RPS-BLAST 2.2.22 [Sep-27-2009] Database: mmdb70 33,805 sequences; 4,956,049 total letters Searching..................................................done Query= gi|254781064|ref|YP_003065477.1| FeS assembly scaffold SufA [Candidatus Liberibacter asiaticus str. psy62] (116 letters) >1x0g_A ISCA; [2Fe-2S], biosynthesis, cyanobacteria, domain swapping, Fe- S cluster, iron, iron-sulfur cluster protein, scaffold, sulfur; 2.50A {Thermosynechococcus elongatus} (A:) Length = 112 Score = 116 bits (291), Expect = 1e-27 Identities = 30/113 (26%), Positives = 54/113 (47%), Gaps = 3/113 (2%) Query: 4 IVTMTEAAVYRIKEIV--FNSQGKAQGIRISLKKGGCAGLEYMVDLVTDNPVDGDDLIEK 61 +V +T AA+ ++ + +G+A +RI ++ C Y + LV P D L + Sbjct: 1 MVELTPAAIQELERLQTHGVRRGQAAILRIQVQPSECGDWRYDLALV-AEPKPTDLLTQS 59 Query: 62 DGVKVWIDSASLLYMLGTEIDFKTEKLYSGFVFHNPNQVSACGCGQSVEIKRA 114 G + I + + + G +D+ + + F FHNPN CGCG + + R+ Sbjct: 60 QGWTIAIAAEAAELLRGLRVDYIEDLMGGAFRFHNPNASQTCGCGMAFRVSRS 112 >2apn_A Protein HI1723; HI1723 solution structure, structural genomics, structure 2 function project, S2F, unknown function; NMR {Haemophilus influenzae} (A:) Length = 114 Score = 115 bits (288), Expect = 3e-27 Identities = 39/111 (35%), Positives = 60/111 (54%), Gaps = 1/111 (0%) Query: 1 MSDIVTMTEAAVYRIKEIVFNSQGKAQGIRISLKKGGCAGLEYMVDLVTDNPVDGDDLIE 60 M+ +T T+AA ++K ++ + +R+ + GGC+G +Y + DGD IE Sbjct: 5 MAVPLTFTDAAANKVKSLISEEENTDLKLRVYITGGGCSGFQYGFTFD-EKVNDGDLTIE 63 Query: 61 KDGVKVWIDSASLLYMLGTEIDFKTEKLYSGFVFHNPNQVSACGCGQSVEI 111 K GV++ ID SL Y++G +D+ S F +NPN S CGCG S I Sbjct: 64 KSGVQLVIDPMSLQYLIGGTVDYTEGLEGSRFTVNNPNATSTCGCGSSFSI 114 >2d2a_A SUFA protein; iron-sulfur cluster, iron, ISCA, YADR, metal transport; 2.70A {Escherichia coli} (A:) Length = 145 Score = 114 bits (286), Expect = 5e-27 Identities = 42/107 (39%), Positives = 63/107 (58%), Gaps = 2/107 (1%) Query: 5 VTMTEAAVYRIKEIVFNSQGKAQGIRISLKKGGCAGLEYMVDLVTDNPVDGDDLIEKDGV 64 +T+T AA I+E+V Q G+R+ +K+ GCAG Y++D V P D L E DG Sbjct: 41 LTLTPAAAIHIRELV-AKQPGMVGVRLGVKQTGCAGFGYVLDSV-SEPDKDDLLFEHDGA 98 Query: 65 KVWIDSASLLYMLGTEIDFKTEKLYSGFVFHNPNQVSACGCGQSVEI 111 K+++ ++ ++ GTE+DF E L F FHNP + CGCG+S + Sbjct: 99 KLFVPLQAMPFIDGTEVDFVREGLNQIFKFHNPKAQNECGCGESFGV 145 >2qgo_A Putative Fe-S biosynthesis protein; PSI-2, NYSGXRC, 10399G, Fe-S cluster protein, structural genomics; 2.04A {Lactobacillus acidophilus ncfm} (A:) Length = 141 Score = 92.2 bits (229), Expect = 2e-20 Identities = 16/125 (12%), Positives = 38/125 (30%), Gaps = 21/125 (16%) Query: 1 MSDI-VTMTEAAVYRIKEIVFNSQGKA-----QGIRISLKKGGCA-GLEYMVDLVTDNPV 53 MS + + T+ AV +K + G + S++ G C+ G + + + Sbjct: 1 MSLLNIKFTDNAVDYLKRREILDKILILITDDGGGKYSIQGGSCSMGAHFSIIWLDKVDP 60 Query: 54 DGDDLIEKD-GVKVWIDSASLLYM-LGTEIDFKTEKLYSGFVFHNPNQ--------VSAC 103 D I + VK++ + +D+ + + Sbjct: 61 DYPVKIANEQNVKIYTSDFDKTMLGPNMVMDYN----AGSLSLSSDEGLLDGSVDIGNGA 116 Query: 104 GCGQS 108 ++ Sbjct: 117 ALLKA 121 >1r94_A Protein YFHF; tetrameric, beta barrel, iron-sulfur cluster protein, pseudo-symmetric motifs, metal transport; 2.30A {Escherichia coli} (A:1-22,A:70-118) Length = 71 Score = 67.6 bits (165), Expect = 6e-13 Identities = 19/52 (36%), Positives = 29/52 (55%) Query: 64 VKVWIDSASLLYMLGTEIDFKTEKLYSGFVFHNPNQVSACGCGQSVEIKRAD 115 V ++ + ++ GT++DF E L GF F NPN CGCG+S ++ A Sbjct: 13 VNTFLANRGKQFLDGTQLDFVKEGLNEGFKFTNPNVKDECGCGESFKLAAAL 64 >1nwb_A Hypothetical protein AQ_1857; QR6, structural genomics, protein structure initiative, NESG, reduced dimensionality PSI; NMR {Aquifex aeolicus} (A:1-29,A:82-124) Length = 72 Score = 64.2 bits (156), Expect = 6e-12 Identities = 13/40 (32%), Positives = 19/40 (47%) Query: 77 LGTEIDFKTEKLYSGFVFHNPNQVSACGCGQSVEIKRADL 116 +G E+D+ + + GF NPN +CGCG S Sbjct: 29 IGAELDYVVDFMGGGFTIRNPNATGSCGCGSSFSCGLEHH 68 >2p2e_A Putative Fe-S biosynthesis protein; hypothetical protein, beta-barrel, structural genomics, protein structure initiative, PSI-2; 2.48A {Lactobacillus salivarius UCC118} (A:) Length = 128 Score = 62.1 bits (151), Expect = 3e-11 Identities = 14/106 (13%), Positives = 34/106 (32%), Gaps = 14/106 (13%) Query: 5 VTMTEAAVYRIKEIVFNSQGKAQGIRI----SLKKGGCA---GLEYMVDLVT---DNPVD 54 +T+T+ A +++ + + ++ + +V+ D D Sbjct: 5 ITVTDDAAKKLQRYT-DDSNAVLLLDFDDGVGALSKVGVCSLNSDFRILVVSKDXDYKKD 63 Query: 55 GDDLIEKDGVKVWIDSASLLYM-LGTEIDFKTEKLYSGFVFHNPNQ 99 +++I+ + K + S Y +I T S N Sbjct: 64 YNEVIDSNIGKFYYKGYSKXYXDDNXKISLNTN--NSLLRLTGDNS 107 >1nwb_A Hypothetical protein AQ_1857; QR6, structural genomics, protein structure initiative, NESG, reduced dimensionality PSI; NMR {Aquifex aeolicus} (A:30-81) Length = 52 Score = 61.1 bits (149), Expect = 5e-11 Identities = 20/52 (38%), Positives = 30/52 (57%), Gaps = 1/52 (1%) Query: 25 KAQGIRISLKKGGCAGLEYMVDLVTDNPVDGDDLIEKDGVKVWIDSASLLYM 76 + +RI + GGC+G +Y + D +GD + E DGVKV ID S+ Y+ Sbjct: 1 ENPILRIRVVPGGCSGFQYAMGFD-DTVEEGDHVFEYDGVKVVIDPFSMPYV 51 >1r94_A Protein YFHF; tetrameric, beta barrel, iron-sulfur cluster protein, pseudo-symmetric motifs, metal transport; 2.30A {Escherichia coli} (A:23-69) Length = 47 Score = 59.6 bits (145), Expect = 1e-10 Identities = 18/48 (37%), Positives = 29/48 (60%), Gaps = 1/48 (2%) Query: 26 AQGIRISLKKGGCAGLEYMVDLVTDNPVDGDDLIEKDGVKVWIDSASL 73 G+R+ ++ GC+G+ Y+++ V D P D + E GVKV +D SL Sbjct: 1 GFGLRLGVRTSGCSGMAYVLEFV-DEPTPEDIVFEDKGVKVVVDGKSL 47 >2bsc_A F17A-G adhesin; bacterial adhesion, lectin, protein-sugar complex, fimbriae; HET: NAG; 1.4A {Escherichia coli} (A:) Length = 177 Score = 27.4 bits (60), Expect = 0.70 Identities = 20/64 (31%), Positives = 32/64 (50%), Gaps = 6/64 (9%) Query: 33 LKKGGCAGLEYMVDLVTDNPVDGDD---LIEKDGVKVWIDSASLLYMLGTEIDFKT-EKL 88 + KG C GL+ VDL +DG L E+ G+ +W+ Y GT + + E + Sbjct: 48 ISKGFCVGLDGKVDLPVVGSLDGQSIYGLTEEVGLLIWMGDTK--YSRGTAMSGNSWENV 105 Query: 89 YSGF 92 +SG+ Sbjct: 106 FSGW 109 >3eb8_A Cysteine protease-like VIRA; beta sheet, alpha helix, hydrolase, plasmid, secreted, thiol protease, virulence; 2.40A {Shigella flexneri} (A:84-358) Length = 275 Score = 27.0 bits (59), Expect = 0.84 Identities = 19/60 (31%), Positives = 28/60 (46%), Gaps = 14/60 (23%) Query: 57 DLIEKDGVKVWIDSASLLYMLG--------------TEIDFKTEKLYSGFVFHNPNQVSA 102 DLI + G+ +IDS L ML ++ F+TEKL +F +P +SA Sbjct: 89 DLINELGINEFIDSKKELQMLSYNQVNKIINSNFPQQDLCFQTEKLLFTSLFQDPAFISA 148 >1lwj_A 4-alpha-glucanotransferase; alpha-amylase family, acarbose, (beta/alpha)8 barrel; HET: ACG; 2.50A {Thermotoga maritima} (A:1-92,A:160-389) Length = 322 Score = 25.7 bits (55), Expect = 2.1 Identities = 10/31 (32%), Positives = 18/31 (58%), Gaps = 2/31 (6%) Query: 39 AGLEYMVDLVTDNPVDGDDLIEKDGVKVWID 69 +G++ ++DL DNP D++ K V +D Sbjct: 82 SGIKVVLDLPIDNPQVFDEM--KRLVLHLLD 110 >2dch_X Putative homing endonuclease; alpha/beta fold, hydrolase; 2.06A {Thermoproteus} (X:127-216) Length = 90 Score = 25.4 bits (55), Expect = 2.6 Identities = 10/43 (23%), Positives = 18/43 (41%) Query: 29 IRISLKKGGCAGLEYMVDLVTDNPVDGDDLIEKDGVKVWIDSA 71 IRI +K +++ + D + + DG +V ID Sbjct: 18 IRIGIKTKSKELRDWIAQTLNDLGIRASRADKSDGYEVHIDGV 60 >3ee1_A Effector protein VIRA; beta barrels, six-stranded beta barrel, hydrolase, plasmid, protease, secreted, thiol protease, virulence; 3.01A {Shigella flexneri} (A:1-38,A:115-400) Length = 324 Score = 24.7 bits (53), Expect = 4.2 Identities = 18/60 (30%), Positives = 27/60 (45%), Gaps = 14/60 (23%) Query: 57 DLIEKDGVKVWIDSASLLYMLG--------------TEIDFKTEKLYSGFVFHNPNQVSA 102 DLI + G+ +IDS L L ++ F+TEKL +F +P +SA Sbjct: 138 DLINELGINEFIDSKKELQXLSYNQLNKIINSNFPQQDLCFQTEKLLFTSLFQDPAFISA 197 >3bes_R Interferon-gamma binding protein C4R; orthopoxvirus, protein complex, antiviral defense, cytokine, glycoprotein, receptor, immune system; HET: NAG BMA; 2.20A {Ectromelia virus} (R:1-83) Length = 83 Score = 24.6 bits (53), Expect = 5.1 Identities = 18/83 (21%), Positives = 32/83 (38%), Gaps = 11/83 (13%) Query: 13 YRIKEIVFNSQGKAQG---IRISLKKGGCAGLEYMVDLVTDNPVDGDDLIEKDGVKVWID 69 Y+ + + F+S+ + G ISL+ G + M V + D D V W+ Sbjct: 5 YKFESVNFDSKIEWTGNGLYNISLRNYGIKTWQTMYTNVPEGTYDISGFPNNDFVSFWVK 64 Query: 70 SASLLYMLGTEIDFKTEKLYSGF 92 + D+K +K +G Sbjct: 65 F--------EQGDYKVDKYCTGL 79 >1qho_A Alpha-amylase; glycoside hydrolase, starch degradation; HET: MAL ABD; 1.70A {Geobacillus stearothermophilus} (A:1-130,A:202-404) Length = 333 Score = 24.5 bits (52), Expect = 5.4 Identities = 7/31 (22%), Positives = 12/31 (38%), Gaps = 2/31 (6%) Query: 39 AGLEYMVDLVTDNPVDGDDLIEKDGVKVWID 69 G++ +VD V +N L D + Sbjct: 120 NGIKVIVDFVPENGTIAQYLT--DAAVQLVA 148 >2uva_G Fatty acid synthase beta subunits; fungal, dehydratase, enoyl reductase, ketoacyl synthase, ketoacyl reductase; HET: FMN; 3.10A {Thermomyces lanuginosus} PDB: 2uvc_G* (G:135-311,G:423-557) Length = 312 Score = 24.3 bits (52), Expect = 5.6 Identities = 5/29 (17%), Positives = 13/29 (44%) Query: 41 LEYMVDLVTDNPVDGDDLIEKDGVKVWID 69 + +V ++T +PV+ + +D Sbjct: 224 IPELVRMITYDPVNWETATVFPDATHIVD 252 >3bh4_A Alpha-amylase; calcium, carbohydrate metabolism, glycosidase, hydrolase, metal-binding, secreted; 1.40A {Bacillus amyloliquefaciens} PDB: 1e43_A 1e3z_A* 1e40_A* 1e3x_A 1vjs_A 1ob0_A 1bli_A 1bpl_B 1bpl_A (A:1-101,A:204-394) Length = 292 Score = 24.1 bits (51), Expect = 7.2 Identities = 5/31 (16%), Positives = 12/31 (38%), Gaps = 2/31 (6%) Query: 39 AGLEYMVDLVTDNPVDGDDLIEKDGVKVWID 69 ++ D+V D+P + K + + Sbjct: 91 RNVQVYGDVVLDHPDVVAET--KKWGIWYAN 119 >2zkq_q 40S ribosomal protein S11E; protein-RNA complex, 40S ribosomal subunit, ribosomal protein/RNA complex; 8.70A {Canis familiaris} PDB: 1s1h_Q (q:) Length = 158 Score = 24.1 bits (52), Expect = 7.7 Identities = 5/28 (17%), Positives = 8/28 (28%) Query: 84 KTEKLYSGFVFHNPNQVSACGCGQSVEI 111 + EK + H G V + Sbjct: 101 RFEKRHKNMSVHLSPCFRDVQIGDIVTV 128 >1g94_A Alpha-amylase; beta-alpha-8-barrel, 3 domain structure, hydrolase; HET: DAF GLC; 1.74A {Pseudoalteromonas haloplanktis} (A:1-87,A:148-337) Length = 277 Score = 23.6 bits (50), Expect = 8.9 Identities = 4/31 (12%), Positives = 11/31 (35%), Gaps = 2/31 (6%) Query: 39 AGLEYMVDLVTDNPVDGDDLIEKDGVKVWID 69 AG++ VD + + + + + Sbjct: 77 AGVDIYVDTLIASNYVQNTI--AAYINDLQA 105 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 0.319 0.137 0.398 Gapped Lambda K H 0.267 0.0509 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 33805 Number of Hits to DB: 889,836 Number of extensions: 36537 Number of successful extensions: 126 Number of sequences better than 10.0: 1 Number of HSP's gapped: 113 Number of HSP's successfully gapped: 24 Length of query: 116 Length of database: 4,956,049 Length adjustment: 69 Effective length of query: 47 Effective length of database: 2,623,504 Effective search space: 123304688 Effective search space used: 123304688 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 (21.7 bits) S2: 50 (23.6 bits)