RPS-BLAST 2.2.22 [Sep-27-2009] Database: mmdb70 33,805 sequences; 4,956,049 total letters Searching..................................................done Query= gi|254780483|ref|YP_003064896.1| putative inner membrane protein translocase component YidC [Candidatus Liberibacter asiaticus str. psy62] (581 letters) >3blc_A Inner membrane protein OXAA; YIDC, membrane assembly facilitator, chaperone, periplasmic domain, transmembrane, chaperone; 2.50A {Escherichia coli K12} (A:) Length = 330 Score = 203 bits (517), Expect = 6e-53 Identities = 54/337 (16%), Positives = 114/337 (33%), Gaps = 23/337 (6%) Query: 38 KNIQTVKQPN-QVDNSYAAVLIDDRAQALSMSPRVELKNPSLIGSINLKGAQFDDLNLRG 96 KN Q Q Q + A D A + +K L +IN +G + L Sbjct: 3 KNPQPQAQQTTQTTTTAAGSAADQGVPASGQGKLISVKTDVLDLTINTRGGDVEQALLPA 62 Query: 97 YHLDVSSNSPIVTLLSPSNTKNAYFAELDYVSTA-NNIELPNSNTVWNLISGKILT---- 151 Y +++S P L + Y A+ + ++N+ + Sbjct: 63 YPKELNSTQPFQLLETSPQ--FIYQAQSGLTGRDGPDNPANGPRPLYNVEKDAYVLAEGQ 120 Query: 152 PTTPIKLVFKNANNILFERTISLDE-HYLFKIVDTVTNNSIDQIRFSPRGRIMRH----- 205 + + +A F +T L Y + V N + S G++ + Sbjct: 121 NELQVPXTYTDAAGNTFTKTFVLKRGDYAVNVNYNVQNAGEKPLEISSFGQLKQSITLPP 180 Query: 206 KPQTATNTFGVQEGFIAVLG--DKSLVEQKYSDIEKSSISNFHESNSWLGISDKYWASVF 263 T ++ F + A D + + I + N W+ +Y+A+ + Sbjct: 181 HLDTGSSNFALHTFRGAAYSTPDAAYAAYAFDTIADNENLNISSKGGWVAXLQQYFATAW 240 Query: 264 IPSKETSFHSQFKYLSDGHARYQAKFSANEITILPGKSITTTNFLFAGAKEFPTIHHYEK 323 IP + + + L +G + + + + PG++ + L+ G + Sbjct: 241 IPHNDGTNNFYTANLGNG--IAAIGYKSQPVLVQPGQTGAXNSTLWVGPEIQDKXAAVA- 297 Query: 324 DLAIPRFEMLIDWGWFYFIAKPMFMLMSYFYNLVGNF 360 P ++ +D+GW +FI++P+ + + + Sbjct: 298 ----PHLDLTVDYGWLWFISQPLLVPRGSLEHHHHHH 330 >3bs6_A Inner membrane protein OXAA; YIDC/OXA1/ALB3 family, membrane insertion, chaperone, SEC translocon, periplasmic domain, beta supersandwich fold; HET: PG4 PGE 2PE; 1.80A {Escherichia coli} (A:) Length = 280 Score = 175 bits (445), Expect = 1e-44 Identities = 43/286 (15%), Positives = 98/286 (34%), Gaps = 22/286 (7%) Query: 68 SPRVELKNPSLIGSINLKGAQFDDLNLRGYHLDVSSNSPIVTLLSPSNTKNAYFAELDYV 127 + +K L +IN +G + L Y +++S P L ++ + Y A+ Sbjct: 3 GKLISVKTDVLDLTINTRGGDVEQALLPAYPKELNSTQPFQ--LLETSPQFIYQAQSGLT 60 Query: 128 STA-NNIELPNSNTVWNLISGK-ILTP---TTPIKLVFKNANNILFERTISLDE-HYLFK 181 + ++N+ +L + + +A F +T L Y Sbjct: 61 GRDGPDNPANGPRPLYNVEKDAYVLAEGQNELQVPXTYTDAAGNTFTKTFVLKRGDYAVN 120 Query: 182 IVDTVTNNSIDQIRFSPRGRIMRH-----KPQTATNTFGVQE--GFIAVLGDKSLVEQKY 234 + V N + S G++ + T ++ F + G D+ + K+ Sbjct: 121 VNYNVQNAGEKPLEISSFGQLKQSITLPPHLDTGSSNFALHTFRGAAYSTPDEKYEKYKF 180 Query: 235 SDIEKSSISNFHESNSWLGISDKYWASVFIPSKETSFHSQFKYLSDGHARYQAKFSANEI 294 I + N W+ +Y+A+ +IP + + + L +G + + + Sbjct: 181 DTIADNENLNISSKGGWVAXLQQYFATAWIPHNDGTNNFYTANLGNG--IAAIGYKSQPV 238 Query: 295 TILPGKSITTTNFLFAGAKEFPTIHHYEKDLAIPRFEMLIDWGWFY 340 + PG++ + L+ G + P ++ +D + Sbjct: 239 LVQPGQTGAXNSTLWVGPEIQDKXAAVA-----PHLDLTVDHHHHH 279 >1n26_A IL-6 receptor alpha chain; transmembrane, glycoprotein, immunoglobulin domain, cytokine; HET: NAG BMA MAN NDG; 2.40A {Homo sapiens} (A:97-199) Length = 103 Score = 27.5 bits (61), Expect = 5.0 Identities = 8/36 (22%), Positives = 17/36 (47%) Query: 237 IEKSSISNFHESNSWLGISDKYWASVFIPSKETSFH 272 + S +F E + S K+ + +P ++SF+ Sbjct: 38 FQNSPAEDFQEPCQYSQESQKFSCQLAVPEGDSSFY 73 >1kmj_A Selenocysteine lyase; persulfide perselenide NIFS pyridoxal phosphate, structural genomics, PSI, protein structure initiative; HET: PLP; 2.00A {Escherichia coli} (A:34-83,A:275-319) Length = 95 Score = 27.3 bits (61), Expect = 5.2 Identities = 6/22 (27%), Positives = 9/22 (40%), Gaps = 1/22 (4%) Query: 405 QSPPQVLQKAMIQLYKTHNINP 426 Q P QV+ A + Y+ Sbjct: 1 QKPSQVID-AEAEFYRHGYAAV 21 >3gae_A Protein DOA1; UFD3, CDC48, armadillo repeat, cytoplasm, nucleus, phosphoprotein, UBL conjugation pathway, WD repeat, nuclear protein; 1.60A {Saccharomyces cerevisiae} (A:1-86) Length = 86 Score = 27.4 bits (61), Expect = 5.5 Identities = 9/40 (22%), Positives = 14/40 (35%), Gaps = 4/40 (10%) Query: 375 FFPLAKKQYVS--TANMKNIQPKIDELREKFKQSPPQVLQ 412 P KQY+ N I I ++ K ++L Sbjct: 4 VLP--VKQYLIMENYNPDTIFNGIVKINSNEKTFDDEILA 41 >1t3i_A Probable cysteine desulfurase; PLP-binding enzyme, transferase; HET: 2OS PLP; 1.80A {Synechocystis SP} (A:38-88,A:279-301) Length = 74 Score = 27.1 bits (60), Expect = 6.2 Identities = 7/22 (31%), Positives = 11/22 (50%), Gaps = 1/22 (4%) Query: 405 QSPPQVLQKAMIQLYKTHNINP 426 Q P VL+ ++ Y+ N N Sbjct: 2 QKPRAVLE-KLMHYYENDNANV 22 >3dl8_G Preprotein translocase subunit SECY; RECA-type ATPase membrane protein translocation protein- protein complex, ATP-binding, cell membrane; 7.50A {Aquifex aeolicus} (G:1-181) Length = 181 Score = 27.1 bits (60), Expect = 6.3 Identities = 12/93 (12%), Positives = 28/93 (30%), Gaps = 9/93 (9%) Query: 472 NIFTLFGILPFYLPGFMHVGIWPIIMSLSMF--------IQMKMSPPPADKGQAMILNWM 523 ++ +F +G+ P I + M +++ D G+ I + Sbjct: 57 ALYDIFSGGNLGRLTVFALGVMPYISASIMMQLLTVAIPSLQRLAKEEGDYGRYKINEYT 116 Query: 524 PVVFVFALSSFPAGLIIYWSWSNVISIVQQAVI 556 +++ + I +W V V Sbjct: 117 -KYLTLFVATVQSLGIAFWIRGQVSPKGIPVVE 148 >2ww9_A SEC sixty-one protein homolog; ribonucleoprotein, transmembrane, phosphoprotein, signal sequence, membrane, ribosome, cytoplasm; 8.60A {Saccharomyces cerevisiae} PDB: 2wwa_A (A:1-215) Length = 215 Score = 27.1 bits (60), Expect = 6.5 Identities = 18/118 (15%), Positives = 31/118 (26%), Gaps = 11/118 (9%) Query: 453 MRHAPFWGWIKDLAAADPTNIFTLFGILPFYLPGFMHVGIWPIIMS--------LSMFIQ 504 P G K I+ L G+ + G++P I S I+ Sbjct: 45 FAQFPLVGLPKATTPNVNDPIYFLRGVFGCEPRTLLEFGLFPNISSGLILQLLAGLKVIK 104 Query: 505 MKMSPPPADKGQAMILNWMPVVFVFALS---SFPAGLIIYWSWSNVISIVQQAVIMKM 559 + + + +V L+ F S + I Q V + Sbjct: 105 VNFKIQSDRELFQSLTKVFAIVQYVILTNIFIFAGYFGDDLSVVQIGLINFQLVGAGI 162 >1uvj_A P2 protein; polymerase/complex, RNA-dependent RNA polymerase, oligonucleotide, polymerase; 1.9A {Bacteriophage phi-6} (A:1-208,A:255-664) Length = 618 Score = 26.9 bits (59), Expect = 7.4 Identities = 14/69 (20%), Positives = 28/69 (40%), Gaps = 15/69 (21%) Query: 455 HAPFW-GWIKDLAAADPTNIFTLFGILPFYLPGFMHVGIWPIIMSLSMFIQMKMSPPPAD 513 H FW GW++DL + N+ G P W + S+ + + + P + Sbjct: 282 HDTFWPGWLRDLICDELLNM----GYAP----------WWVKLFETSLKLPVYVGAPAPE 327 Query: 514 KGQAMILNW 522 +G ++ + Sbjct: 328 QGHTLLGDP 336 >1rh5_A Preprotein translocase SECY subunit; protein translocation, SECY, membrane protein, protein channels, protein transport; 3.20A {Methanocaldococcus jannaschii} (A:) Length = 436 Score = 26.9 bits (59), Expect = 8.0 Identities = 12/117 (10%), Positives = 37/117 (31%), Gaps = 10/117 (8%) Query: 446 VISISLEMRHAPFWGWIKDLAAADPTNIFTLFGILPFYLPGFMHVGIWPIIMSLSMFIQM 505 V+ + M + A P I + + +GI PI+ + + +Q+ Sbjct: 33 VLVLYFIMGCIDVYT----AGAQIPAIFEFWQTITASRIGTLITLGIGPIVTA-GIIMQL 87 Query: 506 KMSPPPADKGQAM-----ILNWMPVVFVFALSSFPAGLIIYWSWSNVISIVQQAVIM 557 + ++ + + + A L + +++ + +++ Sbjct: 88 LVGSGIIQMDLSIPENRALFQGCQKLLSIIMCFVEAVLFVGAGAFGILTPLLAFLVI 144 >3ebb_A Phospholipase A2-activating protein; armadillo repeat, structural genomics consortium, SGC, WD repeat, acetylation, ATP-binding; 1.90A {Homo sapiens} (A:1-189) Length = 189 Score = 26.8 bits (59), Expect = 8.3 Identities = 14/69 (20%), Positives = 25/69 (36%), Gaps = 6/69 (8%) Query: 375 FFPLAKKQYVSTANMKNIQPKIDELREK----FKQSPPQV--LQKAMIQLYKTHNINPLA 428 +FP + AN I K+ EL K + + L+K + + + + P Sbjct: 43 YFPKKEAVTFDQANPTQILGKLKELNGTAPEEKKLTEDDLILLEKILSLICNSSSEKPTV 102 Query: 429 GCWPILLQI 437 IL + Sbjct: 103 QQLQILWKA 111 Database: mmdb70 Posted date: Jun 20, 2010 3:12 AM Number of letters in database: 4,956,049 Number of sequences in database: 33,805 Lambda K H 0.323 0.137 0.417 Gapped Lambda K H 0.267 0.0683 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 33805 Number of Hits to DB: 4,454,312 Number of extensions: 201106 Number of successful extensions: 422 Number of sequences better than 10.0: 1 Number of HSP's gapped: 414 Number of HSP's successfully gapped: 23 Length of query: 581 Length of database: 4,956,049 Length adjustment: 93 Effective length of query: 488 Effective length of database: 1,812,184 Effective search space: 884345792 Effective search space used: 884345792 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.5 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (22.0 bits) S2: 57 (25.8 bits)