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= 010345
(512 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 (312), Expect = 1e-28, Method: Compositional matrix adjust.
Identities = 122/468 (26%), Positives = 208/468 (44%), Gaps = 26/468 (5%)
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 PKELIRLFRLGFPVAAALFFEVTLFAVVALL--VAPLGSTVVAAHQVALNFSSLVFMFPM 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-----LHFGGRGLWLGIICALIVQATSLGIITARTNWEKEVSHSFYL 478
G +G WLG I L A LG R W ++ S L
Sbjct: 411 TNWLTEQPLGAKGFWLGFIIGLSAAALMLG---QRLYWLQKQSDDVQL 455
>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 = 69.7 bits (169), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 97/453 (21%), Positives = 191/453 (42%), Gaps = 22/453 (4%)
Query: 36 IEEVKRQLWLSGPLISVSLLQFCLQMISVMFVGHLGELPLSGASMATS-FATVTGFSFLV 94
++E++ L+ P++ + Q + + + G G+ L+ ++ +S FATV + +
Sbjct: 10 LKEIRLLTALALPMLLAQVAQVGIGFVDTVMAGGAGKEDLAAVALGSSAFATV--YITFM 67
Query: 95 GLSSALETLCGQSYGAKQYHMLGIHMQRGMFVLLLISV-PLALIWANTES----LLVAAH 149
G+ +AL + Q YGA + G ++G++ L++ + + L+WA L ++ +
Sbjct: 68 GIMAALNPMIAQLYGAGKTGEAGETGRQGIWFGLILGIFGMILMWAAITPFRNWLTLSDY 127
Query: 150 QDSEISKEAGLYARYMIPSIFAYAILQCLVRFLQTQNIVFPMVLSSGITALLHILVCWIL 209
+ +++ L+ +P+ + L L ++ +L S +L++ + +I
Sbjct: 128 VEGTMAQYM-LFTSLAMPAAMVHRALHAYASSLNRPRLI---MLVSFAAFVLNVPLNYIF 183
Query: 210 VFKS----GLGSRGAALANSISYWINVLLLAIYV---KFSSSCAKTWTGFSKEALNNVFN 262
V+ LG G +A +W + L L IY+ KF T F K
Sbjct: 184 VYGKFGMPALGGAGCGVATMAVFWFSALALWIYIAKEKFFRPFGLT-AKFGKPDWAVFKQ 242
Query: 263 FVRLAIPSAVMVCLEMWSFEMMVLLSGLLPNPALETSVLSISLNTASTVWMIPFGLSGAA 322
++ P + LE +F +V L + + ISL+ ++MIP + A
Sbjct: 243 IWKIGAPIGLSYFLEASAFSFIVFLIAPFGEDYVAAQQVGISLS--GILYMIPQSVGSAG 300
Query: 323 STRVSNELGAGHPEAARLAVCVVLVMAVTEGILVGSVLILIRNVWGYAYSNEIEVVKYVA 382
+ R+ LG AR V LV ++ L+L R+ Y+++ V+ +
Sbjct: 301 TVRIGFSLGRREFSRARYISGVSLVSGWVLAVITVLSLVLFRSPLASMYNDDPAVLSIAS 360
Query: 383 SMLPILAASNFLDGLQCVLSGIARGCGWQMIGAFVNLGSYYLVGIPSAILLAFLLHFGGR 442
++L D QC+ S RG + F++ +++ G+ LLA+ G
Sbjct: 361 TVLLFAGLFQPADFTQCIASYALRGYKVTKVPMFIHAAAFWGCGLLPGYLLAYRFDMGIY 420
Query: 443 GLWLGIICALIVQATSLGIITARTNWEKEVSHS 475
G W +I +L + A +L + + E SH
Sbjct: 421 GFWTALIASLTIAAVALVWCLEKYSMELVKSHK 453
>pdb|1W66|A Chain A, Structure Of A Lipoate-protein Ligase B From Mycobacterium
Tuberculosis
Length = 232
Score = 28.5 bits (62), Expect = 9.8, 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
0.326 0.138 0.416
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 13,494,370
Number of Sequences: 62578
Number of extensions: 501158
Number of successful extensions: 1420
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: 1413
Number of HSP's gapped (non-prelim): 3
length of query: 512
length of database: 14,973,337
effective HSP length: 103
effective length of query: 409
effective length of database: 8,527,803
effective search space: 3487871427
effective search space used: 3487871427
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: 54 (25.4 bits)