RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy6340
(158 letters)
>3kew_A DHHA1 domain protein; structural genomics, PSI-2, tRNA synthase,
protein structure initiative; 2.00A {Clostridium
perfringens}
Length = 241
Score = 83.8 bits (208), Expect = 1e-20
Identities = 27/155 (17%), Positives = 56/155 (36%), Gaps = 23/155 (14%)
Query: 2 RLGCMRAHTTSHLLNAALRRVLTCTYQKSCRVFSDECALDFSVYGETLSVDSVAAVEKYI 61
R M+ H HLL+ + + + +D + L ++ EK
Sbjct: 91 RFDGMQQHLGQHLLSGCFYDLFG-ANTCGFHLGKEISTVDIVGF---LDEKTIREAEKEA 146
Query: 62 NDVIADQVQVDRRHM-----------RASEIYPDDVILIDISDKENVISREPCCGTHVFN 110
N +I + ++V RA +++ +++I + CCG H N
Sbjct: 147 NRLIFENLEVKSYAPSKKELKKVKTRRALPKTDEEIRIVEIVG----LDLNACCGVHPRN 202
Query: 111 TGHIESCTVIGYKSYNHGVRSIKCLTGESSKAAVE 145
T ++ + ++ + + R I+ + G AV
Sbjct: 203 TRDLQVIKIRRWEKHKNATR-IEYVAGN---RAVS 233
>2ztg_A Alanyl-tRNA synthetase; class-II aminoacyl-tRNA synthetase,
aminoacyl-tRNA synthetase, ATP-binding, cytoplasm,
ligase; HET: A5A; 2.20A {Archaeoglobus fulgidus}
Length = 739
Score = 80.0 bits (198), Expect = 2e-18
Identities = 31/153 (20%), Positives = 57/153 (37%), Gaps = 21/153 (13%)
Query: 2 RLGCMRAHTTSHLLNAALRRVL-TCTYQKSCRVFSDECALDFSVYGETLSVDSVAAVEKY 60
R MR H+ +H+L +L++VL +Q R + LD + + S + + +E
Sbjct: 593 RWRHMRHHSATHVLLYSLQKVLGNHVWQAGARKEFSKARLDVTHF-RRPSEEEIKEIEML 651
Query: 61 INDVIADQVQVDRRHM--------------RASEIYPDDVILIDISDKENVISREPCCGT 106
N I + M + + ++ + D + C GT
Sbjct: 652 ANREILANKPIKWEWMDRIEAERKFGFRLYQGGVPPGRKIRVVQVGD-----DVQACGGT 706
Query: 107 HVFNTGHIESCTVIGYKSYNHGVRSIKCLTGES 139
H +TG I ++ +S GV + GE+
Sbjct: 707 HCRSTGEIGMLKILKVESIQDGVIRFEFAAGEA 739
>2zze_A Alanyl-tRNA synthetase; ligase, hydrolase; HET: MLY; 2.16A
{Pyrococcus horikoshii} PDB: 2zzf_A 2zzg_A*
Length = 752
Score = 74.0 bits (180), Expect = 3e-16
Identities = 35/152 (23%), Positives = 63/152 (41%), Gaps = 20/152 (13%)
Query: 2 RLGCMRAHTTSHLLNAALRRVL-TCTYQKSCRVFSDECALDFSVYGETLSVDSVAAVEKY 60
R+ MR HT +H+L AL RVL +Q ++ +D LD S Y +S + + +E
Sbjct: 606 RIQHMRHHTGTHVLMGALVRVLGRHVWQAGSQLTTDWARLDISHYX-RISEEELXEIEML 664
Query: 61 INDVIADQVQVDRRHM--------------RASEIYPDDVILIDISDKENVISREPCCGT 106
N ++ + V + + + ++ ++ I D + C GT
Sbjct: 665 ANRIVMEDRXVTWEWLPRTTAEQXYGFRLYQGGVVPGREIRVVXIED----WDVQACGGT 720
Query: 107 HVFNTGHIESCTVIGYKSYNHGVRSIKCLTGE 138
H+ +TG + ++ + GV I GE
Sbjct: 721 HLPSTGLVGPIXILRTERIQDGVERIIFACGE 752
>1v4p_A Alanyl-tRNA synthetase; alanine-tRNA ligase, riken structural
genomics/proteomics initiative RSGI, structural
genomics; 1.45A {Pyrococcus horikoshii} SCOP: d.67.1.2
PDB: 1wxo_A 1v7o_A 1wnu_A 3rhu_A 3rfn_A
Length = 157
Score = 68.1 bits (167), Expect = 2e-15
Identities = 21/128 (16%), Positives = 43/128 (33%), Gaps = 15/128 (11%)
Query: 1 MRLGCMRAHTTSHLLNAALRRVLT--CTYQKSCRVFSDECALDFSVYGETLSVDSVAAVE 58
M +R H+ H++ A+ +VL + S V ++ L S + + +E
Sbjct: 1 MYSIEVRTHSALHVVKGAVVKVLGSEAKWTYSTYVKGNKGVLIVKFD-RKPSDEEIREIE 59
Query: 59 KYINDVIADQVQVDRRHM-------RASEIYPDDVILIDISDKENVI-----SREPCCGT 106
+ N+ + + + + E D + + V+ + C
Sbjct: 60 RLANEKVKENAPIKIYELPREEAEKMFGEDMYDLFPVPEDVRILKVVVIEDWNVNACNKE 119
Query: 107 HVFNTGHI 114
H TG I
Sbjct: 120 HTKTTGEI 127
>2e1b_A PH0108, 216AA long hypothetical alanyl-tRNA synthetase;
zinc-binding motif, trans-editing enzyme, structural
genomics, NPPSFA; 2.70A {Pyrococcus horikoshii} SCOP:
b.43.3.6 d.67.1.2
Length = 216
Score = 64.1 bits (157), Expect = 2e-13
Identities = 28/133 (21%), Positives = 42/133 (31%), Gaps = 15/133 (11%)
Query: 2 RLGCMRAHTTSHLLNAALRRVL--TCTYQKSCRVFSDECALDFSVYGETLSVDSVAAVEK 59
R MR HT HLL L VL + ++ D + E L+ +
Sbjct: 92 RYKLMRIHTGLHLLEHVLNEVLGEGNWQLVGSGMSVEKGRYDIAYP-ENLN-KYKEQIIS 149
Query: 60 YINDVIADQVQVDRRHMRASEIYPDDVILIDISDKENVISREPCCGTHVFNTGHIESCTV 119
N + + +V + D I D PC GTHV + I
Sbjct: 150 LFNKYVDEGGEV-------KIWWEGDRRYTQIRD----FEVIPCGGTHVKDIKEIGHIKK 198
Query: 120 IGYKSYNHGVRSI 132
+ S G + +
Sbjct: 199 LKRSSIGRGKQRL 211
>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
acyl-carrier-protein, beta-ketoacyl RED beta-ketoacyl
synthase, dehydratase; 4.00A {Saccharomyces cerevisiae}
Length = 2006
Score = 39.6 bits (92), Expect = 2e-04
Identities = 39/171 (22%), Positives = 56/171 (32%), Gaps = 50/171 (29%)
Query: 15 LNAALRRVLTCTYQKSCRV-FSDECALDFSVYGETLSVDS-------VAAVEKYINDVIA 66
LN LR+ + R+ FS+ L FS L V S V A + D++
Sbjct: 389 LNLTLRKAKAPSGLDQSRIPFSER-KLKFSN--RFLPVASPFHSHLLVPASDLINKDLVK 445
Query: 67 DQVQ---------V----DRRHMRASEIYPDDVILIDISDKENVISREPC--------CG 105
+ V V D +R I I D I R P
Sbjct: 446 NNVSFNAKDIQIPVYDTFDGSDLRVL----SGSISERIVD---CIIRLPVKWETTTQFKA 498
Query: 106 THV--FNTGHIESCTVIGYKSYNH----GVRSIKCLTGESSKAAVENG-KQ 149
TH+ F G +G ++ + GVR I T + + + G KQ
Sbjct: 499 THILDFGPGGASG---LGVLTHRNKDGTGVRVIVAGTLDINPDD-DYGFKQ 545
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis,
programmed cell death; HET: DTP; 6.90A {Drosophila
melanogaster} PDB: 3iz8_A*
Length = 1221
Score = 34.1 bits (77), Expect = 0.015
Identities = 16/120 (13%), Positives = 42/120 (35%), Gaps = 41/120 (34%)
Query: 29 KS------CRVFSDECALDFSVY----GETLSVDSV----------------AAVEKYIN 62
K+ C + +C +DF ++ S ++V + + N
Sbjct: 163 KTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSN 222
Query: 63 DVI-ADQVQVDRRHMRASEIYPDD-VILIDISDKENVISREPCCGTHVFNTGHIESCTVI 120
+ +Q + R + S+ Y + ++L+++ + + + FN C ++
Sbjct: 223 IKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAK-AWN--------AFNLS----CKIL 269
Score = 27.1 bits (59), Expect = 2.9
Identities = 27/150 (18%), Positives = 44/150 (29%), Gaps = 29/150 (19%)
Query: 19 LRRVLTCTYQKSCRVFSDECALDFSVYGETLSVDSVAAVEKY-------INDVIADQVQV 71
L + L C Q R S+ E++ D +A + + + +I + V
Sbjct: 307 LLKYLDCRPQDLPREVLTTNPRRLSIIAESIR-DGLATWDNWKHVNCDKLTTIIESSLNV 365
Query: 72 -----DRRHMRASEIYPDDVILIDISDK------ENVISREPCCGTHVFNTGHIESCTVI 120
R+ ++P I +VI + V N H S
Sbjct: 366 LEPAEYRKMFDRLSVFPPSA---HIPTILLSLIWFDVIKSDV---MVVVNKLHKYSLVEK 419
Query: 121 GYKSYNHGVRSIKCLTGESSKAAVENGKQL 150
K + SI K +EN L
Sbjct: 420 QPKESTISIPSIYLEL----KVKLENEYAL 445
>1nyr_A Threonyl-tRNA synthetase 1; ATP, threonine, ligase; HET: ATP; 2.80A
{Staphylococcus aureus} SCOP: c.51.1.1 d.15.10.1
d.67.1.1 d.104.1.1 PDB: 1nyq_A*
Length = 645
Score = 28.3 bits (64), Expect = 1.2
Identities = 26/132 (19%), Positives = 55/132 (41%), Gaps = 40/132 (30%)
Query: 9 HTTSHLLNAALRRVLTCT-------------YQKSCRVFSDECALDFSVYGETLSVDSVA 55
H+T+HL+ A++R+ Y DF + +S D
Sbjct: 75 HSTAHLMAHAIKRLYGNVKFGVGPVIEGGFYY-------------DFD-IDQNISSDDFE 120
Query: 56 AVEKYINDVIADQVQVDRRHM---RASEIYPDD---VILIDISDKENVIS-------REP 102
+EK + ++ + ++++R+ + A E++ +D + LID ++ ++ +
Sbjct: 121 QIEKTMKQIVNENMKIERKVVSRDEAKELFSNDEYKLELIDAIPEDENVTLYSQGDFTDL 180
Query: 103 CCGTHVFNTGHI 114
C G HV +T I
Sbjct: 181 CRGVHVPSTAKI 192
>2pwy_A TRNA (adenine-N(1)-)-methyltransferase; mtase, adoMet, TRMI,
tRNA-M1A58; HET: SAH; 1.70A {Thermus thermophilus}
Length = 258
Score = 27.7 bits (61), Expect = 1.5
Identities = 8/49 (16%), Positives = 19/49 (38%), Gaps = 9/49 (18%)
Query: 75 HMRASEIYPDDVILIDISDKENVISREPCCGTHVFNT--GHIESCTVIG 121
HM +P ++L D + ++ + VF+ G + ++
Sbjct: 3 HM----AWPGPLLLKDRKGRAYLVFPKE---GGVFHHHKGSVPHEALLE 44
Database: pdb70
Posted date: Sep 4, 2012 3:40 AM
Number of letters in database: 6,701,793
Number of sequences in database: 27,921
Lambda K H
0.320 0.132 0.385
Gapped
Lambda K H
0.267 0.0581 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,359,740
Number of extensions: 133034
Number of successful extensions: 261
Number of sequences better than 10.0: 1
Number of HSP's gapped: 254
Number of HSP's successfully gapped: 12
Length of query: 158
Length of database: 6,701,793
Length adjustment: 86
Effective length of query: 72
Effective length of database: 4,300,587
Effective search space: 309642264
Effective search space used: 309642264
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 (21.8 bits)
S2: 53 (24.5 bits)