (40%), Positives = 18/30 (60%)
Query: 3 TDQEKVRVVSGFILHSPPGEFNEVFNDVRG 32
T QEK+ V+G +HS P E+ +F +G
Sbjct: 419 TIQEKLISVAGLAVHSGPDEYRRLFEPFQG 448
>pdb|2D7S|A Chain A, Foot And Mouth Disease Virus Rna-Dependent Rna Polymerase
In Complex With Vpg Protein
pdb|2F8E|X Chain X, Foot And Mouth Disease Virus Rna-dependent Rna Polymerase
In Complex With Uridylylated Vpg Protein
Length = 474
Score = 27.7 bits (60), Expect = 7.6, Method: Compositional matrix adjust.
Identities = 12/30 (40%), Positives = 18/30 (60%)
Query: 3 TDQEKVRVVSGFILHSPPGEFNEVFNDVRG 32
T QEK+ V+G +HS P E+ +F +G
Sbjct: 419 TIQEKLISVAGLAVHSGPDEYRRLFEPFQG 448
>pdb|3KLV|A Chain A, M296i G62s Mutant Of Foot-And-Mouth Disease Virus
Rna-Polymerase In Complex With A Template- Primer Rna
Length = 476
Score = 27.7 bits (60), Expect = 7.7, Method: Compositional matrix adjust.
Identities = 12/30 (40%), Positives = 18/30 (60%)
Query: 3 TDQEKVRVVSGFILHSPPGEFNEVFNDVRG 32
T QEK+ V+G +HS P E+ +F +G
Sbjct: 419 TIQEKLISVAGLAVHSGPDEYRRLFEPFQG 448
>pdb|1U09|A Chain A, Footand Mouth Disease Virus Rna-Dependent Rna Polymerase
pdb|1WNE|A Chain A, Foot And Mouth Disease Virus Rna-Dependent Rna Polymerase
In Complex With A Template-Primer Rna
pdb|2E9R|X Chain X, Foot-And-Mouth Disease Virus Rna-Dependent Rna Polymerase
In Complex With A Template-Primer Rna And With Ribavirin
pdb|2E9T|A Chain A, Foot-And-Mouth Disease Virus Rna-Polymerase Rna Dependent
In Complex With A Template-Primer Rna And 5f-Utp
pdb|2E9T|D Chain D, Foot-And-Mouth Disease Virus Rna-Polymerase Rna Dependent
In Complex With A Template-Primer Rna And 5f-Utp
pdb|2E9Z|A Chain A, Foot-And-Mouth Disease Virus Rna-Polymerase In Complex
With A Template- Primer Rna, Atp And Utp
pdb|2EC0|A Chain A, Rna-Dependent Rna Polymerase Of Foot-And-Mouth Disease
Virus In Complex With A Template-Primer Rna And Atp
pdb|2EC0|D Chain D, Rna-Dependent Rna Polymerase Of Foot-And-Mouth Disease
Virus In Complex With A Template-Primer Rna And Atp
Length = 476
Score = 27.7 bits (60), Expect = 7.7, Method: Compositional matrix adjust.
Identities = 12/30 (40%), Positives = 18/30 (60%)
Query: 3 TDQEKVRVVSGFILHSPPGEFNEVFNDVRG 32
T QEK+ V+G +HS P E+ +F +G
Sbjct: 419 TIQEKLISVAGLAVHSGPDEYRRLFEPFQG 448
>pdb|3KNA|A Chain A, M296i Mutant Of Foot-And-Mouth Disease Virus
Rna-Polymerase In Complex With A Template- Primer Rna
pdb|3KOA|A Chain A, M296i Mutant Of Foot-And-Mouth Disease Virus
Rna-Polymerase In Complex With A Template- Primer Rna
And Gtp
Length = 476
Score = 27.7 bits (60), Expect = 7.8, Method: Compositional matrix adjust.
Identities = 12/30 (40%), Positives = 18/30 (60%)
Query: 3 TDQEKVRVVSGFILHSPPGEFNEVFNDVRG 32
T QEK+ V+G +HS P E+ +F +G
Sbjct: 419 TIQEKLISVAGLAVHSGPDEYRRLFEPFQG 448
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 0.129 0.375
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,180,678
Number of Sequences: 62578
Number of extensions: 323548
Number of successful extensions: 1069
Number of sequences better than 100.0: 27
Number of HSP's better than 100.0 without gapping: 14
Number of HSP's successfully gapped in prelim test: 13
Number of HSP's that attempted gapping in prelim test: 1050
Number of HSP's gapped (non-prelim): 27
length of query: 280
length of database: 14,973,337
effective HSP length: 98
effective length of query: 182
effective length of database: 8,840,693
effective search space: 1609006126
effective search space used: 1609006126
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 51 (24.3 bits)