RPS-BLAST 2.2.22 [Sep-27-2009] Database: pdb70 24,244 sequences; 5,693,230 total letters Searching..................................................done Query= gi|254780265|ref|YP_003064678.1| 30S ribosomal protein S7 [Candidatus Liberibacter asiaticus str. psy62] (156 letters) >3gty_S TF, 30S ribosomal protein S7; chaperone-client complex, cell cycle, cell division, chaperone, isomerase, rotamase, ribonucleoprotein; 3.40A {Thermotoga maritima} Length = 149 Score = 192 bits (489), Expect = 4e-50 Identities = 80/147 (54%), Positives = 109/147 (74%) Query: 10 REVLPDPKFSDFVVAKFMNAIMYGGKKSVAVSIVYGAFDLVEKKEKKDPVALFRQALINV 69 R++ PDP F D +VAK +N +M+ GKK++A IVYGAFD++ +K KKDP+ +FRQA+ NV Sbjct: 3 RQIPPDPVFGDVLVAKLINRVMWDGKKTIAQKIVYGAFDIIREKTKKDPLEVFRQAVENV 62 Query: 70 TPQFEVRTRRVGGAAYSVPGEITSKRSQALAIRWLIMAARKRNETTMIDRLGGEIIDAAN 129 P EVR RRVGGA Y VP E+ R +LA+RW++ AAR + M ++L EII A N Sbjct: 63 KPVLEVRPRRVGGATYQVPIEVQEPRRTSLALRWIVEAARAKKGRPMKEKLAEEIIAAYN 122 Query: 130 NRGVAVRKREETHKVAEANRAFSHYRW 156 N G A++K+E+TH++AEANRAF+HYRW Sbjct: 123 NTGTAIKKKEDTHRMAEANRAFAHYRW 149 >3i1m_G 30S ribosomal protein S7; ribosome structure, protein-RNA complex, ribonucleoprotein, ribosomal protein, RNA-binding, rRNA-binding, antibiotic resistance; 3.19A {Escherichia coli k-12} PDB: 1vs7_G* 3e1a_U 3e1c_U 1vs5_G 3i1o_G 3i1q_G 3i1s_G 3i1z_G 3i21_G 2qal_G* 1p6g_G 1p87_G 2aw7_G 2avy_G 2i2u_G 2i2p_G* 2qan_G* 2qb9_G* 2qbb_G* 2qbd_G ... Length = 179 Score = 190 bits (485), Expect = 1e-49 Identities = 80/156 (51%), Positives = 108/156 (69%) Query: 1 MSRRRRAVVREVLPDPKFSDFVVAKFMNAIMYGGKKSVAVSIVYGAFDLVEKKEKKDPVA 60 M RRR R++LPDPKF ++AKF+N +M GKKS A SIVY A + + ++ K + Sbjct: 1 MPRRRVIGQRKILPDPKFGSELLAKFVNILMVDGKKSTAESIVYSALETLAQRSGKSELE 60 Query: 61 LFRQALINVTPQFEVRTRRVGGAAYSVPGEITSKRSQALAIRWLIMAARKRNETTMIDRL 120 F AL NV P EV++RRVGG+ Y VP E+ R ALA+RW++ AARKR + +M RL Sbjct: 61 AFEVALENVRPTVEVKSRRVGGSTYQVPVEVRPVRRNALAMRWIVEAARKRGDKSMALRL 120 Query: 121 GGEIIDAANNRGVAVRKREETHKVAEANRAFSHYRW 156 E+ DAA N+G AV+KRE+ H++AEAN+AF+HYRW Sbjct: 121 ANELSDAAENKGTAVKKREDVHRMAEANKAFAHYRW 156 >1hus_A Ribosomal protein S7; RNA-binding protein, decoding center,; 2.50A {Geobacillus stearothermophilus} SCOP: a.75.1.1 Length = 155 Score = 189 bits (481), Expect = 3e-49 Identities = 85/154 (55%), Positives = 109/154 (70%) Query: 3 RRRRAVVREVLPDPKFSDFVVAKFMNAIMYGGKKSVAVSIVYGAFDLVEKKEKKDPVALF 62 RR R+VLPDP ++ +V + +N IM GKKS A I+Y AFD++ ++ KDP+ +F Sbjct: 2 RRGPVAKRDVLPDPIYNSKLVTRLINKIMIDGKKSKAQKILYTAFDIIRERTGKDPMEVF 61 Query: 63 RQALINVTPQFEVRTRRVGGAAYSVPGEITSKRSQALAIRWLIMAARKRNETTMIDRLGG 122 QAL NV P EVR RRVGGA Y VP E+ R +L +RWL+ AR RNE TM +RL Sbjct: 62 EQALKNVMPVLEVRARRVGGANYQVPVEVRPDRRVSLGLRWLVQYARLRNEKTMEERLAN 121 Query: 123 EIIDAANNRGVAVRKREETHKVAEANRAFSHYRW 156 EI+DAANN G AV+KRE+THK+AEAN+AF+HYRW Sbjct: 122 EIMDAANNTGAAVKKREDTHKMAEANKAFAHYRW 155 >3ofp_G 30S ribosomal protein S7; protein biosynthesis, ribosomes, RNA, tRNA, transfer, eryThr ketolide, macrolide, antibiotic, EXIT, peptidyl; 3.10A {Escherichia coli} PDB: 3fih_G* 2wwl_G 3ofo_G 2gy9_G 2gyb_G Length = 150 Score = 188 bits (479), Expect = 5e-49 Identities = 75/150 (50%), Positives = 103/150 (68%) Query: 3 RRRRAVVREVLPDPKFSDFVVAKFMNAIMYGGKKSVAVSIVYGAFDLVEKKEKKDPVALF 62 RRR R++LPDPKF ++AKF+N +M GKKS A SIVY A + + ++ K + F Sbjct: 1 RRRVIGQRKILPDPKFGSELLAKFVNILMVDGKKSTAESIVYSALETLAQRSGKSELEAF 60 Query: 63 RQALINVTPQFEVRTRRVGGAAYSVPGEITSKRSQALAIRWLIMAARKRNETTMIDRLGG 122 AL NV P EV++RRVGG+ Y VP E+ R ALA+RW++ AARKR + +M RL Sbjct: 61 EVALENVRPTVEVKSRRVGGSTYQVPVEVRPVRRNALAMRWIVEAARKRGDKSMALRLAN 120 Query: 123 EIIDAANNRGVAVRKREETHKVAEANRAFS 152 E+ DAA N+G AV+KRE+ H++AEAN+AF+ Sbjct: 121 ELSDAAENKGTAVKKREDVHRMAEANKAFA 150 >3bbn_G Ribosomal protein S7; small ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Spinacea oleracea} SCOP: i.1.1.1 Length = 155 Score = 187 bits (476), Expect = 9e-49 Identities = 72/155 (46%), Positives = 103/155 (66%) Query: 1 MSRRRRAVVREVLPDPKFSDFVVAKFMNAIMYGGKKSVAVSIVYGAFDLVEKKEKKDPVA 60 MSRR + DP + + +V +N I+ GKKS+A I+Y A +++K + +P++ Sbjct: 1 MSRRGTVEEKTAKSDPIYRNRLVNMLVNRILKHGKKSLAYQILYRAVKKIQQKTETNPLS 60 Query: 61 LFRQALINVTPQFEVRTRRVGGAAYSVPGEITSKRSQALAIRWLIMAARKRNETTMIDRL 120 + RQA+ VTP V+ RRVGG+ + VP EI S + +ALAIRWL+ AARKR M +L Sbjct: 61 VLRQAIRGVTPDIAVKARRVGGSTHQVPIEIGSTQGKALAIRWLLGAARKRPGRNMAFKL 120 Query: 121 GGEIIDAANNRGVAVRKREETHKVAEANRAFSHYR 155 E++DAA G AVRK+EETH++AEANRAF+H+R Sbjct: 121 SSELVDAAKGSGDAVRKKEETHRMAEANRAFAHFR 155 >1rss_A Ribosomal protein S7; RNA-binding, translation; 1.90A {Thermus thermophilus} SCOP: a.75.1.1 PDB: 1n32_G* 1i95_G* 1i96_G* 1i97_G* 1i94_G 1j5e_G* 1n33_G* 1n34_G 1n36_G 1pns_G 1pnx_G 1voq_G 1vos_G 1vov_G 1vox_G 1voz_G 2e5l_G 2zm6_G 3fic_G* 2vqe_G* ... Length = 151 Score = 181 bits (462), Expect = 4e-47 Identities = 70/150 (46%), Positives = 107/150 (71%) Query: 7 AVVREVLPDPKFSDFVVAKFMNAIMYGGKKSVAVSIVYGAFDLVEKKEKKDPVALFRQAL 66 A VR++ PD + D +V F+N IM GKK++A I Y A ++++K ++P+ +F+QA+ Sbjct: 2 AEVRQLQPDLVYGDVLVTAFINKIMRDGKKNLAARIFYDACKIIQEKTGQEPLKVFKQAV 61 Query: 67 INVTPQFEVRTRRVGGAAYSVPGEITSKRSQALAIRWLIMAARKRNETTMIDRLGGEIID 126 NV P+ EVR+RRVGGA Y VP E++ +R Q+LA+RWL+ AA +R E R+ E++D Sbjct: 62 ENVKPRMEVRSRRVGGANYQVPMEVSPRRQQSLALRWLVQAANQRPERRAAVRIAHELMD 121 Query: 127 AANNRGVAVRKREETHKVAEANRAFSHYRW 156 AA +G AV+K+E+ ++AEANRA++HYRW Sbjct: 122 AAEGKGGAVKKKEDVERMAEANRAYAHYRW 151 >1iqv_A Ribosomal protein S7; RNA-binding, decoding center, helix-turn- helix, ribosome; 2.10A {Pyrococcus horikoshii} SCOP: a.75.1.1 Length = 218 Score = 153 bits (388), Expect = 2e-38 Identities = 36/127 (28%), Positives = 62/127 (48%), Gaps = 5/127 (3%) Query: 28 NAIMYGGKKSVAVSIVYGAFDLVEKKEKKDPVALFRQALINVTPQFEVRTRRVGGAAYSV 87 KK A +V AF ++EK+ K+P+ + A+ N P+ + + GG Y V Sbjct: 92 EHRSLNSKKVRAYEVVKEAFKIIEKRTGKNPIQVLVWAIENAAPREDTTSVMFGGIRYHV 151 Query: 88 PGEITSKRSQALAIRWLIMAARK---RNETTMIDRLGGEIIDAANN--RGVAVRKREETH 142 +I+ R +A+R + + A R + + + L EII AAN + A K+ E Sbjct: 152 AVDISPLRRLDVALRNIALGASAKCYRTKMSFAEALAEEIILAANKDPKSYAYSKKLEIE 211 Query: 143 KVAEANR 149 ++AE++R Sbjct: 212 RIAESSR 218 >2zkq_g 40S ribosomal protein S5E; protein-RNA complex, 40S ribosomal subunit, ribosomal protein/RNA complex; 8.70A {Canis familiaris} Length = 204 Score = 131 bits (331), Expect = 7e-32 Identities = 37/145 (25%), Positives = 68/145 (46%), Gaps = 9/145 (6%) Query: 14 PDPKFSDFVVAKFMNAIMYGGKK----SVAVSIVYGAFDLVEKKEKKDPVALFRQALINV 69 K +V + N++M G+ + V IV AF+++ ++P+ + A+IN Sbjct: 60 RFRKAQCPIVERLTNSMMMHGRNNGKKLMTVRIVKHAFEIIHLLTGENPLQVLVNAIINS 119 Query: 70 TPQFEVRTRRVGGAAYSVPGEITSKRSQALAIRWLIMAARK---RNETTMIDRLGGEIID 126 P+ + G +++ R AI L AR+ RN T+ + L E+I+ Sbjct: 120 GPREDSTRIGRAGTVRRQAVDVSPLRRVNQAIWLLCTGAREAAFRNIKTIAECLADELIN 179 Query: 127 AANNRG--VAVRKREETHKVAEANR 149 AA A++K++E +VA++NR Sbjct: 180 AAKGSSNSYAIKKKDELERVAKSNR 204 >2noq_F L10A, 40S ribosomal protein S5; IRES RNA, ribosome, translation, internal initiation; 7.30A {Saccharomyces cerevisiae} PDB: 1s1h_G Length = 150 Score = 126 bits (317), Expect = 2e-30 Identities = 39/143 (27%), Positives = 70/143 (48%), Gaps = 9/143 (6%) Query: 16 PKFSDFVVAKFMNAIMY----GGKKSVAVSIVYGAFDLVEKKEKKDPVALFRQALINVTP 71 K ++ + N++M GKK AV I+ D++ ++P+ + A+ N P Sbjct: 8 RKAQCPIIERLTNSLMMNGRNNGKKLKAVRIIKHTLDIINVLTDQNPIQVVVDAITNTGP 67 Query: 72 QFEVRTRRVGGAAYSVPGEITSKRSQALAIRWLIMAARK---RNETTMIDRLGGEIIDAA 128 + + GGAA +++ R AI L + AR+ RN T+ + L E+I+AA Sbjct: 68 REDTTRVGGGGAARRQAVDVSPLRRVNQAIALLTIGAREAAFRNIKTIAETLAEELINAA 127 Query: 129 NNRG--VAVRKREETHKVAEANR 149 A++K++E +VA++NR Sbjct: 128 KGSSTSYAIKKKDELERVAKSNR 150 >2odr_C Phosphoseryl-tRNA synthetase; phosphoserine tRNA synthetase class II, ligase; 3.23A {Methanococcus maripaludis S2} Length = 701 Score = 30.7 bits (69), Expect = 0.15 Identities = 17/142 (11%), Positives = 40/142 (28%), Gaps = 25/142 (17%) Query: 6 RAVVREVLP---DPKFSDFVVAKFMNAIMYGGKKSVAVSIVYGAFDLVEKKEKKDPVALF 62 + ++ + + + K + KK+V ++I +++ K L Sbjct: 392 KELIESCVKNKDLKSPCELAIEKTFS--FGKTKKNVKINIFE------KEEGKN----LL 439 Query: 63 RQALINVTPQFEVRTRRVGGAAYSVPGEITSKRSQALAIRWLIMAARKRNETTMIDRLGG 122 +++N E+ G +P S + + + T I + Sbjct: 440 GPSILN-----EIYVYD--GNVIGIP---ESFDGVKEEFKDFLEKGKSEGVATGIRYIDA 489 Query: 123 EIIDAANNRGVAVRKREETHKV 144 + A KV Sbjct: 490 LCFKITSKLEEAFVSNTTEFKV 511 >1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant photosynthetic reaction center, peripheral antenna; HET: CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1 Length = 154 Score = 29.6 bits (65), Expect = 0.34 Identities = 12/57 (21%), Positives = 17/57 (29%), Gaps = 32/57 (56%) Query: 63 RQALINVTPQFEVRTRRVGGAAY---SVPGEITSKRSQALAIRWLIMAARKRNETTM 116 +QAL + ++ Y S P ALAI+ TM Sbjct: 19 KQALKKLQASLKL---------YADDSAP---------ALAIK-----------ATM 46 >2pff_A Fatty acid synthase subunit alpha, 3-oxoacyl-[acyl-carrier-; fatty acid synthase, acyl-carrier-protein, beta-ketoacyl reductase, beta-ketoacyl synthase, dehydratase; 4.00A {Saccharomyces cerevisiae} Length = 1688 Score = 28.6 bits (63), Expect = 0.62 Identities = 23/101 (22%), Positives = 40/101 (39%), Gaps = 24/101 (23%) Query: 77 TRRVGGAAYSVP----GEITSKRSQALAIRW----LIMAARKRN----ETTMID------ 118 T ++G SVP G +T+ R ++++ L M RKR E + D Sbjct: 1212 TDKIG---RSVPAPGKGILTTAREHHSSVKYASPNLNMKYRKRQLVTREAQIKDWVENEL 1268 Query: 119 ---RLGGEIIDAANNRGVAVRKREETHKVAEANRAFSHYRW 156 +L E I + + + + E H AE+ + +W Sbjct: 1269 EALKLEAEEIPSEDQNEFLLERTREIHNEAESQLRAAQQQW 1309 >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 = 26.4 bits (58), Expect = 3.0 Identities = 13/72 (18%), Positives = 24/72 (33%), Gaps = 13/72 (18%) Query: 5 RRAVVREVLPDPKF-SDF--------VVAKFMNAIMYG-GKKSVAVSIVYGAFDLVEKK- 53 V+ L + F + + + AK + K + A + ++ Sbjct: 80 FDQVLNLCLTE--FENCYLEGNDIHALAAKLLQENDTTLVKTKELIKNYITARIMAKRPF 137 Query: 54 EKKDPVALFRQA 65 +KK ALFR Sbjct: 138 DKKSNSALFRAV 149 >1rf6_A 5-enolpyruvylshikimate-3-phosphate synthase; shikimate pathway, EPSP synthase, glyphosate, PEP, transferase; HET: GPJ S3P; 1.90A {Streptococcus pneumoniae} SCOP: d.68.2.2 PDB: 1rf5_A 1rf4_A* Length = 427 Score = 26.0 bits (56), Expect = 3.8 Identities = 13/60 (21%), Positives = 25/60 (41%), Gaps = 4/60 (6%) Query: 89 GEITSKRSQALAIRWLIMAARKRNETTMIDRLGGE----IIDAANNRGVAVRKREETHKV 144 G I ++++ R +I + ET + D L GE + + GV + ++ V Sbjct: 12 GIIRVPGDKSISHRSIIFGSLAEGETKVYDILRGEDVLSTMQVFRDLGVEIEDKDGVITV 71 >1vjp_A MYO-inositol-1-phosphate synthase-related protein; TM1419, structural genomics, JCSG, PSI, protein structure initiative; HET: NAD; 1.70A {Thermotoga maritima} SCOP: c.2.1.3 d.81.1.3 PDB: 3cin_A* Length = 394 Score = 25.3 bits (55), Expect = 6.8 Identities = 12/76 (15%), Positives = 27/76 (35%), Gaps = 3/76 (3%) Query: 42 IVYGAFDLVEKKEKKD---PVALFRQALINVTPQFEVRTRRVGGAAYSVPGEITSKRSQA 98 + G++D+ K K V + + ++T E+R G+ ++P E Sbjct: 59 KIVGSYDVDRAKIGKKLSEVVKQYWNDVDSLTSDPEIRKGVHLGSVRNLPIEAEGLEDSM 118 Query: 99 LAIRWLIMAARKRNET 114 + ++ E Sbjct: 119 TLKEAVDTLVKEWTEL 134 >2c8m_A Lipoate-protein ligase A; lipoylation; HET: LPA; 1.89A {Thermoplasma acidophilum} SCOP: d.104.1.3 PDB: 2art_A* 2aru_A* 2c7i_A 2ars_A* Length = 262 Score = 25.1 bits (54), Expect = 6.8 Identities = 12/74 (16%), Positives = 26/74 (35%), Gaps = 9/74 (12%) Query: 75 VRTRRVGGAAYSVPGEITSKRSQALAIRWLIMAARKRNETTMIDRLGGEIIDAANNRGVA 134 R GGA Y G++ ++ ++ + T+M + ++++ G+ Sbjct: 70 ARRYTGGGAVYHDLGDLNF---------SVVRSSDDMDITSMFRTMNEAVVNSLRILGLD 120 Query: 135 VRKREETHKVAEAN 148 R E N Sbjct: 121 ARPGELNDVSIPVN 134 >1w85_A Pyruvate dehydrogenase E1 component, alpha subunit; dehydrogenase, multienzyme complex, oxidoreductase; HET: TDP; 2.0A {Geobacillus stearothermophilus} SCOP: c.36.1.11 PDB: 3duf_A* 3dv0_A* 3dva_A* 1w88_A* Length = 368 Score = 25.2 bits (54), Expect = 7.3 Identities = 9/25 (36%), Positives = 14/25 (56%) Query: 44 YGAFDLVEKKEKKDPVALFRQALIN 68 Y + +L + KKDP+ FR+ L Sbjct: 281 YRSKELENEWAKKDPLVRFRKFLEA 305 >2pqc_A 3-phosphoshikimate 1-carboxyvinyltransferase; inside-OUT alpha/beta barrel; HET: RC1; 1.60A {Agrobacterium SP} PDB: 2pqb_A* 2gg6_A* 2gg4_A* 2gga_A* 2ggd_A* 2pqd_A* Length = 445 Score = 25.2 bits (54), Expect = 7.6 Identities = 12/60 (20%), Positives = 22/60 (36%), Gaps = 4/60 (6%) Query: 89 GEITSKRSQALAIRWLIMAARKRNETTMIDRLGGE----IIDAANNRGVAVRKREETHKV 144 G + ++++ R + ET + L GE A G +RK +T + Sbjct: 15 GTVRIPGDKSISHRSFMFGGLASGETRITGLLEGEDVINTGKAMQAMGARIRKEGDTWII 74 >1qs0_A 2-oxoisovalerate dehydrogenase alpha-subunit; heterotetramer, THDP cofactor, oxidoreductase; HET: TDP; 2.40A {Pseudomonas putida} SCOP: c.36.1.11 PDB: 2bp7_A Length = 407 Score = 24.7 bits (53), Expect = 8.6 Identities = 7/21 (33%), Positives = 9/21 (42%) Query: 48 DLVEKKEKKDPVALFRQALIN 68 D DP+A +Q LI Sbjct: 324 DDWSHFPLGDPIARLKQHLIK 344 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 0.322 0.134 0.381 Gapped Lambda K H 0.267 0.0655 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 24244 Number of Hits to DB: 1,316,573 Number of extensions: 56164 Number of successful extensions: 192 Number of sequences better than 10.0: 1 Number of HSP's gapped: 184 Number of HSP's successfully gapped: 26 Length of query: 156 Length of database: 5,693,230 Length adjustment: 85 Effective length of query: 71 Effective length of database: 3,632,490 Effective search space: 257906790 Effective search space used: 257906790 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: 52 (24.0 bits)