RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy14678
(129 letters)
>1ffy_A Isoleucyl-tRNA synthetase; protein-RNA complex, metal IONS, editing
tRNA synthetase, double-sieve, ligase/RNA, mupiroci;
HET: MRC; 2.20A {Staphylococcus aureus} SCOP: a.27.1.1
b.51.1.1 c.26.1.1 PDB: 1qu2_A* 1qu3_A*
Length = 917
Score = 158 bits (402), Expect = 3e-46
Identities = 46/97 (47%), Positives = 56/97 (57%), Gaps = 4/97 (4%)
Query: 19 LSECGFSELYSWQREALNGKPEFILHDGPPYANGTPHIGHAVNKILKDITLRSNLLQGKR 78
+ + Y E G FILHDGPPYANG H+GHA+NKILKD +R +QG
Sbjct: 28 QEKWDAEDQYHKALEKNKGNETFILHDGPPYANGNLHMGHALNKILKDFIVRYKTMQGFY 87
Query: 79 VHYVPGWDCHGLPIELKAITSKD---KLLSPLDIRKK 112
YVPGWD HGLPIE +T K K +S + R+K
Sbjct: 88 APYVPGWDTHGLPIEQA-LTKKGVDRKKMSTAEFREK 123
>1ile_A Ilers, isoleucyl-tRNA synthetase; aminoacyl-tRNA synthetase, riken
structural genomics/proteom initiative, RSGI, structural
genomics; 2.50A {Thermus thermophilus} SCOP: a.27.1.1
b.51.1.1 c.26.1.1 PDB: 1jzq_A* 1jzs_A*
Length = 821
Score = 124 bits (313), Expect = 3e-34
Identities = 29/80 (36%), Positives = 43/80 (53%), Gaps = 5/80 (6%)
Query: 27 LYSWQREALNGKPEFILHDGPPYANGTPHIGHAVNKILKDITLRSNLLQGKRVHYVPGWD 86
++ E G P + +++GPP ANG PH+GHA + KD+ R ++G GWD
Sbjct: 26 IFQKSVENRKGGPRYTVYEGPPTANGLPHVGHAQARSYKDLFPRYKTMRGYYAPRRAGWD 85
Query: 87 CHGLPIELKA-----ITSKD 101
HGLP+EL+ + SK
Sbjct: 86 THGLPVELEVEKKLGLKSKR 105
>1wz2_A Leucyl-tRNA synthetase; ligase, riken structural
genomics/proteomics initiativ structural genomics,
ligase-RNA complex; 3.21A {Pyrococcus horikoshii}
Length = 967
Score = 106 bits (267), Expect = 3e-28
Identities = 21/94 (22%), Positives = 37/94 (39%)
Query: 27 LYSWQREALNGKPEFILHDGPPYANGTPHIGHAVNKILKDITLRSNLLQGKRVHYVPGWD 86
++ + +F + PY +G H+GHA + D+ R +QG V + W
Sbjct: 22 IFEPNIRDKPKEKKFYITVAFPYLSGHLHVGHARTYTIPDVIARFKRMQGYNVLFPMAWH 81
Query: 87 CHGLPIELKAITSKDKLLSPLDIRKKGLHLPRLE 120
G PI A K++ + I + +P
Sbjct: 82 ITGSPIVGIAERIKNRDPKTIWIYRDVYKVPEEI 115
>1wkb_A Leucyl-tRNA synthetase; leucine, aminoacyl-tRNA, editing, amino
acid, aminoacylation, trnaLeu, structural genomics;
2.05A {Pyrococcus horikoshii}
Length = 810
Score = 101 bits (254), Expect = 2e-26
Identities = 21/94 (22%), Positives = 37/94 (39%)
Query: 27 LYSWQREALNGKPEFILHDGPPYANGTPHIGHAVNKILKDITLRSNLLQGKRVHYVPGWD 86
++ + +F + PY +G H+GHA + D+ R +QG V + W
Sbjct: 22 IFEPNIRDKPKEKKFYITVAFPYLSGHLHVGHARTYTIPDVIARFKRMQGYNVLFPMAWH 81
Query: 87 CHGLPIELKAITSKDKLLSPLDIRKKGLHLPRLE 120
G PI A K++ + I + +P
Sbjct: 82 ITGSPIVGIAERIKNRDPKTIWIYRDVYKVPEEI 115
>3h99_A Methionyl-tRNA synthetase; rossmann fold, aminoacyl-tRNA
synthetase, ATP-binding, ligas binding,
nucleotide-binding, protein biosynthesis; HET: CIT;
1.40A {Escherichia coli} PDB: 3h97_A* 3h9b_A* 1f4l_A
3h9c_A* 1pfv_A* 1pfu_A 1p7p_A* 1pfw_A* 1pfy_A* 1pg0_A*
1pg2_A* 1qqt_A 1mea_A 1med_A
Length = 560
Score = 63.0 bits (154), Expect = 6e-13
Identities = 21/49 (42%), Positives = 31/49 (63%)
Query: 48 PYANGTPHIGHAVNKILKDITLRSNLLQGKRVHYVPGWDCHGLPIELKA 96
PYANG+ H+GH + I D+ +R ++G V+++ D HG PI LKA
Sbjct: 27 PYANGSIHLGHMLEHIQADVWVRYQRMRGHEVNFICADDAHGTPIMLKA 75
>1rqg_A Methionyl-tRNA synthetase; translation, dimerization, ligase;
2.90A {Pyrococcus abyssi} SCOP: a.27.1.1 c.26.1.1
g.41.1.1
Length = 722
Score = 61.3 bits (149), Expect = 3e-12
Identities = 22/50 (44%), Positives = 28/50 (56%), Gaps = 1/50 (2%)
Query: 48 PYANGTPHIGHAVNKILK-DITLRSNLLQGKRVHYVPGWDCHGLPIELKA 96
PYANG H GH L DI +R L+G+ V ++ G D HG PI +A
Sbjct: 11 PYANGPIHAGHLAGAYLPADIFVRYLRLKGEDVVFICGTDEHGTPISFRA 60
>2d5b_A Methionyl-tRNA synthetase; rossmann fold, class 1A AARS,
isomerase, structural genomics, NPPSFA; 1.80A {Thermus
thermophilus} SCOP: a.27.1.1 c.26.1.1 PDB: 1woy_A
1a8h_A 2d54_A
Length = 500
Score = 52.6 bits (127), Expect = 3e-09
Identities = 17/48 (35%), Positives = 24/48 (50%)
Query: 49 YANGTPHIGHAVNKILKDITLRSNLLQGKRVHYVPGWDCHGLPIELKA 96
Y N PH+GHA ++ D R + L G R ++ G D HG + A
Sbjct: 13 YVNAEPHLGHAYTTVVADFLARWHRLDGYRTFFLTGTDEHGETVYRAA 60
>2csx_A Methionyl-tRNA synthetase; ligase, riken structural
genomics/proteomics initiative, RSGI, structural
genomics, ligase/RNA complex; 2.70A {Aquifex aeolicus}
PDB: 2ct8_A*
Length = 497
Score = 52.6 bits (127), Expect = 3e-09
Identities = 20/48 (41%), Positives = 25/48 (52%)
Query: 49 YANGTPHIGHAVNKILKDITLRSNLLQGKRVHYVPGWDCHGLPIELKA 96
Y N PH+GHA I D R L+ V ++ G D HGL I+ KA
Sbjct: 15 YVNDVPHLGHAYTTIAADTIARYYRLRDYDVFFLTGTDEHGLKIQKKA 62
>2x1l_A Methionyl-tRNA synthetase; nucleotide-binding, protein
biosynthesis, ligase, aminoacyl- synthetase; HET: ADN
CXS; 2.30A {Mycobacterium smegmatis} PDB: 2x1m_A*
Length = 524
Score = 52.3 bits (126), Expect = 3e-09
Identities = 21/48 (43%), Positives = 23/48 (47%)
Query: 49 YANGTPHIGHAVNKILKDITLRSNLLQGKRVHYVPGWDCHGLPIELKA 96
Y NG PHIGHA I D R L G V Y+ G D HG + A
Sbjct: 22 YPNGVPHIGHAYEYIATDAIARFKRLDGYDVRYLTGTDVHGQKMAETA 69
>4dlp_A Aminoacyl-tRNA synthetase, class I:aminoacyl-tRNA synthetase,
class IA:methionyl-tRNA...; structural genomics; 2.65A
{Brucella melitensis biovar abortus 230ORGANISM_TAXID}
Length = 536
Score = 51.9 bits (125), Expect = 4e-09
Identities = 20/48 (41%), Positives = 25/48 (52%)
Query: 49 YANGTPHIGHAVNKILKDITLRSNLLQGKRVHYVPGWDCHGLPIELKA 96
Y NG PHIGHA I D R L G V+++ G D HG+ + A
Sbjct: 35 YPNGKPHIGHAYELIATDAMARFQRLNGMDVYFLTGTDEHGIKMLQSA 82
>3tun_A Methionyl-tRNA synthetase; aminoacyl-tRNA synthetase, AARS,
metrs, parasite, protein-IN complex, translation,
nucleotide binding; HET: C13; 2.55A {Trypanosoma
brucei}
Length = 542
Score = 51.9 bits (124), Expect = 5e-09
Identities = 17/48 (35%), Positives = 27/48 (56%)
Query: 49 YANGTPHIGHAVNKILKDITLRSNLLQGKRVHYVPGWDCHGLPIELKA 96
Y N PHIGH + ++ D+ R + ++G+RV + G D HG + A
Sbjct: 19 YVNAAPHIGHVYSTLITDVIGRYHRVKGERVFALTGTDEHGQKVAEAA 66
>3kfl_A Methionyl-tRNA synthetase; parasite, aminoacyl-tRNA synthetase,
tRNA ligase metrs, methionine, translation,
ATP-binding; HET: ME8; 2.00A {Leishmania major}
Length = 564
Score = 51.1 bits (123), Expect = 8e-09
Identities = 16/48 (33%), Positives = 27/48 (56%)
Query: 49 YANGTPHIGHAVNKILKDITLRSNLLQGKRVHYVPGWDCHGLPIELKA 96
Y N +PHIGH + ++ D+ R + ++G+ V + G D HG + A
Sbjct: 36 YVNASPHIGHVYSTLIVDVLGRYHRVKGEEVFVMTGTDEHGQKVAEAA 83
>1gax_A Valrs, valyl-tRNA synthetase; protein-RNA complex, rossmann fold,
coiled coil, riken structural genomics/proteomics
initiative, RSGI; HET: VAA; 2.90A {Thermus
thermophilus} SCOP: a.2.7.3 a.27.1.1 b.51.1.1 c.26.1.1
PDB: 1ivs_A* 1iyw_A
Length = 862
Score = 38.7 bits (91), Expect = 2e-04
Identities = 14/40 (35%), Positives = 24/40 (60%)
Query: 47 PPYANGTPHIGHAVNKILKDITLRSNLLQGKRVHYVPGWD 86
PP G+ H+GHA++ L+D +R ++G ++PG D
Sbjct: 42 PPNVTGSLHMGHALDNSLQDALIRYKRMRGFEAVWLPGTD 81
>2v0c_A Aminoacyl-tRNA synthetase; ligase, nucleotide-binding, protein
biosynthesis; HET: LMS ANZ; 1.85A {Thermus
thermophilus} PDB: 1h3n_A* 1obc_A* 1obh_A* 2bte_A*
2byt_A 2v0g_A*
Length = 878
Score = 37.2 bits (87), Expect = 7e-04
Identities = 22/52 (42%), Positives = 28/52 (53%), Gaps = 4/52 (7%)
Query: 48 PYANGTPHIGHAVNKILKDITLRSNLLQGKRV-HYVP-GWDCHGLPIELKAI 97
PY +G H+GH N + D+ R +QG V H P GWD GLP E A+
Sbjct: 42 PYPSGDLHMGHLKNYTMGDVLARFRRMQGYEVLH--PMGWDAFGLPAENAAL 91
>4arc_A Leucine--tRNA ligase; ligase-RNA complex, nucleotide-binding,
protein biosynthesis I aminoacyl-tRNA synthetase,
ATP-binding; 2.00A {Escherichia coli} PDB: 4aq7_A
4ari_A* 4as1_A*
Length = 880
Score = 35.6 bits (83), Expect = 0.003
Identities = 21/52 (40%), Positives = 27/52 (51%), Gaps = 4/52 (7%)
Query: 48 PYANGTPHIGHAVNKILKDITLRSNLLQGKRV-HYVP-GWDCHGLPIELKAI 97
PY +G H+GH N + D+ R + GK V P GWD GLP E A+
Sbjct: 62 PYPSGRLHMGHVRNYTIGDVIARYQRMLGKNVLQ--PIGWDAFGLPAEGAAV 111
>3b4t_A Ribonuclease PH; RNAse, tRNA nucleotidyltransferase, RPHA, STRU
genomics, TBSGC; 2.10A {Mycobacterium tuberculosis}
Length = 262
Score = 29.8 bits (67), Expect = 0.22
Identities = 10/39 (25%), Positives = 18/39 (46%)
Query: 10 QDLFKNIPDLSECGFSELYSWQREALNGKPEFILHDGPP 48
+ + D++ L++ QR+AL +L GPP
Sbjct: 217 RSTLDKLLDMALGACDTLFAAQRDALALPYPGVLPQGPP 255
>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 = 29.6 bits (66), Expect = 0.26
Identities = 21/112 (18%), Positives = 36/112 (32%), Gaps = 27/112 (24%)
Query: 6 SLY-----LQDLF-KNIPDLSECGFSELYSWQREALNGKPE-------FILHDGPPYANG 52
+ + LQ+ F K +P+ +E GF + E ++ P G
Sbjct: 25 ASFFIASQLQEQFNKILPEPTE-GF-----AADDEPTTPAELVGKFLGYVSSLVEPSKVG 78
Query: 53 TPHIGHAVNKILKDITLRSNLLQGKRVHYVPGWDCHGLPIELKAITSKDKLL 104
+N L + + L+G +H + L E K K L
Sbjct: 79 --QFDQVLNLCLTEFE--NCYLEGNDIHAL----AAKLLQENDTTLVKTKEL 122
Score = 27.3 bits (60), Expect = 1.9
Identities = 20/90 (22%), Positives = 32/90 (35%), Gaps = 22/90 (24%)
Query: 6 SLY-LQDLFKNI-----PDLSECGFSELYSWQREALNGKPEFILHDGP---PYANGTPHI 56
SLY L + D S FS +R K +F P P+ + +
Sbjct: 385 SLYGLNLTLRKAKAPSGLDQSRIPFS-----ER-----KLKFSNRFLPVASPFH--SHLL 432
Query: 57 GHAVNKILKDITLRSNLLQGKRVHYVPGWD 86
A + I KD+ + K + +P +D
Sbjct: 433 VPASDLINKDLVKNNVSFNAKDIQ-IPVYD 461
>2p6r_A Afuhel308 helicase; protein-DNA complex, SF2 helicase, archaeal
helicase, DNA repair,, DNA binding protein/DNA complex;
3.00A {Archaeoglobus fulgidus} SCOP: a.4.5.43 a.289.1.2
c.37.1.19 c.37.1.19 PDB: 2p6u_A
Length = 702
Score = 29.4 bits (66), Expect = 0.30
Identities = 23/113 (20%), Positives = 45/113 (39%), Gaps = 29/113 (25%)
Query: 9 LQDLFKNIPD-----LSECGFSELYSWQREALNG--KPEFILHDGPPYANGTPHIGHAVN 61
+++L ++I L E G EL+ Q EA+ + +L P A T
Sbjct: 3 VEELAESISSYAVGILKEEGIEELFPPQAEAVEKVFSGKNLLLAMPTAAGKT-------- 54
Query: 62 KILKDITLRSNLLQGKRVHYVPGWDCHGLPIELKAITS---KD-KLLSPLDIR 110
+L ++ + ++G + YV +P L+A+ + K + +R
Sbjct: 55 -LLAEMAMVREAIKGGKSLYV-------VP--LRALAGEKYESFKKWEKIGLR 97
>3aii_A Glutamyl-tRNA synthetase; amino-acyl tRNA synthetase, ligase; 1.65A
{Methanothermobacter thermautotrophicusorganism_taxid}
Length = 553
Score = 28.8 bits (65), Expect = 0.57
Identities = 7/13 (53%), Positives = 8/13 (61%)
Query: 47 PPYANGTPHIGHA 59
P +G HIGHA
Sbjct: 102 APNPSGPLHIGHA 114
>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 = 28.3 bits (62), Expect = 0.75
Identities = 10/72 (13%), Positives = 23/72 (31%), Gaps = 11/72 (15%)
Query: 28 YSWQREALNGKP--------EFILHDGPPYANGTPHIGHAVNKILKDITLRSNLLQGKRV 79
Y + + + +I Y + + V+++ + LR LL+ +
Sbjct: 91 YKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPA 150
Query: 80 HYVPGWDCHGLP 91
V G+
Sbjct: 151 KNVL---IDGVL 159
>2hz7_A Glutaminyl-tRNA synthetase; rossmann fold, GLNRS core, class I
aminoacyl-tRNA synthetase, ligase; 2.30A {Deinococcus
radiodurans}
Length = 851
Score = 27.5 bits (61), Expect = 1.5
Identities = 6/13 (46%), Positives = 8/13 (61%)
Query: 47 PPYANGTPHIGHA 59
PP +G H+GH
Sbjct: 72 PPDPSGYAHLGHV 84
>2zj8_A DNA helicase, putative SKI2-type helicase; RECA fold,
ATP-binding, hydrolase, nucleotide- binding; 2.00A
{Pyrococcus furiosus} PDB: 2zj5_A* 2zj2_A 2zja_A*
Length = 720
Score = 27.1 bits (60), Expect = 1.7
Identities = 10/32 (31%), Positives = 13/32 (40%), Gaps = 2/32 (6%)
Query: 6 SLYLQDLFKNIPDLSECGFSELYSWQREALNG 37
L + + K+ L E G Y Q EAL
Sbjct: 5 ELRVDERIKST--LKERGIESFYPPQAEALKS 34
>1qtq_A GLNRS, protein (glutaminyl-tRNA synthetase); glutamine, trnaGln,
E. coli, complex, ligase/RNA complex; HET: QSI; 2.25A
{Escherichia coli} SCOP: b.53.1.2 c.26.1.1 PDB: 1gsg_P*
1gts_A* 1gtr_A* 1zjw_A* 1o0b_A* 1o0c_A* 1qru_A* 1qrs_A*
1qrt_A* 1euy_A* 1euq_A* 1exd_A* 2rd2_A* 2re8_A* 1nyl_A
Length = 553
Score = 26.8 bits (60), Expect = 2.0
Identities = 9/13 (69%), Positives = 9/13 (69%)
Query: 47 PPYANGTPHIGHA 59
PP NG HIGHA
Sbjct: 32 PPEPNGYLHIGHA 44
>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 = 26.5 bits (57), Expect = 2.2
Identities = 8/33 (24%), Positives = 14/33 (42%), Gaps = 9/33 (27%)
Query: 93 ELKAITSKDKLLSPLDIRKKGLHLPRL--EASL 123
LK + + KL + D P L +A++
Sbjct: 21 ALKKLQASLKLYAD-D------SAPALAIKATM 46
>3c8z_A Cysteinyl-tRNA synthetase; cysteine ligase, rossmann fold, Cys-SA
inhibitor, zinc binding, ATP-binding, aminoacyl-tRNA
synthetase; HET: 5CA 1PE EPE; 1.60A {Mycobacterium
smegmatis}
Length = 414
Score = 26.1 bits (58), Expect = 4.4
Identities = 11/29 (37%), Positives = 14/29 (48%)
Query: 54 PHIGHAVNKILKDITLRSNLLQGKRVHYV 82
H+GHA + D+ R L G V YV
Sbjct: 53 THLGHAATYLTFDLVHRLWLDAGHTVQYV 81
>2va8_A SSO2462, SKI2-type helicase; hydrolase, DNA repair, ATP-bindin
nucleotide-binding; 2.30A {Sulfolobus solfataricus}
Length = 715
Score = 25.5 bits (56), Expect = 5.9
Identities = 6/21 (28%), Positives = 10/21 (47%)
Query: 16 IPDLSECGFSELYSWQREALN 36
I + + G +L Q EA+
Sbjct: 20 IEIIKKRGIKKLNPPQTEAVK 40
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
0.321 0.142 0.439
Gapped
Lambda K H
0.267 0.0749 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,076,155
Number of extensions: 117000
Number of successful extensions: 262
Number of sequences better than 10.0: 1
Number of HSP's gapped: 258
Number of HSP's successfully gapped: 35
Length of query: 129
Length of database: 6,701,793
Length adjustment: 83
Effective length of query: 46
Effective length of database: 4,384,350
Effective search space: 201680100
Effective search space used: 201680100
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: 52 (23.8 bits)