RPS-BLAST 2.2.22 [Sep-27-2009] Database: pdb70 24,244 sequences; 5,693,230 total letters Searching..................................................done Query= gi|254781038|ref|YP_003065451.1| putative DNA-binding/iron metalloprotein/AP endonuclease [Candidatus Liberibacter asiaticus str. psy62] (363 letters) >3en9_A Glycoprotease, O-sialoglycoprotein endopeptidase/protein kinase; endopeptidase activity, protein kinase activity; HET: TBR; 2.67A {Methanocaldococcus jannaschii} PDB: 3enh_A* 2vwb_A* Length = 540 Score = 288 bits (738), Expect = 1e-78 Identities = 103/342 (30%), Positives = 151/342 (44%), Gaps = 27/342 (7%) Query: 8 VIGIETSCDETAVAVVRRKDSHGEILAEAVLSQIDQHGHYGGVVPEVAARAHVDVLDILI 67 +G+E + ++T V +V S GE+L I G+ P AA H + LI Sbjct: 8 CLGLEGTAEKTGVGIV---TSDGEVLFN---KTIMYKPPKQGINPREAADHHAETFPKLI 61 Query: 68 KQTLLRANMQISDMDSIAVTAGPGLMGGLIVGLMTAKAISYVSHKPFYAINHLEGHILTA 127 K+ + +++D IA + GPGL L V A+ +S KP +NH HI Sbjct: 62 KEAFEVVDK--NEIDLIAFSQGPGLGPSLRVTATVARTLSLTLKKPIIGVNHCIAHIEIG 119 Query: 128 RLTDDIAFPYLVLLVSGGHTQILLVRDVAHYDRLGTTIDDALGECFDKIAKSLGLPYPGG 187 +LT + P L L VSGG+TQ++ Y G T+D A+G C D+ A+ + LP+PGG Sbjct: 120 KLTTEAEDP-LTLYVSGGNTQVI-AYVSKKYRVFGETLDIAVGNCLDQFARYVNLPHPGG 177 Query: 188 VEIEKAALMGDGKRFKFPCPLVQGTLCDFSFSGLKTSVQKTICAFDVLEKQDIADICASF 247 IE+ A G K D +FSGL T+ + A + + DIC S Sbjct: 178 PYIEELARKG----KKLVDLPYTVKGMDIAFSGLLTAAMRAYDA-----GERLEDICYSL 228 Query: 248 QVTVVRILQARLKQGFLLFRKAFPHKQAVLVVSGGVASNHFIRASLIDLCVLHGFRFVAP 307 Q +L ++ K +++ GGVA+N+ +R L +C F P Sbjct: 229 QEYAFSMLTEITERALAHTNKG------EVMLVGGVAANNRLREMLKAMCEGQNVDFYVP 282 Query: 308 PARLCTDNAVMIAWAALERMEAGL--PADDLSISPRSRWPLD 347 P C DN MIAW L + G D+ I P R + Sbjct: 283 PKEFCGDNGAMIAWLGLLMHKNGRWMSLDETKIIPNYRTDMV 324 >2ivn_A O-sialoglycoprotein endopeptidase; UP1 keops complex, Fe/Zn dependent nucleotide phosphatase, metalloprotease, hypothetical protein, zinc; HET: ANP; 1.65A {Pyrococcus abyssi} PDB: 2ivo_A 2ivp_A* Length = 330 Score = 236 bits (602), Expect = 6e-63 Identities = 97/341 (28%), Positives = 154/341 (45%), Gaps = 24/341 (7%) Query: 8 VIGIETSCDETAVAVVRRKDSHGEILAEAVLSQIDQHGHYGGVVPEVAARAHVDVLDILI 67 +GIE + + +V ++LA + GG+ P+ AA H ++ L+ Sbjct: 3 ALGIEGTAHTLGIGIVS----EDKVLANVFDTL---TTEKGGIHPKEAAEHHARLMKPLL 55 Query: 68 KQTLLRANMQISDMDSIAVTAGPGLMGGLIVGLMTAKAISYVSHKPFYAINHLEGHILTA 127 ++ L A + + D+D IA + GPGL L V A+A++ KP +NH H+ Sbjct: 56 RKALSEAGVSLDDIDVIAFSQGPGLGPALRVVATAARALAVKYRKPIVGVNHCIAHVEIT 115 Query: 128 RLTDDIAFPYLVLLVSGGHTQILLVRDVAHYDRLGTTIDDALGECFDKIAKSLGLPYPGG 187 ++ L VSGG+TQ +L + Y G T+D +G D A+ LGL +PGG Sbjct: 116 KMFGVKDPVGLY--VSGGNTQ-VLALEGGRYRVFGETLDIGIGNAIDVFARELGLGFPGG 172 Query: 188 VEIEKAALMGDGKRFKFPCPLVQGTLCDFSFSGLKTSVQKTICAFDVLEKQDIADICASF 247 ++EK A G+ K + P + D SFSGL T + + + D+ SF Sbjct: 173 PKVEKLAEKGE-KYIELPYAVKG---MDLSFSGLLTEAIRKYRSGK----YRVEDLAYSF 224 Query: 248 QVTVVRILQARLKQGFLLFRKAFPHKQAVLVVSGGVASNHFIRASLIDLCVLHGFRFVAP 307 Q T L + R ++ +V+ GGVA+N+ +R L + G +F P Sbjct: 225 QETAFAALVEVTE------RAVAHTEKDEVVLVGGVAANNRLREMLRIMTEDRGIKFFVP 278 Query: 308 PARLCTDNAVMIAWAALERMEAGLPADDLSISPRSRWPLDE 348 P LC DN MIA+ L +AG+ + ++ DE Sbjct: 279 PYDLCRDNGAMIAYTGLRMYKAGISFRLEETIVKQKFRTDE 319 >3eno_A Putative O-sialoglycoprotein endopeptidase; hydrolase, metal-binding, metalloprotease, protease, zinc, keops complex, ATPase, metal ION binding; 3.02A {Thermoplasma acidophilum} Length = 334 Score = 223 bits (568), Expect = 6e-59 Identities = 97/348 (27%), Positives = 155/348 (44%), Gaps = 26/348 (7%) Query: 1 MSKIKKTVIGIETSCDETAVAVVRRKDSHGEILAEAVLSQIDQHGHYGGVVPEVAARAHV 60 M + V+G+E + + ++ ILA GG+ P AA H Sbjct: 3 MDPMI--VLGLEGTAHTISCGIID----ESRILAM---ESSMYRPKTGGIRPLDAAVHHS 53 Query: 61 DVLDILIKQTLLRANMQISDMDSIAVTAGPGLMGGLIVGLMTAKAISYVSHKPFYAINHL 120 +V+D +I + L +A + I D+D I + GPGL L V A+ IS ++ KP +NH Sbjct: 54 EVIDTVISRALEKAKISIHDIDLIGFSMGPGLAPSLRVTATAARTISVLTGKPIIGVNHP 113 Query: 121 EGHILTARLTDDIAFPYLVLLVSGGHTQILLVRDVAHYDRLGTTIDDALGECFDKIAKSL 180 GHI R P +L VSGG+TQ++ + Y LG T+D +G DK A+ Sbjct: 114 LGHIEIGRRVTGAIDPV-MLYVSGGNTQVIAHVNG-RYRVLGETLDIGIGNMIDKFAREA 171 Query: 181 GLPYPGGVEIEKAALMGDGKRFKFPCPLVQGTLCDFSFSGLKTSVQKTICAFDVLEKQDI 240 G+P+PGG EIEK A+ G D +FSG+ T+ + + +E Sbjct: 172 GIPFPGGPEIEKLAMKGTKLLDLPYSV----KGMDTAFSGILTAALQYLKTGQAIEDISY 227 Query: 241 ADICASFQVTVVRILQARLKQGFLLFRKAFPHKQAVLVVSGGVASNHFIRASLIDLCVLH 300 + +F + V + R + + ++++GGVA N +R + ++ Sbjct: 228 SIQETAFAMLVEVLE-----------RALYVSGKDEILMAGGVALNRRLRDMVTNMAREA 276 Query: 301 GFRFVAPPARLCTDNAVMIAWAALERMEAGLPADDLSISPRSRWPLDE 348 G R C DN +MIA AAL ++G+ + R+ +DE Sbjct: 277 GIRSYLTDREYCMDNGIMIAQAALLMYKSGVRMSVEETAVNPRFRIDE 324 >2i7n_A Pantothenate kinase 1; PANK, transferase; HET: ACO; 1.90A {Homo sapiens} SCOP: c.55.1.14 c.55.1.14 PDB: 2i7p_A* Length = 360 Score = 75.4 bits (185), Expect = 2e-14 Identities = 36/208 (17%), Positives = 65/208 (31%), Gaps = 18/208 (8%) Query: 93 MGGLIVGLM-TAKAISYVSHKPFYAINHLEGHILTARLTDDI-AFPYLVLLVSGGHTQIL 150 + LI GL+ + +Y N + + +P L L+ G IL Sbjct: 131 LDCLIQGLLYVDSVGFNGKPECYYFENPTNPELCQKKPYCLDNPYPML-LVNMGSGVSIL 189 Query: 151 LVRDVAHYDRLGTTIDDALGECFDKIAKSLGLPYPGGVEIEKAALMGDGKRFKFPCPLVQ 210 V +Y R+ T G F + L E + A GD + Sbjct: 190 AVYSKDNYKRVTGTS--LGGGTFLGLCCLL-TGCETFEEALEMAAKGDSTNVDKLVKDIY 246 Query: 211 GTLCDFSFSGLKTSVQKTICAFDVLEKQDI----ADICASFQVTVVRILQARLKQGFLLF 266 G D+ GL+ S + + +++ D+ + VT+ + G + Sbjct: 247 G--GDYERFGLQGSAVASSFGNMMSKEKRDSISKEDLARATLVTITNNI------GSIAR 298 Query: 267 RKAFPHKQAVLVVSGGVASNHFIRASLI 294 A +V G + + L+ Sbjct: 299 MCALNENIDRVVFVGNFLRINMVSMKLL 326 >2gel_A Putative GRAM negative resuscitation promoting factor; YEAZ, RPF, actin-like-fold, glycoprotease, chaperone; 2.05A {Salmonella typhimurium LT2} PDB: 2gem_A 1okj_A Length = 231 Score = 72.3 bits (176), Expect = 2e-13 Identities = 29/178 (16%), Positives = 65/178 (36%), Gaps = 33/178 (18%) Query: 8 VIGIETSCDETAVAVVRRKDSHGEILAEAVLSQIDQHGHYGGVVPEVAARAHVDVLDILI 67 ++ I+T+ + +VA+ +G I A E+ R H + ++ Sbjct: 3 ILAIDTATEACSVALWN----NGTINAHF----------------ELCPREHTQRILPMV 42 Query: 68 KQTLLRANMQISDMDSIAVTAGPGLMGGLIVGLMTAKAISYVSHKPFYAINHLEGHILTA 127 ++ L + ++++D++A GPG G+ +G+ A+ ++ ++ P ++ L A Sbjct: 43 QEILAASGASLNEIDALAFGRGPGSFTGVRIGIGIAQGLALGANLPMIGVSTLATMAQGA 102 Query: 128 RLTDDIAFPYLVL-------------LVSGGHTQILLVRDVAHYDRLGTTIDDALGEC 172 + + G Q V +R+G + GE Sbjct: 103 WRKTGATRVLAAIDARMGEVYWAEYQRDAQGVWQGEETEAVLKPERVGERLKQLSGEW 160 >2a6a_A Hypothetical protein TM0874; glycoprotein endopeptidase, structural genomics, joint center for structural genomics, JCSG; 2.50A {Thermotoga maritima MSB8} SCOP: c.55.1.9 c.55.1.9 Length = 218 Score = 55.2 bits (132), Expect = 2e-08 Identities = 25/121 (20%), Positives = 48/121 (39%), Gaps = 21/121 (17%) Query: 8 VIGIETSCDETAVAVVRRKDSHGEILAEAVLSQIDQHGHYGGVVPEVAARAHVDVLDILI 67 V+ ++TS + + GE L E + H ++L +++ Sbjct: 15 VLALDTS-QRIRIGLR-----KGEDLFEIS---------------YTGEKKHAEILPVVV 53 Query: 68 KQTLLRANMQISDMDSIAVTAGPGLMGGLIVGLMTAKAISYVSHKPFYAINHLEGHILTA 127 K+ L ++++ D+D + V GPG + GL VG+ T + P +N E + Sbjct: 54 KKLLDELDLKVKDLDVVGVGIGPGGLTGLRVGIATVVGLVSPYDIPVAPLNSFEMTAKSC 113 Query: 128 R 128 Sbjct: 114 P 114 >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 = 47.2 bits (112), Expect = 5e-06 Identities = 76/475 (16%), Positives = 127/475 (26%), Gaps = 211/475 (44%) Query: 28 SHGEILAEAVLSQIDQHGHYGGVVPEVAARAHVDVLDILIKQTLLRA--NMQISD-MDSI 84 SHG + E VL VP + L+ N + + + Sbjct: 12 SHGSL--EHVLL-----------VPT----------ASFFIASQLQEQFNKILPEPTEGF 48 Query: 85 AVTAGPGLMGGLIVGLMTAKAISYVSHK------PFY------AINHLE-----G---HI 124 A P L K + YVS + + E G H Sbjct: 49 AADDEPTT----PAEL-VGKFLGYVSSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHA 103 Query: 125 LTARLTDDIAFPYLVLLVSGGHTQILLVRDV--AHY-------DRLGTTIDDAL------ 169 L A+L + T ++ +++ + + AL Sbjct: 104 LAAKLLQEND------------TTLVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGE 151 Query: 170 ----------G-----ECFDKIAKSLGLPYPGGVE--IEKAA-----LMGDGKRFKFPCP 207 G + F+++ L Y V I+ +A L+ + Sbjct: 152 GNAQLVAIFGGQGNTDDYFEELR-DLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFT 210 Query: 208 LVQGTLCDFSFSGLKTSVQKTICAFDVL------EKQ-DIAD-----------IC----A 245 QG ++L D D I A Sbjct: 211 --QG--------------------LNILEWLENPSNTPDK-DYLLSIPISCPLIGVIQLA 247 Query: 246 SFQVTVVRILQARLKQGFLLFRKAFP----HKQAVLVVSGGVAS----NHFIRASLIDLC 297 + VT ++L G R H Q + V + +A F + + Sbjct: 248 HYVVT-AKLLG--FTPG--ELRSYLKGATGHSQGL-VTAVAIAETDSWESFFVSVRKAIT 301 Query: 298 VLH--GFR----F---VAPPARL--CTDNAV-----MIAWAALERME---------AGLP 332 VL G R + PP+ L +N M++ + L + + + LP Sbjct: 302 VLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSISNLTQEQVQDYVNKTNSHLP 361 Query: 333 ADD-LSIS-------------PRS-----RWPLDE-KAP-----SKIGSGKRGVK 362 A + IS P+S L + KAP S+I +R +K Sbjct: 362 AGKQVEISLVNGAKNLVVSGPPQSLYGLNLT-LRKAKAPSGLDQSRIPFSERKLK 415 >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 = 36.1 bits (82), Expect = 0.014 Identities = 11/43 (25%), Positives = 17/43 (39%), Gaps = 21/43 (48%) Query: 323 ALERMEAGLP--ADDLSISPRSRWPLDEKAPSKIGSGKRGVKA 363 AL++++A L ADD AP+ +KA Sbjct: 21 ALKKLQASLKLYADD-------------SAPA------LAIKA 44 Score = 28.4 bits (62), Expect = 2.6 Identities = 13/59 (22%), Positives = 20/59 (33%), Gaps = 31/59 (52%) Query: 236 EKQDIADICASFQVTVVRILQARLKQGFLLFR-KAFPHKQAVLVVSGGVASNHFIRASL 293 EKQ + LQA LK L+ + P +A I+A++ Sbjct: 18 EKQALKK------------LQASLK----LYADDSAP----------ALA----IKATM 46 >2vi8_A Serine hydroxymethyltransferase; SHMT, E53Q, FTHF, enzyme memory, pyridoxal phosphate, one-carbon metabolism, PLP-dependent enzymes; HET: PLP; 1.67A {Bacillus stearothermophilus} PDB: 2vi9_A* 2via_A* 2vib_A* 1kkj_A* 1kkp_A* 1kl1_A* 1kl2_A* 1yjs_A* 1yjz_A* 1yjy_A* 2vgu_A* 2vgs_A* 2vgt_A* 2vgv_A* 2vgw_A* 2vmr_A* 2vms_A* 2vmt_A* 2vmu_A* 2vmq_A* ... Length = 405 Score = 30.0 bits (67), Expect = 0.78 Identities = 22/89 (24%), Positives = 35/89 (39%), Gaps = 12/89 (13%) Query: 90 PGLMGGLIVGLMTAKAISYVSHKPFYAINHLEGHILTARLTDDIAFPYLVLL------VS 143 PG+ GG ++ ++ AKA++ F + R+ D+ L VS Sbjct: 252 PGIQGGPLMHVIAAKAVA------FGEALQDDFKAYAKRVVDNAKRLASALQNEGFTLVS 305 Query: 144 GGHTQILLVRDVAHYDRLGTTIDDALGEC 172 GG LL+ D+ G T + L E Sbjct: 306 GGTDNHLLLVDLRPQQLTGKTAEKVLDEV 334 >2iqt_A Fructose-bisphosphate aldolase class 1; TIM berrel, structural genomics, PSI-2, protein structure initiative; 2.46A {Porphyromonas gingivalis W83} Length = 296 Score = 29.5 bits (66), Expect = 1.1 Identities = 11/64 (17%), Positives = 25/64 (39%), Gaps = 2/64 (3%) Query: 37 VLSQIDQHGHYGGVVPEVAARAHVDVLDILIKQTLLRANMQISDMDSIAVTAGPGLMGGL 96 + ++D H E+ R + LD + + +L+ + D + P ++ Sbjct: 178 LEPEVDIHCPEKAKAEEILKRELLAQLDKMTEPVMLKITIPTVDNFYKEIIEHPMMLR-- 235 Query: 97 IVGL 100 +V L Sbjct: 236 VVAL 239 >1fx0_B ATP synthase beta chain; latent ATPase, thermal stability, potential tentoxin binding site, hydrolase; 3.20A {Spinacia oleracea} SCOP: a.69.1.1 b.49.1.1 c.37.1.11 PDB: 1kmh_B* Length = 498 Score = 29.2 bits (65), Expect = 1.6 Identities = 19/103 (18%), Positives = 36/103 (34%), Gaps = 3/103 (2%) Query: 1 MSKIKKTVIGIETSCDETAVAVVRRKDSHGEILAEAVLSQIDQHGHYGGVVPEVAARAHV 60 +S ++K +G + V I ++ D G V EV Sbjct: 12 VSTLEKKNLGRIAQIIGPVLNVAFPPGKMPNIYNALIVKGRDTAGQPMNVTCEVQQLLGN 71 Query: 61 D-VLDILIKQTL-LRANMQISDMDS-IAVTAGPGLMGGLIVGL 100 + V + + T L M++ D + ++V G +G + L Sbjct: 72 NRVRAVAMSATDGLTRGMEVIDTGAPLSVPVGGPTLGRIFNVL 114 >3ikm_A DNA polymerase subunit gamma-1; human mitochondrial DNA polymerase, disease mutation, DNA replication, DNA-binding, DNA-directed DNA polymerase; HET: DNA; 3.24A {Homo sapiens} Length = 1172 Score = 27.2 bits (60), Expect = 5.9 Identities = 11/47 (23%), Positives = 18/47 (38%), Gaps = 6/47 (12%) Query: 233 DVLEKQDIADICASFQVTV------VRILQARLKQGFLLFRKAFPHK 273 ++ K + DI +FQ + V +Q LF + PH Sbjct: 308 ELFVKGTMKDIRENFQDLMQYCAQDVWATHEVFQQQLPLFLERCPHP 354 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 0.324 0.139 0.411 Gapped Lambda K H 0.267 0.0599 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 24244 Number of Hits to DB: 3,103,695 Number of extensions: 144103 Number of successful extensions: 541 Number of sequences better than 10.0: 1 Number of HSP's gapped: 519 Number of HSP's successfully gapped: 22 Length of query: 363 Length of database: 5,693,230 Length adjustment: 94 Effective length of query: 269 Effective length of database: 3,414,294 Effective search space: 918445086 Effective search space used: 918445086 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: 41 (22.0 bits) S2: 57 (26.0 bits)