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= psy4617
(314 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2KXP|B Chain B, Solution Nmr Structure Of V-1 Bound To Capping Protein
(Cp)
Length = 270
Score = 438 bits (1126), Expect = e-123, Method: Compositional matrix adjust.
Identities = 213/281 (75%), Positives = 233/281 (82%), Gaps = 33/281 (11%)
Query: 8 TELQMDCALDLMRRLPPQQIEKNLSDLIDLVPGLCEDLLSSVDQPLKIARDKEMGKDYLL 67
++ Q+DCALDLMRRLPPQQIEKNLSDLIDLVP LCEDLLSSVDQPLKIARDK +GKDYLL
Sbjct: 1 SDQQLDCALDLMRRLPPQQIEKNLSDLIDLVPSLCEDLLSSVDQPLKIARDKVVGKDYLL 60
Query: 68 CDYNRDGDSYRSPWSNVYDPPLEDGSMPSERLRKLEIDANHAFDQYREMYFEGGVSSVYL 127
CDYNRDGDSYRSPWSN YDPPLEDG+MPS RLRKLE++AN+
Sbjct: 61 CDYNRDGDSYRSPWSNKYDPPLEDGAMPSARLRKLEVEANN------------------- 101
Query: 128 WDLDHGFAEIDANHAFDQYREMYFEGGVSSVYLWDLDHGFAGVILIKKAGDGSRKIQGCW 187
AFDQYR++YFEGGVSSVYLWDLDHGFAGVILIKKAGDGS+KI+GCW
Sbjct: 102 --------------AFDQYRDLYFEGGVSSVYLWDLDHGFAGVILIKKAGDGSKKIKGCW 147
Query: 188 DSIHVVEVQEKPTGRNAHYKLTSTVMLWLQTNKIASGKMNLGGSLTRQIEMDAQVSDTSP 247
DSIHVVEVQEK +GR AHYKLTSTVMLWLQTNK SG MNLGGSLTRQ+E D VSD+SP
Sbjct: 148 DSIHVVEVQEKSSGRTAHYKLTSTVMLWLQTNKTGSGTMNLGGSLTRQMEKDETVSDSSP 207
Query: 248 HIANIGRMVEEMENKIRNTLNEIYFGKTKDIVNGLRSLQPL 288
HIANIGR+VE+MENKIR+TLNEIYFGKTKDIVNGLRS+ +
Sbjct: 208 HIANIGRLVEDMENKIRSTLNEIYFGKTKDIVNGLRSIDAI 248
>pdb|1IZN|B Chain B, Crystal Structure Of Actin Filament Capping Protein Capz
pdb|1IZN|D Chain D, Crystal Structure Of Actin Filament Capping Protein Capz
pdb|3LK3|B Chain B, Crystal Structure Of Capz Bound To The Cpi And Csi
Uncapping Motifs From Carmil
pdb|3LK4|B Chain B, Crystal Structure Of Capz Bound To The Uncapping Motif
From Cd2ap
pdb|3LK4|E Chain E, Crystal Structure Of Capz Bound To The Uncapping Motif
From Cd2ap
pdb|3LK4|H Chain H, Crystal Structure Of Capz Bound To The Uncapping Motif
From Cd2ap
pdb|3LK4|K Chain K, Crystal Structure Of Capz Bound To The Uncapping Motif
From Cd2ap
pdb|3LK4|N Chain N, Crystal Structure Of Capz Bound To The Uncapping Motif
From Cd2ap
pdb|3LK4|Q Chain Q, Crystal Structure Of Capz Bound To The Uncapping Motif
From Cd2ap
pdb|3LK4|T Chain T, Crystal Structure Of Capz Bound To The Uncapping Motif
From Cd2ap
pdb|3LK4|W Chain W, Crystal Structure Of Capz Bound To The Uncapping Motif
From Cd2ap
pdb|3LK4|Z Chain Z, Crystal Structure Of Capz Bound To The Uncapping Motif
From Cd2ap
pdb|3LK4|2 Chain 2, Crystal Structure Of Capz Bound To The Uncapping Motif
From Cd2ap
pdb|3LK4|5 Chain 5, Crystal Structure Of Capz Bound To The Uncapping Motif
From Cd2ap
pdb|3LK4|8 Chain 8, Crystal Structure Of Capz Bound To The Uncapping Motif
From Cd2ap
pdb|2KZ7|B Chain B, Solution Structure Of The Carmil Cah3aB DOMAIN BOUND TO
CAPPING Protein (Cp)
pdb|3AAA|B Chain B, Crystal Structure Of Actin Capping Protein In Complex With
V-1
pdb|3AAE|B Chain B, Crystal Structure Of Actin Capping Protein In Complex With
Carmil Fragment
pdb|3AAE|D Chain D, Crystal Structure Of Actin Capping Protein In Complex With
Carmil Fragment
pdb|3AAE|F Chain F, Crystal Structure Of Actin Capping Protein In Complex With
Carmil Fragment
pdb|3AAE|H Chain H, Crystal Structure Of Actin Capping Protein In Complex With
Carmil Fragment
pdb|3AAE|J Chain J, Crystal Structure Of Actin Capping Protein In Complex With
Carmil Fragment
Length = 277
Score = 437 bits (1125), Expect = e-123, Method: Compositional matrix adjust.
Identities = 213/281 (75%), Positives = 233/281 (82%), Gaps = 33/281 (11%)
Query: 8 TELQMDCALDLMRRLPPQQIEKNLSDLIDLVPGLCEDLLSSVDQPLKIARDKEMGKDYLL 67
++ Q+DCALDLMRRLPPQQIEKNLSDLIDLVP LCEDLLSSVDQPLKIARDK +GKDYLL
Sbjct: 2 SDQQLDCALDLMRRLPPQQIEKNLSDLIDLVPSLCEDLLSSVDQPLKIARDKVVGKDYLL 61
Query: 68 CDYNRDGDSYRSPWSNVYDPPLEDGSMPSERLRKLEIDANHAFDQYREMYFEGGVSSVYL 127
CDYNRDGDSYRSPWSN YDPPLEDG+MPS RLRKLE++AN+
Sbjct: 62 CDYNRDGDSYRSPWSNKYDPPLEDGAMPSARLRKLEVEANN------------------- 102
Query: 128 WDLDHGFAEIDANHAFDQYREMYFEGGVSSVYLWDLDHGFAGVILIKKAGDGSRKIQGCW 187
AFDQYR++YFEGGVSSVYLWDLDHGFAGVILIKKAGDGS+KI+GCW
Sbjct: 103 --------------AFDQYRDLYFEGGVSSVYLWDLDHGFAGVILIKKAGDGSKKIKGCW 148
Query: 188 DSIHVVEVQEKPTGRNAHYKLTSTVMLWLQTNKIASGKMNLGGSLTRQIEMDAQVSDTSP 247
DSIHVVEVQEK +GR AHYKLTSTVMLWLQTNK SG MNLGGSLTRQ+E D VSD+SP
Sbjct: 149 DSIHVVEVQEKSSGRTAHYKLTSTVMLWLQTNKTGSGTMNLGGSLTRQMEKDETVSDSSP 208
Query: 248 HIANIGRMVEEMENKIRNTLNEIYFGKTKDIVNGLRSLQPL 288
HIANIGR+VE+MENKIR+TLNEIYFGKTKDIVNGLRS+ +
Sbjct: 209 HIANIGRLVEDMENKIRSTLNEIYFGKTKDIVNGLRSIDAI 249
>pdb|3AA0|B Chain B, Crystal Structure Of Actin Capping Protein In Complex With
The Cp- Binding Motif Derived From Carmil
pdb|3AA1|B Chain B, Crystal Structure Of Actin Capping Protein In Complex With
The Cp- Binding Motif Derived From Ckip-1
pdb|3AA6|B Chain B, Crystal Structure Of Actin Capping Protein In Complex With
The Cp- Binding Motif Derived From Cd2ap
pdb|3AA7|B Chain B, Crystal Structure Of Actin Capping Protein
Length = 244
Score = 434 bits (1116), Expect = e-122, Method: Compositional matrix adjust.
Identities = 212/276 (76%), Positives = 230/276 (83%), Gaps = 33/276 (11%)
Query: 8 TELQMDCALDLMRRLPPQQIEKNLSDLIDLVPGLCEDLLSSVDQPLKIARDKEMGKDYLL 67
++ Q+DCALDLMRRLPPQQIEKNLSDLIDLVP LCEDLLSSVDQPLKIARDK +GKDYLL
Sbjct: 2 SDQQLDCALDLMRRLPPQQIEKNLSDLIDLVPSLCEDLLSSVDQPLKIARDKVVGKDYLL 61
Query: 68 CDYNRDGDSYRSPWSNVYDPPLEDGSMPSERLRKLEIDANHAFDQYREMYFEGGVSSVYL 127
CDYNRDGDSYRSPWSN YDPPLEDG+MPS RLRKLE++AN+
Sbjct: 62 CDYNRDGDSYRSPWSNKYDPPLEDGAMPSARLRKLEVEANN------------------- 102
Query: 128 WDLDHGFAEIDANHAFDQYREMYFEGGVSSVYLWDLDHGFAGVILIKKAGDGSRKIQGCW 187
AFDQYR++YFEGGVSSVYLWDLDHGFAGVILIKKAGDGS+KI+GCW
Sbjct: 103 --------------AFDQYRDLYFEGGVSSVYLWDLDHGFAGVILIKKAGDGSKKIKGCW 148
Query: 188 DSIHVVEVQEKPTGRNAHYKLTSTVMLWLQTNKIASGKMNLGGSLTRQIEMDAQVSDTSP 247
DSIHVVEVQEK +GR AHYKLTSTVMLWLQTNK SG MNLGGSLTRQ+E D VSD+SP
Sbjct: 149 DSIHVVEVQEKSSGRTAHYKLTSTVMLWLQTNKTGSGTMNLGGSLTRQMEKDETVSDSSP 208
Query: 248 HIANIGRMVEEMENKIRNTLNEIYFGKTKDIVNGLR 283
HIANIGR+VE+MENKIR+TLNEIYFGKTKDIVNGLR
Sbjct: 209 HIANIGRLVEDMENKIRSTLNEIYFGKTKDIVNGLR 244
>pdb|3LK2|B Chain B, Crystal Structure Of Capz Bound To The Uncapping Motif
From Carmil
Length = 243
Score = 432 bits (1112), Expect = e-122, Method: Compositional matrix adjust.
Identities = 211/275 (76%), Positives = 229/275 (83%), Gaps = 33/275 (12%)
Query: 8 TELQMDCALDLMRRLPPQQIEKNLSDLIDLVPGLCEDLLSSVDQPLKIARDKEMGKDYLL 67
++ Q+DCALDLMRRLPPQQIEKNLSDLIDLVP LCEDLLSSVDQPLKIARDK +GKDYLL
Sbjct: 2 SDQQLDCALDLMRRLPPQQIEKNLSDLIDLVPSLCEDLLSSVDQPLKIARDKVVGKDYLL 61
Query: 68 CDYNRDGDSYRSPWSNVYDPPLEDGSMPSERLRKLEIDANHAFDQYREMYFEGGVSSVYL 127
CDYNRDGDSYRSPWSN YDPPLEDG+MPS RLRKLE++AN+
Sbjct: 62 CDYNRDGDSYRSPWSNKYDPPLEDGAMPSARLRKLEVEANN------------------- 102
Query: 128 WDLDHGFAEIDANHAFDQYREMYFEGGVSSVYLWDLDHGFAGVILIKKAGDGSRKIQGCW 187
AFDQYR++YFEGGVSSVYLWDLDHGFAGVILIKKAGDGS+KI+GCW
Sbjct: 103 --------------AFDQYRDLYFEGGVSSVYLWDLDHGFAGVILIKKAGDGSKKIKGCW 148
Query: 188 DSIHVVEVQEKPTGRNAHYKLTSTVMLWLQTNKIASGKMNLGGSLTRQIEMDAQVSDTSP 247
DSIHVVEVQEK +GR AHYKLTSTVMLWLQTNK SG MNLGGSLTRQ+E D VSD+SP
Sbjct: 149 DSIHVVEVQEKSSGRTAHYKLTSTVMLWLQTNKTGSGTMNLGGSLTRQMEKDETVSDSSP 208
Query: 248 HIANIGRMVEEMENKIRNTLNEIYFGKTKDIVNGL 282
HIANIGR+VE+MENKIR+TLNEIYFGKTKDIVNGL
Sbjct: 209 HIANIGRLVEDMENKIRSTLNEIYFGKTKDIVNGL 243
>pdb|4AKR|B Chain B, Crystal Structure Of The Cytoplasmic Actin Capping Protein
Cap32_34 From Dictyostelium Discoideum
pdb|4AKR|D Chain D, Crystal Structure Of The Cytoplasmic Actin Capping Protein
Cap32_34 From Dictyostelium Discoideum
Length = 290
Score = 286 bits (733), Expect = 9e-78, Method: Compositional matrix adjust.
Identities = 150/280 (53%), Positives = 182/280 (65%), Gaps = 37/280 (13%)
Query: 8 TELQMDCALDLMRRLPPQQIEKNLSDLIDLVPGLCEDLLSSVDQPLKIARDKEMGKDYLL 67
TE Q+ C LDLMRRLPP QIE NL+ L+DLVP L EDLLSS+DQPLK+A D KDYLL
Sbjct: 20 TEKQLSCCLDLMRRLPPSQIEDNLAGLLDLVPDLTEDLLSSIDQPLKVAYDAVSKKDYLL 79
Query: 68 CDYNRDGDSYRSPWSNVYDPPLEDGSMPSERLRKLEIDANHAFDQYREMYFEGGVSSVYL 127
CDYNRD DSYRSPWSN YDPPL PS +LR +E+ AN F+ Y +YFEGGVSSVY
Sbjct: 80 CDYNRDADSYRSPWSNKYDPPLSGACYPSSKLRDIEVQANEIFEIYLNLYFEGGVSSVYC 139
Query: 128 WDLDHGFAEIDANHAFDQYREMYFEGGVSSVYLWDLDHGFAGVILIKKAGDGSRK---IQ 184
WDL D FA V+L+KK D S+K ++
Sbjct: 140 WDL---------------------------------DDNFAAVVLMKKTQDQSKKGQPMR 166
Query: 185 GCWDSIHVVEVQEKPTGRNAHYKLTSTVMLWLQTNKIASGKMNLGGSLTRQIEMDAQVSD 244
G WDSIHVVEV+ + A YKLTSTVML ++T+ +GK+NL GSLTRQ E + ++
Sbjct: 167 GTWDSIHVVEVKLGKKDK-AVYKLTSTVMLSIETDNDNTGKVNLAGSLTRQDEKEYTFNE 225
Query: 245 TSPHIANIGRMVEEMENKIRNTLNEIYFGKTKDIVNGLRS 284
H NIG+MVE+ME+K+R TL IYFGKTK++VN LR+
Sbjct: 226 VDTHCVNIGKMVEDMESKLRQTLETIYFGKTKEVVNTLRN 265
>pdb|3SRZ|A Chain A, Clostridium Difficile Toxin A (Tcda) Glucolsyltransferase
Domain Bound To Udp-Glucose
pdb|3SS1|A Chain A, Clostridium Difficile Toxin A (Tcda) Glucolsyltransferase
Domain
Length = 555
Score = 31.2 bits (69), Expect = 0.73, Method: Compositional matrix adjust.
Identities = 23/78 (29%), Positives = 37/78 (47%), Gaps = 9/78 (11%)
Query: 35 IDLVPGLCEDLLSSVDQPLKIARDK-EMGKDYLLCDYNRDGDSYRSPWSNVYDPPLEDG- 92
+D++PG+ DL ++ +P I D+ EM K + Y + ++Y S + D L+D
Sbjct: 286 VDMLPGIHSDLFKTISRPSSIGLDRWEMIKLEAIMKYKKYINNYTSENFDKLDQQLKDNF 345
Query: 93 -------SMPSERLRKLE 103
S SE KLE
Sbjct: 346 KLIIESKSEKSEIFSKLE 363
>pdb|4DMV|A Chain A, Crystal Structure Of The Gt Domain Of Clostridium
Difficile Toxin A
pdb|4DMW|A Chain A, Crystal Structure Of The Gt Domain Of Clostridium
Difficile Toxin A (Tcda) In Complex With Udp And
Manganese
Length = 556
Score = 31.2 bits (69), Expect = 0.77, Method: Compositional matrix adjust.
Identities = 23/78 (29%), Positives = 37/78 (47%), Gaps = 9/78 (11%)
Query: 35 IDLVPGLCEDLLSSVDQPLKIARDK-EMGKDYLLCDYNRDGDSYRSPWSNVYDPPLEDG- 92
+D++PG+ DL ++ +P I D+ EM K + Y + ++Y S + D L+D
Sbjct: 301 VDMLPGIHSDLFKTISRPSSIGLDRWEMIKLEAIMKYKKYINNYTSENFDKLDQQLKDNF 360
Query: 93 -------SMPSERLRKLE 103
S SE KLE
Sbjct: 361 KLIIESKSEKSEIFSKLE 378
>pdb|1E6U|A Chain A, Gdp 4-Keto-6-Deoxy-D-Mannose Epimerase Reductase
Length = 321
Score = 28.1 bits (61), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 15/42 (35%), Positives = 21/42 (50%), Gaps = 1/42 (2%)
Query: 91 DGSMPSERLRKL-EIDANHAFDQYREMYFEGGVSSVYLWDLD 131
D S P RKL ++ H Y E+ E G++S Y W L+
Sbjct: 273 DASKPDGTPRKLLDVTRLHQLGWYHEISLEAGLASTYQWFLE 314
>pdb|1BSV|A Chain A, Gdp-Fucose Synthetase From Escherichia Coli Complex With
Nadph
pdb|1FXS|A Chain A, Gdp-fucose Synthetase From Escherichia Coli Complex With
Nadp
pdb|1GFS|A Chain A, Gdp-Fucose Synthetase From E. Coli
Length = 321
Score = 28.1 bits (61), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 15/42 (35%), Positives = 21/42 (50%), Gaps = 1/42 (2%)
Query: 91 DGSMPSERLRKL-EIDANHAFDQYREMYFEGGVSSVYLWDLD 131
D S P RKL ++ H Y E+ E G++S Y W L+
Sbjct: 273 DASKPDGTPRKLLDVTRLHQLGWYHEISLEAGLASTYQWFLE 314
>pdb|1BWS|A Chain A, Crystal Structure Of Gdp-4-Keto-6-Deoxy-D-Mannose
EpimeraseREDUCTASE From Escherichia Coli A Key Enzyme In
The Biosynthesis Of Gdp-L- Fucose
Length = 321
Score = 28.1 bits (61), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 15/42 (35%), Positives = 21/42 (50%), Gaps = 1/42 (2%)
Query: 91 DGSMPSERLRKL-EIDANHAFDQYREMYFEGGVSSVYLWDLD 131
D S P RKL ++ H Y E+ E G++S Y W L+
Sbjct: 273 DASKPDGTPRKLLDVTRLHQLGWYHEISLEAGLASTYQWFLE 314
>pdb|1E7Q|A Chain A, Gdp 4-Keto-6-Deoxy-D-Mannose Epimerase Reductase S107a
Length = 321
Score = 28.1 bits (61), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 15/42 (35%), Positives = 21/42 (50%), Gaps = 1/42 (2%)
Query: 91 DGSMPSERLRKL-EIDANHAFDQYREMYFEGGVSSVYLWDLD 131
D S P RKL ++ H Y E+ E G++S Y W L+
Sbjct: 273 DASKPDGTPRKLLDVTRLHQLGWYHEISLEAGLASTYQWFLE 314
>pdb|1E7R|A Chain A, Gdp 4-Keto-6-Deoxy-D-Mannose Epimerase Reductase Y136e
Length = 321
Score = 28.1 bits (61), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 15/42 (35%), Positives = 21/42 (50%), Gaps = 1/42 (2%)
Query: 91 DGSMPSERLRKL-EIDANHAFDQYREMYFEGGVSSVYLWDLD 131
D S P RKL ++ H Y E+ E G++S Y W L+
Sbjct: 273 DASKPDGTPRKLLDVTRLHQLGWYHEISLEAGLASTYQWFLE 314
>pdb|1E7S|A Chain A, Gdp 4-Keto-6-Deoxy-D-Mannose Epimerase Reductase K140r
Length = 321
Score = 28.1 bits (61), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 15/42 (35%), Positives = 21/42 (50%), Gaps = 1/42 (2%)
Query: 91 DGSMPSERLRKL-EIDANHAFDQYREMYFEGGVSSVYLWDLD 131
D S P RKL ++ H Y E+ E G++S Y W L+
Sbjct: 273 DASKPDGTPRKLLDVTRLHQLGWYHEISLEAGLASTYQWFLE 314
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
0.318 0.136 0.409
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,234,080
Number of Sequences: 62578
Number of extensions: 405324
Number of successful extensions: 960
Number of sequences better than 100.0: 15
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 10
Number of HSP's that attempted gapping in prelim test: 942
Number of HSP's gapped (non-prelim): 25
length of query: 314
length of database: 14,973,337
effective HSP length: 99
effective length of query: 215
effective length of database: 8,778,115
effective search space: 1887294725
effective search space used: 1887294725
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: 51 (24.3 bits)