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= 011264
(490 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 = 124 bits (311), Expect = 1e-28, Method: Compositional matrix adjust.
Identities = 123/469 (26%), Positives = 208/469 (44%), Gaps = 29/469 (6%)
Query: 23 NNNHQTCSEKKKIIEEVKRQLWLSGPLISVSLLQFCLQMISVMFVGHLGELPLSGASMAT 82
N+ H+ E +I+ L+ P++ S+ Q + + + G + + ++ S+A
Sbjct: 2 NSVHRYKKEASNLIK-------LATPVLIASVAQTGMGFVDTIMAGGVSAIDMAAVSIAA 54
Query: 83 SFATVTGFSFLVGLSSALETLCGQSYGAKQYHMLGIHMQRGMFVLLLISVPLALIWANTE 142
S + F VGL AL + Q GA + H + + +G+ + LL+SVP+ + T+
Sbjct: 55 SI-WLPSILFGVGLLMALVPVVAQLNGAGRQHKIPFEVHQGLILALLVSVPIIAVLFQTQ 113
Query: 143 SLLVAAHQDSEISKEAGLYARYMIPSIFAYAILQCLVRFLQTQNIVFPMVLSSGITALLH 202
++ + ++ + Y +I ++ AY + Q L F ++ P ++ I LL+
Sbjct: 114 FIIRFMDVEEAMATKTVGYMHAVIFAVPAYLLFQALRSFTDGMSLTKPAMVIGFIGLLLN 173
Query: 203 ILVCWILVF-KSG---LGSRGAALANSISYWINVLLLAIYVKFSSSCA--KTWTGFSKEA 256
I + WI V+ K G LG G +A +I YWI +LLL Y+ S A K + F K
Sbjct: 174 IPLNWIFVYGKFGAPELGGVGCGVATAIVYWIMLLLLLFYIVTSKRLAHVKVFETFHKPQ 233
Query: 257 LNNVFNFVRLAIPSAVMVCLEMWSFEMMVLLSGLLPNPALETSVLSISLNTASTVWMIPF 316
+ RL P A + E+ F ++ LL P + + ++LN +S V+M P
Sbjct: 234 PKELIRLFRLGFPVAAALFFEVTLFAVVALLVA--PLGSTVVAAHQVALNFSSLVFMFPM 291
Query: 317 GLSGAASTRVSNELGAGHPEAARLAVCVVLVMAVTEGILVGSVLILIRNVWGYAYSNEIE 376
+ A S RV ++LG + A +A V L+ + + + +L R Y+
Sbjct: 292 SIGAAVSIRVGHKLGEQDTKGAAIAANVGLMTGLATACITALLTVLFREQIALLYTENQV 351
Query: 377 VVKYVASMLPILAASNFLDGLQCVLSGIARGCGWQMIGAF-VNLGSYYLVGIPSAILLAF 435
VV +L A +D +Q V +G RG M F SY+++G+P+ +L
Sbjct: 352 VVALAMQLLLFAAIYQCMDAVQVVAAGSLRGYK-DMTAIFHRTFISYWVLGLPTGYILGM 410
Query: 436 L-----LHFGGRGLWLGIICALIVQATSLGIITARTNWEKEAKKATDRV 479
G +G WLG I L A LG R W +K +D V
Sbjct: 411 TNWLTEQPLGAKGFWLGFIIGLSAAALMLG---QRLYW---LQKQSDDV 453
>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 = 68.9 bits (167), Expect = 5e-12, Method: Compositional matrix adjust.
Identities = 96/438 (21%), Positives = 185/438 (42%), Gaps = 22/438 (5%)
Query: 35 IIEEVKRQLWLSGPLISVSLLQFCLQMISVMFVGHLGELPLSGASMATS-FATVTGFSFL 93
++E++ L+ P++ + Q + + + G G+ L+ ++ +S FATV +
Sbjct: 9 FLKEIRLLTALALPMLLAQVAQVGIGFVDTVMAGGAGKEDLAAVALGSSAFATV--YITF 66
Query: 94 VGLSSALETLCGQSYGAKQYHMLGIHMQRGM-FVLLLISVPLALIWANTES----LLVAA 148
+G+ +AL + Q YGA + G ++G+ F L+L + L+WA L ++
Sbjct: 67 MGIMAALNPMIAQLYGAGKTGEAGETGRQGIWFGLILGIFGMILMWAAITPFRNWLTLSD 126
Query: 149 HQDSEISKEAGLYARYMIPSIFAYAILQCLVRFLQTQNIVFPMVLSSGITALLHILVCWI 208
+ + +++ L+ +P+ + L L ++ +L S +L++ + +I
Sbjct: 127 YVEGTMAQYM-LFTSLAMPAAMVHRALHAYASSLNRPRLI---MLVSFAAFVLNVPLNYI 182
Query: 209 LVFKS----GLGSRGAALANSISYWINVLLLAIYV---KFSSSCAKTWTGFSKEALNNVF 261
V+ LG G +A +W + L L IY+ KF T F K
Sbjct: 183 FVYGKFGMPALGGAGCGVATMAVFWFSALALWIYIAKEKFFRPFGLT-AKFGKPDWAVFK 241
Query: 262 NFVRLAIPSAVMVCLEMWSFEMMVLLSGLLPNPALETSVLSISLNTASTVWMIPFGLSGA 321
++ P + LE +F +V L + + ISL+ ++MIP + A
Sbjct: 242 QIWKIGAPIGLSYFLEASAFSFIVFLIAPFGEDYVAAQQVGISLS--GILYMIPQSVGSA 299
Query: 322 ASTRVSNELGAGHPEAARLAVCVVLVMAVTEGILVGSVLILIRNVWGYAYSNEIEVVKYV 381
+ R+ LG AR V LV ++ L+L R+ Y+++ V+
Sbjct: 300 GTVRIGFSLGRREFSRARYISGVSLVSGWVLAVITVLSLVLFRSPLASMYNDDPAVLSIA 359
Query: 382 ASMLPILAASNFLDGLQCVLSGIARGCGWQMIGAFVNLGSYYLVGIPSAILLAFLLHFGG 441
+++L D QC+ S RG + F++ +++ G+ LLA+ G
Sbjct: 360 STVLLFAGLFQPADFTQCIASYALRGYKVTKVPMFIHAAAFWGCGLLPGYLLAYRFDMGI 419
Query: 442 RGLWLGIICALIVQATSL 459
G W +I +L + A +L
Sbjct: 420 YGFWTALIASLTIAAVAL 437
>pdb|1W66|A Chain A, Structure Of A Lipoate-protein Ligase B From Mycobacterium
Tuberculosis
Length = 232
Score = 28.5 bits (62), Expect = 9.2, Method: Compositional matrix adjust.
Identities = 26/91 (28%), Positives = 44/91 (48%), Gaps = 18/91 (19%)
Query: 259 NVFNFVRLAIPSAVMVCLEMWSFEMMVL-LSGL-LP-NPALETSVLSISLNTASTVW--- 312
+V N+VR S + VC ++ V SG+ LP PA + + + + ++ A+T+
Sbjct: 103 DVVNYVRRLEESLIQVCADLGLHAGRVDGRSGVWLPGRPARKVAAIGVRVSRATTLHGFA 162
Query: 313 ------------MIPFGLSGAASTRVSNELG 331
++P G+S AA T +S ELG
Sbjct: 163 LNCDCDLAAFTAIVPCGISDAAVTSLSAELG 193
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
0.324 0.136 0.406
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,890,290
Number of Sequences: 62578
Number of extensions: 475590
Number of successful extensions: 1378
Number of sequences better than 100.0: 3
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 1371
Number of HSP's gapped (non-prelim): 4
length of query: 490
length of database: 14,973,337
effective HSP length: 103
effective length of query: 387
effective length of database: 8,527,803
effective search space: 3300259761
effective search space used: 3300259761
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: 53 (25.0 bits)