RPS-BLAST 2.2.22 [Sep-27-2009] Database: scop70_1_75 13,730 sequences; 2,407,596 total letters Searching..................................................done Query= gi|254780259|ref|YP_003064672.1| 50S ribosomal protein L23 [Candidatus Liberibacter asiaticus str. psy62] (110 letters) >d2j01x1 d.12.1.1 (X:3-95) Ribosomal protein L23 {Thermus thermophilus [TaxId: 274]} Length = 93 Score = 93.6 bits (233), Expect = 4e-21 Identities = 40/104 (38%), Positives = 56/104 (53%), Gaps = 13/104 (12%) Query: 7 YDTIISPVIAEKSTLLAGQNQVVFNVKKDSSKSEIKSAVEALFSVKVVSVNTLIRKGKVK 66 YD I++PV++EK+ + + F V ++K+EIK+AVE F VKVV VNTL +GK K Sbjct: 3 YDVILAPVLSEKAYAGFAEGKYTFWVHPKATKTEIKNAVETAFKVKVVKVNTLHVRGKKK 62 Query: 67 RLSRISAARSRVRSSRDMYVSRKDVKRAFVTLAKGYSIDISAGV 110 RL R R D K+A V +A G I+ G+ Sbjct: 63 RLGRY-------------LGKRPDRKKAIVQVAPGQKIEALEGL 93 >d2zjrq1 d.12.1.1 (Q:2-94) Ribosomal protein L23 {Deinococcus radiodurans [TaxId: 1299]} Length = 93 Score = 92.8 bits (231), Expect = 7e-21 Identities = 35/103 (33%), Positives = 54/103 (52%), Gaps = 13/103 (12%) Query: 7 YDTIISPVIAEKSTLLAGQNQVVFNVKKDSSKSEIKSAVEALFSVKVVSVNTLIRKGKVK 66 YD + +PVI+EK+ + F V ++K+EIK A++ F V+V+ ++T+ GK K Sbjct: 3 YDILQAPVISEKAYSAMERGVYSFWVSPKATKTEIKDAIQQAFGVRVIGISTMNVPGKRK 62 Query: 67 RLSRISAARSRVRSSRDMYVSRKDVKRAFVTLAKGYSIDISAG 109 R+ R R D K+A V LA+G SI+ AG Sbjct: 63 RVGRF-------------IGQRNDRKKAIVRLAEGQSIEALAG 92 >d2qamt1 d.12.1.1 (T:1-93) Ribosomal protein L23 {Escherichia coli [TaxId: 562]} Length = 93 Score = 87.9 bits (218), Expect = 2e-19 Identities = 37/105 (35%), Positives = 59/105 (56%), Gaps = 14/105 (13%) Query: 1 MINIRFYDTIISPVIAEKST-LLAGQNQVVFNVKKDSSKSEIKSAVEALFSVKVVSVNTL 59 + R + +P ++EK++ + N +V V KD++K+EIK+AV+ LF V+V VNTL Sbjct: 2 IREERLLKVLRAPHVSEKASTAMEKSNTIVLKVAKDATKAEIKAAVQKLFEVEVEVVNTL 61 Query: 60 IRKGKVKRLSRISAARSRVRSSRDMYVSRKDVKRAFVTLAKGYSI 104 + KGKVKR + R D K+A+VTL +G ++ Sbjct: 62 VVKGKVKRHGQR-------------IGRRSDWKKAYVTLKEGQNL 93 >d1vqos1 d.12.1.1 (S:1-81) Ribosomal protein L23 {Archaeon Haloarcula marismortui [TaxId: 2238]} Length = 81 Score = 67.4 bits (165), Expect = 3e-13 Identities = 21/62 (33%), Positives = 30/62 (48%), Gaps = 1/62 (1%) Query: 7 YDTIISPVIAEKSTLLAG-QNQVVFNVKKDSSKSEIKSAVEALFSVKVVSVNTLIRKGKV 65 +D I P + EK+ QN++ F V +SK E+ AVE + V V VNT Sbjct: 2 WDVIKHPHVTEKAMNDMDFQNKLQFAVDDRASKGEVADAVEEQYDVTVEQVNTQNTMDGE 61 Query: 66 KR 67 K+ Sbjct: 62 KK 63 >d2g9hd1 b.40.2.2 (D:4-86) Enterotoxin type I, SEI {Staphylococcus aureus [TaxId: 1280]} Length = 83 Score = 28.6 bits (64), Expect = 0.14 Identities = 12/59 (20%), Positives = 23/59 (38%), Gaps = 3/59 (5%) Query: 1 MINIRFYDTIISPVIAE--KSTLLAGQNQVVFNVKKDSSKSEIKSAVEA-LFSVKVVSV 56 + N+R + T + + L NQ+ F+ + SE + E F K + + Sbjct: 3 VGNLRNFYTKHDYIDLKGLIDKNLPSANQLEFSTGINDLISESNNWDEISKFKGKKLDI 61 >d1iura_ a.2.3.1 (A:) Hypothetical protein KIAA0730 {Human (Homo sapiens) [TaxId: 9606]} Length = 88 Score = 28.5 bits (63), Expect = 0.18 Identities = 9/62 (14%), Positives = 18/62 (29%), Gaps = 2/62 (3%) Query: 29 VFNVKKDSSKSEIKSAVEALFSVKVVSVNTLIRKGKVKRLSRISAARSRV--RSSRDMYV 86 V +SE K + L+ N + + +R+ ++ D Sbjct: 21 VVEQAWKLPESERKKIIRRLYLKWHPDKNPENHDIANEVFKHLQNEINRLEKQAFLDQNA 80 Query: 87 SR 88 R Sbjct: 81 DR 82 >d1usga_ c.93.1.1 (A:) Leucine-binding protein {Escherichia coli [TaxId: 562]} Length = 346 Score = 25.5 bits (54), Expect = 1.4 Identities = 10/36 (27%), Positives = 18/36 (50%) Query: 7 YDTIISPVIAEKSTLLAGQNQVVFNVKKDSSKSEIK 42 +T+I P+ ++ L G + VF D S ++ K Sbjct: 311 ANTVIGPLNWDEKGDLKGFDFGVFQWHADGSSTKAK 346 >d1whua_ a.4.9.1 (A:) Polynucleotide phosphorylase/guanosine pentaphosphate synthase (PNPase/GPSI), domain 3 {Mouse (Mus musculus) [TaxId: 10090]} Length = 104 Score = 24.8 bits (54), Expect = 2.0 Identities = 13/64 (20%), Positives = 25/64 (39%), Gaps = 3/64 (4%) Query: 40 EIKSAVEALFSVKVVSVNTLIRKGKVKRLSRISAARSRVRSS---RDMYVSRKDVKRAFV 96 EI + + K+ +V T KV R ++ R + V + ++ +F Sbjct: 17 EIVKYTKIIAMEKLYAVFTDYEHDKVSRDEAVNKIRLDTEEHLKEKFPEVDQFEIIESFN 76 Query: 97 TLAK 100 +AK Sbjct: 77 IVAK 80 >d1f7ca_ a.116.1.1 (A:) Graf {Chicken (Gallus gallus) [TaxId: 9031]} Length = 191 Score = 24.0 bits (51), Expect = 3.7 Identities = 11/63 (17%), Positives = 22/63 (34%), Gaps = 1/63 (1%) Query: 49 FSVKVVSVNTLIRKG-KVKRLSRISAARSRVRSSRDMYVSRKDVKRAFVTLAKGYSIDIS 107 FS+ ++ + +G + L RI SRV+ + + K + + I Sbjct: 8 FSIIKKCIHAVETRGINEQGLYRIVGVNSRVQKLLSILMDPKTATETETEICAEWEIKTI 67 Query: 108 AGV 110 Sbjct: 68 TSA 70 >d1c1ka_ a.120.1.1 (A:) gene 59 helicase assembly protein {Bacteriophage T4 [TaxId: 10665]} Length = 217 Score = 23.2 bits (50), Expect = 6.3 Identities = 9/29 (31%), Positives = 14/29 (48%), Gaps = 1/29 (3%) Query: 77 RVRSSRDMYVSRKDVKRAFVTLAKGYSID 105 +R S Y R+D K F L++ Y + Sbjct: 42 CMRVSDAAYQKRRD-KYFFQKLSEKYKLK 69 >d1hkqa_ a.4.5.10 (A:) Replication protein A, repA {Pseudomonas syringae pv. savastanoi [TaxId: 29438]} Length = 125 Score = 22.8 bits (49), Expect = 7.1 Identities = 12/74 (16%), Positives = 22/74 (29%), Gaps = 5/74 (6%) Query: 30 FNVKKDSSKSEIKSAVEALFSVKVVSVNTLIRKGKVKRLSR-ISAARSRVRSSRDMYVSR 88 F + + + + A LF+ + KGKV R + + R Sbjct: 50 FGIDVKHAYAALDDAATKLFNRDI----RRYVKGKVVERMRWVFHVKYREGQGCVELGFS 105 Query: 89 KDVKRAFVTLAKGY 102 + L K + Sbjct: 106 PTIIPHLTMLHKEF 119 >d1xbla_ a.2.3.1 (A:) DnaJ chaperone, N-terminal (J) domain {Escherichia coli [TaxId: 562]} Length = 75 Score = 22.7 bits (48), Expect = 9.6 Identities = 7/29 (24%), Positives = 12/29 (41%) Query: 29 VFNVKKDSSKSEIKSAVEALFSVKVVSVN 57 + V K + + EI+ A + L N Sbjct: 8 ILGVSKTAEEREIRKAYKRLAMKYHPDRN 36 Database: scop70_1_75 Posted date: Mar 27, 2010 6:21 PM Number of letters in database: 2,407,596 Number of sequences in database: 13,730 Lambda K H 0.318 0.130 0.329 Gapped Lambda K H 0.267 0.0686 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 13730 Number of Hits to DB: 341,421 Number of extensions: 12796 Number of successful extensions: 54 Number of sequences better than 10.0: 1 Number of HSP's gapped: 48 Number of HSP's successfully gapped: 24 Length of query: 110 Length of database: 2,407,596 Length adjustment: 69 Effective length of query: 41 Effective length of database: 1,460,226 Effective search space: 59869266 Effective search space used: 59869266 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 (21.8 bits) S2: 47 (22.0 bits)