RPS-BLAST 2.2.22 [Sep-27-2009]
Database: pdb70
24,244 sequences; 5,693,230 total letters
Searching..................................................done
Query= gi|254780124|ref|YP_003064537.1| hypothetical protein
CLIBASIA_00015 [Candidatus Liberibacter asiaticus str. psy62]
(388 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 = 44.2 bits (104), Expect = 5e-05
Identities = 25/116 (21%), Positives = 38/116 (32%), Gaps = 44/116 (37%)
Query: 243 HVLLEATKDPSTNTTVELSKAYSSISLIKSYVKACEDEMFKRLNAGDEIQGYQLVEGRKG 302
H L A +TT+ +K LIK+Y+ A A K
Sbjct: 102 HALA-AKLLQENDTTLVKTK-----ELIKNYITARI-------MAKRPF--------DKK 140
Query: 303 NRSFKDINRAQELLTSVLGEEAFKRILKTPKELEQLYK---EQKVSDEFWEELQEL 355
+ S L +V A QL Q +D+++EEL++L
Sbjct: 141 SNS--------ALFRAVGEGNA------------QLVAIFGGQGNTDDYFEELRDL 176
>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 = 38.4 bits (88), Expect = 0.002
Identities = 13/39 (33%), Positives = 18/39 (46%), Gaps = 12/39 (30%)
Query: 209 SLKSKRAVSLEHYGVNDDSCRFCRAKVRCPALSRHVLLE 247
+LK +A SL+ Y DDS PAL+ +E
Sbjct: 21 ALKKLQA-SLKLYA--DDSA---------PALAIKATME 47
>1x1q_A Tryptophan synthase beta chain; structural genomics, riken
structural genomics/proteomics initiative, RSGI, NPPSFA;
2.50A {Thermus thermophilus HB8}
Length = 418
Score = 32.9 bits (74), Expect = 0.12
Identities = 12/31 (38%), Positives = 17/31 (54%)
Query: 333 KELEQLYKEQKVSDEFWEELQELITRGDGKP 363
+ELE Y+E K F EEL + + G+P
Sbjct: 47 EELEAAYREAKKDPAFLEELDHYLRQFAGRP 77
>2o2e_A Tryptophan synthase beta chain; amino-acid biosynthesis, tryptophan
biosynthesis, structural genomics; 2.20A {Mycobacterium
tuberculosis} PDB: 2o2j_A
Length = 422
Score = 32.5 bits (73), Expect = 0.18
Identities = 9/31 (29%), Positives = 19/31 (61%)
Query: 333 KELEQLYKEQKVSDEFWEELQELITRGDGKP 363
+E+ Y++++VS +F ++L L G+P
Sbjct: 51 EEVTAAYQKERVSQDFLDDLDRLQANYAGRP 81
>3lij_A Calcium/calmodulin dependent protein kinase with A kinase domain
and 4 calmodulin...; transferase, calcium dependent
protein kinase; HET: ANP; 1.90A {Cryptosporidium parvum}
PDB: 3hzt_A* 3dxn_A 3l19_A*
Length = 494
Score = 32.3 bits (73), Expect = 0.18
Identities = 9/48 (18%), Positives = 21/48 (43%), Gaps = 7/48 (14%)
Query: 322 EEAFKRILK------TPKELEQLYKEQKVSDEFWEE-LQELITRGDGK 362
E AF++ + + EL ++ + + W+E + + + DG
Sbjct: 429 ESAFQKFDQDGNGKISVDELASVFGLDHLESKTWKEMISGIDSNNDGD 476
>1v8z_A Tryptophan synthase beta chain 1; beta+alpha, riken structural
genomics/proteomics initiative, RSGI, structural
genomics, lyase; HET: PLP; 2.21A {Pyrococcus furiosus}
SCOP: c.79.1.1 PDB: 1wdw_B*
Length = 388
Score = 32.1 bits (72), Expect = 0.19
Identities = 14/37 (37%), Positives = 19/37 (51%), Gaps = 1/37 (2%)
Query: 328 ILKTP-KELEQLYKEQKVSDEFWEELQELITRGDGKP 363
L P KELE+ YK K +EF +L + G+P
Sbjct: 14 TLIEPLKELEKAYKRFKDDEEFNRQLNYYLKTWAGRP 50
>1qop_B Tryptophan synthase beta chain; lyase, carbon-oxygen lyase,
tryptophan biosynthesis, pyridoxal phosphate; HET: IPL
PLP; 1.4A {Salmonella typhimurium} SCOP: c.79.1.1 PDB:
1k7e_B* 1k7f_B* 1kfb_B* 1k3u_B* 1tjp_B* 1wbj_B* 2cli_B*
2clk_B* 2cll_B* 2j9x_B* 3cep_B* 1kfc_B* 1k8x_B* 1kfj_B*
1kfk_B* 2rh9_B* 2rhg_B* 2j9y_B* 1cw2_B* 1a5s_B* ...
Length = 396
Score = 32.0 bits (72), Expect = 0.22
Identities = 9/37 (24%), Positives = 17/37 (45%), Gaps = 1/37 (2%)
Query: 328 ILKTP-KELEQLYKEQKVSDEFWEELQELITRGDGKP 363
IL +LE+ + + EF + +L+ G+P
Sbjct: 19 ILMPALNQLEEAFVSAQKDPEFQAQFADLLKNYAGRP 55
>3h4r_A Exodeoxyribonuclease 8; exonuclease, recombination, hydrolase;
2.80A {Escherichia coli k-12}
Length = 265
Score = 31.9 bits (71), Expect = 0.25
Identities = 27/224 (12%), Positives = 54/224 (24%), Gaps = 31/224 (13%)
Query: 7 LSASSSHRWLKCPIAPTLE--SKIPQTTSIYASEGTFAHNLL------------AHCLEQ 52
+S S P + + T + GT H + A +
Sbjct: 13 ISKSQLDDIADTPALYLWRKNAPVDTTKTKTLDLGTAFHCRVLELEEFSNRFIVAPEFNR 72
Query: 53 GVDAETVSHQKLTFENDTRIVDTEMASSVSMVLAYVRT------FSGPFLSETEVPLEPF 106
+A + E + A + ++ S +
Sbjct: 73 RTNAGKEEEKAFLMECASTGKTVITAEEGRKIELMYQSVMALPLGQWLVESAGHAESSIY 132
Query: 107 TTEPGA----TGTADILIFNSTQWIIVDFKYGAGVPVKAENN----TQLMLYACGALHQY 158
+P D +I + V A + Q Y+ G Q+
Sbjct: 133 WEDPETGILCRCRPDKIIPEFHWIMDVKTTADIQRFKTAYYDYRYHVQDAFYSDGYEAQF 192
Query: 159 GDIFGRPEALTLTIIQPRVRTGSPINEWVISADDLLEKAKEFKE 202
G P + L P+ +++ + L +E+
Sbjct: 193 GVQ---PTFVFLVASTTIECGRYPVEIFMMGEEAKLAGQQEYHR 233
>3nyv_A Calmodulin-domain protein kinase 1; serine/threonine protein
kinase, transferase, calcium-bindin binding, EF hand,
bumped kinase inhibitor; HET: MSE DTQ; 1.88A {Toxoplasma
gondii} PDB: 3i79_A* 3i7b_A* 3n51_A* 3i7c_A* 3ku2_A*
3hx4_A*
Length = 484
Score = 30.6 bits (69), Expect = 0.60
Identities = 12/48 (25%), Positives = 19/48 (39%), Gaps = 7/48 (14%)
Query: 322 EEAFKRILK------TPKELEQLYKEQKVSDEFWEE-LQELITRGDGK 362
E AF+ + EL ++ V E W+ L E+ DG+
Sbjct: 421 ERAFRMFDSDNSGKISSTELATIFGVSDVDSETWKSVLSEVDKNNDGE 468
>3hx4_A Calmodulin-domain protein kinase 1; CDPKS, calcium, protist,
structural genomics, structural genomics consortium,
SGC, ATP-binding; HET: ANP; 1.95A {Toxoplasma gondii}
PDB: 3i79_A
Length = 508
Score = 29.6 bits (66), Expect = 1.4
Identities = 12/48 (25%), Positives = 19/48 (39%), Gaps = 7/48 (14%)
Query: 322 EEAFKRILK------TPKELEQLYKEQKVSDEFWEE-LQELITRGDGK 362
E AF+ + EL ++ V E W+ L E+ DG+
Sbjct: 445 ERAFRMFDSDNSGKISSTELATIFGVSDVDSETWKSVLSEVDKNNDGE 492
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 29.1 bits (64), Expect = 1.8
Identities = 14/68 (20%), Positives = 29/68 (42%), Gaps = 18/68 (26%)
Query: 327 RILKTPKELEQLYKEQKVSDEFWEELQELITRGDGKPVI--------APRDIPTNKQTQK 378
R+ + P+ + + +EQ+ + LQEL D + A +D+ Q Q
Sbjct: 79 RLTQEPESIRKWREEQR------KRLQEL----DAASKVMEQEWREKAKKDLEEWNQRQS 128
Query: 379 SQLSEFEV 386
Q+ + ++
Sbjct: 129 EQVEKNKI 136
>2aby_A Hypothetical protein TA0743; helix-turn-helix, unknown function;
NMR {Thermoplasma acidophilum}
Length = 146
Score = 28.4 bits (63), Expect = 3.3
Identities = 19/69 (27%), Positives = 34/69 (49%), Gaps = 4/69 (5%)
Query: 282 FKRLNAGDEIQGYQLVEGRKGNRSFKDINRAQELLTSVLGEEAFKRILKTPKELEQLYKE 341
F+ +N DE Q + G + F D++ + L + + RIL K+L +L+ E
Sbjct: 31 FQTINGLDE-SLVQALAGVTAS-DFPDLDIKYNIFLVDLYGQKYFRILFQSKKLSELHPE 88
Query: 342 --QKVSDEF 348
+KV ++F
Sbjct: 89 ERKKVREKF 97
>2dii_A TFIIH basal transcription factor complex P62 subunit; BTF2-P62,
general transcription factor IIH polypeptide 1, nuclear
protein; NMR {Homo sapiens} SCOP: a.240.1.1
Length = 61
Score = 27.9 bits (62), Expect = 3.8
Identities = 13/33 (39%), Positives = 17/33 (51%), Gaps = 5/33 (15%)
Query: 323 EAFKRILKTPKELEQLYKEQKVS-----DEFWE 350
E R+L+ L QLYK+ VS +EFW
Sbjct: 17 EEKNRMLQEDPVLFQLYKDLVVSQVISAEEFWA 49
>2jbw_A Dhpon-hydrolase, 2,6-dihydroxy-pseudo-oxynicotine hydrolase;
alpha/beta hydrolase, META-cleavage pathway; 2.1A
{Arthrobacter nicotinovorans} SCOP: c.69.1.41
Length = 386
Score = 27.9 bits (61), Expect = 3.9
Identities = 8/47 (17%), Positives = 19/47 (40%), Gaps = 9/47 (19%)
Query: 158 YGDIFGRPEALTLTIIQPRVRTGSPINEWVISADDLLEKAKEFKERG 204
Y D+ G + R + + + W+ A++ ++A+ G
Sbjct: 40 YSDMVG---------ARDRPKEITWFDYWMSLANEYEQEAERKVALG 77
>2fh5_A Signal recognition particle receptor alpha subunit; endomembrane
targeting, GTPase, GAP, longin domain, SEDL, transport
protein; HET: GTP; 2.45A {Homo sapiens} SCOP: d.110.4.4
PDB: 2go5_1
Length = 185
Score = 27.9 bits (62), Expect = 4.3
Identities = 11/79 (13%), Positives = 30/79 (37%), Gaps = 5/79 (6%)
Query: 304 RSFKDINRAQELLTSV--LGEEAFKRILKTPKELEQLYKEQKVSDEFWEELQELITRGDG 361
+ + +L+ V L + ++ ++ L L ++F L+E
Sbjct: 80 QKILTLTYVDKLIDDVHRLFRDKYRTEIQQQSALSLLNGTFDFQNDFLRLLREAEESSKI 139
Query: 362 KPVIAPRDIPTNKQTQKSQ 380
+ AP + + ++K++
Sbjct: 140 R---APTTMKKFEDSEKAK 155
>1p5q_A FKBP52, FK506-binding protein 4; isomerase; 2.80A {Homo sapiens}
SCOP: a.118.8.1 d.26.1.1 PDB: 1qz2_A
Length = 336
Score = 27.8 bits (61), Expect = 4.5
Identities = 36/234 (15%), Positives = 81/234 (34%), Gaps = 13/234 (5%)
Query: 150 YACGALHQYGDIFGRPEALTLTIIQPRVRTGSPINEWVISADDLLEKAKEFKERGTLALS 209
YA G++ + L + W +++++ LE++ KERGT+
Sbjct: 102 YAFGSVGKEKFQIPPNAELKYELH--LKSFEKAKESWEMNSEEKLEQSTIVKERGTVYFK 159
Query: 210 LKSKRAVSLEHYGVNDDSCRFCRAKVRCPALSRHVLLEATKDPSTNTTVELSKAYSSISL 269
K +L Y + + A L A+ ++L ++I
Sbjct: 160 EG-KYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAFSAAIES 218
Query: 270 IKSYVKACEDEMFKRLNAGDEIQGYQLVEGRKGNRSFKDINRAQELLTSVLGEEAFKRIL 329
++ + +G + + D + +L + + A ++
Sbjct: 219 CNKALELDSNNEKGLSR-----RGEAHLAVNDFELARADFQKVLQLYPN--NKAAKTQLA 271
Query: 330 KTPKEL-EQLYKEQKVSDEFWEELQELITRGDGKPVIAPRDIPTNKQTQKSQLS 382
+ + QL +E+K+ +E L E + + + D PT+ + ++ Q S
Sbjct: 272 VCQQRIRRQLAREKKLYANMFERLAEEENKAKAEA--SSGDHPTDTEMKEEQKS 323
>1o0x_A Methionine aminopeptidase; TM1478, structural genomics, JCSG, PSI,
protein structure initiative, joint center for
structural genomics; 1.90A {Thermotoga maritima} SCOP:
d.127.1.1
Length = 262
Score = 27.5 bits (60), Expect = 4.9
Identities = 10/33 (30%), Positives = 18/33 (54%)
Query: 327 RILKTPKELEQLYKEQKVSDEFWEELQELITRG 359
+KTP E+E++ K K E++++I G
Sbjct: 14 IRIKTPSEIEKMKKAGKAVAVALREVRKVIVPG 46
>3ctz_A XAA-Pro aminopeptidase 1; PITA-bread fold, alternative splicing,
cytoplasm, hydrolase, manganese, metal-binding,
metalloprotease, protease; HET: P6G; 1.60A {Homo
sapiens}
Length = 623
Score = 27.2 bits (60), Expect = 6.4
Identities = 18/150 (12%), Positives = 41/150 (27%), Gaps = 17/150 (11%)
Query: 223 VNDDSCRFC--RAKVRCPALSRHVLLEATKDPSTNTTVELSKAYSSISLIKSYVKACEDE 280
+ ++ ++ P++ H+LL+ + V Y SI + C D
Sbjct: 228 IGLETIMLFIDGDRIDAPSVKEHLLLDLGLEAEYRIQV---HPYKSI--LSELKALCADL 282
Query: 281 MFKRLNAGDEIQGYQLVEGRKGNRSFKDINRAQELLTSVLGEEAFKRILKTPKELEQLYK 340
+ + Y + E + + + +K E E + +
Sbjct: 283 SPREKVWVSDKASYAVSETIPKDHRCCMPYTPICIA----------KAVKNSAESEGMRR 332
Query: 341 EQKVSDEFWEELQELITRGDGKPVIAPRDI 370
EL + + K +
Sbjct: 333 AHIKDAVALCELFNWLEKEVPKGGVTEISA 362
>1a17_A Serine/threonine protein phosphatase 5; hydrolase, protein-protein
interactions, TPR, super-helix,; 2.45A {Homo sapiens}
SCOP: a.118.8.1 PDB: 2bug_A
Length = 166
Score = 27.2 bits (59), Expect = 6.6
Identities = 22/152 (14%), Positives = 47/152 (30%), Gaps = 10/152 (6%)
Query: 190 ADDLLEKAKEFKERGTLALSLKSKRAVSLEHYGVNDDSCRFCRAKVRCPALSRHVLLEAT 249
AD L++A+E K + K +++ Y + +L+
Sbjct: 6 ADGALKRAEELKTQANDYFKAK-DYENAIKFYSQAIELNPSNAIYYGNRSLAYL-----R 59
Query: 250 KDPSTNTTVELSKAYSSISLIKSYVKACEDEMFKRLNAGD-EIQGYQLVEGRKGNRSFKD 308
+ + ++A I L K Y+K + G K KD
Sbjct: 60 TECYGYALGDATRA---IELDKKYIKGYYRRAASNMALGKFRAALRDYETVVKVKPHDKD 116
Query: 309 INRAQELLTSVLGEEAFKRILKTPKELEQLYK 340
+ ++ ++AF+R + + +
Sbjct: 117 AKMKYQECNKIVKQKAFERAIAGDEHKRSVVD 148
>2wcw_A HJC; type II restriction endonuclease, hydrolase, DNA binding
protein, holliday junction resolvase; 1.58A
{Archaeoglobus fulgidus} PDB: 2wcz_A 2wiw_A 2wiz_A
2wj0_A
Length = 139
Score = 27.2 bits (60), Expect = 6.6
Identities = 4/24 (16%), Positives = 9/24 (37%)
Query: 343 KVSDEFWEELQELITRGDGKPVIA 366
+S + E+L + +A
Sbjct: 64 YLSADEVEQLVTFARGFGAEAYVA 87
>3ig4_A XAA-Pro aminopeptidase; csgid, hydrolase, structural genomics,
center for structural genomics of infectious diseases;
HET: SO4; 2.89A {Bacillus anthracis}
Length = 427
Score = 27.0 bits (59), Expect = 7.0
Identities = 6/33 (18%), Positives = 15/33 (45%)
Query: 327 RILKTPKELEQLYKEQKVSDEFWEELQELITRG 359
R+ KT +E+E + + V+ + + +
Sbjct: 169 RVFKTDEEIEIIKEAIAVTKDGIYNVLKHAKAD 201
>3n9i_A Tryptophanyl-tRNA synthetase; tryptophan-tRNA ligase, csgid,
structural genomics, niaid, center for structural
genomics infectious diseases; 1.95A {Yersinia pestis}
Length = 346
Score = 26.5 bits (58), Expect = 9.2
Identities = 18/55 (32%), Positives = 23/55 (41%), Gaps = 14/55 (25%)
Query: 116 ADILIFNSTQWIIVDFKYGAGVPVKAENNTQLML---YACGALHQYGDIFGRPEA 167
ADIL++ + Q VPV + L L A + YGDIF PE
Sbjct: 146 ADILLYQTNQ-----------VPVGEDQKQHLELSRDIASRFNNLYGDIFKIPEP 189
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
0.316 0.131 0.378
Gapped
Lambda K H
0.267 0.0626 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 24244
Number of Hits to DB: 3,151,533
Number of extensions: 140581
Number of successful extensions: 567
Number of sequences better than 10.0: 1
Number of HSP's gapped: 565
Number of HSP's successfully gapped: 29
Length of query: 388
Length of database: 5,693,230
Length adjustment: 94
Effective length of query: 294
Effective length of database: 3,414,294
Effective search space: 1003802436
Effective search space used: 1003802436
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 (21.6 bits)
S2: 58 (26.3 bits)