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= 007932
(584 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2XUT|A Chain A, Crystal Structure Of A Proton Dependent Oligopeptide (Pot)
Family Transporter.
pdb|2XUT|B Chain B, Crystal Structure Of A Proton Dependent Oligopeptide (Pot)
Family Transporter.
pdb|2XUT|C Chain C, Crystal Structure Of A Proton Dependent Oligopeptide (Pot)
Family Transporter
Length = 524
Score = 104 bits (260), Expect = 1e-22, Method: Compositional matrix adjust.
Identities = 115/491 (23%), Positives = 212/491 (43%), Gaps = 63/491 (12%)
Query: 26 KW-KACAFLVGYEAFERMAFYGIQSNLVNYLTSQLHEDTVSSVRNV------NNWSGVVW 78
KW + +++ EA ER +FYG+++ L +L + L +R +++ V+
Sbjct: 9 KWPRQIPYIIASEACERFSFYGMRNILTPFLMTALLLSIPEELRGAVAKDVFHSFVIGVY 68
Query: 79 ITPLLGAYIADTYIGRFWTFTLSSLIYVLGMILLTMAASLKFMKPTCTNGICSKTSTSQI 138
PLLG +IAD + G++ T SLIY +G L + +
Sbjct: 69 FFPLLGGWIADRFFGKYNTILWLSLIYCVGHAFLAI-------------------FEHSV 109
Query: 139 AFFYSSLYIIAIGAGGTKPNISTFGADQFDDFNPYERNLKVSFFNWWMFSSFIGALCATL 198
FY+ L++IA+G+GG KP +S+F DQFD N ++L F+ + F+ G+ A+L
Sbjct: 110 QGFYTGLFLIALGSGGIKPLVSSFMGDQFDQSN---KSLAQKAFDMFYFTINFGSFFASL 166
Query: 199 GLVYIQENLGWGLGYGIPTAGLLFSLVIFYIGSPIYRHKIRKTKSP------ARDLIRVP 252
+ + +N G + +GIP + + V F++G Y H + K P R +
Sbjct: 167 SMPLLLKNFGAAVAFGIPGVLMFVATVFFWLGRKRYIHMPPEPKDPHGFLPVIRSALLTK 226
Query: 253 IAAFRNRKIQLP-----DNPSELHEFDTQDYIRSGKRQVVHSPAFRCLDKAAIKHGNGGD 307
+ N + L L T + +V F A+++
Sbjct: 227 VEGKGNIGLVLALIGGVSAAYALVNIPTLGIVAGLCCAMVLVMGFVG-AGASLQLERARK 285
Query: 308 SKPPCTVTQVEGTKLVLGMALIWLVTLIPSTIWAQINTLFVKQGTTLNRSLSPSFRIPAA 367
S P V+G + VL + +++ + +++ Q + ++ Q N + P + PA
Sbjct: 286 SHPDAA---VDGVRSVLRILVLFALVTPFWSLFDQKASTWILQA---NDMVKPQWFEPAM 339
Query: 368 SLGSFVTLSMLLSVPMYDRYFVPFMRRRTGNPRGITMLQRLGVGFVIQVMAIAIAYAVEV 427
+ + L ++L +P + P + R +T L+++G G I ++ + +++
Sbjct: 340 -MQALNPLLVMLLIPFNNFVLYPAIERMGVK---LTALRKMGAGIAITGLSWIVVGTIQL 395
Query: 428 RRMHVIRVQHISGPKQIVPMSIFWLLPQYVLLGVADVFNAIGLLEFFYDQSPEDMQSLGT 487
+ G +SIFW + Y LL +V + LEF Y Q+P+ M+
Sbjct: 396 M---------MDGGSA---LSIFWQILPYALLTFGEVLVSATGLEFAYSQAPKAMKGTIM 443
Query: 488 TFFTSGIGVGN 498
+F+T + VGN
Sbjct: 444 SFWTLSVTVGN 454
>pdb|4APS|A Chain A, Crystal Structure Of A Pot Family Peptide Transporter In
An Inward Open Conformation.
pdb|4APS|B Chain B, Crystal Structure Of A Pot Family Peptide Transporter In
An Inward Open Conformation
Length = 491
Score = 57.4 bits (137), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 53/225 (23%), Positives = 104/225 (46%), Gaps = 39/225 (17%)
Query: 37 EAFERMAFYGIQSNLVNYL-----TSQLHEDTVSSVRNVNNWSGVVWITPLLGAYIADTY 91
E +ER ++YG+++ L+ Y+ T LH ++ + ++ +V+++ +G ++AD
Sbjct: 22 EMWERFSYYGMRAILLYYMWFLISTGDLHITRATAASIMAIYASMVYLSGTIGGFVADRI 81
Query: 92 IGR----FWTFTLSSLIYVLGMILLTMAASLKFMKPTCTNGICSKTSTSQIAFFYSSLYI 147
IG FW ++ +LG I+L + P + + + S+ +
Sbjct: 82 IGARPAVFW----GGVLIMLGHIVLAL--------PFGASAL------------FGSIIL 117
Query: 148 IAIGAGGTKPNISTFGADQFDDFNPYERNLKVSFFNWWMFSSFIGALCATLGLVYIQENL 207
I IG G KPN+ST +D+ + R+ S F +F +GA A L + QE
Sbjct: 118 IIIGTGFLKPNVSTLVGTLYDEHD-RRRDAGFSIF---VFGINLGAFIAPLIVGAAQEAA 173
Query: 208 GWGLGYGIPTAGLLFSLVIFYIGSP--IYRHKIRKTKSPARDLIR 250
G+ + + + G+ L+++Y G + H +R T A + ++
Sbjct: 174 GYHVAFSLAAIGMFIGLLVYYFGGKKTLDPHYLRPTDPLAPEEVK 218
>pdb|1T0T|V Chain V, Crystallographic Structure Of A Putative Chlorite
Dismutase
pdb|1T0T|W Chain W, Crystallographic Structure Of A Putative Chlorite
Dismutase
pdb|1T0T|X Chain X, Crystallographic Structure Of A Putative Chlorite
Dismutase
pdb|1T0T|Y Chain Y, Crystallographic Structure Of A Putative Chlorite
Dismutase
pdb|1T0T|Z Chain Z, Crystallographic Structure Of A Putative Chlorite
Dismutase
Length = 248
Score = 30.0 bits (66), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 17/44 (38%), Positives = 24/44 (54%)
Query: 352 TTLNRSLSPSFRIPAASLGSFVTLSMLLSVPMYDRYFVPFMRRR 395
T LN++ + +PA S S V LS L+ D Y +P +RRR
Sbjct: 87 TALNKTKLADYLLPAYSYVSVVELSNYLASGSEDPYQIPEVRRR 130
>pdb|3VUO|A Chain A, Crystal Structure Of Nontoxic Nonhemagglutinin
Subcomponent (Ntnha) From Clostridium Botulinum Serotype
D Strain 4947
Length = 1196
Score = 30.0 bits (66), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 18/64 (28%), Positives = 33/64 (51%), Gaps = 6/64 (9%)
Query: 472 EFFYDQSPEDMQSLGTTFFTSGIGVGNFLNSFLVTLVDKVTGRNGEKG-WIGDNLNDCHL 530
E Y +SP + FFT+G+ N+F + + TG++ +K IG+ +N+C
Sbjct: 875 ESLYLKSPNETVEFSNNFFTNGLT-----NNFTICFWLRFTGKDDDKTRLIGNKVNNCGW 929
Query: 531 DYYY 534
+ Y+
Sbjct: 930 EIYF 933
>pdb|2WDT|A Chain A, Crystal Structure Of Plasmodium Falciparum Uchl3 In
Complex With The Suicide Inhibitor Ubvme
pdb|2WDT|C Chain C, Crystal Structure Of Plasmodium Falciparum Uchl3 In
Complex With The Suicide Inhibitor Ubvme
pdb|2WE6|A Chain A, Crystal Structure Of Plasmodium Falciparum Ubiquitin
Carboxyl-Terminal Hydrolase 3 (Uchl3)
pdb|2WE6|B Chain B, Crystal Structure Of Plasmodium Falciparum Ubiquitin
Carboxyl-Terminal Hydrolase 3 (Uchl3)
Length = 232
Score = 28.9 bits (63), Expect = 8.0, Method: Compositional matrix adjust.
Identities = 12/34 (35%), Positives = 19/34 (55%)
Query: 174 ERNLKVSFFNWWMFSSFIGALCATLGLVYIQENL 207
+ NLK +F N W +I C T+ L+++ NL
Sbjct: 71 KHNLKENFDNVWFIKQYIPNSCGTIALLHLYGNL 104
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 0.139 0.431
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 17,434,560
Number of Sequences: 62578
Number of extensions: 740222
Number of successful extensions: 1868
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 1857
Number of HSP's gapped (non-prelim): 8
length of query: 584
length of database: 14,973,337
effective HSP length: 104
effective length of query: 480
effective length of database: 8,465,225
effective search space: 4063308000
effective search space used: 4063308000
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: 54 (25.4 bits)