RPS-BLAST 2.2.22 [Sep-27-2009] Database: mmdb70 33,805 sequences; 4,956,049 total letters Searching..................................................done Query= gi|254780998|ref|YP_003065411.1| hypothetical protein CLIBASIA_04495 [Candidatus Liberibacter asiaticus str. psy62] (146 letters) >3g0m_A Cysteine desulfuration protein SUFE; YNHA, csgid, national institute of allergy and infectious diseases, niaid, hydrolase; 1.76A {Salmonella typhimurium LT2} PDB: 1mzg_A (A:) Length = 141 Score = 137 bits (348), Expect = 4e-34 Identities = 31/137 (22%), Positives = 63/137 (45%), Gaps = 4/137 (2%) Query: 2 IPINDIIEDMEMIEDLHDRYHYLIELGKKLPLFPKEYMTDQNIVAGCMSKLWMVIEWENK 61 ++ + + ++Y Y+IELG++L + QN + GC S++W+V+ Sbjct: 8 PDKEKLLRNFTRCANWEEKYLYIIELGQRLAELNPQDRNPQNTIHGCQSQVWIVMRR--- 64 Query: 62 GDQDPIMIFYAVSDSQIVCGLLYIVKSIYAHKKISEILKMDSLTILQHLGLTENLSQKRM 121 + + I+ SD+ IV GL+ +V +Y +I+ D + + L ++L+ R Sbjct: 65 -NANGIIELQGDSDAAIVKGLMAVVFILYHQMTAQDIVHFDVRPWFEKMALAQHLTPSRS 123 Query: 122 NGLYTIVNKIQDLTQEY 138 GL ++ I+ Sbjct: 124 QGLEAMIRAIRAKAATL 140 >1wlo_A SUFE protein; structural genomics, riken structural genomics/proteomics initiative, RSGI, unknown function; NMR {Thermus thermophilus HB8} (A:) Length = 136 Score = 123 bits (310), Expect = 1e-29 Identities = 23/141 (16%), Positives = 54/141 (38%), Gaps = 9/141 (6%) Query: 1 MIP--INDIIEDMEMIEDLHDRYHYLIELGKKLPLFPKEYMTDQNIVAGCMSKLWMVIEW 58 M+P + +E + + R L+E K+P P + V C + ++ + Sbjct: 1 MVPPKLKQALELFKSLPK-ELRSQVLLEYAAKVPPPPPGV--ELERVHECQTPFFVHADV 57 Query: 59 ENKGDQDPIMIFYAVSDSQIVCGLLYIVKSIYAHKKISEILKMDSLTILQHLGLTENLSQ 118 E + F+ ++ V +++ + +L++ + GL E + Sbjct: 58 E---GGKVRLYFHVPDEAPTVKAFAGLLREGLEGESPEAVLEVP-PGFYRGYGLEEFFTP 113 Query: 119 KRMNGLYTIVNKIQDLTQEYL 139 R+ GL + ++Q ++ L Sbjct: 114 LRLRGLEAALLRLQAQVRKAL 134 >1ni7_A ER75, hypothetical protein YGDK; RD-structural genomics, PSI, protein structure initiative, northeast structural genomics consortium, NESG; NMR {Escherichia coli} (A:1-45,A:86-155) Length = 115 Score = 76.3 bits (188), Expect = 2e-15 Identities = 29/136 (21%), Positives = 43/136 (31%), Gaps = 44/136 (32%) Query: 7 IIEDMEMIEDLHDRYHYLIELGKKLPLFPKEYMTDQNIVAGCMSKLWMVIEWENKGDQDP 66 + + D+Y LI LGK+LP Sbjct: 20 LRNTFAPLTQWEDKYRQLIMLGKQLP---------------------------------- 45 Query: 67 IMIFYAVSDSQIVCGLLYIVKSIYAHKKISEILKMDSLTILQHLGLTENLSQKRMNGLYT 126 +IV GLL ++ + K +E+ L + LGL LS R GL Sbjct: 46 ----------RIVRGLLAVLLTAVEGKTAAELQAQSPLALFDELGLRAQLSASRSQGLNA 95 Query: 127 IVNKIQDLTQEYLNVH 142 + I T++ L H Sbjct: 96 LSEAIIAATKQVLEHH 111 >1ni7_A ER75, hypothetical protein YGDK; RD-structural genomics, PSI, protein structure initiative, northeast structural genomics consortium, NESG; NMR {Escherichia coli} (A:46-85) Length = 40 Score = 43.8 bits (104), Expect = 1e-05 Identities = 9/42 (21%), Positives = 18/42 (42%), Gaps = 4/42 (9%) Query: 34 FPKEYMTDQNIVAGCMSKLWMVIEWENKGDQDPIMIFYAVSD 75 P E +AGC +++W+ ++ M F+ S+ Sbjct: 2 LPDELKAQAKEIAGCENRVWLGYT----VAENGKMHFFGDSE 39 >3fho_A ATP-dependent RNA helicase DBP5; mRNA export, ATPase, translation termination, ATP-binding, cytoplasm, hydrolase, membrane; 2.80A {Schizosaccharomyces pombe} (A:1-326) Length = 326 Score = 28.6 bits (63), Expect = 0.37 Identities = 12/84 (14%), Positives = 30/84 (35%), Gaps = 16/84 (19%) Query: 77 QIVCG----LLY-IVKSIYAHKKISEILKMDSLTILQHLGLTE-------NLSQKRMNGL 124 QIV G ++ + + + I + ++ +L GL + L + L Sbjct: 237 QIVIGTPGTVMDLMKRRQLDARDIKVFVLDEADNMLDQQGLGDQSMRIKHLLPRNTQIVL 296 Query: 125 Y--TIVNKIQDLTQEYLN--VHIK 144 + T +++ + + I+ Sbjct: 297 FSATFSERVEKYAERFAPNANEIR 320 >3bzc_A TEX; helix-turn-helix, helix-hairpin-helix, S1 domain, YQGF domain, transcription, RNA binding protein; 2.27A {Pseudomonas aeruginosa} (A:1-99) Length = 99 Score = 24.3 bits (53), Expect = 7.3 Identities = 7/21 (33%), Positives = 11/21 (52%) Query: 10 DMEMIEDLHDRYHYLIELGKK 30 D + L +R YL EL ++ Sbjct: 53 DDTQLRMLEERLRYLRELEER 73 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 0.322 0.139 0.409 Gapped Lambda K H 0.267 0.0685 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 33805 Number of Hits to DB: 1,092,322 Number of extensions: 44901 Number of successful extensions: 134 Number of sequences better than 10.0: 1 Number of HSP's gapped: 130 Number of HSP's successfully gapped: 18 Length of query: 146 Length of database: 4,956,049 Length adjustment: 80 Effective length of query: 66 Effective length of database: 2,251,649 Effective search space: 148608834 Effective search space used: 148608834 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.4 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.9 bits) S2: 50 (23.1 bits)