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= 016061
(396 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 44.7 bits (104), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 61/284 (21%), Positives = 109/284 (38%), Gaps = 29/284 (10%)
Query: 70 ALITAELATSFPENGGYVIWISSAFGPFWGFQEGFWKWLSGVLDNALYPVLFLDYLKHSL 129
+++ A++++ P GG + FGPF G+Q WL+ + N V+ + YL +
Sbjct: 57 SMVYAKMSSLDPSPGGSYAYARRCFGPFLGYQTNVLYWLACWIGNIAMVVIGVGYLSYFF 116
Query: 130 PIFNLLIARIPALLGITGALTYLNYRGLHIVGFSAVSLL-----VFSLCPFVVMGILSIP 184
PI + P +L +T + L+IVG ++ + V +L P V + +
Sbjct: 117 PIL-----KDPLVLTLTCVAVLWIFVLLNIVGPKMITRVQAVATVLALVPIVGIAVFGWF 171
Query: 185 RIKPRRWLVV-DFKKVDWRGYFNSMFWNLNYW-----DKASTLAGEVENPSKTFPKXXXX 238
K ++ + ++ G S N+ W + AS AG V+NP + P
Sbjct: 172 WFKGETYMAAWNVSGMNTFGAIQSTL-NVTLWSFIGVESASVAAGVVKNPKRNVPIATIG 230
Query: 239 XXXXXXXXXXIPXXXXXXXXXXXXXEWSDGYFAEVGMLIGGFW---LKWWIQAASAMSNL 295
+ S F + + G + + AA + +L
Sbjct: 231 GVLIAAVCYVLSTTAIMGMIPNAALRVSASPFGDAARMALGDTAGAIVSFCAAAGCLGSL 290
Query: 296 G---LFEAEMSGDAFQLLGMSEMGMLPAIFASRSKYGTPTLSIL 336
G L + + A ++ G+ P IFA +K GTP +L
Sbjct: 291 GGWTLLAGQTAKAA------ADDGLFPPIFARVNKAGTPVAGLL 328
>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 = 42.4 bits (98), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 59/285 (20%), Positives = 107/285 (37%), Gaps = 31/285 (10%)
Query: 70 ALITAELATSFPENGGYVIWISSAFGPFWGFQEGFWKWLSGVLDNALYPVLFLDYLKHSL 129
+++ A+++ P GG + FGPF G+Q WL+ + N V+ + YL +
Sbjct: 57 SMVYAKMSFLDPSPGGSYAYARRCFGPFLGYQTNVLYWLACWIGNIAMVVIGVGYLSYFF 116
Query: 130 PIFNLLIARIPALLGITGALTYLNYRGLHIVGFSAVSLL-----VFSLCPFVVMGILSIP 184
PI + P +L IT + + L+IVG ++ + V +L P V + +
Sbjct: 117 PIL-----KDPLVLTITCVVVLWIFVLLNIVGPKMITRVQAVATVLALIPIVGIAVFGWF 171
Query: 185 RIKPRRWLVV-------DFKKVDWRGYFNSMFWNLNYWDKASTLAGEVENPSKTFPKXXX 237
+ ++ F + + N W+ + AS AG V+NP + P
Sbjct: 172 WFRGETYMAAWNVSGLGTFGAI--QSTLNVTLWSFIGVESASVAAGVVKNPKRNVPIATI 229
Query: 238 XXXXXXXXXXXIPXXXXXXXXXXXXXEWSDGYFAEVGMLIGGFW---LKWWIQAASAMSN 294
+ S F + + G + + AA + +
Sbjct: 230 GGVLIAAVCYVLSTTAIMGMIPNAALRVSASPFGDAARMALGDTAGAIVSFCAAAGCLGS 289
Query: 295 LG---LFEAEMSGDAFQLLGMSEMGMLPAIFASRSKYGTPTLSIL 336
LG L + + A ++ G+ P IFA +K GTP ++
Sbjct: 290 LGGWTLLAGQTAKAA------ADDGLFPPIFARVNKAGTPVAGLI 328
>pdb|3L1L|A Chain A, Structure Of Arg-Bound Escherichia Coli Adic
Length = 445
Score = 41.6 bits (96), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 59/285 (20%), Positives = 107/285 (37%), Gaps = 31/285 (10%)
Query: 70 ALITAELATSFPENGGYVIWISSAFGPFWGFQEGFWKWLSGVLDNALYPVLFLDYLKHSL 129
+++ A+++ P GG + FGPF G+Q WL+ + N V+ + YL +
Sbjct: 57 SMVYAKMSFLDPSPGGSYAYARRCFGPFLGYQTNVLYWLACWIGNIAMVVIGVGYLSYFF 116
Query: 130 PIFNLLIARIPALLGITGALTYLNYRGLHIVGFSAVSLL-----VFSLCPFVVMGILSIP 184
PI + P +L IT + + L+IVG ++ + V +L P V + +
Sbjct: 117 PIL-----KDPWVLTITCVVVLWIFVLLNIVGPKMITRVQAVATVLALIPIVGIAVFGWF 171
Query: 185 RIKPRRWLVV-------DFKKVDWRGYFNSMFWNLNYWDKASTLAGEVENPSKTFPKXXX 237
+ ++ F + + N W+ + AS AG V+NP + P
Sbjct: 172 WFRGETYMAAWNVSGLGTFGAI--QSTLNVTLWSFIGVESASVAAGVVKNPKRNVPIATI 229
Query: 238 XXXXXXXXXXXIPXXXXXXXXXXXXXEWSDGYFAEVGMLIGGFW---LKWWIQAASAMSN 294
+ S F + + G + + AA + +
Sbjct: 230 GGVLIAAVCYVLSTTAIMGMIPNAALRVSASPFGDAARMALGDTAGAIVSFCAAAGCLGS 289
Query: 295 LG---LFEAEMSGDAFQLLGMSEMGMLPAIFASRSKYGTPTLSIL 336
LG L + + A ++ G+ P IFA +K GTP ++
Sbjct: 290 LGGWTLLAGQTAKAA------ADDGLFPPIFARVNKAGTPVAGLI 328
>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 = 39.7 bits (91), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 58/285 (20%), Positives = 106/285 (37%), Gaps = 31/285 (10%)
Query: 70 ALITAELATSFPENGGYVIWISSAFGPFWGFQEGFWKWLSGVLDNALYPVLFLDYLKHSL 129
+++ A+++ P GG + FGPF G+Q WL+ + V+ + YL +
Sbjct: 57 SMVYAKMSFLDPSPGGSYAYARRCFGPFLGYQTNVLYWLACWIGAIAMVVIGVGYLSYFF 116
Query: 130 PIFNLLIARIPALLGITGALTYLNYRGLHIVGFSAVSLL-----VFSLCPFVVMGILSIP 184
PI + P +L IT + + L+IVG ++ + V +L P V + +
Sbjct: 117 PIL-----KDPLVLTITCVVVLWIFVLLNIVGPKMITRVQAVATVLALIPIVGIAVFGWF 171
Query: 185 RIKPRRWLVV-------DFKKVDWRGYFNSMFWNLNYWDKASTLAGEVENPSKTFPKXXX 237
+ ++ F + + N W+ + AS AG V+NP + P
Sbjct: 172 WFRGETYMAAWNVSGLGTFGAI--QSTLNVTLWSFIGVESASVAAGVVKNPKRNVPIATI 229
Query: 238 XXXXXXXXXXXIPXXXXXXXXXXXXXEWSDGYFAEVGMLIGGFW---LKWWIQAASAMSN 294
+ S F + + G + + AA + +
Sbjct: 230 GGVLIAAVCYVLSTTAIMGMIPNAALRVSASPFGDAARMALGDTAGAIVSFCAAAGCLGS 289
Query: 295 LG---LFEAEMSGDAFQLLGMSEMGMLPAIFASRSKYGTPTLSIL 336
LG L + + A ++ G+ P IFA +K GTP ++
Sbjct: 290 LGGWTLLAGQTAKAA------ADDGLFPPIFARVNKAGTPVAGLI 328
>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 = 38.9 bits (89), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 71/290 (24%), Positives = 112/290 (38%), Gaps = 25/290 (8%)
Query: 65 WSIPEALITAELATSFP-ENGGYVIWISSAFGPFWGFQEGFWKWLSGVLDNALYPVLF-- 121
W IP L AE+AT E GG W+S+ GP WGF + +L + P+L+
Sbjct: 53 WFIPVGLCAAEMATVDGWEEGGVFAWVSNTLGPRWGFAAISFGYLQ--IAIGFIPMLYFV 110
Query: 122 LDYLKHSL--PIFNL-LIARIPALLGITGALTYLNYRG------LHIVGFSAVSLL-VFS 171
L L + L P N I + A L I AL + G + VGF A LL F
Sbjct: 111 LGALSYILKWPALNEDPITKTIAALIILWALALTQFGGTKYTARIAKVGFFAGILLPAFI 170
Query: 172 LCPFVVMGILSIPRIK---PRRWLVVDFKKVDWRGYFNSMFWNLNYWDKASTLAGEVENP 228
L + + S + + DF KV F + + + ++T E+ NP
Sbjct: 171 LIALAAIYLHSGAPVAIEMDSKTFFPDFSKVGTLVVFVAFILSYMGVEASATHVNEMSNP 230
Query: 229 SKTFPKXXXXXXXXXXXXXXIPXXXXXXXXXXXXXEWSDGYFAEVGMLIGGFW--LKWWI 286
+ +P + S G +L+ ++W +
Sbjct: 231 GRDYPLAMLLLMVAAICLSSVGGLSIAMVIPGNEINLSAGVMQTFTVLMSHVAPEIEWTV 290
Query: 287 QAASAMSNLGLFEAEMS----GDAFQLLGMSEMGMLPAIFASRSKYGTPT 332
+ SA+ LG+ AE++ G + + ++ +LPA FA +K G P
Sbjct: 291 RVISALLLLGVL-AEIASWIVGPSRGMYVTAQKNLLPAAFAKMNKNGVPV 339
>pdb|2RCC|A Chain A, Crystal Structure Of Putative Class I Ribonucleotide
Reductase (Np_241368.1) From Bacillus Halodurans At 1.90
A Resolution
pdb|2RCC|B Chain B, Crystal Structure Of Putative Class I Ribonucleotide
Reductase (Np_241368.1) From Bacillus Halodurans At 1.90
A Resolution
pdb|2RCC|C Chain C, Crystal Structure Of Putative Class I Ribonucleotide
Reductase (Np_241368.1) From Bacillus Halodurans At 1.90
A Resolution
Length = 346
Score = 34.3 bits (77), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 21/93 (22%), Positives = 43/93 (46%), Gaps = 9/93 (9%)
Query: 298 FEAEMSGDAFQLLGMSE---------MGMLPAIFASRSKYGTPTLSILCSATGVIFLSWM 348
FE S DA Q ++E +G+L + + ++ Y L ++ S +
Sbjct: 56 FEINXSHDAKQFPTLTETEQEAFKKIIGLLAFLDSVQTDYSXRAAEYLTDSSLAALXSVL 115
Query: 349 SFQEILEFLNFFFACSCYVPRFSKDIHSKWWCY 381
SFQE++ ++ + S VP+ ++D ++W +
Sbjct: 116 SFQEVVHNQSYSYVLSSLVPKATQDEIFEYWKH 148
>pdb|3P2N|A Chain A, Discovery And Structural Characterization Of A New
Glycoside Hydrolase Family Abundant In Coastal Waters
That Was Annotated As 'hypothetical Protein'
pdb|3P2N|B Chain B, Discovery And Structural Characterization Of A New
Glycoside Hydrolase Family Abundant In Coastal Waters
That Was Annotated As 'hypothetical Protein'
Length = 408
Score = 28.5 bits (62), Expect = 7.5, Method: Compositional matrix adjust.
Identities = 11/32 (34%), Positives = 17/32 (53%)
Query: 69 EALITAELATSFPENGGYVIWISSAFGPFWGF 100
E ++ + + ENG Y +W S + GP GF
Sbjct: 91 EGVVRRDPSAIIKENGKYYVWYSKSTGPTQGF 122
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
0.325 0.140 0.467
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 11,015,702
Number of Sequences: 62578
Number of extensions: 412873
Number of successful extensions: 1094
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 9
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 1074
Number of HSP's gapped (non-prelim): 17
length of query: 396
length of database: 14,973,337
effective HSP length: 101
effective length of query: 295
effective length of database: 8,652,959
effective search space: 2552622905
effective search space used: 2552622905
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 52 (24.6 bits)