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= 011678
(479 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3MKT|A Chain A, Structure Of A Cation-Bound Multidrug And Toxin Compound
Extrusion (Mate) Transporter
pdb|3MKT|B Chain B, Structure Of A Cation-Bound Multidrug And Toxin Compound
Extrusion (Mate) Transporter
pdb|3MKU|A Chain A, Structure Of A Cation-Bound Multidrug And Toxin Compound
Extrusion (Mate) Transporter
pdb|3MKU|B Chain B, Structure Of A Cation-Bound Multidrug And Toxin Compound
Extrusion (Mate) Transporter
Length = 460
Score = 87.4 bits (215), Expect = 2e-17, Method: Compositional matrix adjust.
Identities = 103/443 (23%), Positives = 185/443 (41%), Gaps = 26/443 (5%)
Query: 23 FVEELKKLSFLAAPMVGVTVSQYLLPAVSLMMAGHLGELTLASVAIATSFTNVTGIIPLF 82
+ +E L LA P++ +V+Q + V +MAG + + +A+V+IA S + I+
Sbjct: 7 YKKEASNLIKLATPVLIASVAQTGMGFVDTIMAGGVSAIDMAAVSIAASIW-LPSILFGV 65
Query: 83 GFACALETLCGQAYGAKQYQQIGTYTYSAMFFCIAICFPISVLWIFMDKVLILLGQDPEI 142
G AL + Q GA + +I + + + + PI + ++ + + +
Sbjct: 66 GLLMALVPVVAQLNGAGRQHKIPFEVHQGLILALLVSVPIIAVLFQTQFIIRFMDVEEAM 125
Query: 143 ATEACNFSISLI---PALLAFAVLRPLIHNLQSQSLILPLFLSACATLCFHILLCWYLVF 199
AT+ + ++I PA L F LR + SL P + L +I L W V+
Sbjct: 126 ATKTVGYMHAVIFAVPAYLLFQALRSFTDGM---SLTKPAMVIGFIGLLLNIPLNWIFVY 182
Query: 200 ----KANFRIVGAALAIGLSYCLNAVILALYMRYSSSCEKTRVFIFSDIFSCIK-----E 250
VG +A + Y + ++L Y+ S +VF + F +
Sbjct: 183 GKFGAPELGGVGCGVATAIVYWIMLLLLLFYIVTSKRLAHVKVF---ETFHKPQPKELIR 239
Query: 251 FFSFALPTVVMFCLEWWSFEILILLSGLLPNSKLETSVLSICLTISSTHYFIPYGIGAAA 310
F P E F ++ LL + P + + L SS + P IGAA
Sbjct: 240 LFRLGFPVAAALFFEVTLFAVVALL--VAPLGSTVVAAHQVALNFSSLVFMFPMSIGAAV 297
Query: 311 STRVSNELGAGNPQAAQLAACVVMVLAVTEAVIVGTILFCCRYVLAYAFNSDKDVVNYVS 370
S RV ++LG + + A +AA V ++ + A I + R +A + ++ VV
Sbjct: 298 SIRVGHKLGEQDTKGAAIAANVGLMTGLATACITALLTVLFREQIALLYTENQVVVALAM 357
Query: 371 ELVPLLSFSIIMDSLQSVLSGVARGTGWQHIGAYVNLGAYYIVGIPLASVLCFV-----L 425
+L+ + MD++Q V +G RG + +Y+++G+P +L
Sbjct: 358 QLLLFAAIYQCMDAVQVVAAGSLRGYKDMTAIFHRTFISYWVLGLPTGYILGMTNWLTEQ 417
Query: 426 NLRGKGLWIGIMTGSAVQAIVLA 448
L KG W+G + G + A++L
Sbjct: 418 PLGAKGFWLGFIIGLSAAALMLG 440
>pdb|4HUK|A Chain A, Mate Transporter Norm-ng In Complex With Tpp And Monobody
pdb|4HUL|A Chain A, Mate Transporter Norm-ng In Complex With Cs+ And Monobody
pdb|4HUM|A Chain A, Mate Transporter Norm-ng In Complex With Ethidium And
Monobody
pdb|4HUN|A Chain A, Mate Transporter Norm-ng In Complex With R6g And Monobody
Length = 459
Score = 68.6 bits (166), Expect = 7e-12, Method: Compositional matrix adjust.
Identities = 97/436 (22%), Positives = 185/436 (42%), Gaps = 18/436 (4%)
Query: 23 FVEELKKLSFLAAPMVGVTVSQYLLPAVSLMMAGHLGELTLASVAIATSFTNVTGIIPLF 82
F++E++ L+ LA PM+ V+Q + V +MAG G+ LA+VA+ +S T I
Sbjct: 9 FLKEIRLLTALALPMLLAQVAQVGIGFVDTVMAGGAGKEDLAAVALGSS-AFATVYITFM 67
Query: 83 GFACALETLCGQAYGAKQYQQIGTYTYSAMFFCIAI-CFPISVLWIFMDKV---LILLGQ 138
G AL + Q YGA + + G ++F + + F + ++W + L L
Sbjct: 68 GIMAALNPMIAQLYGAGKTGEAGETGRQGIWFGLILGIFGMILMWAAITPFRNWLTLSDY 127
Query: 139 DPEIATEACNFSISLIPALLAFAVLRPLIHNLQSQSLILPLFLSACATLCFHILLCWYLV 198
+ F+ +PA + L +L LI+ L + A ++ L + V
Sbjct: 128 VEGTMAQYMLFTSLAMPAAMVHRALHAYASSLNRPRLIM---LVSFAAFVLNVPLNYIFV 184
Query: 199 F-KANFRIVGAA---LAIGLSYCLNAVILALYM---RYSSSCEKTRVFIFSDIFSCIKEF 251
+ K +G A +A + +A+ L +Y+ ++ T F D ++ K+
Sbjct: 185 YGKFGMPALGGAGCGVATMAVFWFSALALWIYIAKEKFFRPFGLTAKFGKPD-WAVFKQI 243
Query: 252 FSFALPTVVMFCLEWWSFEILILLSGLLPNSKLETSVLSICLTISSTHYFIPYGIGAAAS 311
+ P + + LE +F ++ L + P + + + +++S Y IP +G+A +
Sbjct: 244 WKIGAPIGLSYFLEASAFSFIVFL--IAPFGEDYVAAQQVGISLSGILYMIPQSVGSAGT 301
Query: 312 TRVSNELGAGNPQAAQLAACVVMVLAVTEAVIVGTILFCCRYVLAYAFNSDKDVVNYVSE 371
R+ LG A+ + V +V AVI L R LA +N D V++ S
Sbjct: 302 VRIGFSLGRREFSRARYISGVSLVSGWVLAVITVLSLVLFRSPLASMYNDDPAVLSIAST 361
Query: 372 LVPLLSFSIIMDSLQSVLSGVARGTGWQHIGAYVNLGAYYIVGIPLASVLCFVLNLRGKG 431
++ D Q + S RG + +++ A++ G+ +L + ++ G
Sbjct: 362 VLLFAGLFQPADFTQCIASYALRGYKVTKVPMFIHAAAFWGCGLLPGYLLAYRFDMGIYG 421
Query: 432 LWIGIMTGSAVQAIVL 447
W ++ + A+ L
Sbjct: 422 FWTALIASLTIAAVAL 437
>pdb|2GQD|A Chain A, The Crystal Structure Of B-Ketoacyl-Acp Synthase Ii (Fabf)
From Staphylococcus Aureus
pdb|2GQD|B Chain B, The Crystal Structure Of B-Ketoacyl-Acp Synthase Ii (Fabf)
From Staphylococcus Aureus
Length = 437
Score = 28.5 bits (62), Expect = 8.7, Method: Compositional matrix adjust.
Identities = 15/42 (35%), Positives = 23/42 (54%)
Query: 300 YFIPYGIGAAASTRVSNELGAGNPQAAQLAACVVMVLAVTEA 341
+F+P I A+ +VS +LGA P A + AC ++ EA
Sbjct: 157 FFVPMLIPDMATGQVSIDLGAKGPNGATVTACATGTNSIGEA 198
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
0.329 0.139 0.428
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,026,787
Number of Sequences: 62578
Number of extensions: 442914
Number of successful extensions: 861
Number of sequences better than 100.0: 4
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 851
Number of HSP's gapped (non-prelim): 5
length of query: 479
length of database: 14,973,337
effective HSP length: 103
effective length of query: 376
effective length of database: 8,527,803
effective search space: 3206453928
effective search space used: 3206453928
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.8 bits)
S2: 53 (25.0 bits)