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= psy6064
(568 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3GI9|C Chain C, Crystal Structure Of Apct Transporter Bound To 7f11
Monoclonal Fab Fragment
pdb|3GIA|A Chain A, Crystal Structure Of Apct Transporter
Length = 444
Score = 68.2 bits (165), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 71/266 (26%), Positives = 128/266 (48%), Gaps = 41/266 (15%)
Query: 191 VAVITGLLSWGASESAKVNNVLTFANLGTVAIIVFSGLFRLNPANWTIRREAIPPGVRGG 250
VA T L +G+ + + L + + +F+GL ++P+ IP
Sbjct: 133 VAFFTALNFFGSKAVGRAEFFIVLVKLLILGLFIFAGLITIHPS------YVIPD----- 181
Query: 251 SGGFAPFGVNGIVTGAAKCFFGFVGFDGIATTGEETRNPKRNIPLAIILSLLIVFVCYFS 310
AP V+G++ +A F ++GF I E NPK+N+P AI +S+LIV Y
Sbjct: 182 ---LAPSAVSGMIFASAIFFLSYMGFGVITNASEHIENPKKNVPRAIFISILIVMFVYVG 238
Query: 311 IAVVITMIVPYYE-----QNADA----PFPAIFDRLGWPVMKWLVTVGSLFALFTAMFGA 361
+A+ +P E +NA A PF LG+ L+++G+LF++ +AM
Sbjct: 239 VAISAIGNLPIDELIKASENALAVAAKPF---LGNLGF----LLISIGALFSISSAMNAT 291
Query: 362 FFPLPRILYAMSRDGLL---YERLSYVSSRTQTPLLSTALSGVITAVMSAVFKLDQLVDM 418
+ + Y++++DG L +ER + S T+ +++AL GV+ A++ F ++ + +
Sbjct: 292 IYGGANVAYSLAKDGELPEFFERKVWFKS-TEGLYITSAL-GVLFALL---FNMEGVASI 346
Query: 419 MSIGTLLAYIIVAICVLLLRYSGDEV 444
S ++ Y+ V + +L DEV
Sbjct: 347 TSAVFMVIYLFVILSHYILI---DEV 369
>pdb|3GI8|C Chain C, Crystal Structure Of Apct K158a Transporter Bound To 7f11
Monoclonal Fab Fragment
Length = 444
Score = 67.4 bits (163), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 71/266 (26%), Positives = 128/266 (48%), Gaps = 41/266 (15%)
Query: 191 VAVITGLLSWGASESAKVNNVLTFANLGTVAIIVFSGLFRLNPANWTIRREAIPPGVRGG 250
VA T L +G+ + + L + + +F+GL ++P+ IP
Sbjct: 133 VAFFTALNFFGSKAVGRAEFFIVLVALLILGLFIFAGLITIHPS------YVIPD----- 181
Query: 251 SGGFAPFGVNGIVTGAAKCFFGFVGFDGIATTGEETRNPKRNIPLAIILSLLIVFVCYFS 310
AP V+G++ +A F ++GF I E NPK+N+P AI +S+LIV Y
Sbjct: 182 ---LAPSAVSGMIFASAIFFLSYMGFGVITNASEHIENPKKNVPRAIFISILIVMFVYVG 238
Query: 311 IAVVITMIVPYYE-----QNADA----PFPAIFDRLGWPVMKWLVTVGSLFALFTAMFGA 361
+A+ +P E +NA A PF LG+ L+++G+LF++ +AM
Sbjct: 239 VAISAIGNLPIDELIKASENALAVAAKPF---LGNLGF----LLISIGALFSISSAMNAT 291
Query: 362 FFPLPRILYAMSRDGLL---YERLSYVSSRTQTPLLSTALSGVITAVMSAVFKLDQLVDM 418
+ + Y++++DG L +ER + S T+ +++AL GV+ A++ F ++ + +
Sbjct: 292 IYGGANVAYSLAKDGELPEFFERKVWFKS-TEGLYITSAL-GVLFALL---FNMEGVASI 346
Query: 419 MSIGTLLAYIIVAICVLLLRYSGDEV 444
S ++ Y+ V + +L DEV
Sbjct: 347 TSAVFMVIYLFVILSHYILI---DEV 369
>pdb|3NCY|A Chain A, X-Ray Crystal Structure Of An Arginine Agmatine Antiporter
(Adic) In Complex With A Fab Fragment
pdb|3NCY|B Chain B, X-Ray Crystal Structure Of An Arginine Agmatine Antiporter
(Adic) In Complex With A Fab Fragment
pdb|3NCY|C Chain C, X-Ray Crystal Structure Of An Arginine Agmatine Antiporter
(Adic) In Complex With A Fab Fragment
pdb|3NCY|D Chain D, X-Ray Crystal Structure Of An Arginine Agmatine Antiporter
(Adic) In Complex With A Fab Fragment
Length = 445
Score = 38.1 bits (87), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 17/51 (33%), Positives = 27/51 (52%)
Query: 270 FFGFVGFDGIATTGEETRNPKRNIPLAIILSLLIVFVCYFSIAVVITMIVP 320
+ F+G + + +NPKRN+P+A I +LI VCY I ++P
Sbjct: 201 LWSFIGVESASVAAGVVKNPKRNVPIATIGGVLIAAVCYVLSTTAIMGMIP 251
>pdb|3L1L|A Chain A, Structure Of Arg-Bound Escherichia Coli Adic
Length = 445
Score = 38.1 bits (87), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 17/51 (33%), Positives = 27/51 (52%)
Query: 270 FFGFVGFDGIATTGEETRNPKRNIPLAIILSLLIVFVCYFSIAVVITMIVP 320
+ F+G + + +NPKRN+P+A I +LI VCY I ++P
Sbjct: 201 LWSFIGVESASVAAGVVKNPKRNVPIATIGGVLIAAVCYVLSTTAIMGMIP 251
>pdb|3LRB|A Chain A, Structure Of E. Coli Adic
pdb|3LRB|B Chain B, Structure Of E. Coli Adic
pdb|3LRC|A Chain A, Structure Of E. Coli Adic (P1)
pdb|3LRC|B Chain B, Structure Of E. Coli Adic (P1)
pdb|3LRC|C Chain C, Structure Of E. Coli Adic (P1)
pdb|3LRC|D Chain D, Structure Of E. Coli Adic (P1)
Length = 445
Score = 38.1 bits (87), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 17/51 (33%), Positives = 27/51 (52%)
Query: 270 FFGFVGFDGIATTGEETRNPKRNIPLAIILSLLIVFVCYFSIAVVITMIVP 320
+ F+G + + +NPKRN+P+A I +LI VCY I ++P
Sbjct: 201 LWSFIGVESASVAAGVVKNPKRNVPIATIGGVLIAAVCYVLSTTAIMGMIP 251
>pdb|3OB6|A Chain A, Structure Of Adic(N101a) In The Open-To-Out Arg+ Bound
Conformation
pdb|3OB6|B Chain B, Structure Of Adic(N101a) In The Open-To-Out Arg+ Bound
Conformation
Length = 445
Score = 38.1 bits (87), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 17/51 (33%), Positives = 27/51 (52%)
Query: 270 FFGFVGFDGIATTGEETRNPKRNIPLAIILSLLIVFVCYFSIAVVITMIVP 320
+ F+G + + +NPKRN+P+A I +LI VCY I ++P
Sbjct: 201 LWSFIGVESASVAAGVVKNPKRNVPIATIGGVLIAAVCYVLSTTAIMGMIP 251
>pdb|4DJI|A Chain A, Structure Of Glutamate-Gaba Antiporter Gadc
pdb|4DJI|B Chain B, Structure Of Glutamate-Gaba Antiporter Gadc
pdb|4DJK|A Chain A, Structure Of Glutamate-Gaba Antiporter Gadc
pdb|4DJK|B Chain B, Structure Of Glutamate-Gaba Antiporter Gadc
Length = 511
Score = 34.3 bits (77), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 25/81 (30%), Positives = 42/81 (51%), Gaps = 7/81 (8%)
Query: 273 FVGFDGIATTGEETRNPKRNIPLAIILSLLIVFVCYFSI-AVVITMIVPYYEQNADA--- 328
++G + AT E NP R+ PLA++L L++ +C S+ + I M++P E N A
Sbjct: 214 YMGVEASATHVNEMSNPGRDYPLAMLL-LMVAAICLSSVGGLSIAMVIPGNEINLSAGVM 272
Query: 329 -PFPAIFDRLGWPVMKWLVTV 348
F + + P ++W V V
Sbjct: 273 QTFTVLMSHVA-PEIEWTVRV 292
>pdb|1A0P|A Chain A, Site-Specific Recombinase, Xerd
Length = 290
Score = 32.0 bits (71), Expect = 0.86, Method: Compositional matrix adjust.
Identities = 24/79 (30%), Positives = 36/79 (45%)
Query: 32 MSRLRNLYEALSRKKIDVGDDDVSIAEGKNPAGGADGVGKLPLERASDAPQLARVLGLID 91
+S +R L++ L R+K D +A K P + + +ER AP + + L L D
Sbjct: 74 LSAVRRLFQYLYREKFREDDPSAHLASPKLPQRLPKDLSEAQVERLLQAPLIDQPLELRD 133
Query: 92 LTMLGVGATLGVGVYVLAG 110
ML V G+ V L G
Sbjct: 134 KAMLEVLYATGLRVSELVG 152
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
0.322 0.137 0.399
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 15,324,687
Number of Sequences: 62578
Number of extensions: 612417
Number of successful extensions: 1314
Number of sequences better than 100.0: 13
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 1300
Number of HSP's gapped (non-prelim): 17
length of query: 568
length of database: 14,973,337
effective HSP length: 104
effective length of query: 464
effective length of database: 8,465,225
effective search space: 3927864400
effective search space used: 3927864400
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 54 (25.4 bits)