RPS-BLAST 2.2.22 [Sep-27-2009]
Database: mmdb70
33,805 sequences; 4,956,049 total letters
Searching..................................................done
Query= gi|254781094|ref|YP_003065507.1| glycyl-tRNA synthetase subunit
beta [Candidatus Liberibacter asiaticus str. psy62]
(702 letters)
>2zue_A Arginyl-tRNA synthetase; aminoacyl-tRNA synthetase,
ATP-binding, cytoplasm, ligase, nucleotide-binding,
protein biosynthesis, ligase/RNA complex; HET: ANP;
2.00A {Pyrococcus horikoshii} PDB: 2zuf_A
(A:92-112,A:499-629)
Length = 152
Score = 65.8 bits (160), Expect = 2e-11
Identities = 28/128 (21%), Positives = 53/128 (41%), Gaps = 7/128 (5%)
Query: 581 FSSAKGE--KFLLSA-KRIFQIL--AIEEKKNR--EISLEISPQYLLLEAEKRLYAVISD 633
F S +GE ++ A R IL A EE E + + L E E+ L ++S
Sbjct: 19 FGSFEGESAPYIQYAHARCSSILRKAEEEGIKVDPETLFKNADFTKLSERERELVIMLSK 78
Query: 634 FGTHIQESMDHKRYHQIGDLLHSICEPIEIFFDQVLVNVDDREVRDNRLSLLQYIKNIIL 693
F ++++ + H I + + F+ V + VR+ RL L+ ++ ++
Sbjct: 79 FPRIVEQAGKDVKPHLIAWFANELASLFNKFYMDHPVLKAEEGVREARLLLVMAVEQVLK 138
Query: 694 IVINVQKI 701
+ + I
Sbjct: 139 NALYLMGI 146
>3hc1_A Uncharacterized HDOD domain protein; HDOD domain protein
with unknown function, structural genomics; 1.90A
{Geobacter sulfurreducens} (A:1-25,A:111-305)
Length = 220
Score = 63.0 bits (152), Expect = 1e-10
Identities = 30/200 (15%), Positives = 49/200 (24%), Gaps = 32/200 (16%)
Query: 375 LDVVFHAKIGTQGERVSRIRVLGKKIAQ---LIDADVA---------------------- 409
+D T + + K IA+ ++
Sbjct: 23 VDEKGPLNRSTLWAHSLGVARIAKLIAERTGFLNPVNVYVAGLLHDVGEVFINFFRGKEF 82
Query: 410 -LVDRAIVLSKADLCTEIVREFPELQGKIGKEYAVLQNENISCCDAIEEHLKPRGPLENV 468
V + K R F ++G A + N CD I H
Sbjct: 83 SQVVTLVDEEKITFGQAEERLFGTSHCEVGFALAKRWSLNEFICDTILYHHDIEAV--PY 140
Query: 469 PTNKISITVSLADKLDTLINFWAINEKPSGSKDPYALRRATLGIIRIILENKIDIP--LS 526
I V+ AD+ TL KP S + G+IR L +
Sbjct: 141 KQAAIVAXVAFADEYCTLRRLGFEGHKPVDSVRTLLENHPSWGVIRRSLGGSDFDEKLIV 200
Query: 527 QFIED--QNLILFFHDRLKL 544
++ + + L
Sbjct: 201 AELDSSIVEIRAAVDELFLL 220
>1f7u_A Arginyl-tRNA synthetase; RNA-protein complex,
aminoacylation, ligase, ligase/RNA complex; HET: PSU 1MG
2MG H2U M2G 5MC 5MU 1MA ARG; 2.20A {Saccharomyces
cerevisiae} (A:116-136,A:513-607)
Length = 116
Score = 60.6 bits (147), Expect = 5e-10
Identities = 11/80 (13%), Positives = 28/80 (35%)
Query: 613 EISPQYLLLEAEKRLYAVISDFGTHIQESMDHKRYHQIGDLLHSICEPIEIFFDQVLVNV 672
L A K L ++ + ++ ++ + L + + +D + V
Sbjct: 22 NADFSLLKEPAAKLLIRLLGQYPDVLRNAIKTHEPTTVVTYLFKLTHQVSSCYDVLWVAG 81
Query: 673 DDREVRDNRLSLLQYIKNII 692
E+ RL+L + ++
Sbjct: 82 QTEELATARLALYGAARQVL 101
>3gw7_A Uncharacterized protein YEDJ; all alpha-helical protein,
structural genomics, PSI-2, protein structure
initiative; 3.30A {Escherichia coli k-12} (A:1-131)
Length = 131
Score = 49.0 bits (116), Expect = 2e-06
Identities = 21/134 (15%), Positives = 37/134 (27%), Gaps = 14/134 (10%)
Query: 360 DLSKPLDQRMARLDMLDVVFHAKIGTQGERVSRIRVLGKKIAQLIDADVALVDRAIV--- 416
DL Q L H R+ +K+A D D+ ++ A
Sbjct: 2 DLQHWQAQFENWLKN--HHQHQDAAHDVCHFRRVWATAQKLAADDDVDMLVILTACYFHD 59
Query: 417 LSKADLCTEIVREFPELQGKIGKEYA------VLQNENISCCDAIEEHLKPRGPLENVPT 470
+ + L + + + + C AI H + P
Sbjct: 60 IVSLAKNHPQRQRSSILAAEETRRLLREEFEQFPAEKIEAVCHAIAAH---SFSAQIAPL 116
Query: 471 NKISITVSLADKLD 484
+ V AD+L+
Sbjct: 117 TTEAKIVQDADRLE 130
>3fnr_A Arginyl-tRNA synthetase; transferase, PSI-2, NYSGXRC,
structural genomics, protein structure initiative; 2.20A
{Campylobacter jejuni} (A:1-24,A:332-464)
Length = 157
Score = 37.9 bits (88), Expect = 0.004
Identities = 13/98 (13%), Positives = 34/98 (34%), Gaps = 4/98 (4%)
Query: 595 RIFQILAIEEKKNREISLEISPQYLLLEAEKRLYAVISDFGTHIQESMDHKRYHQIGDLL 654
RI Q+ + + + + L + L + + ++ + + +I D L
Sbjct: 39 RIHQVF--AKAGKKIDDVMKADLQSLNQDGVNLLFEALNLKAVLNDAFEARALQKIPDYL 96
Query: 655 HSICEPIEIFFDQVLVNVDDREVRDNRLSLLQYIKNII 692
++ F+++ V ++ L L + I
Sbjct: 97 KNLAANFHKFYNENKVV--GSANENDLLKLFSLVALSI 132
>1ekg_A Frataxin; freidreich'S ataxia, iron transport,
mitochondrial, disease, metal transport; 1.80A {Homo
sapiens} (A:)
Length = 127
Score = 35.5 bits (82), Expect = 0.024
Identities = 17/67 (25%), Positives = 30/67 (44%), Gaps = 4/67 (5%)
Query: 635 GTHIQESMDHKRYHQIGD-LLHSICEPIEIFFDQVLVNVD-DREVRDNRLSLLQYIKNII 692
G+H+ S+D Y ++ + L S+ E E D+ D D L+ ++ ++
Sbjct: 1 GSHM-GSLDETTYERLAEETLDSLAEFFEDLADKPYTFEDYDVSFGSGVLT-VKLGGDLG 58
Query: 693 LIVINVQ 699
VIN Q
Sbjct: 59 TYVINKQ 65
>1woj_A CNP, cnpase, 2',3'-cyclic-nucleotide 3'-phosphodiesterase;
hydrolase; 1.80A {Homo sapiens} PDB: 2ilx_A (A:)
Length = 214
Score = 31.7 bits (72), Expect = 0.30
Identities = 18/75 (24%), Positives = 33/75 (44%), Gaps = 4/75 (5%)
Query: 323 SRVVAARL---EDALHFWKRDQNNLPNLSSL-KESALKFNLDLSKPLDQRMARLDMLDVV 378
+ AR+ E L W D + L +L + S L + ++ LD+L+++
Sbjct: 108 PKTTGARVELSEQQLQLWPSDVDKLSPTDNLPRGSRAHITLGCAADVEAVQTGLDLLEIL 167
Query: 379 FHAKIGTQGERVSRI 393
K G++GE V +
Sbjct: 168 RQEKGGSRGEEVGEL 182
>3eck_A Protein (homoprotocatechuate 2,3-dioxygenase);
oxidoreductase, extradiol, FEII, crystal packing; HET:
XXG; 1.60A {Brevibacterium fuscum} (A:141-312)
Length = 172
Score = 29.1 bits (64), Expect = 1.7
Identities = 5/26 (19%), Positives = 9/26 (34%), Gaps = 3/26 (11%)
Query: 193 RFHAPHPIKVQSLDH---YIRDLEEA 215
R+ ++ LDH D+
Sbjct: 1 RYDLYSAGELVRLDHFNQVTPDVPRG 26
>1f1u_A Homoprotocatechuate 2,3-dioxygenase; extradiol, manganese,
biodegradation, aromatic, oxidoreductase; 1.50A
{Arthrobacter globiformis} (A:141-323)
Length = 183
Score = 28.3 bits (62), Expect = 3.1
Identities = 5/26 (19%), Positives = 9/26 (34%), Gaps = 3/26 (11%)
Query: 193 RFHAPHPIKVQSLDH---YIRDLEEA 215
R+ ++ LDH D+
Sbjct: 1 RYDLYSAGELVRLDHFNQVTPDVPRG 26
>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 = 28.2 bits (62), Expect = 3.3
Identities = 14/79 (17%), Positives = 27/79 (34%), Gaps = 12/79 (15%)
Query: 607 NREISLEISPQYLLLEAEKRLYAVISDFGTHIQESMDH-KRYHQIGDLLHS--ICEPIEI 663
R++ ++L EA+ L G R QI +L S E +E
Sbjct: 252 RRQLDARDIKVFVLDEADNMLD--QQGLGDQSMRIKHLLPRNTQI--VLFSATFSERVEK 307
Query: 664 FFDQVL-----VNVDDREV 677
+ ++ + + E+
Sbjct: 308 YAERFAPNANEIRLKTEEL 326
>1q87_A 39 kDa initiator binding protein; INR, core promoter, DNA
binding protein; 2.32A {Trichomonas vaginalis} (A:1-107)
Length = 107
Score = 27.8 bits (61), Expect = 4.2
Identities = 13/68 (19%), Positives = 24/68 (35%), Gaps = 6/68 (8%)
Query: 513 IRIILENKIDIPLSQFIEDQNLILFFHDRLKLYLHDRDIRHDLIEAILRPENDNLLTIVD 572
R+ + + IE + K + ++I AI+ P+ + + D
Sbjct: 44 FRLTQKTDGTVMRDFLIEKAA------EYFKQPEQPKQNAIEVISAIMAPQEEQTKSKAD 97
Query: 573 LIKHLNEF 580
L K L F
Sbjct: 98 LYKFLAMF 105
>2p4f_A Similar to SP|P32453 saccharomyces cerevisiae YNL315C ATP11;
half barrel, chaperone; HET: P6G; 1.40A {Candida
glabrata cbs 138} (A:)
Length = 299
Score = 26.8 bits (59), Expect = 8.7
Identities = 9/69 (13%), Positives = 20/69 (28%), Gaps = 7/69 (10%)
Query: 115 KPKRLIEDVLKTIVPVAIQKVPWPKSMRWSTTHSPISAFSWIRPLKSILCILVAEDAKEK 174
+ + I K + + + + + L L + +K
Sbjct: 58 RELEQHLNAGSRIHTNKEHKTTKMSNKSNEKSGNVLPKDKPYKTLDDYLKL-------DK 110
Query: 175 IIDLDLKEI 183
I DL +E+
Sbjct: 111 IKDLSKQEV 119
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 0.140 0.406
Gapped
Lambda K H
0.267 0.0470 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 33805
Number of Hits to DB: 5,384,134
Number of extensions: 257624
Number of successful extensions: 674
Number of sequences better than 10.0: 1
Number of HSP's gapped: 673
Number of HSP's successfully gapped: 21
Length of query: 702
Length of database: 4,956,049
Length adjustment: 95
Effective length of query: 607
Effective length of database: 1,744,574
Effective search space: 1058956418
Effective search space used: 1058956418
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: 58 (26.8 bits)