RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 024343
(269 letters)
>1ntg_A Tyrrs, tyrosyl-tRNA synthetase; beta barrel, ligase; 2.21A {Homo
sapiens} SCOP: b.40.4.4
Length = 172
Score = 219 bits (559), Expect = 1e-72
Identities = 81/167 (48%), Positives = 106/167 (63%), Gaps = 6/167 (3%)
Query: 104 MLDIRVGRIIKAWRHEEADSLYVEEVDVGEAEPRIICSGLVKYVPLEFLQDRSVVVLANL 163
LDIRVG+II +H +ADSLYVE++DVGEAEPR + SGLV++VP E LQDR VVVL NL
Sbjct: 9 RLDIRVGKIITVEKHPDADSLYVEKIDVGEAEPRTVVSGLVQFVPKEELQDRLVVVLCNL 68
Query: 164 KPRNMRGVKSHGMLLAAS-DAAHENVELLEPPQGSVPGERIWFGSQEDKENQPAPASPNQ 222
KP+ MRGV+S GMLL AS + + VE L+PP GS PGE ++ E + P +
Sbjct: 69 KPQKMRGVESQGMLLCASIEGINRQVEPLDPPAGSAPGEHVFVKGYEKGQ----PDEELK 124
Query: 223 VQKKKIWELVQPHLKTDASLVAMLGEHLMQTSAGAVMSRSLKNANIS 269
KKK++E +Q K +A + T G++ +SLK NIS
Sbjct: 125 -PKKKVFEKLQADFKISEECIAQWKQTNFMTKLGSISCKSLKGGNIS 170
>1fl0_A Endothelial-monocyte activating polypeptide II; RNA-binding domain,
OB-fold, tRNA synthetase complex, RNA binding protein;
1.50A {Homo sapiens} SCOP: b.40.4.4 PDB: 1e7z_A 1euj_A
Length = 171
Score = 214 bits (547), Expect = 6e-71
Identities = 77/166 (46%), Positives = 101/166 (60%), Gaps = 9/166 (5%)
Query: 104 MLDIRVGRIIKAWRHEEADSLYVEEVDVGEAEPRIICSGLVKYVPLEFLQDRSVVVLANL 163
LD+R+G II A +H +ADSLYVEEVDVGE PR + SGLV +VPLE +Q+R V++L NL
Sbjct: 5 RLDLRIGCIITARKHPDADSLYVEEVDVGEIAPRTVVSGLVNHVPLEQMQNRMVILLCNL 64
Query: 164 KPRNMRGVKSHGMLLAASDAAHENVELLEPPQGSVPGERIWFGSQEDKENQPAPASPNQV 223
KP MRGV S M++ AS E +E+L PP GSVPG+RI F + +P
Sbjct: 65 KPAKMRGVLSQAMVMCASSP--EKIEILAPPNGSVPGDRITF---DAFPGEPDKELN--- 116
Query: 224 QKKKIWELVQPHLKTDASLVAML-GEHLMQTSAGAVMSRSLKNANI 268
KKKIWE +QP L T+ VA G G ++++ N+ I
Sbjct: 117 PKKKIWEQIQPDLHTNDECVATYKGVPFEVKGKGVCRAQTMSNSGI 162
>1pxf_A Hypothetical protein YGJH; oligonucleotide-oligosaccharide binding
fold, OB fold, beta- barrel; 1.87A {Escherichia coli}
SCOP: b.40.4.4 PDB: 3ers_X
Length = 111
Score = 144 bits (365), Expect = 4e-44
Identities = 40/99 (40%), Positives = 55/99 (55%), Gaps = 1/99 (1%)
Query: 105 LDIRVGRIIKAWRHEEADSLYVEEVDVGEAEPRIICSGLVKYVPLEFLQDRSVVVLANLK 164
L++RVG+I++ RHE AD LY+ +VDVG+ + + LV Y E L ++VVVL NL+
Sbjct: 12 LEMRVGKIVEVKRHENADKLYIVQVDVGQ-KTLQTVTSLVPYYSEEELMGKTVVVLCNLQ 70
Query: 165 PRNMRGVKSHGMLLAASDAAHENVELLEPPQGSVPGERI 203
MRG S MLL A LL P + G R+
Sbjct: 71 KAKMRGETSECMLLCAETDDGSESVLLTPERMMPAGVRV 109
>1mkh_A Metrs;, C-terminal domain of methionyl-tRNA synthetase; beta
barrel, dimerization domain, ligase; 2.01A {Pyrococcus
abyssi} SCOP: b.40.4.4
Length = 107
Score = 130 bits (330), Expect = 6e-39
Identities = 48/99 (48%), Positives = 65/99 (65%), Gaps = 3/99 (3%)
Query: 105 LDIRVGRIIKAWRHEEADSLYVEEVDVGEAEPRIICSGLVKYVPLEFLQDRSVVVLANLK 164
LD+RVG+II+ H AD LYV +VD+G+ E R + +GL KY E L +R VVV+ANL+
Sbjct: 11 LDLRVGKIIEVKDHPNADKLYVVKVDLGD-EVRTLVAGLKKYYKPEELLNRYVVVVANLE 69
Query: 165 PRNMRGVKSHGMLLAASDAAHENVELLEPPQGSVPGERI 203
P+ +RG+ S GMLLAA D E V LL P + G ++
Sbjct: 70 PKKLRGIGSQGMLLAADDG--ERVALLMPDKEVKLGAKV 106
>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 = 125 bits (316), Expect = 7e-33
Identities = 48/99 (48%), Positives = 65/99 (65%), Gaps = 3/99 (3%)
Query: 105 LDIRVGRIIKAWRHEEADSLYVEEVDVGEAEPRIICSGLVKYVPLEFLQDRSVVVLANLK 164
LD+RVG+II+ H AD LYV +VD+G+ E R + +GL KY E L +R VVV+ANL+
Sbjct: 626 LDLRVGKIIEVKDHPNADKLYVVKVDLGD-EVRTLVAGLKKYYKPEELLNRYVVVVANLE 684
Query: 165 PRNMRGVKSHGMLLAASDAAHENVELLEPPQGSVPGERI 203
P+ +RG+ S GMLLAA D E V LL P + G ++
Sbjct: 685 PKKLRGIGSQGMLLAADDG--ERVALLMPDKEVKLGAKV 721
>1pyb_A Methionyl-tRNA synthetase beta subunit; oligonucleotide,
oligosaccharide-binding fold, OB-fold, beta-barrel, RNA
binding protein; 2.50A {Aquifex aeolicus} SCOP: b.40.4.4
Length = 111
Score = 112 bits (282), Expect = 1e-31
Identities = 35/99 (35%), Positives = 62/99 (62%), Gaps = 3/99 (3%)
Query: 105 LDIRVGRIIKAWRHEEADSLYVEEVDVGEAEPRIICSGLVKYVPLEFLQDRSVVVLANLK 164
+D+RV +++ A R E ++ L + +G+ E R + +G+ KY E L + +V++ANLK
Sbjct: 15 VDLRVAKVLSAERVEGSEKLLKLTLSLGD-EERTVVAGIAKYYTPEELVGKKIVIVANLK 73
Query: 165 PRNMRGVKSHGMLLAASDAAHENVELLEPPQGSVPGERI 203
PR + G++S GM+LAASD EN+ ++ P + G ++
Sbjct: 74 PRKIFGIESQGMILAASDG--ENLSVIVPDRDVKEGAKL 110
>2cwp_A Metrs related protein; structural GEN riken structural
genomics/proteomics initiative, RSGI; 2.10A {Pyrococcus
horikoshii}
Length = 112
Score = 112 bits (282), Expect = 1e-31
Identities = 32/100 (32%), Positives = 50/100 (50%), Gaps = 2/100 (2%)
Query: 105 LDIRVGRIIKAWRHEEADSLYVEEVDVGEAEPRIICSGLVKYVPLEFLQDRSVVVLANLK 164
++VG + KA + + L VD G E R I +G+ +P E L+ + + + NLK
Sbjct: 15 FQMKVGLVKKAEKIKRTKKLIKLIVDFGN-EERTIVTGIADQIPPEELEGKKFIFVVNLK 73
Query: 165 PRNMRGVKSHGMLLAASDAAHENVELLEPPQGSVPGERIW 204
P+ GV+S GML+ A V L+ P+ G R+W
Sbjct: 74 PKKFSGVESQGMLILAET-EDGKVYLIPVPEEVPVGARVW 112
>1gd7_A CSAA protein; oligonucleotide-binding fold, functional dimer,
hydrophobic cavity, riken structural genomics/proteomics
initiative, RSGI; 2.00A {Thermus thermophilus} SCOP:
b.40.4.4
Length = 109
Score = 105 bits (265), Expect = 3e-29
Identities = 31/101 (30%), Positives = 49/101 (48%), Gaps = 2/101 (1%)
Query: 105 LDIRVGRIIKAWRHEEAD-SLYVEEVDVGEAEPRIICSGLVKYVPLEFLQDRSVVVLANL 163
LD+RVGR+++A HE+A Y VD+G + + + + E L R VV NL
Sbjct: 10 LDLRVGRVLRAEPHEKARKPSYKLWVDLGPLGVKQSSAQITELYRPEDLVGRLVVCAVNL 69
Query: 164 KPRNMRGVKSHGMLLAASDAAHENVELLEPPQGSVPGERIW 204
+ + G S ++L D A V LL P + G +++
Sbjct: 70 GAKRVAGFLSEVLVLGVPDEA-GRVVLLAPDREVPLGGKVF 109
>3g48_A Chaperone CSAA; structural genomics, niaid structural centers for
infectious diseases, center for structural GENO
infectious diseases; 1.50A {Bacillus anthracis}
Length = 112
Score = 100 bits (251), Expect = 5e-27
Identities = 28/100 (28%), Positives = 46/100 (46%), Gaps = 2/100 (2%)
Query: 105 LDIRVGRIIKAWRHEEAD-SLYVEEVDVGEAEPRIICSGLVKYVPLEFLQDRSVVVLANL 163
LD+R+G + A +EA E+D GE + + + K E L + +V + N
Sbjct: 13 LDLRIGTVTHAEEFKEARVPAIRLEIDFGELGMKQSSAQITKRYNPEDLIGQQIVAVVNF 72
Query: 164 KPRNMRGVKSHGMLLAASDAAHENVELLEPPQGSVPGERI 203
P+ + G KS ++L A +V LL+P G +I
Sbjct: 73 PPKRVAGFKSEVLVLGGVPEA-GDVVLLQPNMELPNGTKI 111
>2nzh_A Protein CSAA; beta barrel, oligonucleotide/oligosaccharide binding
fold, H chaperone; 1.90A {Bacillus subtilis} PDB: 2nzo_A
Length = 113
Score = 95.3 bits (238), Expect = 4e-25
Identities = 31/101 (30%), Positives = 46/101 (45%), Gaps = 3/101 (2%)
Query: 105 LDIRVGRIIKAWRHEEAD-SLYVEEVDVG-EAEPRIICSGLVKYVPLEFLQDRSVVVLAN 162
LDIR G I+KA EA +D G E + + + K E L ++ V+ + N
Sbjct: 13 LDIRTGTIVKAEEFPEARVPAIKLVIDFGTEIGIKQSSAQITKRYKPEGLINKQVIAVVN 72
Query: 163 LKPRNMRGVKSHGMLLAASDAAHENVELLEPPQGSVPGERI 203
PR + G KS ++L +V LL+P Q G +I
Sbjct: 73 FPPRRIAGFKSEVLVLGGIP-GQGDVVLLQPDQPVPNGTKI 112
>2e8g_A Hypothetical protein PH0536;
oligonucleotide/oligosaccharide-binding fold,
alpha-helices bundle, structural genomics, NPPSFA; 1.70A
{Pyrococcus horikoshii}
Length = 241
Score = 98.2 bits (244), Expect = 8e-25
Identities = 42/201 (20%), Positives = 72/201 (35%), Gaps = 16/201 (7%)
Query: 6 SASILKSSSARVHMLLSSFSPAASFRTPPQLPLLRSSP---ITTITRTDRALLLLRPHHP 62
S + K + L S+ PQ+ L+ I + D L
Sbjct: 38 SIQLAKEMIPDIQALRYSYIDPEELVDTPQMKDLKEKAKGIIEALGGEDWHHKFLSQASR 97
Query: 63 KTSSFCTSPITNANAETTTTSESLPRPAVEDNSVNVKDAANMLDIRVGRIIKAWRHEEAD 122
+ + T R + + D +DI VG ++ +H AD
Sbjct: 98 EDREKVEEQVARIKFFLNTILNLDRRLKLGK----INDPVIAVDIVVGEVMSVGKHPSAD 153
Query: 123 SLYVEEVDVGEAEPRIICSGLVKYVPLEFLQDRSVVVLANLKPRNMRGVKSHGMLLAASD 182
L V V++GE ++ + L +++ + V +A L PRN G+ S GM L A +
Sbjct: 154 RLLVTNVNIGERAVTVVTNDLT-------VKEGNRVAVALLPPRNFFGIVSEGMFLGAGE 206
Query: 183 AAHENVE--LLEPPQGSVPGE 201
+NV+ + P+G
Sbjct: 207 GVLKNVKGEIGGLPKGIPLEA 227
>2q2i_A AGR_C_4014P, secretion chaperone; beta barrel, OB fold, homodimer,
protein secretio; 1.55A {Agrobacterium tumefaciens str}
Length = 116
Score = 94.2 bits (235), Expect = 1e-24
Identities = 26/101 (25%), Positives = 47/101 (46%), Gaps = 3/101 (2%)
Query: 105 LDIRVGRIIKAWRHEEAD-SLYVEEVDVG-EAEPRIICSGLVKYVPLEFLQDRSVVVLAN 162
+DIRVG I++A EA ++D G E + + + + E L R V+ + N
Sbjct: 16 VDIRVGTIVEAVPFPEARKPAIKVKIDFGPEIGIKKSSAQITVHYTPESLVGRQVLGVVN 75
Query: 163 LKPRNMRGVKSHGMLLAASDAAHENVELLEPPQGSVPGERI 203
PR + +S + L +D A+ ++ L + GE++
Sbjct: 76 FPPRQIGPFRSEVLTLGFAD-ANGDIVLAAVERPVPNGEKM 115
>2q2h_A AGR_C_4014P, secretion chaperone, phage-display derived peptid;
beta barrel, OB fold, homodimer, protein secretio; HET:
CIT; 1.65A {Agrobacterium tumefaciens str}
Length = 131
Score = 92.3 bits (230), Expect = 7e-24
Identities = 26/101 (25%), Positives = 47/101 (46%), Gaps = 3/101 (2%)
Query: 105 LDIRVGRIIKAWRHEEAD-SLYVEEVDVG-EAEPRIICSGLVKYVPLEFLQDRSVVVLAN 162
+DIRVG I++A EA ++D G E + + + + E L R V+ + N
Sbjct: 31 VDIRVGTIVEAVPFPEARKPAIKVKIDFGPEIGIKKSSAQITVHYTPESLVGRQVLGVVN 90
Query: 163 LKPRNMRGVKSHGMLLAASDAAHENVELLEPPQGSVPGERI 203
PR + +S + L +D A+ ++ L + GE++
Sbjct: 91 FPPRQIGPFRSEVLTLGFAD-ANGDIVLAAVERPVPNGEKM 130
>3pco_B Phenylalanyl-tRNA synthetase, beta chain; aminoacylation,
tRNA-binding, DNA-binding domain, four-helix
aminoacyl-tRNA synthetase, ATP-binding; HET: PHE AMP;
3.02A {Escherichia coli}
Length = 795
Score = 53.6 bits (130), Expect = 2e-08
Identities = 28/104 (26%), Positives = 44/104 (42%), Gaps = 25/104 (24%)
Query: 91 VEDNSVNVKDAANMLD-IRVGRIIKAWRHEEADSLYVEEVDVGEAEPR-IIC------SG 142
V+ V+ A + VG +++ +H AD L V +V+VG I+C G
Sbjct: 32 VDG----VEPVAGSFHGVVVGEVVECAQHPNADKLRVTKVNVGGDRLLDIVCGAPNCRQG 87
Query: 143 LVKYVPLEFLQDRSVV--VLAN---LKPRNMRGVKSHGMLLAAS 181
L V + + + VL +K +RG S GML + S
Sbjct: 88 L--RVAV------ATIGAVLPGDFKIKAAKLRGEPSEGMLCSFS 123
>3bu2_A Putative tRNA-binding protein; structural genomics, PSI-2, protein
structure initiative; 2.70A {Staphylococcus
saprophyticus subsp}
Length = 199
Score = 48.5 bits (116), Expect = 4e-07
Identities = 25/113 (22%), Positives = 44/113 (38%), Gaps = 23/113 (20%)
Query: 106 DIRVGRIIKAWRHEEADSLYVEEVDVGEAEPRIIC------SGLVKYVPLEFLQDRSVV- 158
VG + +H +AD L V VDV + +I+C +G V + + V
Sbjct: 92 KFVVGYVETKDKHPDADKLSVLSVDVATEKLQIVCGAPNVEAGQ--KVVV------AKVG 143
Query: 159 -VLAN---LKPRNMRGVKSHGMLLAAS----DAAHENVELLEPPQGSVPGERI 203
V+ + +K +RGV S GM+ + A + ++ G+
Sbjct: 144 AVMPSGMVIKDAELRGVASSGMICSMKELGLPNAPQEKGIMVLSDDYTVGQSF 196
>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 = 48.1 bits (114), Expect = 2e-06
Identities = 48/314 (15%), Positives = 88/314 (28%), Gaps = 105/314 (33%)
Query: 17 VHMLLSSFSPAASFRTPPQLPLLRSSPITTITRTDRALLLL-RPHHPKTSSFCTSPITNA 75
+H L + L+++ A ++ RP K++S +
Sbjct: 101 IHALAAKLLQENDTTLVKTKELIKN--------YITARIMAKRPFDKKSNS---ALFRAV 149
Query: 76 NAETTT---------TSE----------SLPRPAVEDNSVNVKDAANMLDIRVGRIIKAW 116
++ V D +K +A L +I+
Sbjct: 150 GEGNAQLVAIFGGQGNTDDYFEELRDLYQTYHVLVGD---LIKFSAETLS----ELIRT- 201
Query: 117 RHEEADSLYVEEVDVG------EAEPRI--ICSGLVKYVPLEFL-QDRSVVVLAN---LK 164
+A+ ++ + +++ P + S + PL + Q VV A
Sbjct: 202 -TLDAEKVFTQGLNILEWLENPSNTPDKDYLLSIPIS-CPLIGVIQLAHYVVTAKLLGFT 259
Query: 165 PRNMR----GVKSHG------MLLAASD-------AAHENVELL---------EPPQGSV 198
P +R G H + +A +D + + + +L P S+
Sbjct: 260 PGELRSYLKGATGHSQGLVTAVAIAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSL 319
Query: 199 PGERIWFGSQEDKENQPAP------ASPNQVQKKKIWELVQPHLKTDASLVAMLGEHLMQ 252
P I S E+ E P+P + QVQ V HL
Sbjct: 320 P-PSILEDSLENNEGVPSPMLSISNLTQEQVQD----------------YVNKTNSHLPA 362
Query: 253 TSAGAVMSRSLKNA 266
+ SL N
Sbjct: 363 GKQVEI---SLVNG 373
Score = 28.1 bits (62), Expect = 4.2
Identities = 33/179 (18%), Positives = 54/179 (30%), Gaps = 65/179 (36%)
Query: 111 RIIKAWRHEEAD------SLYVEEVDVGE--AEPRIICSGLV---KYVPLEFLQDRSVVV 159
+K+ AD SL GE A L + +E VV
Sbjct: 1745 EDLKSKGLIPADATFAGHSL-------GEYAA--------LASLADVMSIE---SLVEVV 1786
Query: 160 ------LANLKPRNMRGVKSHGML------LAAS---DAAHENVELLEPPQGSV------ 198
+ PR+ G ++GM+ +AAS +A VE + G +
Sbjct: 1787 FYRGMTMQVAVPRDELGRSNYGMIAINPGRVAASFSQEALQYVVERVGKRTGWLVEIVNY 1846
Query: 199 --PGERIWF---GSQEDKENQPAPASPNQVQKKKIWEL-VQPHLKTDASLVAMLGEHLM 251
++ G + + ++QK I EL L+ + HL
Sbjct: 1847 NVENQQY--VAAGDLRALDTVTNVLNFIKLQKIDIIELQKSLSLEE-------VEGHLF 1896
Score = 27.7 bits (61), Expect = 5.8
Identities = 44/288 (15%), Positives = 84/288 (29%), Gaps = 93/288 (32%)
Query: 7 ASILKSSSARVHMLLSSFSPAA-----SFRTPPQLPLLRSSPITTITRTDRALLLL---- 57
S LK ++ L+++ + A SF +A+ +L
Sbjct: 264 RSYLKGATGHSQGLVTAVAIAETDSWESF----------------FVSVRKAITVLFFIG 307
Query: 58 -RPH--HPKTSSFCTSPITNANAETTTTSESLPRPAVEDNSVNVKDAANMLDIR------ 108
R + +P TS P + ++ +E +P P ML I
Sbjct: 308 VRCYEAYPNTSL---PP--SILEDSLENNEGVPSP--------------MLSISNLTQEQ 348
Query: 109 VGRIIKAWRHE--EADSLYVEEVDVGEAEPR-IICSG-------LVKYV-----PLEFLQ 153
V + + + V+ G + ++ SG L + P Q
Sbjct: 349 VQDYVNKTNSHLPAGKQVEISLVN-G---AKNLVVSGPPQSLYGLNLTLRKAKAPSGLDQ 404
Query: 154 DRSVVVLANLKPR-NMR----GVKSHGMLLA------ASDAAHENVELLEPPQGSVPGER 202
R + + K + + R H LL D NV +P
Sbjct: 405 SR--IPFSERKLKFSNRFLPVASPFHSHLLVPASDLINKDLVKNNVS-FNAKDIQIPVYD 461
Query: 203 IWFGS--QEDKENQPAPASPNQVQKKKI-WELVQPHLKTDASLVAMLG 247
+ GS + + + + + + + WE + A+ + G
Sbjct: 462 TFDGSDLRVLSGSI-SERIVDCIIRLPVKWETT---TQFKATHILDFG 505
>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 = 44.5 bits (104), Expect = 3e-05
Identities = 23/131 (17%), Positives = 44/131 (33%), Gaps = 33/131 (25%)
Query: 98 VKDAANMLDIRVGRIIKAWRHEEAD-----SLYVEEVDVGEAEPRIICSGLVKY-VPLE- 150
V++ L I ++ + E+ +Y+E+ D + ++ KY V
Sbjct: 83 VEEV---LRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQV----FAKYNVSRLQ 135
Query: 151 -FLQDRSVVVLANLKPRNMRGVKSHGML------LAASDAAHENVELLEPPQGSVPGERI 203
+L+ R L L+P + V G+L +A V Q + +
Sbjct: 136 PYLKLRQA--LLELRP--AKNVLIDGVLGSGKTWVALDVCLSYKV------QCKMDFKIF 185
Query: 204 W--FGSQEDKE 212
W + E
Sbjct: 186 WLNLKNCNSPE 196
Score = 39.8 bits (92), Expect = 7e-04
Identities = 39/253 (15%), Positives = 70/253 (27%), Gaps = 84/253 (33%)
Query: 34 PQLPLLRSSPITTITRTDRALLLLRPH-----HP-----KTS---SFCTSP--------- 71
+ + R P + + ALL LRP KT C S
Sbjct: 127 AKYNVSRLQPYLKLRQ---ALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFK 183
Query: 72 ---ITNANAETTTTS----ESL------PRPAVEDNSVNVKDAANMLDIRVGRIIKAWRH 118
+ N + T + L + D+S N+K + + + R++K+ +
Sbjct: 184 IFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPY 243
Query: 119 EEADSLYVEEVDVGEAEPRII------CSGLVKYVPLEFLQDRSVV-VLANLKPRNMRGV 171
E + L V +V + C L+ + + V L+ ++
Sbjct: 244 E--NCLLVLL-NV--QNAKAWNAFNLSCKILLT------TRFKQVTDFLSAATTTHISLD 292
Query: 172 KSHGMLLAASDAAHENVELLEPPQGSVPGERIWFGSQEDKENQPAPASPNQVQK------ 225
L E LL + + P +V
Sbjct: 293 HHSMTLTPD-----EVKSLLLK----------YLDCRPQDL-------PREVLTTNPRRL 330
Query: 226 KKIWELVQPHLKT 238
I E ++ L T
Sbjct: 331 SIIAESIRDGLAT 343
>1b7y_B Phers, protein (phenylalanyl-tRNA synthetase); enzyme, alpha/beta
homodimer, ligase; HET: FYA; 2.50A {Thermus
thermophilus} SCOP: a.6.1.1 a.6.1.1 b.40.4.4 b.153.1.1
d.58.13.1 d.104.1.1 PDB: 1b70_B* 1eiy_B 1jjc_B* 1pys_B
2akw_B* 2aly_B* 2amc_B* 3hfz_B* 3teh_B* 2iy5_B*
Length = 785
Score = 42.9 bits (102), Expect = 8e-05
Identities = 16/104 (15%), Positives = 35/104 (33%), Gaps = 27/104 (25%)
Query: 91 VEDNSVNVKDAANMLD-IRVGRIIKAWRHEEADSLYVEEVDVGEAEPRIIC------SGL 143
+ ++ + + R+++A L +D G ++ G+
Sbjct: 32 TDR----IERVFPIPRGVVFARVLEAHPIP-GTRLKRLVLDAGR-TVEVVSGAENARKGI 85
Query: 144 VKYVPLEFLQDRSVV--VLAN----LKPRNMRGVKSHGMLLAAS 181
V L ++ L + R ++GV+S GM L+
Sbjct: 86 --GVAL------ALPGTELPGLGQKVGERVIQGVRSFGMALSPR 121
>2rhq_B Phenylalanyl-tRNA synthetase beta chain; heterotetramer,
phenylalanine, aminoacyl-tRNA synthetase, ATP-binding,
cytoplasm, ligase; HET: GAX; 2.20A {Staphylococcus
haemolyticus} PDB: 2rhs_B*
Length = 795
Score = 41.3 bits (98), Expect = 2e-04
Identities = 23/85 (27%), Positives = 37/85 (43%), Gaps = 24/85 (28%)
Query: 109 VGRIIKAWRHEEADSLYVEEVDVGEAEPR-IIC------SGLVKYVPLEFLQDRSVV--V 159
VG I +E S + +VD+GE EP I+C +G +V + + V
Sbjct: 47 VGYIQ----SKEKGSGNICQVDIGEEEPVQIVCGAPNVDAGQ--HVIV------AKVGGR 94
Query: 160 LAN---LKPRNMRGVKSHGMLLAAS 181
L +K +RG +S GM+ +
Sbjct: 95 LPGGIKIKRAKLRGERSEGMICSLQ 119
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 29.7 bits (66), Expect = 0.77
Identities = 7/23 (30%), Positives = 11/23 (47%), Gaps = 2/23 (8%)
Query: 113 IKAWRHEEADSLYVEEVDVGEAE 135
I+ WR E+ L +E+D
Sbjct: 87 IRKWREEQRKRL--QELDAASKV 107
>3bul_A Methionine synthase; transferase, reactivation conformation,
cobalamin, intermodular interactions, amino-acid
biosynthesis, cobalt; HET: B12; 2.30A {Escherichia coli}
SCOP: a.46.1.1 c.23.6.1 d.173.1.1 PDB: 3iv9_A* 3iva_A*
1k7y_A* 1k98_A* 1bmt_A*
Length = 579
Score = 28.9 bits (65), Expect = 2.2
Identities = 10/26 (38%), Positives = 13/26 (50%)
Query: 217 PASPNQVQKKKIWELVQPHLKTDASL 242
PA P +K IWEL++ T L
Sbjct: 492 PACPEHTEKATIWELLEVEKHTGMKL 517
>2o2k_A Methionine synthase; C-shaped, twisted anti-parallel beta sheet,
beta-meander region, transferase; 1.60A {Homo sapiens}
Length = 355
Score = 28.2 bits (63), Expect = 2.9
Identities = 7/26 (26%), Positives = 11/26 (42%)
Query: 217 PASPNQVQKKKIWELVQPHLKTDASL 242
P+ P+ +K +W L T L
Sbjct: 255 PSQPDHTEKLTMWRLADIEQSTGIRL 280
>2k5f_A Ferrous iron transport protein A; SH3-like, alpha+beta, GFT,
structural genomics, PSI-2, protein structure
initiative; NMR {Chlorobaculum tepidum}
Length = 105
Score = 26.6 bits (59), Expect = 3.4
Identities = 6/33 (18%), Positives = 14/33 (42%)
Query: 105 LDIRVGRIIKAWRHEEADSLYVEEVDVGEAEPR 137
+++ ++ R EA+ + V + E P
Sbjct: 50 IEVNCNGMLLTMRRNEAEGITVHILAGDEGHPH 82
>1msk_A Cobalamin-dependent methionine synthase; methyltransferase,
transferase, methionine biosynthesis, vitamin B12; HET:
SAM; 1.80A {Escherichia coli K12} SCOP: d.173.1.1
Length = 331
Score = 27.7 bits (62), Expect = 4.5
Identities = 10/26 (38%), Positives = 13/26 (50%)
Query: 217 PASPNQVQKKKIWELVQPHLKTDASL 242
PA P +K IWEL++ T L
Sbjct: 244 PACPEHTEKATIWELLEVEKHTGMKL 269
>3kxa_A NGO0477 protein, putative uncharacterized protein; NEW protein
fold, OPPF, STRU genomics, oxford protein production
facility; 2.80A {Neisseria gonorrhoeae}
Length = 141
Score = 26.4 bits (58), Expect = 7.0
Identities = 10/50 (20%), Positives = 15/50 (30%)
Query: 70 SPITNANAETTTTSESLPRPAVEDNSVNVKDAANMLDIRVGRIIKAWRHE 119
SP T AE PR + + A + G + R +
Sbjct: 30 SPNTTPAAEHIEHVRKNPRRKAAMDRAAARIADKIALKAGGETFVSLRMK 79
>2h3j_A Hypothetical protein PA4359; NESG, GFT structural genomics, PAT89,
PSI-2, protein structure initiative; NMR {Pseudomonas
aeruginosa} SCOP: b.34.1.2
Length = 75
Score = 24.9 bits (55), Expect = 8.9
Identities = 4/26 (15%), Positives = 11/26 (42%)
Query: 105 LDIRVGRIIKAWRHEEADSLYVEEVD 130
+ + + A R ++ L + +D
Sbjct: 50 IQVETRQTSLALRRKDLALLTLVPLD 75
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
0.314 0.127 0.360
Gapped
Lambda K H
0.267 0.0840 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,750,137
Number of extensions: 211915
Number of successful extensions: 313
Number of sequences better than 10.0: 1
Number of HSP's gapped: 287
Number of HSP's successfully gapped: 30
Length of query: 269
Length of database: 6,701,793
Length adjustment: 92
Effective length of query: 177
Effective length of database: 4,133,061
Effective search space: 731551797
Effective search space used: 731551797
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 56 (25.1 bits)