RPS-BLAST 2.2.22 [Sep-27-2009]
Database: pdb70
24,244 sequences; 5,693,230 total letters
Searching..................................................done
Query= gi|254780343|ref|YP_003064756.1| probable cation efflux protein
[Candidatus Liberibacter asiaticus str. psy62]
(311 letters)
>3h90_A Ferrous-iron efflux pump FIEF; membrane protein, zinc transporter,
cell inner membrane, cell membrane, ION transport, iron
transport; 2.90A {Escherichia coli k-12} PDB: 2qfi_A
Length = 283
Score = 146 bits (370), Expect = 4e-36
Identities = 72/282 (25%), Positives = 154/282 (54%), Gaps = 2/282 (0%)
Query: 11 RMALWGIPISAAITALKIIAWYVTGFISLLSDGLESIVNIITAIISYFTLKYAYRPADNT 70
R A+ +++ + +KI AW+ TG +S+L+ ++S+V+I ++ + ++Y+ +PAD+
Sbjct: 4 RAAIAATAMASLLLLIKIFAWWYTGSVSILAALVDSLVDIGASLTNLLVVRYSLQPADDN 63
Query: 71 HPFGHQKAEYIAAVVEGLLMTNIALIILYESWHNMSHSPSNDFSIMGLFIGFMANIISLF 130
H FGH KAE +AA+ + + ++ AL + ++ +G+ + +A I ++
Sbjct: 64 HSFGHGKAESLAALAQSMFISGSALFLFLTGIQHLISPTPMTDPGVGVIVTIVALICTII 123
Query: 131 WGKWLIYSGEKNHSAAFKANGQHFVADVVMSAGVLCGLLLVLITEYTVLDSIIACFMACN 190
+ + + S A +A+ H+ +DV+M+ +L L L + D++ A +
Sbjct: 124 LVSFQRWVVRRTQSQAVRADMLHYQSDVMMNGAILLALGLSW-YGWHRADALFALGIGIY 182
Query: 191 ILYQGCKVISSSIKNLMDAAVKPEHLEKIKNIIALNASGSIGIHDLKIRQAGATFFINFH 250
ILY ++ ++++L+D A+ E ++I +I+ + G G HDL+ RQ+G T FI H
Sbjct: 183 ILYSALRMGYEAVQSLLDRALPDEERQEIIDIV-TSWPGVSGAHDLRTRQSGPTRFIQIH 241
Query: 251 LVVDSHMIVLDAHKICNKLERSLEENIGQAIITIHIEPANEV 292
L ++ + ++ AH + +++E+++ + + IH +P + V
Sbjct: 242 LEMEDSLPLVQAHMVADQVEQAILRRFPGSDVIIHQDPCSVV 283
>3byp_A CZRB protein; membrane protein, zinc transporter, transport
protein; 1.70A {Thermus thermophilus} SCOP: d.52.9.1
PDB: 3byr_A
Length = 94
Score = 93.7 bits (233), Expect = 4e-20
Identities = 34/90 (37%), Positives = 52/90 (57%), Gaps = 1/90 (1%)
Query: 206 LMDAAVKPEHLEKIKNIIALNAS-GSIGIHDLKIRQAGATFFINFHLVVDSHMIVLDAHK 264
LMD + PE +E+I+ + ++ +HDLK R+AG F+ FHLVV V +AH+
Sbjct: 2 LMDEGLPPEEVERIRAFLQERIRGRALEVHDLKTRRAGPRSFLEFHLVVRGDTPVEEAHR 61
Query: 265 ICNKLERSLEENIGQAIITIHIEPANEVTH 294
+C++LER+L + TIH+EP E
Sbjct: 62 LCDELERALAQAFPGLQATIHVEPEGERKR 91
>2zzt_A Putative uncharacterized protein; cation diffusion facilitator
(CDF), transporter, zinc, membrane protein, cytosolic
domain; 2.84A {Thermotoga maritima}
Length = 107
Score = 73.0 bits (179), Expect = 9e-14
Identities = 25/91 (27%), Positives = 42/91 (46%), Gaps = 4/91 (4%)
Query: 207 MDAAVKPEHLEKIKNI--IALNASGSIGIHDLKIRQAGATFFINFHLVVDSHMIVLDAHK 264
MD +K L+ +I + H ++IR+ G +FI + VD M V DAH+
Sbjct: 1 MDG-MKRTELDMYDDIFAVLERFPNVHNPHRVRIRRVGTKYFIEMDIEVDGKMSVKDAHE 59
Query: 265 ICNKLERSLEENIGQAI-ITIHIEPANEVTH 294
+ K+ + + + +TIH+EP V
Sbjct: 60 LTVKIRKEMLKRRDDIEDVTIHVEPLGNVEE 90
>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
acyl-carrier-protein, beta-ketoacyl reductase,
beta-ketoacyl synthase, dehydratase; 4.00A
{Saccharomyces cerevisiae}
Length = 2006
Score = 52.6 bits (126), Expect = 1e-07
Identities = 69/362 (19%), Positives = 109/362 (30%), Gaps = 141/362 (38%)
Query: 14 LWGIPISAAITALKIIAWY-VTG---------FISLL------SDGLESIVNIITAII-- 55
L IPIS + + +A Y VT S L S G ++TA+
Sbjct: 231 LLSIPISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKGATGHSQG------LVTAVAIA 284
Query: 56 ------SYFTL-KYA--------YRPADNTHPFGHQKAEYIAAVVEGLLMTNIALIILYE 100
S+F + A R ++ A T++ IL +
Sbjct: 285 ETDSWESFFVSVRKAITVLFFIGVR--------CYE-----AYPN-----TSLPPSILED 326
Query: 101 SWHNMSHSPSNDFSIMGLFIGFMANIISLFWGKWLIYSGEKNH-SAAFKANG-QHFVADV 158
S N PS SI L + + ++ L + NG ++ V
Sbjct: 327 SLENNEGVPSPMLSISNLTQEQVQDYVNKT-NSHL---PAGKQVEISL-VNGAKNLV--- 378
Query: 159 VMSAG---VLCGLLLVL--ITEYTVLDSIIACFMACNILYQGCKV--------ISS---S 202
V +G L GL L L + LD I + K+ ++S S
Sbjct: 379 V--SGPPQSLYGLNLTLRKAKAPSGLDQ-------SRIPFSERKLKFSNRFLPVASPFHS 429
Query: 203 IKNLMDAAVKPEHLEKIKNIIALNASG-SIGIHDLKIRQAGATFFINFHLVVDSHMIVLD 261
L+ A+ + I L + S D++I V D+ D
Sbjct: 430 -HLLVPAS------DLINK--DLVKNNVSFNAKDIQIP------------VYDTF----D 464
Query: 262 AHKICNKLERSLEENIGQAII-TIHIEPAN-------EVTH----------GIHVPLKEN 303
+ R L +I + I+ I P + TH G+ V N
Sbjct: 465 GSDL-----RVLSGSISERIVDCIIRLPVKWETTTQFKATHILDFGPGGASGLGVLTHRN 519
Query: 304 KN 305
K+
Sbjct: 520 KD 521
Score = 41.5 bits (97), Expect = 3e-04
Identities = 42/361 (11%), Positives = 99/361 (27%), Gaps = 144/361 (39%)
Query: 33 VTGFISLLSDGLE-----SIVNIITAIISYFTLKY----------AYRPADNTHPFGHQK 77
V F+ +S +E ++ ++ F Y A +N +
Sbjct: 61 VGKFLGYVSSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQENDTTLV-KT 119
Query: 78 AEYIAAVVEGLLMTNIALIILYESWHN---MSHSPSNDFSIMGLFIG------------- 121
E I + +M ++ N + ++ +F G
Sbjct: 120 KELIKNYITARIMAKRP----FDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDYFEELRD 175
Query: 122 -------FMANIISLFWGKWLIYSGE------KNHSAAFKANGQHFVADV---------- 158
+ ++I +S E + A K Q ++
Sbjct: 176 LYQTYHVLVGDLIK--------FSAETLSELIRTTLDAEKVFTQGL--NILEWLENPSNT 225
Query: 159 -----VMSAGVLCGLL-LVLITEYTVLDSIIACFMACNIL-----------------YQG 195
++S + C L+ ++ + Y V +L QG
Sbjct: 226 PDKDYLLSIPISCPLIGVIQLAHYVV---------TAKLLGFTPGELRSYLKGATGHSQG 276
Query: 196 CKV---ISSSI--KNLMDAAVKPEHLEKIKNIIALNASGSIGIHDLKIRQAGATFFINFH 250
I+ + ++ + K A+ IG ++ +A +
Sbjct: 277 LVTAVAIAETDSWESFFVSVRK-----------AITVLFFIG---VRCYEAYPNTSLPPS 322
Query: 251 LVVDS---------HMI-VLDAHKICNKLERS-LEENIGQAIITIHIEPANEVTHGIHVP 299
++ DS M+ + + L + +++ + + H+ PA + + +
Sbjct: 323 ILEDSLENNEGVPSPMLSISN-------LTQEQVQDYVNK--TNSHL-PAGK--Q-VEIS 369
Query: 300 L 300
L
Sbjct: 370 L 370
Score = 37.2 bits (86), Expect = 0.005
Identities = 33/250 (13%), Positives = 70/250 (28%), Gaps = 83/250 (33%)
Query: 54 IISYFTLKYAYRPADNTHPFGHQ-KAEYIA---AVVEGLLMTNIALIILYESWHNMSHSP 109
+S+ +L++ + Q + ++ EG + P
Sbjct: 10 TLSHGSLEHVLLVPTASFFIASQLQEQFNKILPEPTEGFAADD---------------EP 54
Query: 110 SNDFSIMGLFIGFMANIISLFWGKWLIYSGEKNHSAAF----KANGQHFVADVVMSAGVL 165
+ ++G F+G++++++ E + F F L
Sbjct: 55 TTPAELVGKFLGYVSSLV------------EPSKVGQFDQVLNLCLTEFENC------YL 96
Query: 166 CG---------LLLVLITEYTVLDSIIAC-FMACNILYQGCKVISSSIKNLMDAAVKPEH 215
G LL T +I A + + S+S L A +
Sbjct: 97 EGNDIHALAAKLLQENDTTLVKTKELIKNYITARIMAKRPFDKKSNS--ALFRAVGEGNA 154
Query: 216 LEKIKNIIAL-NASGSIG----------------IHDLKIRQAGATFFINFHLVVDSHMI 258
++A+ G+ + DL I+ + T L+ +
Sbjct: 155 -----QLVAIFGGQGNTDDYFEELRDLYQTYHVLVGDL-IKFSAETL---SELIRTTL-- 203
Query: 259 VLDAHKICNK 268
DA K+ +
Sbjct: 204 --DAEKVFTQ 211
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna;
HET: CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 31.9 bits (71), Expect = 0.19
Identities = 10/29 (34%), Positives = 14/29 (48%), Gaps = 10/29 (34%)
Query: 59 TLK-YAYRPADNTHPFGHQKAEYIAAVVE 86
+LK YA D++ P A I A +E
Sbjct: 28 SLKLYA----DDSAP-----ALAIKATME 47
Score = 30.7 bits (68), Expect = 0.38
Identities = 10/37 (27%), Positives = 17/37 (45%), Gaps = 13/37 (35%)
Query: 194 QGCKVISSSIKNLM--DAAVKPEHLEKIKNIIALNAS 228
Q K + +S+K L D+A P +A+ A+
Sbjct: 20 QALKKLQASLK-LYADDSA--PA--------LAIKAT 45
>1nm2_A Malonyl COA:acyl carrier protein malonyltransferase; alpha/beta
hydrolase-like core; 2.00A {Streptomyces coelicolor A3}
SCOP: c.19.1.1 d.58.23.1 PDB: 2cdh_4 2cf2_B
Length = 317
Score = 28.4 bits (62), Expect = 2.1
Identities = 14/70 (20%), Positives = 25/70 (35%)
Query: 74 GHQKAEYIAAVVEGLLMTNIALIILYESWHNMSHSPSNDFSIMGLFIGFMANIISLFWGK 133
GH E AAV G+L AL ++ M+ + + + M +G + +
Sbjct: 96 GHSVGEITAAVFAGVLDDTAALSLVRRRGLAMAEAAAVTETGMSALLGGDPEVSVAHLER 155
Query: 134 WLIYSGEKNH 143
+ N
Sbjct: 156 LGLTPANVNG 165
>1gm5_A RECG; helicase, replication restart; HET: DNA ADP; 3.24A
{Thermotoga maritima} SCOP: a.24.21.1 b.40.4.9 c.37.1.19
c.37.1.19
Length = 780
Score = 26.7 bits (58), Expect = 7.1
Identities = 13/69 (18%), Positives = 25/69 (36%), Gaps = 10/69 (14%)
Query: 216 LEKIKNIIALNASGSIGIHDLKIR---------QAGATFFINFHLVVDSHMIVLDAHKIC 266
+E+++ I +DLK R Q G + F L D ++ A +
Sbjct: 702 MERLRFFTLNTDGFKIAEYDLKTRGPGEFFGVKQHGLSGFKVADLYRDLKLLE-WAREDV 760
Query: 267 NKLERSLEE 275
+++ E
Sbjct: 761 QEIDVEGIE 769
>2eyq_A TRCF, transcription-repair coupling factor; MFD, SF2 ATPase,
hydrolase; HET: EPE; 3.20A {Escherichia coli} SCOP:
b.34.18.1 c.37.1.19 c.37.1.19 c.37.1.19 c.37.1.19
d.315.1.1
Length = 1151
Score = 26.3 bits (57), Expect = 8.2
Identities = 15/47 (31%), Positives = 24/47 (51%), Gaps = 2/47 (4%)
Query: 196 CKVISSSIKNLMDAAVKPEHLEKIKNIIALNASGSIGIHDLKIRQAG 242
+++ K + A K LE I ++ L A ++ HDL+IR AG
Sbjct: 915 AWLLTPHPKAMTTDAQK--RLEAIASLEDLGAGFALATHDLEIRGAG 959
Database: pdb70
Posted date: Jan 26, 2011 11:21 AM
Number of letters in database: 5,693,230
Number of sequences in database: 24,244
Lambda K H
0.324 0.138 0.412
Gapped
Lambda K H
0.267 0.0474 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 24244
Number of Hits to DB: 2,615,621
Number of extensions: 115280
Number of successful extensions: 422
Number of sequences better than 10.0: 1
Number of HSP's gapped: 417
Number of HSP's successfully gapped: 24
Length of query: 311
Length of database: 5,693,230
Length adjustment: 92
Effective length of query: 219
Effective length of database: 3,462,782
Effective search space: 758349258
Effective search space used: 758349258
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 56 (26.0 bits)