RPS-BLAST 2.2.22 [Sep-27-2009] Database: pdb70 24,244 sequences; 5,693,230 total letters Searching..................................................done Query= gi|254780199|ref|YP_003064612.1| outer membrane lipoprotein [Candidatus Liberibacter asiaticus str. psy62] (160 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 = 34.9 bits (80), Expect = 0.009 Identities = 25/170 (14%), Positives = 54/170 (31%), Gaps = 59/170 (34%) Query: 14 PLVAAIAVVSCSALSVVVDS----SEL-------LPEPMDITGYWEDDNGILSYFQKDGK 62 PL + + L V S S+L LPEP + G+ DD Sbjct: 8 PLTLSHGSLEHV-LLVPTASFFIASQLQEQFNKILPEPTE--GFAADD------------ 52 Query: 63 FKTISTDGSSSVLATGSY--HV--KINQDVEIKLTSLIRNTSGKIQCQFLDSNKLNCLA- 117 + ++ G + +V + + ++ + + +L+ N ++ LA Sbjct: 53 ------EPTTPAELVGKFLGYVSSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHALAA 106 Query: 118 -----------KDQK--QFYLRRTHLTELPSSKP---------QDDVAEI 145 K ++ + Y+ + + P K + A++ Sbjct: 107 KLLQENDTTLVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQL 156 Score = 33.0 bits (75), Expect = 0.034 Identities = 40/180 (22%), Positives = 59/180 (32%), Gaps = 77/180 (42%) Query: 9 LSFLFPLVAAIAVVS-----CSAL--SVVVDS---SELLPEPMDITGYWEDDNGILSYFQ 58 ++ LF I V ++L S++ DS +E +P PM LS Sbjct: 300 ITVLF----FIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPM------------LS--- 340 Query: 59 KDGKFKTISTDGSSSVLATGSYHV-KINQD------VEIKLTSLI---RN--TSGKIQ-- 104 IS + + + +V K N VEI SL+ +N SG Q Sbjct: 341 -------IS-NLTQEQVQD---YVNKTNSHLPAGKQVEI---SLVNGAKNLVVSGPPQSL 386 Query: 105 ---CQFLDSNKLNCLA---KDQKQ--FYLRRTHLTE--LPSSKP------QDDVAEIPED 148 L K A DQ + F R+ + LP + P I +D Sbjct: 387 YGLNLTLRKAK----APSGLDQSRIPFSERKLKFSNRFLPVASPFHSHLLVPASDLINKD 442 >2v05_A Choline binding protein F; CBPF, lipid-binding-protein; 1.67A {Streptococcus pneumoniae} PDB: 2v04_A 2vyu_A Length = 311 Score = 30.0 bits (66), Expect = 0.22 Identities = 9/49 (18%), Positives = 16/49 (32%), Gaps = 9/49 (18%) Query: 45 GYWEDDNGILSYFQKDGKFKT--ISTDG------SSSVLATGSYHVKIN 85 G + D + Y+ KD DG + G +++I Sbjct: 5 GRFVDKDNR-KYYVKDDHKAIYWHKIDGKTYYFGDIGEMVVGWQYLEIP 52 >2g7c_A Toxin A; linear B trisaccharide, protein-carbohydrate complex, bacterial toxin; HET: GLA GAL NAG; 2.00A {Clostridium difficile} Length = 255 Score = 29.3 bits (64), Expect = 0.43 Identities = 14/47 (29%), Positives = 16/47 (34%), Gaps = 11/47 (23%) Query: 44 TGYWEDDNGILSYFQKDGKFKTIST----DG------SSSVLATGSY 80 TG W+ NG + YF D DG V A G Y Sbjct: 209 TG-WQTINGNMYYFMPDTAMAAAGGLFEIDGVIYFFGVDGVKAPGIY 254 >1zat_A L,D-transpeptidase; L,D-transpeptidation, peptidoglycan, beta-lactam insensitive transpeptidase, antibiotic resistance, transferase; 2.40A {Enterococcus faecium} SCOP: b.160.1.1 d.335.1.1 PDB: 2hkl_A Length = 250 Score = 28.4 bits (63), Expect = 0.78 Identities = 12/41 (29%), Positives = 16/41 (39%), Gaps = 3/41 (7%) Query: 59 KDGKFKTISTDGSSSVLATGSYHVKINQDVEIK-LTSLIRN 98 D KFK+ T + G+Y I D E + L I Sbjct: 65 NDTKFKS--TKRGEVTVPVGTYSWTIQTDSETEALKKAILA 103 >2qj6_A Toxin A; clostridial repetitive oligo peptides; 2.50A {Clostridium difficile} Length = 332 Score = 28.2 bits (61), Expect = 0.83 Identities = 8/50 (16%), Positives = 17/50 (34%), Gaps = 8/50 (16%) Query: 44 TGYWEDDNGILSYFQKDGKFKT--ISTDG------SSSVLATGSYHVKIN 85 + G + YF + K T + +G + +A +I+ Sbjct: 269 QNRFLHLLGKIYYFGNNSKAVTGWQTINGKVYYFMPDTAMAAAGGLFEID 318 >1v25_A Long-chain-fatty-acid-COA synthetase; ligase, structural genomics, riken structural genomics/proteomics initiative, RSGI; HET: ANP; 2.30A {Thermus thermophilus} SCOP: e.23.1.1 PDB: 1ult_A* 1v26_A* Length = 541 Score = 27.9 bits (61), Expect = 1.0 Identities = 18/136 (13%), Positives = 36/136 (26%), Gaps = 26/136 (19%) Query: 40 PMDITGYWEDDNGILSYFQKDGKFKT-----ISTDGSSSVLATGSYHVKIN------QDV 88 P GY+ ++ S DG F+T +G + +K D+ Sbjct: 391 PWITGGYYGNEEATRSALTPDGFFRTGDIAVWDEEGYVEIKDRLKDLIKSGGEWISSVDL 450 Query: 89 EIKLTSL--IRN---------TSGKIQCQFLDSNKLNCLAKDQKQFYLRRTHLTELPSSK 137 E L ++ + + ++ + L+ + Sbjct: 451 ENALMGHPKVKEAAVVAIPHPKWQERPLAVVVPRGEKPTPEELNEHLLKA----GFAKWQ 506 Query: 138 PQDDVAEIPEDPTTPS 153 D E P T + Sbjct: 507 LPDAYVFAEEIPRTSA 522 >3hia_A Choline binding protein; beta hairpin; 2.38A {Streptococcus pneumoniae R6} Length = 94 Score = 27.8 bits (61), Expect = 1.3 Identities = 18/60 (30%), Positives = 32/60 (53%), Gaps = 5/60 (8%) Query: 47 WEDDNGILSYFQKDGKFKT--ISTDGSSSVL-ATGSYHVKINQDVEIKLTSLIRNTSGKI 103 W+ +NG+ ++ DG T + +GS L + GS +K+NQ ++ NTSG++ Sbjct: 18 WKQENGMWYFYNTDGSMATGWVQVNGSWYYLNSNGS--MKVNQWFQVGGKWYYVNTSGEL 75 >2bbw_A Adenylate kinase 4, AK4; nucleotide kinase, nucleotide binding, human, structural genomics, structural genomics consortium, SGC, transferase; HET: GP5; 2.05A {Homo sapiens} PDB: 2ar7_A* Length = 246 Score = 27.1 bits (59), Expect = 1.8 Identities = 3/29 (10%), Positives = 11/29 (37%) Query: 46 YWEDDNGILSYFQKDGKFKTISTDGSSSV 74 Y + ++ ++ G S ++ + Sbjct: 196 YKDVAKPVIELYKSRGVLHQFSGTETNKI 224 >2qv3_A VACA, vacuolating cytotoxin; beta-helix; 2.40A {Helicobacter pylori} Length = 457 Score = 27.2 bits (60), Expect = 1.9 Identities = 14/52 (26%), Positives = 28/52 (53%), Gaps = 9/52 (17%) Query: 43 ITGYWEDDNGILSYFQKDGKFKTISTDGSSSVL-------ATGSYH--VKIN 85 I G + ++ G ++Y + GK T++ +++++ ATG Y +KIN Sbjct: 277 IQGDFINNQGTINYLVRGGKVATLNVGNAAAMMFNNDIDSATGFYKPLIKIN 328 >2bwj_A Adenylate kinase 5; phosphoryl transfer reaction, transferase; HET: AMP; 2.3A {Homo sapiens} Length = 199 Score = 26.9 bits (58), Expect = 2.5 Identities = 4/26 (15%), Positives = 14/26 (53%) Query: 46 YWEDDNGILSYFQKDGKFKTISTDGS 71 Y+ +++Y++ + I+ +G+ Sbjct: 157 YYRASIPVIAYYETKTQLHKINAEGT 182 >2c95_A Adenylate kinase 1; AP4A, nucleotide kinase, transferase, ATP-binding; HET: B4P; 1.71A {Homo sapiens} PDB: 1z83_A* 3adk_A Length = 196 Score = 26.8 bits (58), Expect = 2.5 Identities = 5/26 (19%), Positives = 17/26 (65%) Query: 46 YWEDDNGILSYFQKDGKFKTISTDGS 71 Y++ ++++++K G + ++ +GS Sbjct: 154 YYKATEPVIAFYEKRGIVRKVNAEGS 179 >3cm0_A Adenylate kinase; ATP-binding, cytoplasm, nucleotide biosynthesis, nucleotide-binding, transferase, structural genomics; 1.80A {Thermus thermophilus} Length = 186 Score = 26.4 bits (57), Expect = 2.7 Identities = 6/26 (23%), Positives = 12/26 (46%) Query: 46 YWEDDNGILSYFQKDGKFKTISTDGS 71 Y E ++ Y++ G K + G+ Sbjct: 147 YREKTEPLVGYYEARGVLKRVDGLGT 172 >1zd8_A GTP:AMP phosphotransferase mitochondrial; ATP:AMP phosphotransferase, myokinase, structural genomics, structural genomics consortium, SGC; 1.48A {Homo sapiens} PDB: 2ak3_A* Length = 227 Score = 26.4 bits (57), Expect = 2.8 Identities = 8/29 (27%), Positives = 15/29 (51%) Query: 46 YWEDDNGILSYFQKDGKFKTISTDGSSSV 74 Y + +L Y+QK G +T S ++ + Sbjct: 176 YEDQTKPVLEYYQKKGVLETFSGTETNKI 204 >2rgx_A Adenylate kinase; transferase(phosphotransferase), ATP-binding, cytoplasm, nucleotide-binding; HET: AP5; 1.90A {Aquifex aeolicus} PDB: 2rh5_A Length = 206 Score = 26.4 bits (57), Expect = 3.0 Identities = 6/26 (23%), Positives = 11/26 (42%) Query: 46 YWEDDNGILSYFQKDGKFKTISTDGS 71 Y E ++ Y++K G + I Sbjct: 165 YREQTAPLIEYYKKKGILRIIDASKP 190 >1tev_A UMP-CMP kinase; ploop, NMP binding region, LID region, conformational changes, transferase; 2.10A {Homo sapiens} SCOP: c.37.1.1 Length = 196 Score = 26.5 bits (57), Expect = 3.1 Identities = 7/26 (26%), Positives = 12/26 (46%) Query: 46 YWEDDNGILSYFQKDGKFKTISTDGS 71 Y + I+ +++ GK K I S Sbjct: 155 YLQSTKPIIDLYEEMGKVKKIDASKS 180 >3ee1_A Effector protein VIRA; beta barrels, six-stranded beta barrel, hydrolase, plasmid, protease, secreted, thiol protease, virulence; 3.01A {Shigella flexneri} Length = 400 Score = 26.2 bits (57), Expect = 3.7 Identities = 26/97 (26%), Positives = 34/97 (35%), Gaps = 13/97 (13%) Query: 53 ILSYFQKDGKFKTISTDGSSSVLATGSYHVKINQDVEIKLTSLIRNTSGKIQCQFLDSNK 112 LS + DG+F + DG S L + + S+ KIQ L S + Sbjct: 68 SLSQDKMDGEFAHANIDGISIRLC-----------LNKGICSVFYLDGDKIQSTQLSSKE 116 Query: 113 LNCLAKD--QKQFYLRRTHLTELPSSKPQDDVAEIPE 147 N L KQF L + H P S PE Sbjct: 117 YNNLLSSLPPKQFNLGKVHTITAPVSGNFKTHKPAPE 153 >1ukz_A Uridylate kinase; transferase; HET: ADP AMP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1uky_A* Length = 203 Score = 26.1 bits (56), Expect = 3.8 Identities = 6/26 (23%), Positives = 11/26 (42%) Query: 46 YWEDDNGILSYFQKDGKFKTISTDGS 71 + E ++ YF+ K + D S Sbjct: 162 FKETSMPVIEYFETKSKVVRVRCDRS 187 >3dl0_A Adenylate kinase; phosphotransferase, zinc coordination, ATP-binding, cytoplasm, metal-binding, nucleotide biosynthesis, nucleotide-binding; HET: AP5; 1.58A {Bacillus subtilis} PDB: 1p3j_A* 2ori_A* 2eu8_A* 2oo7_A* 2p3s_A* 2qaj_A* 2osb_A* 3dkv_A* 1zin_A* 1zio_A* 1zip_A* 1s3g_A* Length = 216 Score = 26.3 bits (57), Expect = 3.8 Identities = 2/26 (7%), Positives = 9/26 (34%) Query: 46 YWEDDNGILSYFQKDGKFKTISTDGS 71 + +L ++ + G ++ Sbjct: 175 NMKQTAPLLDFYDEKGYLVNVNGQQD 200 >2qjx_A Protein BIM1; calponin homology domain, protein binding; 1.90A {Saccharomyces cerevisiae} Length = 127 Score = 26.3 bits (58), Expect = 3.8 Identities = 6/27 (22%), Positives = 12/27 (44%) Query: 84 INQDVEIKLTSLIRNTSGKIQCQFLDS 110 +N + + + +G CQ +DS Sbjct: 19 LNGLLNLNYKKIEECGTGAAYCQIMDS 45 >1aky_A Adenylate kinase; ATP:AMP phosphotransferase, myokinase; HET: AP5; 1.63A {Saccharomyces cerevisiae} SCOP: c.37.1.1 g.41.2.1 PDB: 2aky_A* 3aky_A* 1dvr_A* Length = 220 Score = 26.0 bits (56), Expect = 4.0 Identities = 4/26 (15%), Positives = 10/26 (38%) Query: 46 YWEDDNGILSYFQKDGKFKTISTDGS 71 Y I+ +++K G + + Sbjct: 180 YHAQTEPIVDFYKKTGIWAGVDASQP 205 >3be4_A Adenylate kinase; malaria, cryptosporidium parvum nonprotein kinase inhibitors, nucleotide-binding, transferase; HET: AP5; 1.60A {Cryptosporidium parvum iowa II} Length = 217 Score = 26.0 bits (56), Expect = 4.4 Identities = 2/26 (7%), Positives = 11/26 (42%) Query: 46 YWEDDNGILSYFQKDGKFKTISTDGS 71 + + ++ +++ G K ++ Sbjct: 180 FHKQTAPLVKFYEDLGILKRVNAKLP 205 >1qf9_A UMP/CMP kinase, protein (uridylmonophosphate/cytidylmonophosphate kinase); nucleoside monophosphate kinase, NMP kinase; HET: ADP C5P; 1.70A {Dictyostelium discoideum} SCOP: c.37.1.1 PDB: 1uke_A* 2ukd_A* 3ukd_A* 4ukd_A* 5ukd_A* Length = 194 Score = 26.0 bits (56), Expect = 4.7 Identities = 4/26 (15%), Positives = 10/26 (38%) Query: 46 YWEDDNGILSYFQKDGKFKTISTDGS 71 + ++ ++ K K K I + Sbjct: 152 FNVQTKLVIDHYNKFDKVKIIPANRD 177 >3fb4_A Adenylate kinase; psychrophIle, phosphotransferase, ATP-binding, nucleotide-binding, transferase; HET: AP5; 2.00A {Marinibacillus marinus} Length = 216 Score = 25.6 bits (55), Expect = 5.0 Identities = 4/26 (15%), Positives = 9/26 (34%) Query: 46 YWEDDNGILSYFQKDGKFKTISTDGS 71 + +L ++ + G K I Sbjct: 175 NMKQTQPLLDFYSQKGVLKDIDGQQD 200 >2grg_A Hypothetical protein; YNR034W-AP; helix/beta strand protein, structural genomics, PSI, protein structure initiative; NMR {Saccharomyces cerevisiae} SCOP: d.110.10.1 Length = 120 Score = 25.7 bits (56), Expect = 5.4 Identities = 13/61 (21%), Positives = 21/61 (34%), Gaps = 2/61 (3%) Query: 15 LVAAIAVVSCSALSVVVDSSELLPEPMDITGY--WEDDNGILSYFQKDGKFKTISTDGSS 72 L+ V S + + + GY +ED I F+K G F T + Sbjct: 48 LLDTSGVAKVIEKSPIAEIIRKSNAELGRLGYSVYEDAQYIGHAFKKAGHFIVYFTPKNK 107 Query: 73 S 73 + Sbjct: 108 N 108 >2r8u_A Microtubule-associated protein RP/EB family member 1; cytoskeleton, acetylation, cell cycle, cell division, cytoplasm, mitosis, phosphorylation; 1.35A {Homo sapiens} SCOP: a.40.1.1 PDB: 1vka_A 1txq_B 1wu9_A 2hkq_A 2hl5_A 3gjo_A 1yib_A 1yig_A Length = 268 Score = 25.3 bits (55), Expect = 6.2 Identities = 10/27 (37%), Positives = 17/27 (62%) Query: 84 INQDVEIKLTSLIRNTSGKIQCQFLDS 110 IN+ +++ LT + + SG CQF+D Sbjct: 24 INESLQLNLTKIEQLCSGAAYCQFMDM 50 >1ak2_A Adenylate kinase isoenzyme-2; nucleoside monophosphate kinase, phosphotransferase; 1.92A {Bos taurus} SCOP: c.37.1.1 g.41.2.1 PDB: 2ak2_A 2c9y_A* Length = 233 Score = 25.3 bits (54), Expect = 6.3 Identities = 5/26 (19%), Positives = 9/26 (34%) Query: 46 YWEDDNGILSYFQKDGKFKTISTDGS 71 Y ++ Y+ K G I + Sbjct: 191 YHTQTTPLVEYYSKRGIHSAIDASQT 216 >3fho_A ATP-dependent RNA helicase DBP5; mRNA export, ATPase, translation termination, ATP-binding, cytoplasm, hydrolase, membrane; 2.80A {Schizosaccharomyces pombe} Length = 508 Score = 25.1 bits (54), Expect = 8.9 Identities = 7/13 (53%), Positives = 9/13 (69%) Query: 47 WEDDNGILSYFQK 59 WE+ N I YFQ+ Sbjct: 473 WEEMNAIQEYFQR 485 >2qjz_A Microtubule-associated protein RP/EB family member 1; calponin homology domain, microtubule plus END, +TIP, protein binding; 1.25A {Homo sapiens} SCOP: a.40.1.1 PDB: 1pa7_A 1ueg_A 3co1_A 1v5k_A Length = 123 Score = 24.7 bits (54), Expect = 9.0 Identities = 10/27 (37%), Positives = 17/27 (62%) Query: 84 INQDVEIKLTSLIRNTSGKIQCQFLDS 110 IN+ +++ LT + + SG CQF+D Sbjct: 14 INESLQLNLTKIEQLCSGAAYCQFMDM 40 >1wyo_A Protein EB3, microtubule-associated protein RP/EB family member 3; CH domain, microtubule-binding, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 159 Score = 24.8 bits (54), Expect = 10.0 Identities = 8/27 (29%), Positives = 14/27 (51%) Query: 84 INQDVEIKLTSLIRNTSGKIQCQFLDS 110 +N + + T + + SG CQF+D Sbjct: 31 VNDSLHLNYTKIEQLCSGAAYCQFMDM 57 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 0.317 0.132 0.381 Gapped Lambda K H 0.267 0.0515 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 24244 Number of Hits to DB: 1,308,720 Number of extensions: 52818 Number of successful extensions: 183 Number of sequences better than 10.0: 1 Number of HSP's gapped: 181 Number of HSP's successfully gapped: 40 Length of query: 160 Length of database: 5,693,230 Length adjustment: 85 Effective length of query: 75 Effective length of database: 3,632,490 Effective search space: 272436750 Effective search space used: 272436750 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: 53 (24.7 bits)