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= 011296
(489 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 = 72.4 bits (176), Expect = 5e-13, Method: Compositional matrix adjust.
Identities = 95/435 (21%), Positives = 180/435 (41%), Gaps = 30/435 (6%)
Query: 41 IAAPMVAVTLSQYLLQVVSMMMVGHLGQLALSSTAMAIS--LASVTGFSVLLGMASALET 98
+A P++ +++Q + V +M G + + +++ ++A S L S+ F V G+ AL
Sbjct: 17 LATPVLIASVAQTGMGFVDTIMAGGVSAIDMAAVSIAASIWLPSIL-FGV--GLLMALVP 73
Query: 99 LCGQAYGAQQYQRIGTQTYTAIFCLFLVCFPLSFLWIYAGKLLVLIGQDPQISHEVGKFM 158
+ Q GA + +I + + + LV P+ + ++ + + ++ + +M
Sbjct: 74 VVAQLNGAGRQHKIPFEVHQGLILALLVSVPIIAVLFQTQFIIRFMDVEEAMATKTVGYM 133
Query: 159 IWLLPALFAYATMQPLIRYFQSQSLIIPMFLSSCAALCLHIPICWSLVYKSXXXXXXXXX 218
++ A+ AY Q L + SL P + L L+IP+ W VY
Sbjct: 134 HAVIFAVPAYLLFQALRSFTDGMSLTKPAMVIGFIGLLLNIPLNWIFVYGKFGAPELGGV 193
Query: 219 XXXXSN----WLNVTFLAIYMKFSTACAESRV------PISMELFQGIGEFFHFAIPSAV 268
+ W+ + L Y+ S A +V P EL + F P A
Sbjct: 194 GCGVATAIVYWIMLLLLLFYIVTSKRLAHVKVFETFHKPQPKELIR----LFRLGFPVAA 249
Query: 269 MICLEWWSFELLILMSGLLPNPQLETSVLSVCLNTIQTLYAIPYGLGAAVSTRVSNELGA 328
+ E F ++ L+ P + V LN ++ P +GAAVS RV ++LG
Sbjct: 250 ALFFEVTLFAVVALLVA--PLGSTVVAAHQVALNFSSLVFMFPMSIGAAVSIRVGHKLGE 307
Query: 329 GNVQKARVAVYAVIFMAVTETIVVSATLFASRRVFGYVFSNEKQVVDYVTTMAPLVCLSV 388
+ + A +A + + + + R +++ + VV + +
Sbjct: 308 QDTKGAAIAANVGLMTGLATACITALLTVLFREQIALLYTENQVVVALAMQLLLFAAIYQ 367
Query: 389 IMDSLQGVFSGVARGCGWQNIAAFVN--LGAFYLCGIPTAAILGF--WL---KFRGRGLW 441
MD++Q V +G R G++++ A + ++++ G+PT ILG WL +G W
Sbjct: 368 CMDAVQVVAAGSLR--GYKDMTAIFHRTFISYWVLGLPTGYILGMTNWLTEQPLGAKGFW 425
Query: 442 IGIQAGAFTQTLLLG 456
+G G L+LG
Sbjct: 426 LGFIIGLSAAALMLG 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 = 52.8 bits (125), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 83/420 (19%), Positives = 160/420 (38%), Gaps = 10/420 (2%)
Query: 34 EVKKQGYIAAPMVAVTLSQYLLQVVSMMMVGHLGQLALSSTAMAISLASVTGFSVLLGMA 93
E++ +A PM+ ++Q + V +M G G+ L++ A+ S A T + +G+
Sbjct: 12 EIRLLTALALPMLLAQVAQVGIGFVDTVMAGGAGKEDLAAVALGSS-AFATVYITFMGIM 70
Query: 94 SALETLCGQAYGAQQYQRIGTQTYTAI-FCLFLVCFPLSFLWIYAGKLLVLIGQDPQISH 152
+AL + Q YGA + G I F L L F + +W + +
Sbjct: 71 AALNPMIAQLYGAGKTGEAGETGRQGIWFGLILGIFGMILMWAAITPFRNWLTLSDYVEG 130
Query: 153 EVGKFMIWLLPALFAYATMQPLIRYFQSQSLIIPMFLSSCAALCLHIPICWSLVYKSXXX 212
+ ++M++ A+ A + L Y S + + L S AA L++P+ + VY
Sbjct: 131 TMAQYMLFTSLAMPAAMVHRALHAYASSLNRPRLIMLVSFAAFVLNVPLNYIFVYGKFGM 190
Query: 213 XXXXXXXXXXSNWLNVTFLAIYMKFSTACAESRVPISMELFQG------IGEFFHFAIPS 266
+ F A+ + A + P + G + + P
Sbjct: 191 PALGGAGCGVATMAVFWFSALALWIYIAKEKFFRPFGLTAKFGKPDWAVFKQIWKIGAPI 250
Query: 267 AVMICLEWWSFELLILMSGLLPNPQLETSVLSVCLNTIQTLYAIPYGLGAAVSTRVSNEL 326
+ LE +F ++ + + + + L+ I LY IP +G+A + R+ L
Sbjct: 251 GLSYFLEASAFSFIVFLIAPFGEDYVAAQQVGISLSGI--LYMIPQSVGSAGTVRIGFSL 308
Query: 327 GAGNVQKARVAVYAVIFMAVTETIVVSATLFASRRVFGYVFSNEKQVVDYVTTMAPLVCL 386
G +AR + ++ +L R +++++ V+ +T+ L
Sbjct: 309 GRREFSRARYISGVSLVSGWVLAVITVLSLVLFRSPLASMYNDDPAVLSIASTVLLFAGL 368
Query: 387 SVIMDSLQGVFSGVARGCGWQNIAAFVNLGAFYLCGIPTAAILGFWLKFRGRGLWIGIQA 446
D Q + S RG + F++ AF+ CG+ +L + G W + A
Sbjct: 369 FQPADFTQCIASYALRGYKVTKVPMFIHAAAFWGCGLLPGYLLAYRFDMGIYGFWTALIA 428
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
0.326 0.136 0.417
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,170,528
Number of Sequences: 62578
Number of extensions: 434773
Number of successful extensions: 1032
Number of sequences better than 100.0: 2
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 1023
Number of HSP's gapped (non-prelim): 2
length of query: 489
length of database: 14,973,337
effective HSP length: 103
effective length of query: 386
effective length of database: 8,527,803
effective search space: 3291731958
effective search space used: 3291731958
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 53 (25.0 bits)