RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy2399
(232 letters)
>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 = 306 bits (785), Expect = e-102
Identities = 101/229 (44%), Positives = 144/229 (62%), Gaps = 9/229 (3%)
Query: 2 KKHDSEFKDVRRIFVTTALPYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFIC 61
H S + ++I VT A PYANG +H+GH++E+IQAD+WVR+Q M+ V FIC
Sbjct: 8 HHHGSMTQVAKKILVTCASPYANGSIHLGHMLEHIQADVWVRYQRMRGHE-----VNFIC 62
Query: 62 ADDAHGAAIMIAAEKAGMTPKEFINNISSNRKKYLDGFYIKFDNWYSTDSIENIDLVQKI 121
ADDAHG IM+ A++ G+TP++ I +S + GF I +DN++ST S EN L + I
Sbjct: 63 ADDAHGTPIMLKAQQLGITPEQMIGEMSQEHQTDFAGFNISYDNYHSTHSEENRQLSELI 122
Query: 122 YDTLYNKAKLIINKKINQFFDPIKNIFLPDRYIKGECPICNAKDQYGDFCECCSSIYTPT 181
Y L I N+ I+Q +DP K +FLPDR++KG CP C + DQYGD CE C + Y+PT
Sbjct: 123 YSRLKEN-GFIKNRTISQLYDPEKGMFLPDRFVKGTCPKCKSPDQYGDNCEVCGATYSPT 181
Query: 182 KLINPYSILSGTKPIIKSSKHFFFKLSDKRCIDFLRKWAIHDKRLQPEI 230
+LI P S++SG P+++ S+HFFF L + L+ W LQ ++
Sbjct: 182 ELIEPKSVVSGATPVMRDSEHFFFDLP--SFSEMLQAW-TRSGALQEQV 227
>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 = 285 bits (730), Expect = 2e-92
Identities = 73/220 (33%), Positives = 110/220 (50%), Gaps = 10/220 (4%)
Query: 12 RRIFVTTALPYANGELHIGHIM-EYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAI 70
R VT+ALPYANG +H GH+ Y+ ADI+VR+ ++ ++ V FIC D HG I
Sbjct: 2 VRYMVTSALPYANGPIHAGHLAGAYLPADIFVRYLRLKGED-----VVFICGTDEHGTPI 56
Query: 71 MIAAEKAGMTPKEFINNISSNRKKYLDGFYIKFDNWYSTDSIENIDLVQKIYDTLYNKAK 130
A K G +P+E ++ K I FD + T+ + L Q+ + Y
Sbjct: 57 SFRALKEGRSPREIVDEFHEQIKITFQRAKISFDFFGRTELPIHYKLSQEFFLKAYEN-G 115
Query: 131 LIINKKINQFFDPIKNIFLPDRYIKGECPICNAKDQYGDFCECCSSIYTPTKLINPYSIL 190
++ K Q + +FLPDR++ G CP C A+DQ GD CE C TP LINP +
Sbjct: 116 HLVKKVTKQAYCEHDKMFLPDRFVIGTCPYCGAEDQKGDQCEVCGRPLTPEILINPRCAI 175
Query: 191 SGTKPIIKSSKHFFFKLSDKRCIDFLRKWAIHDKRLQPEI 230
G + S H++ K+ + L++W I + +P +
Sbjct: 176 CGRPISFRDSAHYYIKMQ--DFAERLKRW-IEKQPWKPNV 212
>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 = 96.6 bits (240), Expect = 2e-23
Identities = 39/217 (17%), Positives = 85/217 (39%), Gaps = 31/217 (14%)
Query: 15 FVTTALPYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIMIAA 74
FVT+ + Y N HIGH+ + D+ R+ ++ + V+ + D HG + AA
Sbjct: 12 FVTSPIYYVNAAPHIGHVYSTLITDVIGRYHRVKGER-----VFALTGTDEHGQKVAEAA 66
Query: 75 EKAGMTPKEFINNISSNRKKYLDGFYIKFDNWYSTDSIENIDLVQKIYDTLYNKAKLIIN 134
++ ++P +F ++ KK + D + T + ++ +V++++ L K + +
Sbjct: 67 KQKQVSPYDFTTAVAGEFKKXFEQMDYSIDYFIRTTNEQHKAVVKELWTKLEQKGDIYLG 126
Query: 135 KKINQFFDPIKNIFLPDRYIKGECPICNAKDQYGDFCECCSSIYTPTKLINPYSILSGTK 194
+ + ++ P G N S+ SG
Sbjct: 127 RYEGWYSISDESFLTPQNITDGVDKDGNPC---------------------KVSLESGHV 165
Query: 195 PIIKSSKHFFFKLSD--KRCIDFLRKWAIHDKRLQPE 229
S +++ F+LS +R +++ + + PE
Sbjct: 166 VTWVSEENYMFRLSAFRERLLEWYHA---NPGCIVPE 199
>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 = 96.1 bits (240), Expect = 3e-23
Identities = 46/218 (21%), Positives = 85/218 (38%), Gaps = 42/218 (19%)
Query: 15 FVTTALPYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIMIAA 74
+VTT + Y N E H+GH + AD R+ + +F+ D HG + AA
Sbjct: 6 YVTTPIYYVNAEPHLGHAYTTVVADFLARWHRLDGYR-----TFFLTGTDEHGETVYRAA 60
Query: 75 EKAGMTPKEFINNISSNRKKYLDGFYIKFDNWYSTDSIENIDLVQKIYDTLYNKAKLIIN 134
+ AG PK F++ +S K+ D I +D++ T + +VQ + +Y
Sbjct: 61 QAAGEDPKAFVDRVSGRFKRAWDLLGIAYDDFIRTTEERHKKVVQLVLKKVYEAG----- 115
Query: 135 KKINQFFDPIKNIFLPDRYIKGECPICNAKDQY-GDFCECCSSIYTPTKLINPYSILSGT 193
D Y +Y G +C C YT +L+ + G
Sbjct: 116 ----------------DIY----------YGEYEGLYCVSCERFYTEKELVEGLCPIHGR 149
Query: 194 KPIIKSSKHFFFKLSD--KRCIDFLRKWAIHDKRLQPE 229
+ ++FF++ +++++ + ++PE
Sbjct: 150 PVERRKEGNYFFRMEKYRPWLQEYIQE---NPDLIRPE 184
>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 = 93.5 bits (233), Expect = 3e-22
Identities = 46/237 (19%), Positives = 80/237 (33%), Gaps = 47/237 (19%)
Query: 1 MKKHDSEFKDVRRIFVTTALPYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFI 60
M H ++TTA+ Y NG HIGH EYI D RF+ + + V ++
Sbjct: 1 MAHHHHHHGGSEPFYITTAIAYPNGVPHIGHAYEYIATDAIARFKRLDGYD-----VRYL 55
Query: 61 CADDAHGAAIMIAAEKAGMTPKEFINNISSNRKKYLDGFYIKFDNWYSTDSIENIDLVQK 120
D HG + A K G+ E S ++ + I FD + T ++ + +
Sbjct: 56 TGTDVHGQKMAETAAKEGIPAAELARRNSDVFQRLQEKLNISFDRFIRTSDADHYEASKA 115
Query: 121 IYDTLYNKAKLIINKKINQFFDPIKNIFLPDRYIKGECPICNAKDQY-GDFCECCSSIYT 179
I+ + + D Y D Y G + +T
Sbjct: 116 IWKRMADAG---------------------DIY----------LDAYKGWYSIRDERFFT 144
Query: 180 PTKLI-----NPYSILSGTKPIIKSSKHFFFKLSD--KRCIDFLRKWAIHDKRLQPE 229
+ + +G + +FF+LS R + + H + + P+
Sbjct: 145 ENETTEQPDGTRIATETGAPVTWTEEQTYFFRLSAYTDRLLALYEE---HPEFIGPD 198
>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 = 92.3 bits (230), Expect = 6e-22
Identities = 47/222 (21%), Positives = 89/222 (40%), Gaps = 43/222 (19%)
Query: 12 RRIFVTTALPYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIM 71
++ +VTT + Y N H+GH I AD R+ ++ + V+F+ D HG I
Sbjct: 5 KKFYVTTPIYYVNDVPHLGHAYTTIAADTIARYYRLRDYD-----VFFLTGTDEHGLKIQ 59
Query: 72 IAAEKAGMTPKEFINNISSNRKKYLDGFYIKFDNWYSTDSIENIDLVQKIYDTLYNKAKL 131
AE+ G++PKE ++ + KK + I++ + T ++ VQK+++ Y +
Sbjct: 60 KKAEELGISPKELVDRNAERFKKLWEFLKIEYTKFIRTTDPYHVKFVQKVFEECYKRG-- 117
Query: 132 IINKKINQFFDPIKNIFLPDRYIKGECPICNAKDQY-GDFCECCSSIYTPTKLI-NPYSI 189
D Y +Y G +C C + +L +
Sbjct: 118 -------------------DIY----------LGEYEGWYCVGCEEFKSEAELAEDHTCP 148
Query: 190 LSGTKPIIKSSKHFFFKLSD--KRCIDFLRKWAIHDKRLQPE 229
+ K +FF+LS + ++ K + + +QP+
Sbjct: 149 IHQKKCEYIKEPSYFFRLSKYQDKLLELYEK---NPEFIQPD 187
>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 = 90.8 bits (226), Expect = 2e-21
Identities = 46/222 (20%), Positives = 79/222 (35%), Gaps = 46/222 (20%)
Query: 15 FVTTALPYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIMIAA 74
++TTA+ Y NG+ HIGH E I D RFQ + + VYF+ D HG ++ +A
Sbjct: 28 YITTAIAYPNGKPHIGHAYELIATDAMARFQRLNGMD-----VYFLTGTDEHGIKMLQSA 82
Query: 75 EKAGMTPKEFINNISSNRKKYLDGFYIKFDNWYSTDSIENIDLVQKIYDTLYNKAKLIIN 134
K G+TP++ + +S ++ + D++ T + Q I+ +
Sbjct: 83 RKEGITPRDLADRNTSAFRRMAEVLNSSNDDYIRTSEERHYKASQAIWQAMVANG----- 137
Query: 135 KKINQFFDPIKNIFLPDRYIKGECPICNAKDQY-GDFCECCSSIYTPTKLI----NPYSI 189
D Y K Y G + + Y +
Sbjct: 138 ----------------DIY----------KGGYAGWYSVRDEAYYGEEETEVRADGVRYG 171
Query: 190 LSGTKPIIKSSKHFFFKLSD--KRCIDFLRKWAIHDKRLQPE 229
GT + +FF+LS + +D + + P
Sbjct: 172 PQGTPVEWVEEESYFFRLSAYQDKLLDLYEN---NPGFIMPA 210
>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 = 85.0 bits (211), Expect = 2e-19
Identities = 46/227 (20%), Positives = 79/227 (34%), Gaps = 51/227 (22%)
Query: 15 FVTTALPYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIMIAA 74
F TT + Y N HIGH+ + D+ R+ ++ + V+ + D HG + AA
Sbjct: 29 FATTPIYYVNASPHIGHVYSTLIVDVLGRYHRVKGEE-----VFVMTGTDEHGQKVAEAA 83
Query: 75 EKAGMTPKEFINNISSNRKKYLDGFYIKFDNWYSTDSIENIDLVQKIYDTLYNKAKLIIN 134
K G++P +F ++SS K+ + + T + + LVQ I+ L K
Sbjct: 84 AKQGVSPMDFTTSVSSEFKQCFQEMNYDMNYFIRTTNPTHEKLVQDIWKKLAAKG----- 138
Query: 135 KKINQFFDPIKNIFLPDRYIKGECPICNAKDQY-GDFCECCSSIYTPTKLINPYSILSGT 193
D Y +Y G + S T + +
Sbjct: 139 ----------------DIY----------LGKYEGWYSVSDESFLTAQNVADGVDRDGKP 172
Query: 194 KPIIKSSKH---------FFFKLSD--KRCIDFLRKWAIHDKRLQPE 229
+ S H + F+LS +R + + H + PE
Sbjct: 173 CKVSLESGHVVTWVEEENYMFRLSAFRERLLKYFHD---HPNCIVPE 216
>1wz2_A Leucyl-tRNA synthetase; ligase, riken structural
genomics/proteomics initiativ structural genomics,
ligase-RNA complex; 3.21A {Pyrococcus horikoshii}
Length = 967
Score = 64.2 bits (156), Expect = 4e-12
Identities = 26/96 (27%), Positives = 38/96 (39%), Gaps = 5/96 (5%)
Query: 15 FVTTALPYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIMIAA 74
++T A PY +G LH+GH Y D+ RF+ MQ G V F A G+ I+ A
Sbjct: 37 YITVAFPYLSGHLHVGHARTYTIPDVIARFKRMQ---GY--NVLFPMAWHITGSPIVGIA 91
Query: 75 EKAGMTPKEFINNISSNRKKYLDGFYIKFDNWYSTD 110
E+ + I K + + D
Sbjct: 92 ERIKNRDPKTIWIYRDVYKVPEEILWTFEDPINIVK 127
>1wkb_A Leucyl-tRNA synthetase; leucine, aminoacyl-tRNA, editing, amino
acid, aminoacylation, trnaLeu, structural genomics;
2.05A {Pyrococcus horikoshii}
Length = 810
Score = 62.3 bits (151), Expect = 2e-11
Identities = 26/96 (27%), Positives = 38/96 (39%), Gaps = 5/96 (5%)
Query: 15 FVTTALPYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIMIAA 74
++T A PY +G LH+GH Y D+ RF+ MQ G V F A G+ I+ A
Sbjct: 37 YITVAFPYLSGHLHVGHARTYTIPDVIARFKRMQ---GY--NVLFPMAWHITGSPIVGIA 91
Query: 75 EKAGMTPKEFINNISSNRKKYLDGFYIKFDNWYSTD 110
E+ + I K + + D
Sbjct: 92 ERIKNRDPKTIWIYRDVYKVPEEILWTFEDPINIVK 127
>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 = 45.6 bits (109), Expect = 6e-06
Identities = 26/69 (37%), Positives = 33/69 (47%), Gaps = 10/69 (14%)
Query: 21 PYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIMIAAEKAG-- 78
PYANG LH+GH + I D VR++ MQ G ++ D HG I A K G
Sbjct: 57 PYANGNLHMGHALNKILKDFIVRYKTMQ---GF--YAPYVPGWDTHGLPIEQALTKKGVD 111
Query: 79 ---MTPKEF 84
M+ EF
Sbjct: 112 RKKMSTAEF 120
>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 = 45.2 bits (108), Expect = 7e-06
Identities = 25/127 (19%), Positives = 46/127 (36%), Gaps = 24/127 (18%)
Query: 21 PYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIMIAAEKA-GM 79
P ANG H+GH D++ R++ M+ G D HG + + EK G+
Sbjct: 47 PTANGLPHVGHAQARSYKDLFPRYKTMR---GY--YAPRRAGWDTHGLPVELEVEKKLGL 101
Query: 80 TPKEFINNISS---NRK------KYLD---------GFYIKFDNWYSTDSIENIDLVQKI 121
K I N+ Y +++ ++ Y+T I+ +
Sbjct: 102 KSKREIEAYGIERFNQACRESVFTYEKEWEAFTERIAYWVDLEDAYATLEPTYIESIWWS 161
Query: 122 YDTLYNK 128
L+++
Sbjct: 162 LKNLFDR 168
>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 = 35.6 bits (83), Expect = 0.012
Identities = 13/32 (40%), Positives = 19/32 (59%)
Query: 20 LPYANGELHIGHIMEYIQADIWVRFQCMQQDN 51
PY +G+LH+GH+ Y D+ RF+ MQ
Sbjct: 41 FPYPSGDLHMGHLKNYTMGDVLARFRRMQGYE 72
>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 = 33.7 bits (78), Expect = 0.043
Identities = 14/32 (43%), Positives = 19/32 (59%)
Query: 20 LPYANGELHIGHIMEYIQADIWVRFQCMQQDN 51
LPY +G LH+GH+ Y D+ R+Q M N
Sbjct: 61 LPYPSGRLHMGHVRNYTIGDVIARYQRMLGKN 92
>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 = 33.3 bits (75), Expect = 0.063
Identities = 31/184 (16%), Positives = 57/184 (30%), Gaps = 36/184 (19%)
Query: 66 HGAAIMIAAEKAGMTPKEFINNISSNRKKYLDGFYIKFDNWYSTDSIENIDLVQKIYDTL 125
G ++ + K + + + K F++ N S +++ ++++QK+
Sbjct: 156 DG---VLGSGKTWVA-LDVCLSYKVQCKMDFKIFWLNLKNCNSPETV--LEMLQKLL--- 206
Query: 126 YNKAKLIINKKINQFFDPIKNIFLPDRYIKGE------------C-----PICNAKD-QY 167
I+ D NI L I+ E C + NAK
Sbjct: 207 -----YQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNA 261
Query: 168 GDFCECCSSIYTPTKLINPYSILSGTKPIIKSSKHFFFKLSDKRCIDFLRKWA-IHDKRL 226
+ C + T T+ LS S H L+ L K+ + L
Sbjct: 262 FNLS--CKILLT-TRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDL 318
Query: 227 QPEI 230
E+
Sbjct: 319 PREV 322
Score = 32.1 bits (72), Expect = 0.17
Identities = 25/151 (16%), Positives = 47/151 (31%), Gaps = 41/151 (27%)
Query: 95 YLDGFYIKFDNWYSTDSIENIDLVQKIYDTLYN------KAKLII-------NKKINQFF 141
+ D F FD D ++I L ++ D + + + + +F
Sbjct: 25 FEDAFVDNFDCKDVQDMPKSI-LSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQKFV 83
Query: 142 DPIKNI---FLPDRYIKGECPICNAKDQYGDFCECCSSIYTPTKLINPYSILSGTKPIIK 198
+ + I FL IK E + E +Y ++ Y++ S +P +K
Sbjct: 84 EEVLRINYKFLMSP-IKTEQR--QPSMMTRMYIEQRDRLYNDNQVFAKYNV-SRLQPYLK 139
Query: 199 SSKHFFFKLSDKRCIDFLRKWAIHDKRLQPE 229
LR+ L+P
Sbjct: 140 -----------------LRQAL---LELRPA 150
Score = 30.2 bits (67), Expect = 0.73
Identities = 21/141 (14%), Positives = 50/141 (35%), Gaps = 24/141 (17%)
Query: 85 INNISSNRKKYLDGFYI--KFDNWYSTDSIENIDLVQKIYDTL-YNKAKLIINKKINQFF 141
+ N + + +D + I FD+ +D Q Y + ++ + +++ F
Sbjct: 439 LENEYALHRSIVDHYNIPKTFDSDDL--IPPYLD--QYFYSHIGHHLKNIEHPERMTLF- 493
Query: 142 DPIKNIFLPDRYIKGECPICNAKDQYGDFCECCSSIYTPTKLINPYSILSGTKPIIKSSK 201
+ +FL R+++ + I + SI + + Y I +
Sbjct: 494 ---RMVFLDFRFLEQK--IRHD----STAWNASGSILNTLQQLKFYK-----PYICDNDP 539
Query: 202 HFFFKLSDKRCIDFLRKWAIH 222
+ ++ +DFL K +
Sbjct: 540 KYERLVNA--ILDFLPKIEEN 558
>3k1f_M Transcription initiation factor IIB; RNA polymerase II, TFIIB,
transcription factor, DNA-binding, DNA-directed RNA
polymerase; 4.30A {Saccharomyces cerevisiae}
Length = 197
Score = 30.0 bits (67), Expect = 0.47
Identities = 9/36 (25%), Positives = 11/36 (30%), Gaps = 8/36 (22%)
Query: 150 PDRYIKGECPICNAKD-------QYGD-FCECCSSI 177
P+ I CP C GD C C +
Sbjct: 16 PNLNIVLTCPECKVYPPKIVERFSEGDVVCALCGLV 51
>1jb7_A Telomere-binding protein alpha subunit; DNA-protein interactions,
DNA HYDR sodium ION, quadruplex DNA, DNA-binding
protein-DNA complex; 1.86A {Sterkiella nova} SCOP:
b.40.4.3 b.40.4.3 b.40.4.3 PDB: 1kix_A 1otc_A* 2i0q_A
1ph6_A 1ph1_A 1phj_A* 1ph3_A 1pa6_A 1ph4_A 1ph7_A 1ph8_A
1ph9_A 1ph5_A* 1ph2_A* 1k8g_A
Length = 495
Score = 30.0 bits (66), Expect = 0.63
Identities = 17/69 (24%), Positives = 27/69 (39%)
Query: 152 RYIKGECPICNAKDQYGDFCECCSSIYTPTKLINPYSILSGTKPIIKSSKHFFFKLSDKR 211
R G+ + + + T+ IN +S T P SSKH + ++
Sbjct: 128 RLYNGQRQFNANVFYSSSWALFSTDKRSVTQEINNQDAVSDTTPFSFSSKHATIEKNEIS 187
Query: 212 CIDFLRKWA 220
+ LRKWA
Sbjct: 188 ILQNLRKWA 196
>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 = 29.8 bits (68), Expect = 0.77
Identities = 9/25 (36%), Positives = 17/25 (68%), Gaps = 2/25 (8%)
Query: 25 GELHIGHIMEY-IQADIWVRFQCMQ 48
G LH+GH ++ +Q D +R++ M+
Sbjct: 47 GSLHMGHALDNSLQ-DALIRYKRMR 70
>3jxe_A Tryptophanyl-tRNA synthetase; adenosine triphosphate, rossmann
fold, crystallography, X-RAY, P. horikoshii,
aminoacyl-tRNA synthetase; HET: TYM; 3.00A {Pyrococcus
horikoshii}
Length = 392
Score = 29.3 bits (66), Expect = 1.2
Identities = 14/72 (19%), Positives = 23/72 (31%), Gaps = 14/72 (19%)
Query: 25 GELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIMIAAEKAGMTPKEF 84
G +HIGHI+ + W+ Q+ I DD + K +T +
Sbjct: 84 GPMHIGHIIPFFAT-KWL------QEKFGVNLYIQI-TDD-E--KFLF---KENLTFDDT 129
Query: 85 INNISSNRKKYL 96
N +
Sbjct: 130 KRWAYDNILDII 141
>2ip1_A Tryptophanyl-tRNA synthetase; rossmann fold, structural genomics,
PSI-2, protein structure initiative; HET: PG4; 1.80A
{Saccharomyces cerevisiae} PDB: 3kt0_A* 3kt3_A* 3kt6_A*
3kt8_A*
Length = 432
Score = 28.8 bits (64), Expect = 1.7
Identities = 14/85 (16%), Positives = 26/85 (30%), Gaps = 14/85 (16%)
Query: 12 RRIFVTTALPYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIM 71
+ F+ T ++ +H+GH I Q + + + DD
Sbjct: 101 KPFFLYTGRGPSSDSMHLGH---MIPFVFTKWLQ--EVFD---VPLVIELTDDEK----- 147
Query: 72 IAAEKAGMTPKEFINNISSNRKKYL 96
K +T + N N K +
Sbjct: 148 -FLFKHKLTINDVKNFARENAKDII 171
>1iq0_A Arginyl-tRNA synthetase; riken structural genomics/proteomics
initiative, RSGI, structural genomics, ligase; 2.30A
{Thermus thermophilus} SCOP: a.27.1.1 c.26.1.1 d.67.2.1
Length = 592
Score = 28.9 bits (65), Expect = 1.7
Identities = 10/66 (15%), Positives = 19/66 (28%), Gaps = 2/66 (3%)
Query: 62 ADDAHGAAIMIAAEKAG--MTPKEFINNISSNRKKYLDGFYIKFDNWYSTDSIENIDLVQ 119
+ + A +E +N I + + ++D I L+Q
Sbjct: 191 PEYERLQPAIEEVLHALERGELREEVNRILLAQMATMHALNARYDLLVWESDIVRAGLLQ 250
Query: 120 KIYDTL 125
K L
Sbjct: 251 KALALL 256
>3fnr_A Arginyl-tRNA synthetase; transferase, PSI-2, NYSGXRC, struc
genomics, protein structure initiative; 2.20A
{Campylobacter jejuni}
Length = 464
Score = 28.0 bits (63), Expect = 2.8
Identities = 9/36 (25%), Positives = 16/36 (44%), Gaps = 2/36 (5%)
Query: 93 KKYLDGFYIKFDNWYSTDSIENIDLVQKIYDTLYNK 128
K+ L+ IK D++ S S D + ++L
Sbjct: 152 KQNLEQAKIKIDSYVSERSY--YDALNATLESLKEH 185
>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 = 28.1 bits (62), Expect = 3.0
Identities = 6/23 (26%), Positives = 11/23 (47%)
Query: 68 AAIMIAAEKAGMTPKEFINNISS 90
A ++ A+ G TP E + +
Sbjct: 247 AHYVVTAKLLGFTPGELRSYLKG 269
>2w3y_A Virulence factor, EVF; drosophila pathogen, erwinia carotovora,
S-palmitoylated protein, lipid-binding protein; HET:
PLM; 2.00A {Pectobacterium carotovorum subsp}
Length = 283
Score = 26.7 bits (58), Expect = 5.9
Identities = 11/71 (15%), Positives = 28/71 (39%)
Query: 82 KEFINNISSNRKKYLDGFYIKFDNWYSTDSIENIDLVQKIYDTLYNKAKLIINKKINQFF 141
K+ + +S ++ L+ + + + + +K D +K + + +F
Sbjct: 203 KKIATSCASYQEVNLEFGVDTVGGTFRIEEYFSNETFKKKVDNFLDKYEGKAIDDADSYF 262
Query: 142 DPIKNIFLPDR 152
D I N P++
Sbjct: 263 DDIFNGVKPNK 273
>1pp9_E Ubiquinol-cytochrome C reductase iron-sulfur SUBU mitochondrial;
cytochrome BC1, membrane protein, heme protein, rieske
iron protein, cytochrome B, complex III; HET: BHG HEM
HEC SMA UQ CDL PEE; 2.10A {Bos taurus} SCOP: b.33.1.1
f.23.12.1 PDB: 1bgy_E* 1be3_E* 1l0n_E* 1ntk_E* 1ntm_E*
1ntz_E* 1nu1_E* 1l0l_E* 1ppj_E* 1qcr_E* 1sqb_E* 1sqp_E*
1sqq_E* 1sqv_E* 1sqx_E* 2a06_E* 2fyu_E* 2ybb_E* 1bcc_E*
2bcc_E* ...
Length = 196
Score = 26.2 bits (57), Expect = 7.1
Identities = 16/53 (30%), Positives = 19/53 (35%), Gaps = 11/53 (20%)
Query: 156 GECPICNAKDQYGDFCECCSSIYT----------PTKL-INPYSILSGTKPII 197
G PI NA D G +C C S Y P L + Y S I+
Sbjct: 143 GCVPIANAGDFGGYYCPCHGSHYDASGRIRKGPAPLNLEVPSYEFTSDDMVIV 195
>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
Length = 629
Score = 26.6 bits (59), Expect = 7.6
Identities = 8/69 (11%), Positives = 17/69 (24%), Gaps = 2/69 (2%)
Query: 93 KKYLDGFYIKFDNWYSTDSIENIDLVQKIYDTLYNKAKLIINKKINQFFDPIKNIFLPDR 152
+K+D I L + + L + + + L
Sbjct: 254 MVTTYKLGVKYDLLVWESDIVRRKLFEIALELL--SKNENFYIPSDGKYRGAFVMDLRKL 311
Query: 153 YIKGECPIC 161
+ + PI
Sbjct: 312 FPDMKNPIL 320
>2phc_B Uncharacterized protein PH0987; structural genomics, southeas
collaboratory for structural genomics, secsg, PSI,
protein initiative; 2.29A {Pyrococcus horikoshii} SCOP:
b.62.1.4 d.74.5.1
Length = 225
Score = 26.2 bits (58), Expect = 7.9
Identities = 7/46 (15%), Positives = 16/46 (34%), Gaps = 1/46 (2%)
Query: 48 QQDNGKSRQVYF-ICADDAHGAAIMIAAEKAGMTPKEFINNISSNR 92
+ + K + + + G I A+ G++ + I S
Sbjct: 77 EVERIKGKTIEIPVAYGGEFGPDIEFVAQYNGLSVDDVIEIHSKPL 122
>1zro_A Erythrocyte binding antigen region II; EBA-175, RII, DBL, invasion,
HOST, malaria, disease, glycophorin, glycan, sialic
acid; HET: SO4; 2.25A {Plasmodium falciparum} SCOP:
a.264.1.1 a.264.1.1 PDB: 1zrl_A*
Length = 602
Score = 26.5 bits (58), Expect = 8.4
Identities = 15/80 (18%), Positives = 31/80 (38%), Gaps = 7/80 (8%)
Query: 82 KEFINNISSNRKKYLDGFYIKFDNWYSTDSIENIDLVQKIYDTLYNKAKLIINKKINQFF 141
KE+I+ +K+ + ++ + ++ + + I +Y K K N F
Sbjct: 526 KEWISK----KKEEYNKQAKQYQEYQKGNNYKMYSEFKSIKPEVYLKKYS--EKCSNLNF 579
Query: 142 DPIKNIFLPDRYIKGECPIC 161
+ L Y K +C +C
Sbjct: 580 EDEFKEELHSDY-KNKCTMC 598
>1uf3_A Hypothetical protein TT1561; metallo-dependent phosphatases,
structural genomics, riken structural
genomics/proteomics initiative, RSGI; 2.10A {Thermus
thermophilus} SCOP: d.159.1.6
Length = 228
Score = 26.2 bits (57), Expect = 8.5
Identities = 11/45 (24%), Positives = 19/45 (42%), Gaps = 5/45 (11%)
Query: 3 KHDSEFKDVRRIFVTTALPYANGELHIG-----HIMEYIQADIWV 42
K E KD +IF+ +PY G G H+++ + +
Sbjct: 141 KALWELKDYPKIFLFHTMPYHKGLNEQGSHEVAHLIKTHNPLLVL 185
>3kwl_A Uncharacterized protein; putative oxidoreductase, multidomain,
unknown function; 1.94A {Helicobacter pylori}
Length = 514
Score = 26.5 bits (58), Expect = 9.5
Identities = 11/60 (18%), Positives = 19/60 (31%)
Query: 121 IYDTLYNKAKLIINKKINQFFDPIKNIFLPDRYIKGECPICNAKDQYGDFCECCSSIYTP 180
I +Y +++ N KI + D KN+ +Y N F +
Sbjct: 208 IDHEIYELQEILTNSKIKPWKDFSKNLLSLFQYHSNPPKTPNPPKTCALFNAYAKHLDVQ 267
>2zp2_A Kinase A inhibitor; KIPI, histidine kinase inhibitor,
ATP-binding, nucleotide- binding, protein kinase
inhibitor, sporulation; 3.01A {Bacillus subtilis}
Length = 141
Score = 25.7 bits (57), Expect = 9.9
Identities = 6/33 (18%), Positives = 15/33 (45%)
Query: 60 ICADDAHGAAIMIAAEKAGMTPKEFINNISSNR 92
+C G + A+ ++P+E I+ ++
Sbjct: 7 VCYGGEFGPDLEEVAKINQLSPEEVIDIHTNGE 39
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
0.325 0.141 0.443
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: 3,686,327
Number of extensions: 213361
Number of successful extensions: 776
Number of sequences better than 10.0: 1
Number of HSP's gapped: 763
Number of HSP's successfully gapped: 54
Length of query: 232
Length of database: 6,701,793
Length adjustment: 90
Effective length of query: 142
Effective length of database: 4,188,903
Effective search space: 594824226
Effective search space used: 594824226
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 56 (25.3 bits)