RPS-BLAST 2.2.22 [Sep-27-2009]
Database: pdb70
24,244 sequences; 5,693,230 total letters
Searching..................................................done
Query= gi|254780528|ref|YP_003064941.1| chemotaxis protein [Candidatus
Liberibacter asiaticus str. psy62]
(396 letters)
>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 = 61.1 bits (148), Expect = 4e-10
Identities = 90/494 (18%), Positives = 152/494 (30%), Gaps = 204/494 (41%)
Query: 17 FFSFATDQDLVRTIVPYQCVRSLQRALDEA----MRG-DI-SLQKKIPDIVKETGVQ--- 67
F + + + + V L L E + G DI +L K+ T V+
Sbjct: 64 FLGYVSSLVEPSKVGQFDQV--LNLCLTEFENCYLEGNDIHALAAKLLQENDTTLVKTKE 121
Query: 68 -LRATHMDVFVDNRNI--------------DAVWIYTIIS-QDLSVVDDLIAKDTKGYFD 111
++ + R + I Q +T YF+
Sbjct: 122 LIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQG----------NTDDYFE 171
Query: 112 -IAIVYALKKYFSGQL-EESSKELSKI-KDKDN-----TRGI-----------VP---YL 149
+ +Y G L + S++ LS++ + + T+G+ P YL
Sbjct: 172 ELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPDKDYL 231
Query: 150 HL-------LIGRAMMPFSSQQAVHFFDYV--RLT--SPGTFLEEIALRNLLE-IT---Q 194
L LIG Q H+ V +L +PG R+ L+ T Q
Sbjct: 232 -LSIPISCPLIGVI-------QLAHY--VVTAKLLGFTPGEL------RSYLKGATGHSQ 275
Query: 195 NEVGERAFGYIRAYVT-------QFHHSIYKDHFISVLLRFF--LHGQLKLPDEDIVFTI 245
G + A F S+ K I+VL FF + P+ + +I
Sbjct: 276 --------GLVTAVAIAETDSWESFFVSVRKA--ITVL--FFIGVRCYEAYPNTSLPPSI 323
Query: 246 SFFSLE--EQRAIY-LKIAQNSVISGKRKIGFLAIKQLKRIIDRL-----DYKDLATIQL 297
SLE E L S+ S L +Q++ +++ K + I L
Sbjct: 324 LEDSLENNEGVPSPML-----SI-SN------LTQEQVQDYVNKTNSHLPAGKQVE-ISL 370
Query: 298 ---YENI-----------LN----------------IPFVDIMSLQR-----------ST 316
+N+ LN IPF S +R ++
Sbjct: 371 VNGAKNLVVSGPPQSLYGLNLTLRKAKAPSGLDQSRIPF----S-ERKLKFSNRFLPVAS 425
Query: 317 CNIPYYSLMEQDRYLKKASEIIMSEIGKSLIDIDFEHIQKDLLLDKKEP-RHTNVSMGIE 375
P++S L AS++I ++ K+ + + KD+ + P T G
Sbjct: 426 ---PFHS-----HLLVPASDLINKDLVKNNVSFN----AKDIQI----PVYDTFD--G-- 465
Query: 376 SFIKKN-RSQIESI 388
+ R SI
Sbjct: 466 ----SDLRVLSGSI 475
Score = 41.1 bits (96), Expect = 5e-04
Identities = 63/303 (20%), Positives = 110/303 (36%), Gaps = 98/303 (32%)
Query: 67 QLRATHMDVFVDNRNIDAVWIYTIISQDLSVVDDLIAKDTKGY--FDIAI--VYALKKYF 122
Q + MD++ ++ VW + D+ KDT G+ DI I L +F
Sbjct: 1627 QEQGMGMDLYKTSKAAQDVW---------NRADNHF-KDTYGFSILDIVINNPVNLTIHF 1676
Query: 123 SGQLEESSKE------LSKIKD-KDNTRGIVPYL--HLLIGRAMMPFSSQQAVHFFDYVR 173
G+ + +E I D K T I + H F S++ + +
Sbjct: 1677 GGEKGKRIRENYSAMIFETIVDGKLKTEKIFKEINEH----STSYTFRSEKGL--LSATQ 1730
Query: 174 LTSPG-TFLEEIALRNLLEITQNEVGERAFGYIRAYVTQFHHSI--YK-----------D 219
T P T +E+ A +L ++ G I A T HS+ Y +
Sbjct: 1731 FTQPALTLMEKAAFEDL----------KSKGLIPADATFAGHSLGEYAALASLADVMSIE 1780
Query: 220 HFISVLLRFFLHG---QLKLPDEDIVFTISFFSLEEQRAIYLKIAQNSVISGKRKIGFLA 276
+ V+ F G Q+ +P +++ R+ Y IA N G+ F +
Sbjct: 1781 SLVEVV---FYRGMTMQVAVPRDEL-----------GRSNYGMIAINP---GRVAASF-S 1822
Query: 277 IKQLKRIIDRL-----------DYK----------DLATIQLYENILN---IPFVDIMSL 312
+ L+ +++R+ +Y DL + N+LN + +DI+ L
Sbjct: 1823 QEALQYVVERVGKRTGWLVEIVNYNVENQQYVAAGDLRALDTVTNVLNFIKLQKIDIIEL 1882
Query: 313 QRS 315
Q+S
Sbjct: 1883 QKS 1885
Score = 40.3 bits (94), Expect = 8e-04
Identities = 57/318 (17%), Positives = 93/318 (29%), Gaps = 98/318 (30%)
Query: 118 LKKYFSGQLEESSKELSKIKDKDNTRGIVPYLHLL---IGRAMMPFSSQQAVHFFDYVRL 174
L++ F+ L E ++ + D+ L+ +G + F + L
Sbjct: 33 LQEQFNKILPEPTEGFA----ADDEPTTP--AELVGKFLGYVSSLVEPSKVGQFDQVLNL 86
Query: 175 -----TSPGTFL--EEI--ALRNLLEITQNEVGERAFGYIRAYVTQFH---HSIYKDHFI 222
+ +L +I LL+ + + I+ Y+T K
Sbjct: 87 CLTEFEN--CYLEGNDIHALAAKLLQENDTTLVKTKE-LIKNYITARIMAKRPFDKKS-N 142
Query: 223 SVLLRFFLHGQLKLPDEDIVFTI--------SFFSLEEQRAIYLKIAQNSVISGKRKIGF 274
S L R G +L I +F EE R +Y +
Sbjct: 143 SALFRAVGEGNAQL------VAIFGGQGNTDDYF--EELRDLY-QTYH----------VL 183
Query: 275 LA--IKQLKRIIDRLDYKDLATIQLYENILNIPFVDIMS-LQRSTCNIPYYSLMEQDRYL 331
+ IK + L L +++ L +I+ L+ + N P ++D YL
Sbjct: 184 VGDLIKFSAETLSELIRTTLDAEKVFTQGL-----NILEWLENPS-NTP-----DKD-YL 231
Query: 332 KKASEIIMSEIGKSLIDIDFEH---IQKDLLLDKKEPR--------HTNVSMGI------ 374
I IG + I H K L E R H S G+
Sbjct: 232 LSIP-ISCPLIG--V--IQLAHYVVTAKLLGFTPGELRSYLKGATGH---SQGLVTAVAI 283
Query: 375 ------ESFIKKNRSQIE 386
ESF R I
Sbjct: 284 AETDSWESFFVSVRKAIT 301
Score = 31.5 bits (71), Expect = 0.39
Identities = 21/160 (13%), Positives = 41/160 (25%), Gaps = 49/160 (30%)
Query: 212 FHHSIYKDHFISVLLRFFLHGQLKLPDEDIVFTISFFSLEEQRAIYLKIAQNSVISGKRK 271
F S ++ F L P E + E +L
Sbjct: 28 FIASQLQEQFNK---------ILPEPTEGFAADDEPTTPAELVGKFL------------- 65
Query: 272 IGFLAIKQLKRIIDRLDYKDLA-TIQLYENILNIPFV-------DIMSLQRSTCNIPYYS 323
G+++ ++ + Q+ L F DI +L +
Sbjct: 66 -GYVS--------SLVEPSKVGQFDQVLNLCLTE-FENCYLEGNDIHALAAKLLQENDTT 115
Query: 324 LMEQDRYLK---KASEIIMSEIGK---SLIDIDFEHIQKD 357
L++ +K A + K S + F + +
Sbjct: 116 LVKTKELIKNYITARIMAKRPFDKKSNSAL---FRAVGEG 152
>3i9x_A MUTT/nudix family protein; structural genomics, hydrolase, PSI-2,
protein structure initiative; 2.20A {Listeria innocua}
Length = 187
Score = 32.8 bits (74), Expect = 0.14
Identities = 17/108 (15%), Positives = 30/108 (27%), Gaps = 11/108 (10%)
Query: 151 LLIGRAMMPFSSQQAVHFFDYVRLTSPGTF------LEEIALRNLLEITQNEVGERAFGY 204
LLI R++ + + + PG F E+ A R L E T
Sbjct: 49 LLIKRSLTNA---EGKPNMEGGKWAVPGGFVDENESAEQAAERELEEETSLTDIPLIPFG 105
Query: 205 IRAYVTQFHHSIYKDHFISVLLRFFLHGQLKLPDEDIVFTISFFSLEE 252
+ + ++ + D+ I F + E
Sbjct: 106 VFDKPGRDPRGWIISRAFYAIVPPEALEKRAAGDD--AAEIGLFPMTE 151
>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 = 30.4 bits (67), Expect = 0.74
Identities = 11/51 (21%), Positives = 22/51 (43%), Gaps = 24/51 (47%)
Query: 276 AIKQLKRIIDRLDYKDLATIQLYENILNIPFVDIMSLQRSTCNIPYYSLME 326
A+K+L+ A+++LY + + P + I ++T ME
Sbjct: 21 ALKKLQ-----------ASLKLYADD-SAPALAI----KAT--------ME 47
Score = 29.6 bits (65), Expect = 1.4
Identities = 10/46 (21%), Positives = 17/46 (36%), Gaps = 23/46 (50%)
Query: 34 QCVRSLQRAL-----DEAMRGDISLQKKIPDIVKETGVQLRATHMD 74
Q ++ LQ +L D A P + ++AT M+
Sbjct: 20 QALKKLQASLKLYADDSA-----------P------ALAIKAT-ME 47
>3p1u_A SUSD homolog; structural genomics, joint center for structural
genomics, J protein structure initiative, PSI; 2.05A
{Parabacteroides distasonis atcc 8503}
Length = 529
Score = 30.4 bits (67), Expect = 0.76
Identities = 18/97 (18%), Positives = 31/97 (31%), Gaps = 16/97 (16%)
Query: 76 FVDNRNIDAVW--IYTIISQDLSVVDDLIAKDTKGYFD-IAIVYALKKYFSGQLEESSKE 132
D+ + VW I+ V+ L KD Y + IA + Y
Sbjct: 63 IQDDEWNNLVWEEYLKQIASINIVIRSLTEKDKDAYANTIAFARIWRVYVHTLAA----- 117
Query: 133 LSKIKDKDNTRGIVPYLHLLIGRAMMPFSSQQAVHFF 169
+ G +P+ I A P+ S + ++
Sbjct: 118 --------DKFGPMPFPAYEIVEANPPYKSLKDIYDE 146
>1vk6_A NADH pyrophosphatase; 1790429, structural genomics, JCSG, PSI,
protein structure initiative, joint center for
structural genomics; HET: MSE; 2.20A {Escherichia coli
K12} SCOP: d.113.1.4 d.113.1.4 g.41.14.1 PDB: 2gb5_A
Length = 269
Score = 29.3 bits (65), Expect = 1.4
Identities = 10/104 (9%), Positives = 31/104 (29%), Gaps = 14/104 (13%)
Query: 150 HLLIGRAMMPFSSQQAVHFFDYVRLTSPGTFLEEIALRNLLEITQNEVGERAFGYIRAYV 209
+L+ + + V G LE+ R EV E + ++
Sbjct: 152 SILLAQHTRHRNGVHTVL----AGFVEVGETLEQAVAR--------EVMEESGIKVKNLR 199
Query: 210 TQFHHSIYKDHFISVLLR-FFLHGQLKLPDEDIVFTISFFSLEE 252
+ + G + + ++++ +++ ++
Sbjct: 200 YVTSQPWPFPQSLMTAFMAEYDSGDIVIDPKELL-EANWYRYDD 242
>2e58_A MNMC2; tRNA wobble uridine, modification enzyme, genetic CODE, 5-
methylaminomethyl-2-thiouridine, methyltransferase,
2-codon SETS; HET: SAM; 2.50A {Aquifex aeolicus VF5}
Length = 308
Score = 28.4 bits (63), Expect = 2.7
Identities = 11/45 (24%), Positives = 21/45 (46%)
Query: 325 MEQDRYLKKASEIIMSEIGKSLIDIDFEHIQKDLLLDKKEPRHTN 369
M+++ YLK E + + SL + +F I ++ L P +
Sbjct: 1 MKREEYLKNYLESYLRKKEVSLTEEEFNVILREFLRFAYNPEESG 45
>1h16_A Formate acetyltransferase 1; lyase, glycyl radical enzyme,
acyltransferase, acetylation; HET: COA PG4; 1.53A
{Escherichia coli} SCOP: c.7.1.1 PDB: 1h17_A* 1h18_A*
1mzo_A* 2pfl_A 3pfl_A 1cm5_A 1qhm_A
Length = 759
Score = 27.9 bits (62), Expect = 4.0
Identities = 10/56 (17%), Positives = 27/56 (48%), Gaps = 8/56 (14%)
Query: 22 TDQDLVRTIVPYQCVRSLQRALDEAMRGDISLQKKIPDIVKETGVQLRATHMD-VF 76
T+ L R ++P+ ++ ++ + + +++ ++K+ + R TH VF
Sbjct: 101 TEAPLKRALIPFGGIKMIEGSCK-------AYNRELDPMIKKIFTEYRKTHNQGVF 149
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
0.325 0.140 0.392
Gapped
Lambda K H
0.267 0.0420 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 24244
Number of Hits to DB: 3,434,542
Number of extensions: 167047
Number of successful extensions: 582
Number of sequences better than 10.0: 1
Number of HSP's gapped: 580
Number of HSP's successfully gapped: 18
Length of query: 396
Length of database: 5,693,230
Length adjustment: 94
Effective length of query: 302
Effective length of database: 3,414,294
Effective search space: 1031116788
Effective search space used: 1031116788
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: 58 (26.9 bits)