RPS-BLAST 2.2.22 [Sep-27-2009] Database: scop70_1_75 13,730 sequences; 2,407,596 total letters Searching..................................................done Query= gi|254780440|ref|YP_003064853.1| transcription elongation factor GreA [Candidatus Liberibacter asiaticus str. psy62] (158 letters) >d1grja1 a.2.1.1 (A:2-79) GreA transcript cleavage protein, N-terminal domain {Escherichia coli [TaxId: 562]} Length = 78 Score = 89.0 bits (221), Expect = 2e-19 Identities = 36/76 (47%), Positives = 55/76 (72%) Query: 4 KIPVTSKGFDKIQQELRWRQQEERPRIIKAISEARAYGDLSENAEYQAAKELQNLNEGRM 63 IP+T +G +K+++EL + + RP II AI+EAR +GDL ENAEY AA+E Q EGR+ Sbjct: 2 AIPMTLRGAEKLREELDFLKSVRRPEIIAAIAEAREHGDLKENAEYHAAREQQGFCEGRI 61 Query: 64 AELENIITRAEVIDIS 79 ++E ++ A+VID++ Sbjct: 62 KDIEAKLSNAQVIDVT 77 >d1grja2 d.26.1.2 (A:80-158) GreA transcript cleavage factor, C-terminal domain {Escherichia coli [TaxId: 562]} Length = 79 Score = 86.7 bits (215), Expect = 9e-19 Identities = 34/75 (45%), Positives = 56/75 (74%) Query: 84 DRIAFGATVSLVEKNSGDKKNYQIVGDQEADVQSGLVSISSPIARALIGKELGDIISVNA 143 R+ FGATV+++ +S +++ Y+IVGD EAD + L+S++SPIAR LIGKE D++ + Sbjct: 5 GRVIFGATVTVLNLDSDEEQTYRIVGDDEADFKQNLISVNSPIARGLIGKEEDDVVVIKT 64 Query: 144 PGGEKTYEILQVLWI 158 PGGE +E+++V ++ Sbjct: 65 PGGEVEFEVIKVEYL 79 >d2f23a2 d.26.1.2 (A:78-156) GreA transcript cleavage factor, C-terminal domain {Thermus thermophilus [TaxId: 274]} Length = 79 Score = 84.1 bits (208), Expect = 5e-18 Identities = 24/76 (31%), Positives = 48/76 (63%), Gaps = 2/76 (2%) Query: 82 SGDRIAFGATVSLVEKNSGDKKNYQIVGDQEADVQSGL--VSISSPIARALIGKELGDII 139 SG+ I G+ V L + SG++ + Q+V EA+V +S +SP+ +AL+G +GD++ Sbjct: 2 SGEVIGLGSVVELEDPLSGERLSVQVVSPAEANVLDTPMKISDASPMGKALLGHRVGDVL 61 Query: 140 SVNAPGGEKTYEILQV 155 S++ P G++ + ++ + Sbjct: 62 SLDTPKGKREFRVVAI 77 >d2f23a1 a.2.1.1 (A:3-77) GreA transcript cleavage protein, N-terminal domain {Thermus thermophilus [TaxId: 274]} Length = 75 Score = 77.9 bits (192), Expect = 4e-16 Identities = 19/74 (25%), Positives = 43/74 (58%), Gaps = 1/74 (1%) Query: 4 KIPVTSKGFDKIQQELRWRQQEERPRIIKAISEARAYGDLSENAEYQAAKELQNLNEGRM 63 ++ +T G++++ Q+L R++E K + E D +++ +AAK+ + E R+ Sbjct: 2 EVKLTKAGYERLMQQLE-RERERLQEATKILQELMESSDDYDDSGLEAAKQEKARIEARI 60 Query: 64 AELENIITRAEVID 77 LE+I++RA +++ Sbjct: 61 DSLEDILSRAVILE 74 >d1iq6a_ d.38.1.4 (A:) (R)-specific enoyl-CoA hydratase {Aeromonas caviae [TaxId: 648]} Length = 132 Score = 24.7 bits (53), Expect = 4.4 Identities = 10/30 (33%), Positives = 14/30 (46%) Query: 56 QNLNEGRMAELENIITRAEVIDISTMSGDR 85 Q+L G+ A L AEV + +S D Sbjct: 2 QSLEVGQKARLSKRFGAAEVAAFAALSEDF 31 >d1nuwa_ e.7.1.1 (A:) Fructose-1,6-bisphosphatase {Pig (Sus scrofa) [TaxId: 9823]} Length = 328 Score = 24.1 bits (52), Expect = 5.7 Identities = 8/34 (23%), Positives = 16/34 (47%) Query: 114 DVQSGLVSISSPIARALIGKELGDIISVNAPGGE 147 + + + +IS+ + +A I G S N G + Sbjct: 29 SLCTAVKAISTAVRKAGIAHLYGIAGSTNVTGDQ 62 >d2b3na1 d.38.1.4 (A:6-159) Hypothetical protein AF1124 {Archaeon Archaeoglobus fulgidus [TaxId: 2234]} Length = 154 Score = 24.3 bits (52), Expect = 6.0 Identities = 9/28 (32%), Positives = 12/28 (42%) Query: 58 LNEGRMAELENIITRAEVIDISTMSGDR 85 L EG E E + +V +SGD Sbjct: 31 LKEGYRFEYEKKLCEIDVAMFGLISGDL 58 >d1omoa_ c.2.1.13 (A:) Archaeal alanine dehydrogenase {Archaeon Archaeoglobus fulgidus [TaxId: 2234]} Length = 320 Score = 23.7 bits (50), Expect = 7.8 Identities = 23/140 (16%), Positives = 45/140 (32%), Gaps = 19/140 (13%) Query: 31 IKAISEARAYGDLSENAEYQAAKELQNLNEGRMAELENIITRAEVIDISTMSGDRIAFGA 90 + I E +AY + A+ + ++ + +R +V+ +T S + Sbjct: 147 VFDIGEVKAYDVREKAAK-KFVSYCEDRGISASVQPAEEASRCDVLVTTTPSRKPVVKAE 205 Query: 91 TVS---------------LVEKNSGDKKNYQIVGDQEADVQSGLVSI---SSPIARALIG 132 V KK +V D E G +++ I + Sbjct: 206 WVEEGTHINAIGADGPGKQELDVEILKKAKIVVDDLEQAKHGGEINVAVSKGVIGVEDVH 265 Query: 133 KELGDIISVNAPGGEKTYEI 152 +G++I+ G E EI Sbjct: 266 ATIGEVIAGLKDGRESDEEI 285 >d1dd5a_ d.67.3.1 (A:) Ribosome recycling factor, RRF {Thermotoga maritima [TaxId: 2336]} Length = 184 Score = 23.4 bits (50), Expect = 9.6 Identities = 11/48 (22%), Positives = 23/48 (47%) Query: 27 RPRIIKAISEARAYGDLSENAEYQAAKELQNLNEGRMAELENIITRAE 74 R I+K I E + G + E+ + E+Q L + + +L+ + + Sbjct: 131 RREILKKIKEDQKEGLIPEDDAKRLENEIQKLTDEFIEKLDEVFEIKK 178 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 0.312 0.131 0.354 Gapped Lambda K H 0.267 0.0641 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 13730 Number of Hits to DB: 553,800 Number of extensions: 23498 Number of successful extensions: 70 Number of sequences better than 10.0: 1 Number of HSP's gapped: 68 Number of HSP's successfully gapped: 23 Length of query: 158 Length of database: 2,407,596 Length adjustment: 78 Effective length of query: 80 Effective length of database: 1,336,656 Effective search space: 106932480 Effective search space used: 106932480 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.2 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 42 (21.9 bits) S2: 49 (22.8 bits)