RPS-BLAST 2.2.22 [Sep-27-2009]
Database: pdb70
24,244 sequences; 5,693,230 total letters
Searching..................................................done
Query= gi|254780396|ref|YP_003064809.1| peptidyl-prolyl cis-trans
isomerase protein [Candidatus Liberibacter asiaticus str. psy62]
(317 letters)
>1m5y_A SurviVal protein, surviVal protein SURA; surviVal protein A,
periplasmic molecular chaperone, membrane protein
folding, GRAM negative bacteria; 3.00A {Escherichia
coli} SCOP: a.223.1.2 d.26.1.1 d.26.1.1 PDB: 2pv3_A
Length = 408
Score = 69.0 bits (167), Expect = 1e-12
Identities = 41/288 (14%), Positives = 91/288 (31%), Gaps = 12/288 (4%)
Query: 41 RIRTTINGEVITDGDISKRIALLKLQKING--------ELEKIAVQELIVETLKKQEIEK 92
++ +N V+ + D+ + +KL L ++ LI++ + Q +K
Sbjct: 7 KVAAVVNNGVVLESDVDGLMQSVKLNAAQARQQLPDDATLRHQIMERLIMDQIILQMGQK 66
Query: 93 SGITFDSNTVNYFFVQHARNTGLSAEDFSSFLDKQGIGDNHFKQYLAIQSIWPDVVKNDF 152
G+ ++ A+ ++ + S L G+ N ++ + + I +V N+
Sbjct: 67 MGVKISDEQLDQAIANIAKQNNMTLDQMRSRLAYDGLNYNTYRNQIRKEMIISEVRNNEV 126
Query: 153 MLKYGNLEMEIPA--NKQKMKNITVREYLIRTVLFSIPDNKLQNQGFVQKRIKDAEESRL 210
+ L E+ + + +N E + +L +P+N +Q + A +
Sbjct: 127 RRRITILPQEVESLAQQVGNQNDASTELNLSHILIPLPENPTSDQVNEAESQARAIVDQA 186
Query: 211 RLPKDCNKLEKFASKIHDVSIGKAQYLLESDLHPQFQNLLKKS--QNNTTNPYVTQKGVE 268
R D KL S G P + + + P + G
Sbjct: 187 RNGADFGKLAIAHSADQQALNGGQMGWGRIQELPGIFAQALSTAKKGDIVGPIRSGVGFH 246
Query: 269 YIAICDKRDLGGEIALKAYLSAQNTPTKIEKHEAEYVKKLRSNAIIHY 316
+ + D R I++ + E +
Sbjct: 247 ILKVNDLRGESKNISVTEVHARHILLKPSPIMTDEQARVKLEQIAADI 294
Score = 34.7 bits (78), Expect = 0.028
Identities = 34/241 (14%), Positives = 77/241 (31%), Gaps = 14/241 (5%)
Query: 78 QELIVETLKKQEIEKSGITFDSNTVNYFFVQHARNTGLSAEDFSSFLDKQGIGDNHFKQY 137
E + + ++G F + + Q A N G + I +
Sbjct: 173 NEAESQARAIVDQARNGADFGKLAIAHSADQQALNGG--------QMGWGRIQELPGIFA 224
Query: 138 LAIQSIWPDVVKNDFMLKYGNLEMEIPANKQKMKNITVREYLIRTVLFSIPDNKLQNQGF 197
A+ + + G +++ + + KNI+V E R +L + + +
Sbjct: 225 QALSTAKKGDIVGPIRSGVGFHILKVNDLRGESKNISVTEVHARHIL--LKPSPIMTDEQ 282
Query: 198 VQKRIKDAEESRLRLPKDCNKLEKFAS--KIHDVSIGKAQYLLESDLHPQFQNLLKKSQN 255
+ +++ K S G + P F++ L +
Sbjct: 283 ARVKLEQIAADIKSGKTTFAAAAKEFSQDPGSANQGGDLGWATPDIFDPAFRDALTRLNK 342
Query: 256 N-TTNPYVTQKGVEYIAICDKRDLG-GEIALKAYLSAQNTPTKIEKHEAEYVKKLRSNAI 313
+ P + G I + D R++ + A K K + A ++++ R++A
Sbjct: 343 GQMSAPVHSSFGWHLIELLDTRNVDKTDAAQKDRAYRMLMNRKFSEEAASWMQEQRASAY 402
Query: 314 I 314
+
Sbjct: 403 V 403
>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 = 43.4 bits (102), Expect = 7e-05
Identities = 44/281 (15%), Positives = 80/281 (28%), Gaps = 102/281 (36%)
Query: 53 DGDISKRIALLKLQKINGELEK-------I--AVQELIVET----LKKQEIEKSGITFDS 99
+ + +L L E E I +L+ E +K +E+ K
Sbjct: 74 PSKVGQFDQVLNL--CLTEFENCYLEGNDIHALAAKLLQENDTTLVKTKELIK------- 124
Query: 100 NTVNYFFVQHARNTGLSAEDFSSFLDK--------------QGIGDNHFKQYLAIQSIWP 145
NY + + S+ QG D++F++ + +
Sbjct: 125 ---NYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDYFEELRDLYQTYH 181
Query: 146 DVVKNDFMLKYGNLEMEIPANKQKMKNITVREYLIRTVLFSIPDN--KLQNQGF-VQKRI 202
+V D + L L + K+ QG + + +
Sbjct: 182 VLVG-DLIKFSAET-------------------LSE--LIRTTLDAEKVFTQGLNILEWL 219
Query: 203 KDAEESRLRLPKDCNKLEKFASKIHDVS---IGK---AQYLLE---SDLHP-QFQNLLK- 251
++ + P D + L S +S IG A Y++ P + ++ LK
Sbjct: 220 ENP-SNT---P-DKDYL---LSI--PISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKG 269
Query: 252 ---KSQNNTTNPYVTQKGV---EYIAICDKRDLGGEIALKA 286
SQ G+ IA D + KA
Sbjct: 270 ATGHSQ-----------GLVTAVAIAETDSWESFFVSVRKA 299
Score = 39.2 bits (91), Expect = 0.001
Identities = 44/187 (23%), Positives = 68/187 (36%), Gaps = 63/187 (33%)
Query: 126 KQGIGDNHFKQYLAIQSIWPDVVKNDFMLKYGNLEMEI----PAN------KQKMKNITV 175
+QG+G + +K A Q +W + N F YG ++I P N +K K I
Sbjct: 1628 EQGMGMDLYKTSKAAQDVW-NRADNHFKDTYGFSILDIVINNPVNLTIHFGGEKGKRI-- 1684
Query: 176 REYLIRTVLFSIPDNKLQNQGFVQKRIKDAEESRLRLPKDCNKLEKFASKIHDVSIGKAQ 235
RE + +I D KL+ + ++ K+ N+ H S
Sbjct: 1685 RENYSAMIFETIVDGKLKTE---------------KIFKEINE--------HSTS----- 1716
Query: 236 YLLESDLHPQFQNLLKKSQNNTTNPYVTQKGVEYIAICDKRDLG-------------GEI 282
Y S+ + LL +Q T P +T +E A D + G GE
Sbjct: 1717 YTFRSE-----KGLLSATQ--FTQPALTL--MEKAAFEDLKSKGLIPADATFAGHSLGEY 1767
Query: 283 ALKAYLS 289
A A L+
Sbjct: 1768 AALASLA 1774
Score = 37.6 bits (87), Expect = 0.004
Identities = 26/176 (14%), Positives = 51/176 (28%), Gaps = 67/176 (38%)
Query: 152 FMLKYGNLEMEIPANKQKMKNITVREYLIRTVLFSIPDNKLQNQGFVQKRIKDAEESRLR 211
L +G+LE + +P F+ ++++ L
Sbjct: 9 LTLSHGSLE----------------------HVLLVPT----ASFFIASQLQEQFNKILP 42
Query: 212 LPKDCNKL-EKFASKIHDVSIGKAQYL------LESDLHPQFQNLLKKSQNNTTNPYVTQ 264
P + ++ + V ++L +E QF +L +
Sbjct: 43 EPTEGFAADDEPTTPAELV----GKFLGYVSSLVEPSKVGQFDQVLN----------LCL 88
Query: 265 KGVEYIAICDKRD-LGG-EI-ALKAYLSAQNTPTKIEKHEAEYVKKLRSNAIIHYY 317
E L G +I AL A L +N T ++ E +++ Y
Sbjct: 89 TEFE-------NCYLEGNDIHALAAKLLQENDTTLVKTKEL-----IKN-----YI 127
Score = 31.5 bits (71), Expect = 0.30
Identities = 30/162 (18%), Positives = 54/162 (33%), Gaps = 55/162 (33%)
Query: 69 NGE-----------LEKIAVQELIVET---L-KKQEIEKSGITFDSNTVN-------YFF 106
N E L + VQ+ + +T L +++E S + N V Y
Sbjct: 330 NNEGVPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLYGL 389
Query: 107 VQHARNTGLSAE-D-----FSS--------FLDKQGIGDN-HFKQYL--AIQSIWPDVVK 149
R + D FS FL + H L A I D+VK
Sbjct: 390 NLTLRKAKAPSGLDQSRIPFSERKLKFSNRFLP---VASPFH-SHLLVPASDLINKDLVK 445
Query: 150 NDFMLKYGNLEMEIP-------ANKQKMK-NITVREYLIRTV 183
N+ ++ +IP ++ + + +I+ R ++ +
Sbjct: 446 NNVSFNAKDI--QIPVYDTFDGSDLRVLSGSISER--IVDCI 483
Score = 27.6 bits (61), Expect = 3.4
Identities = 22/116 (18%), Positives = 49/116 (42%), Gaps = 18/116 (15%)
Query: 8 SLSDFIKLLTTYFVLIIFCIVPIVSYKSWAMSSRI------RTTINGEVITDGDISKRIA 61
SL ++ L + V+ I +V +V Y+ M + R+ I G ++ +
Sbjct: 1763 SLGEYAALASLADVMSIESLVEVVFYRGMTMQVAVPRDELGRSNYGMIAINPGRVAASFS 1822
Query: 62 LLKLQKINGELEKIAVQ-----ELIVETLKKQEIEKSG--ITFD--SNTVNYFFVQ 108
LQ + +E++ + E++ ++ Q+ +G D +N +N+ +Q
Sbjct: 1823 QEALQYV---VERVGKRTGWLVEIVNYNVENQQYVAAGDLRALDTVTNVLNFIKLQ 1875
>2acx_A G protein-coupled receptor kinase 6; GRK, GRK6, transferase; HET:
ANP; 2.60A {Homo sapiens}
Length = 576
Score = 31.5 bits (71), Expect = 0.27
Identities = 35/214 (16%), Positives = 70/214 (32%), Gaps = 30/214 (14%)
Query: 119 DFSSFLDKQGIGDNHFKQYLAIQSIWPDVVKNDFMLKYGNLEMEIPAN-KQKMKNITVRE 177
D+ S ++ IG F+++ A + F+ E+ K +N+ +
Sbjct: 52 DYHSLCERNPIGRLLFREFCATRP--ELSRCVAFLDGVAEYEVTPDDKRKACGRNL-TQN 108
Query: 178 YLIRTVLFS---IPDNKLQNQGFVQKRIKDAEESRLRLPKDCNKLEKFASKIHDVSIGKA 234
+L T +P + N +R++ KD + + + +S+
Sbjct: 109 FLSHTGPDLIPEVPRQLVTN---CTQRLEQG------PCKDLFQELTRLTHEY-LSVAPF 158
Query: 235 QYLLESDLHPQF-QNLLKKSQNNTTNPYVTQK-------GVEYIAICDKRDLGGEIALKA 286
L+S +F Q + Q T N + + G R G A K
Sbjct: 159 ADYLDSIYFNRFLQWKWLERQPVTKNTFRQYRVLGKGGFGEVCACQV--RATGKMYACKK 216
Query: 287 YLSAQNTPTKIEKH---EAEYVKKLRSNAIIHYY 317
+ K E E + ++K+ S ++
Sbjct: 217 LEKKRIKKRKGEAMALNEKQILEKVNSRFVVSLA 250
>3ljc_A ATP-dependent protease LA; LON N-domain, allosteric enzyme,
ATP-binding, DNA-binding, H nucleotide-binding, serine
protease, stress respo; 2.60A {Escherichia coli}
Length = 252
Score = 27.7 bits (61), Expect = 3.8
Identities = 14/58 (24%), Positives = 30/58 (51%), Gaps = 2/58 (3%)
Query: 36 WAMSSRIRTTINGEVITDGDISKRIALLKLQKINGELEKIAVQELIVETLKKQEIEKS 93
A ++ V+ D+++R+ L + + E++ + V++ I +KKQ +EKS
Sbjct: 176 IAAHMPLKLADKQSVLEMSDVNERLEYL-MAMMESEIDLLQVEKRIRNRVKKQ-MEKS 231
>1ttw_B YSCM2; chaperone, type III secretion; 2.38A {Yersinia pestis CO92}
Length = 56
Score = 27.5 bits (60), Expect = 4.4
Identities = 12/39 (30%), Positives = 21/39 (53%)
Query: 88 QEIEKSGITFDSNTVNYFFVQHARNTGLSAEDFSSFLDK 126
Q++ IT D Y ++HA+NT L+ +D + L +
Sbjct: 4 QQVSTQAITSDERRFAYAVLEHAKNTILNRQDVAKLLPR 42
>3c4z_A Rhodopsin kinase; Ser/Thr kinase, RGS homology domain, G protein
coupled receptor kinase, GRK, GRK1, P-loop,
autophosphorylation, ADP, ATP-binding; HET: ADP; 1.84A
{Bos taurus} PDB: 3c4x_A* 3c4y_A 3c4w_A* 3c50_A* 3c51_A*
2i94_B
Length = 543
Score = 27.3 bits (60), Expect = 4.8
Identities = 31/212 (14%), Positives = 61/212 (28%), Gaps = 28/212 (13%)
Query: 118 EDFSSFLDKQGIGDNHFKQYLAI-QSIWPDVVKNDFMLKYGNLEMEIPANKQKMKNITVR 176
F +Q IG F+Q+L + P + + Y + + K +
Sbjct: 56 LGFEGMCLEQPIGKRLFQQFLRTHEQHGPALQLWKDIEDYDTADDALRPQKAQALRAAYL 115
Query: 177 EYLIRTVLFSIPDNKLQNQGFVQKRIKDAEESRLRLPKDCNKLEKFASKIHDVSIGKAQY 236
E P +L + + A + A H + Q
Sbjct: 116 E----------PQAQLFCSFLDAETVARARAG---AGDGLFQPLLRAVLAH-LGQAPFQE 161
Query: 237 LLESDLHPQF-QNLLKKSQNNTTNPYVTQK-------GVEYIAICDKRDLGGEIALKAYL 288
L+S +F Q ++Q + ++ + G + + G A K
Sbjct: 162 FLDSLYFLRFLQWKWLEAQPMGEDWFLDFRVLGRGGFGEVFACQM--KATGKLYACKKLN 219
Query: 289 SAQNTPTKIEKH---EAEYVKKLRSNAIIHYY 317
+ K + E + + K+ S I+
Sbjct: 220 KKRLKKRKGYQGAMVEKKILAKVHSRFIVSLA 251
>3fho_A ATP-dependent RNA helicase DBP5; mRNA export, ATPase, translation
termination, ATP-binding, cytoplasm, hydrolase,
membrane; 2.80A {Schizosaccharomyces pombe}
Length = 508
Score = 27.0 bits (59), Expect = 5.1
Identities = 18/82 (21%), Positives = 37/82 (45%), Gaps = 22/82 (26%)
Query: 64 KLQKINGELEKIAVQELIVETLKKQEIEKSGITFDSNTVNYFFVQHARNTGLSAEDFSSF 123
K KI+ ++ I +++ +K++++ D+ + F + A N
Sbjct: 230 KGAKIDAQI-VIGTPGTVMDLMKRRQL-------DARDIKVFVLDEADN----------M 271
Query: 124 LDKQGIGDNHFKQYLAIQSIWP 145
LD+QG+GD Q + I+ + P
Sbjct: 272 LDQQGLGD----QSMRIKHLLP 289
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 27.2 bits (59), Expect = 5.2
Identities = 15/47 (31%), Positives = 22/47 (46%), Gaps = 5/47 (10%)
Query: 190 NKLQNQGFVQKRIKDAEESRLRLPKDCNKLEKFASKIHDVSIGKAQY 236
+K+ Q + +K KD EE R + K K ++I D KA Y
Sbjct: 105 SKVMEQEWREKAKKDLEEWNQRQSEQVEK-NKINNRIAD----KAFY 146
>2p67_A LAO/AO transport system kinase; ARGK, structural genomics, PSI-2,
protein structure initiative; 1.80A {Escherichia coli
K12} SCOP: c.37.1.10
Length = 341
Score = 26.8 bits (58), Expect = 7.7
Identities = 7/56 (12%), Positives = 16/56 (28%), Gaps = 1/56 (1%)
Query: 33 YKSWAMSSRIRTTINGEVITDGDISKRIALLKLQKINGELEKIAVQELIVETLKKQ 88
W + + + + + D + L N L + E ++ Q
Sbjct: 276 SVEW-LRKQTEEEVLNHLFANEDFDRYYRQTLLAVKNNTLSPRTGLRQLSEFIQTQ 330
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
0.318 0.135 0.377
Gapped
Lambda K H
0.267 0.0547 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 24244
Number of Hits to DB: 2,619,332
Number of extensions: 118635
Number of successful extensions: 404
Number of sequences better than 10.0: 1
Number of HSP's gapped: 399
Number of HSP's successfully gapped: 22
Length of query: 317
Length of database: 5,693,230
Length adjustment: 92
Effective length of query: 225
Effective length of database: 3,462,782
Effective search space: 779125950
Effective search space used: 779125950
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 57 (26.1 bits)