RPS-BLAST 2.2.22 [Sep-27-2009]
Database: pdb70
24,244 sequences; 5,693,230 total letters
Searching..................................................done
Query= gi|254780858|ref|YP_003065271.1| NADH dehydrogenase I subunit F
[Candidatus Liberibacter asiaticus str. psy62]
(425 letters)
>3i9v_1 NADH-quinone oxidoreductase subunit 1; electron transport,
respiratory chain, 4Fe- 4S, cell membrane, flavoprotein,
FMN, iron; HET: FMN; 3.10A {Thermus thermophilus HB8}
PDB: 2fug_1* 3iam_1* 3ias_1*
Length = 438
Score = 382 bits (983), Expect = e-107
Identities = 189/422 (44%), Positives = 264/422 (62%), Gaps = 9/422 (2%)
Query: 5 QDRIFTNLYGLQGKSLSDSMSRGHWDNVDKIL-EKGRDWIINEVKASGLRGRGGAGFSTG 63
+ ++ ++ +L + G ++ ++L EK D +I EVK SGLRGRGGAGF TG
Sbjct: 14 ERTLYAHVGKEGSWTLDYYLRHGGYETAKRVLKEKTPDEVIEEVKRSGLRGRGGAGFPTG 73
Query: 64 MKWSFMPKVCSDRPHYLVVNADESEPGTCKDRDIMRHEPHTLIEGCVIASFAIGAHCAFI 123
+KWSFMPK + HYL+ NADESEPG+ KDR I+ PH LIEG ++A +AI A +I
Sbjct: 74 LKWSFMPK-DDGKQHYLICNADESEPGSFKDRYILEDVPHLLIEGMILAGYAIRATVGYI 132
Query: 124 YVRGEFIRERESLQAAVDECYASGLLG-SNSKLGYDVDIIVHHGAGAYICGEETALLESL 182
YVRGE+ R + L+ A+ E A G LG + + D+ VH GAGAYICGEETAL+ SL
Sbjct: 133 YVRGEYRRAADRLEQAIKEARARGYLGKNLFGTDFSFDLHVHRGAGAYICGEETALMNSL 192
Query: 183 EGKKGQPRLKPPFPANVGLYGCPTTVNNVESIAVVPTILRRGASWYSGFGRENNRGTKLF 242
EG + PRLKPPFPA GL+G PTT+NNVE++A V I+ RGA W++ G E ++G KL+
Sbjct: 193 EGLRANPRLKPPFPAQSGLWGKPTTINNVETLASVVPIMERGADWFAQMGTEQSKGMKLY 252
Query: 243 SISGHVNYPCTVEESMSITFDELIEKHCGGIRGGWDNLLAVIPGGSSVPCLP-AGQMRGA 301
ISG V P E M TF ELI + GG + + A+IPGGSS P LP ++
Sbjct: 253 QISGPVKRPGVYELPMGTTFRELIYEWAGGP---LEPIQAIIPGGSSTPPLPFTEEVLDT 309
Query: 302 IMDYDGLKEMGSGLGTAAVIVMDRSTDIIKAIWRLSVFYKHESCGQCTPCREGT-GWMMR 360
M Y+ L+ GS LGT VI++ ++ A+W L+ FY HESCG+CTPCREG G+M+
Sbjct: 310 PMSYEHLQAKGSMLGTGGVILIPERVSMVDAMWNLTRFYAHESCGKCTPCREGVAGFMVN 369
Query: 361 VMERLVKGIAQKREIDLLYEVSKNIEGRTICALGDAAAWPIQGLIKNFRPLIEERIDQYH 420
+ ++ G ++++++ L + IEGR+ C L DAA WP++G +++F+ +
Sbjct: 370 LFAKIGTGQGEEKDVENLEALLPLIEGRSFCPLADAAVWPVKGSLRHFKDQYLALARE-K 428
Query: 421 RC 422
R
Sbjct: 429 RP 430
>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 = 61.5 bits (149), Expect = 4e-10
Identities = 76/435 (17%), Positives = 121/435 (27%), Gaps = 199/435 (45%)
Query: 101 EPHTLIEGCVIASFAIGAHCAFIYVRGEFIRERESLQAAVDECYASGLLGSNSKLGYDVD 160
EP T E ++ F +G + + + + + + L + E + + L N D
Sbjct: 53 EPTTPAE--LVGKF-LG-YVSSLVEPSKVGQFDQVLNLCLTE-FENCYLEGN-------D 100
Query: 161 IIVHHGAGAYICGEETALLESLEGKK-------------GQPRLKPPFPANVGLYGCPTT 207
I H A + +T L++ K +P K A L+
Sbjct: 101 I--HALAAKLLQENDTTLVK----TKELIKNYITARIMAKRPFDKKSNSA---LF----- 146
Query: 208 VNNVESIAVVPTILRRGASWYSGFG------------RENNRGTKLFSISGHVNYPCTVE 255
V A + FG R+ L+ Y V
Sbjct: 147 -RAVGE---------GNAQLVAIFGGQGNTDDYFEELRD------LYQT-----YHVLVG 185
Query: 256 E---SMSITFDELI------EKHCGGIRG----GW----------DNLLAVIPGGSSVP- 291
+ + T ELI EK +G W D LL++ P S P
Sbjct: 186 DLIKFSAETLSELIRTTLDAEKVFT--QGLNILEWLENPSNTPDKDYLLSI-P--ISCPL 240
Query: 292 -CL----------------PAGQMRGAIMDYDGLKEMGS-----GLGTAAVIVMDRSTDI 329
+ P G++R LK G+ GL TA I S
Sbjct: 241 IGVIQLAHYVVTAKLLGFTP-GELR------SYLK--GATGHSQGLVTAVAIAETDS--- 288
Query: 330 IKAIWRLSVFYKHES------------CGQCTPCR--------------EGT-GWMMRV- 361
W S F+ C + P EG M+ +
Sbjct: 289 ----WE-S-FFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSIS 342
Query: 362 ---MERLVKGIAQ--------KR-EIDLLYEVSKNIEGRT--ICALGDAAAWPIQGL--- 404
E++ + + K+ EI L + G + + G + + GL
Sbjct: 343 NLTQEQVQDYVNKTNSHLPAGKQVEISL-------VNGAKNLVVS-GPPQS--LYGLNLT 392
Query: 405 ---IKNFRPLIEERI 416
K L + RI
Sbjct: 393 LRKAKAPSGLDQSRI 407
Score = 49.6 bits (118), Expect = 1e-06
Identities = 71/488 (14%), Positives = 117/488 (23%), Gaps = 262/488 (53%)
Query: 3 TDQDRIFTNLYGLQG------------------------KSLSD---SMSRGHWDNVDKI 35
++ ++G QG K ++ + R + +K+
Sbjct: 151 EGNAQLVA-IFGGQGNTDDYFEELRDLYQTYHVLVGDLIKFSAETLSELIRTT-LDAEKV 208
Query: 36 LEKGRDWIINEVKASGLRGRGGAGFSTGMKWSFMPKVCSDR----------P-------- 77
+G + I ++W P D+ P
Sbjct: 209 FTQGLN--I-------------------LEWLENPSNTPDKDYLLSIPISCPLIGVIQLA 247
Query: 78 HYLVVNADESEPGTCKDRDIMRHEP------------HT--LIEGCVIAS---------- 113
HY+V T K ++ P H+ L+ IA
Sbjct: 248 HYVV---------TAK---LLGFTPGELRSYLKGATGHSQGLVTAVAIAETDSWESFFVS 295
Query: 114 --------FAIGAHCAFIYVR--------------GEF-------IR--ERESLQAAVDE 142
F IG C Y E I +E +Q V++
Sbjct: 296 VRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSISNLTQEQVQDYVNK 355
Query: 143 CYASGLLGSNSKLGYD--VDIIVHHGAGAYICGEETALLESLEG------------KKGQ 188
NS L V+I + +GA + + +SL G Q
Sbjct: 356 T--------NSHLPAGKQVEISLVNGAKNLVV---SGPPQSLYGLNLTLRKAKAPSGLDQ 404
Query: 189 PRL-----KPPFPANVGLYGCPTTVNNVESIAV----------VPTILRR----GASW-- 227
R+ K F N +A I + S+
Sbjct: 405 SRIPFSERKLKF------------SNRFLPVASPFHSHLLVPASDLINKDLVKNNVSFNA 452
Query: 228 -------YSGFGRENNR--GTKLFS------ISGHVNYPCTVEESMS--ITFDELIEKHC 270
Y F + R + I V + T + + + F
Sbjct: 453 KDIQIPVYDTFDGSDLRVLSGSISERIVDCIIRLPVKWETTTQFKATHILDFG------- 505
Query: 271 GGIRGGWDNLLAVIPGGSSVPCLPAGQMRGAIMDYDGL-------KEMGSGLGTAAVIV- 322
PGG+S GL K+ G+G+ VIV
Sbjct: 506 --------------PGGAS-----------------GLGVLTHRNKD-GTGV---RVIVA 530
Query: 323 --MDRSTD 328
+D + D
Sbjct: 531 GTLDINPD 538
Score = 29.1 bits (65), Expect = 1.7
Identities = 40/190 (21%), Positives = 78/190 (41%), Gaps = 28/190 (14%)
Query: 240 KLF-SISGH-VNYPCTVEESM--SITFDE----LIEKHCGGIRGGWDNLLA--VIPGGSS 289
K+F I+ H +Y E+ + + F + L+EK +++L + +IP ++
Sbjct: 1705 KIFKEINEHSTSYTFRSEKGLLSATQFTQPALTLMEK------AAFEDLKSKGLIPADAT 1758
Query: 290 VPCLPAGQMRGAIMDYDGLKEMGSGLGTAAVI--VMDRSTDIIKAIWRLSVFYKHESCGQ 347
AG G +Y L + + +++ V R + A+ R + +
Sbjct: 1759 F----AGHSLG---EYAALASLADVMSIESLVEVVFYRGMTMQVAVPRDELGRSNYGMIA 1811
Query: 348 CTPCREGTGWMMRVMERLVKGIAQKREIDLLYEVSKNIEGRTICALGDAAAWPIQGLIKN 407
P R + ++ +V+ + KR L+ V+ N+E + A GD A + N
Sbjct: 1812 INPGRVAASFSQEALQYVVERVG-KRTGWLVEIVNYNVENQQYVAAGDLRALDTVTNVLN 1870
Query: 408 FRPLIEERID 417
F L ++ID
Sbjct: 1871 FIKL--QKID 1878
>2pff_A Fatty acid synthase subunit alpha, 3-oxoacyl-[acyl-carrier-; fatty
acid synthase, acyl-carrier-protein, beta-ketoacyl
reductase, beta-ketoacyl synthase, dehydratase; 4.00A
{Saccharomyces cerevisiae}
Length = 1688
Score = 29.4 bits (65), Expect = 1.7
Identities = 14/39 (35%), Positives = 21/39 (53%), Gaps = 4/39 (10%)
Query: 30 DNVDKILEKGRDWII---NEVKASGLRGRGGAGFSTGMK 65
DNVDKILE+ ++++ +K G+R F G K
Sbjct: 1413 DNVDKILEQ-FEYVLYPSKTLKTDGVRAVSITSFGFGQK 1450
>1zx5_A Mannosephosphate isomerase, putative; structural genomics, PSI,
protein structure initiative, midwest center for
structural genomics, MCSG; HET: LFR; 2.30A
{Archaeoglobus fulgidus} SCOP: b.82.1.3
Length = 300
Score = 28.5 bits (63), Expect = 3.1
Identities = 11/46 (23%), Positives = 18/46 (39%), Gaps = 1/46 (2%)
Query: 231 FGRENNRGTKLFSISGHVNYPCTVEES-MSITFDELIEKHCGGIRG 275
G + + + S H + P TV ++ EL KH + G
Sbjct: 29 KGFRQSGIGESWEFSAHTSRPSTVLVKGQQLSMIELFSKHRDELLG 74
>1zb7_A Neurotoxin; hexxh metalloprotease; HET: FLC; 2.35A {Clostridium
botulinum}
Length = 455
Score = 27.1 bits (60), Expect = 7.0
Identities = 7/45 (15%), Positives = 12/45 (26%), Gaps = 6/45 (13%)
Query: 317 TAAVIVMDRSTDIIKAIWRLSVFYKHESCGQCTPCREGTGWMMRV 361
+I+ + + H P EG G M +
Sbjct: 155 MTNLIIFGPGPVLSDNFTDSMIMNGHS------PISEGFGARMMI 193
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
0.321 0.139 0.437
Gapped
Lambda K H
0.267 0.0593 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 24244
Number of Hits to DB: 3,913,135
Number of extensions: 187992
Number of successful extensions: 465
Number of sequences better than 10.0: 1
Number of HSP's gapped: 457
Number of HSP's successfully gapped: 9
Length of query: 425
Length of database: 5,693,230
Length adjustment: 95
Effective length of query: 330
Effective length of database: 3,390,050
Effective search space: 1118716500
Effective search space used: 1118716500
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 58 (26.4 bits)