RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 020225
(329 letters)
>2ihr_1 Peptide chain release factor 2; mixed alpha-beta, translation;
2.50A {Thermus thermophilus} PDB: 2b9m_Y* 3f1e_X 3f1g_X
2x9r_Y* 2x9t_Y* 2jl5_Y 2jl7_Y 2wh1_Y 2wh3_Y
Length = 365
Score = 192 bits (489), Expect = 1e-58
Identities = 91/333 (27%), Positives = 150/333 (45%), Gaps = 28/333 (8%)
Query: 6 NLWDDPTKSNEVLVKLADSLKVVNALKDLRYKAEEAKLIAQLAEMEAIDYGLFKRAYRAS 65
+LW+DP + +V + A + V+ + L + + + E L
Sbjct: 37 SLWNDPEAARKVSQEAARLRRTVDTFRSLESDLQGLLELMEELPAEE-REALKPEL---- 91
Query: 66 LDVSKLLDQYEMSKLLRGPNDVEGASVTIKAGSNGICPEIWAEQLLNMYVRWADKEGYRG 125
+ +K LD+ LL P+ + A +TI+ G+ G WAE LL MY R+A+++G++
Sbjct: 92 EEAAKKLDELYHQTLLNFPHAEKNAILTIQPGAGGTEACDWAEMLLRMYTRFAERQGFQV 151
Query: 126 RVVDKCCCKNGGVKSATIEFEFEYAFGYLSGETGAHCLIN---FPNG-----SFPHEATL 177
VVD G+ A I + E A+G LS E G H L+ F SF
Sbjct: 152 EVVDLTPGPEAGIDYAQILVKGENAYGLLSPEAGVHRLVRPSPFDASGRRHTSF------ 205
Query: 178 ACVDVVPLFLETSPDLQISDEDL---LFSSPSLPGERQSIAK--PAACIQHIPTGIAVQS 232
A V+V+P ++ ++ + E+L + + S PG Q + A + H+PTGI V
Sbjct: 206 AGVEVIPE-VDEEVEVVLKPEELRIDVMRA-SGPGG-QGVNTTDSAVRVVHLPTGITVTC 262
Query: 233 LGERNHFANKMKALNRLKAKLLVIVGEQGVSNVSCIKREAIVNIWQRETRRYVSHPYKLV 292
R+ NK AL LKA+L + ++ + ++ E W + R YV V
Sbjct: 263 QTTRSQIKNKELALKILKARLYELERKKREEELKALRGEVRPIEWGSQIRSYVLDK-NYV 321
Query: 293 QDVKTGIQLPDFNSVLDGNIKPFIEAHINSRRS 325
+D +TG+ D +VLDG++ I A + +
Sbjct: 322 KDHRTGLMRHDPENVLDGDLMDLIWAGLEWKAG 354
>1gqe_A Release factor 2, RF2; protein synthesis, ribosome, macromolecular
mimicry, translation; 1.81A {Escherichia coli} SCOP:
e.38.1.1 PDB: 1mi6_A 1ml5_Z*
Length = 365
Score = 191 bits (488), Expect = 2e-58
Identities = 88/331 (26%), Positives = 163/331 (49%), Gaps = 24/331 (7%)
Query: 6 NLWDDPTKSNEVLVKLADSLKVVNALKDLRYKAEEAKLIAQLAEMEAIDYGLFKRAYRAS 65
++W++P ++ + + + VV+ L ++ E+ + +LA D F A
Sbjct: 45 DVWNEPERAQALGKERSSLEAVVDTLDQMKQGLEDVSGLLELAVEAD-DEETFNEAVAEL 103
Query: 66 LDVSKLLDQYEMSKLLRGPNDVEGASVTIKAGSNGICPEIWAEQLLNMYVRWADKEGYRG 125
+ + L Q E ++ G D + I+AGS G + WA L MY+RWA+ G++
Sbjct: 104 DALEEKLAQLEFRRMFSGEYDSADCYLDIQAGSGGTEAQDWASMLERMYLRWAESRGFKT 163
Query: 126 RVVDKCCCKNGGVKSATIEFEFEYAFGYLSGETGAHCLIN---FPNG-----SFPHEATL 177
++++ + G+KS TI+ +YA+G+L ETG H L+ F +G SF
Sbjct: 164 EIIEESEGEVAGIKSVTIKISGDYAYGWLRTETGVHRLVRKSPFDSGGRRHTSF------ 217
Query: 178 ACVDVVPLFLETSPDLQISDEDL---LFSSPSLPGERQSIAK--PAACIQHIPTGIAVQS 232
+ V P ++ D++I+ DL ++ + G Q + + A I HIPTGI Q
Sbjct: 218 SSAFVYPE-VDDDIDIEINPADLRIDVYRASGAGG--QHVNRTESAVRITHIPTGIVTQC 274
Query: 233 LGERNHFANKMKALNRLKAKLLVIVGEQGVSNVSCIKREAIVNIWQRETRRYVSHPYKLV 292
+R+ NK +A+ ++KAKL + ++ + ++ W + R YV + +
Sbjct: 275 QNDRSQHKNKDQAMKQMKAKLYEVEMQKKNAEKQAMEDNKSDIGWGSQIRSYVLDDSR-I 333
Query: 293 QDVKTGIQLPDFNSVLDGNIKPFIEAHINSR 323
+D++TG++ + +VLDG++ FIEA + +
Sbjct: 334 KDLRTGVETRNTQAVLDGSLDQFIEASLKAG 364
>1rq0_A RF-1, peptide chain release factor 1; X-RAY, crystal, peptide
release factor 1, ribosome, structural genomics, BSGC
structure funded by NIH; 2.65A {Thermotoga maritima}
SCOP: e.38.1.1 PDB: 2fvo_A
Length = 342
Score = 75.7 bits (187), Expect = 1e-15
Identities = 68/260 (26%), Positives = 109/260 (41%), Gaps = 33/260 (12%)
Query: 10 DPTKSNEVLVKL----ADSLKVVNALKDLRYKAEEAKLIAQLAEMEAIDYGLFKRAYRAS 65
P + E + A ++ N ++ + +E I L E + + K
Sbjct: 14 RPDLTPEQMKNYGMEYAKIEEIENITNRIK-ETQEF--IELLREEGENELEIEKYE---- 66
Query: 66 LDVSKLLDQYEMSKLLRGPNDVEGASVTIKAGSNGICPEIWAEQLLNMYVRWADKEGYRG 125
+L Y+ L P + A V I+ G+ G ++A L MY R+A+++G+
Sbjct: 67 ---KELDQLYQELLFLLSPEASDKAIVEIRPGTGGEEAALFARDLFRMYTRYAERKGWNL 123
Query: 126 RVVDKCCCKNGGVKSATIEFEFEYAFGYLSGETGAHCLINFPNGSFPHEA-----TLAC- 179
V + GG++ + + A+G L E+G H + P E+ T
Sbjct: 124 EVAEIHETDLGGIREVVFFVKGKNAYGILKYESGVHRVQRVPVT----ESGGRIHTSTAT 179
Query: 180 VDVVPLFLETSPDLQISDEDL---LFSSPSLPGERQSIAK--PAACIQHIPTGIAVQSLG 234
V V+P E D++I EDL F + S G Q + K A I H+PTGI V
Sbjct: 180 VAVLPEIEEK--DIEIRPEDLKIETFRA-SGHGG-QYVNKTESAVRITHLPTGIVVSCQN 235
Query: 235 ERNHFANKMKALNRLKAKLL 254
ER+ + NK AL L+A+L
Sbjct: 236 ERSQYQNKQTALRILRARLY 255
>3d5a_X RF1, peptide chain release factor 1; ribosome, ribonucleoprotein,
ribosomal protein, RNA-binding, binding, metal-binding,
zinc-finger; 3.21A {Thermus thermophilus} PDB: 2b64_Y
3d5c_X 3mr8_V 3ms0_V
Length = 354
Score = 74.9 bits (185), Expect = 3e-15
Identities = 77/312 (24%), Positives = 136/312 (43%), Gaps = 28/312 (8%)
Query: 21 LADSLKVVNALKDLRYKAEEAKLIAQLAEMEAIDYGLFKRAYRASLDVSKLLDQYEMSKL 80
+ + + ++ + + E+A+ + E++ + K A L + L++ E+ +
Sbjct: 41 MGEVIGLIREYRKVLEDLEQAESLLDDPELKE----MAKAEREALLARKEALEK-ELERH 95
Query: 81 L--RGPNDVEGASVTIKAGSNGICPEIWAEQLLNMYVRWADKEGYRGRVVDKCCCKNGGV 138
L + P D A V I+AG+ G ++A L NMY+R+A++ G+ V+D GG
Sbjct: 96 LLPKDPMDERDAIVEIRAGTGGEEAALFARDLFNMYLRFAEEMGFETEVLDSHPTDLGGF 155
Query: 139 KSATIEFEFEYAFGYLSGETGAHCLINFPNGSFPHEA-----TLAC-VDVVPLFLETSPD 192
E A+G E+G H + P E T V V+P E D
Sbjct: 156 SKVVFEVRGPGAYGTFKYESGVHRVQRVPVT----ETQGRIHTSTATVAVLPKAEEE--D 209
Query: 193 LQISDEDL---LFSSPSLPGERQSIAK--PAACIQHIPTGIAVQSLGERNHFANKMKALN 247
++ +++ + + S PG Q + A + H+PTGI V R+ N+ KAL
Sbjct: 210 FALNMDEIRIDVMRA-SGPGG-QGVNTTDSAVRVVHLPTGIMVTCQDSRSQIKNREKALM 267
Query: 248 RLKAKLLVIVGEQGVSNVSCIKREAIVNIWQRETR-RYVSHPYKLVQDVKTGIQLPDFNS 306
L+++LL + + + R A + +R + R + P V D + G D
Sbjct: 268 ILRSRLLEMKRAEEAERLRK-TRLAQIGTGERSEKIRTYNFPQSRVTDHRIGFTTHDLEG 326
Query: 307 VLDGNIKPFIEA 318
VL G++ P +EA
Sbjct: 327 VLSGHLTPILEA 338
>1zbt_A RF-1, peptide chain release factor 1; peptide chain release factor
1 (RF-1), structural joint center for structural
genomics, JCSG; 2.34A {Streptococcus mutans}
Length = 371
Score = 70.7 bits (174), Expect = 7e-14
Identities = 51/192 (26%), Positives = 91/192 (47%), Gaps = 21/192 (10%)
Query: 76 EMSKLL--RGPNDVEGASVTIKAGSNGICPEIWAEQLLNMYVRWADKEGYRGRVVDKCCC 133
++ LL + PND + + I+ + G ++A LLNMY ++A+ +G++ V++
Sbjct: 109 KLRFLLLPKDPNDDKNIILEIRGAAGGDEAALFAGDLLNMYQKYAENQGWKFEVMEASAN 168
Query: 134 KNGGVKSATIEFEFEYAFGYLSGETGAHCLINFPNGSFPHEA-----TLAC-VDVVPLFL 187
GG+K + + L E+GAH + P E+ T V V+P
Sbjct: 169 GVGGLKEVVAMVSGQSVYSKLKYESGAHRVQRVPVT----ESQGRVHTSTATVLVMPEVE 224
Query: 188 ETSPDLQISDEDL---LFSSPSLPGERQSIAK--PAACIQHIPTGIAVQSLGERNHFANK 242
E + +I +DL ++ + S G Q++ K A I H+PT I V+ ER N+
Sbjct: 225 EV--EYEIDPKDLRVDIYHA-SGAGG-QNVNKVATAVRIIHLPTNIKVEMQEERTQQKNR 280
Query: 243 MKALNRLKAKLL 254
KA+ ++A++
Sbjct: 281 DKAMKIIRARVA 292
>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 = 70.5 bits (172), Expect = 2e-13
Identities = 73/356 (20%), Positives = 116/356 (32%), Gaps = 116/356 (32%)
Query: 31 LKDLR-----YKAEEAKLIAQLAEMEAIDYGLFKRAYRASLDVSKLLDQ-YEMSKLLRGP 84
++LR Y LI AE R +LD K+ Q + + L P
Sbjct: 170 FEELRDLYQTYHVLVGDLIKFSAE-------TLSELIRTTLDAEKVFTQGLNILEWLENP 222
Query: 85 NDVEG----ASVTIKAGSNGICPEIWAEQLLNMYVRWADKEGYR-GRVVDKCCCKNG--- 136
++ S+ I S CP I QL + YV A G+ G + G
Sbjct: 223 SNTPDKDYLLSIPI---S---CPLIGVIQLAH-YVVTAKLLGFTPGELRSYLKGATGHSQ 275
Query: 137 GVKSATI--------EFE------FEYAFGYLSGETGAHCLINFPNGSFPHEATLACVDV 182
G+ +A F F ++ G C +PN S P ++
Sbjct: 276 GLVTAVAIAETDSWESFFVSVRKAITVLF-FI----GVRCYEAYPNTSLPPSILEDSLEN 330
Query: 183 ---VPLFLETSPDLQISDEDL--LFS-----SPSLPGERQ-SIA---KPAACIQHIPTGI 228
VP SP L IS+ + + LP +Q I+ + +G
Sbjct: 331 NEGVP-----SPMLSISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAK---NLVVSG- 381
Query: 229 AVQSL-GERNHFANKMKALNRLKAKLLVIVGEQGVSNVSCIKREAIVNIWQRETRRY--V 285
QSL G K KA + L +Q S + +R+ + R+ V
Sbjct: 382 PPQSLYGLNLTLR-KAKAPSGL---------DQ--SRIPFSERKLKF------SNRFLPV 423
Query: 286 SHPY----------KLVQDVKTG--------IQLPDFNS-------VLDGNIKPFI 316
+ P+ + +D+ IQ+P +++ VL G+I I
Sbjct: 424 ASPFHSHLLVPASDLINKDLVKNNVSFNAKDIQIPVYDTFDGSDLRVLSGSISERI 479
Score = 57.4 bits (138), Expect = 4e-09
Identities = 56/335 (16%), Positives = 97/335 (28%), Gaps = 114/335 (34%)
Query: 43 LIAQLAEMEAID----YGLFKRAYRASLDVSKLLDQYEMSKLLRGPNDVEGASVTIKA-- 96
L A+L + L K A + + D+ S L R V + + A
Sbjct: 104 LAAKLLQENDTTLVKTKELIKNYITARIMAKRPFDKKSNSALFRA---VGEGNAQLVAIF 160
Query: 97 GSNGICPEIWAEQLLNMYVRWADKEGYRGRVVDKCCCKNGGVKSATIEFEFEYAFGYLSG 156
G G + + E+L ++Y + Y V D +++ LS
Sbjct: 161 GGQGN-TDDYFEELRDLY------QTYHVLVGD---------------L-IKFSAETLSE 197
Query: 157 --ETGAHCLINFPNGSFPHEATLACVDVVPLFLETSPDLQISDEDLLFSSP-SLP----- 208
T F G ++++ +LE P D+D L S P S P
Sbjct: 198 LIRTTLDAEKVFTQG----------LNILE-WLEN-PS-NTPDKDYLLSIPISCPLIGVI 244
Query: 209 ----------------GE-RQSIAKPAACIQHIPTGIAVQSLGERNHF-ANKMKALNRLK 250
GE R + Q + T +A+ F + KA+
Sbjct: 245 QLAHYVVTAKLLGFTPGELRSYLKGATGHSQGLVTAVAIAETDSWESFFVSVRKAI---- 300
Query: 251 AKLLVIVGEQGVSNVSCIKREAIVNIWQRETRRYVSHPYKLVQD-VKTGIQLP------- 302
+L +G V C P +++D ++ +P
Sbjct: 301 -TVLFFIG------VRC----------YEAYPNTSLPP-SILEDSLENNEGVPSPMLSIS 342
Query: 303 ------------DFNSVLDGNIKPFIEAHINSRRS 325
NS L + I + +N ++
Sbjct: 343 NLTQEQVQDYVNKTNSHLPAGKQVEI-SLVNGAKN 376
Score = 43.1 bits (101), Expect = 1e-04
Identities = 49/259 (18%), Positives = 78/259 (30%), Gaps = 79/259 (30%)
Query: 109 QLLNM----Y-----VR--W--ADK---EGYRGRVVDKCCCKNGGVKSATIEFEFEYAFG 152
Q M Y + W AD + Y ++D N + TI F
Sbjct: 1627 QEQGMGMDLYKTSKAAQDVWNRADNHFKDTYGFSILD--IVINNP-VNLTIHF------- 1676
Query: 153 YLSGETGAHCLINFPNGSFPHEATLACVDVVPLFLETSPDLQISDEDLLFSSPSLPGE-- 210
GE G N+ F + +F E + F S G
Sbjct: 1677 --GGEKGKRIRENYSAMIF-ETIVDGKLKTEKIFKEINEHST----SYTFRSEK--GLLS 1727
Query: 211 RQSIAKPA------ACIQH------IPTGIAV--QSLGERN---HFANKMK-----ALNR 248
+PA A + IP SLGE A+ M +
Sbjct: 1728 ATQFTQPALTLMEKAAFEDLKSKGLIPADATFAGHSLGEYAALASLADVMSIESLVEVVF 1787
Query: 249 LKAKLL---VIVGEQGVSNVSC--IKREAIVNIWQRETRRYVSHPYKLVQDV--KTG--I 299
+ + V E G SN I + + +E +YV V+ V +TG +
Sbjct: 1788 YRGMTMQVAVPRDELGRSNYGMIAINPGRVAASFSQEALQYV------VERVGKRTGWLV 1841
Query: 300 QLPDFNS-----VLDGNIK 313
++ ++N V G+++
Sbjct: 1842 EIVNYNVENQQYVAAGDLR 1860
Score = 36.6 bits (84), Expect = 0.014
Identities = 51/330 (15%), Positives = 92/330 (27%), Gaps = 132/330 (40%)
Query: 32 KDLRYKAEEAKLIAQLAEMEAIDYGLFKRAYRASLDVSKLLDQYEMSKL---LRGPNDVE 88
DL ++ A+ + + RA D + D Y S L + P
Sbjct: 1633 MDLYKTSKAAQDV-------------WNRA-----D-NHFKDTYGFSILDIVINNPV--- 1670
Query: 89 GASVTIKAGSNGICPEIWAEQLLNMYVRWADKEGYRGRVVDKCCCKNGGVKSATIEFE-- 146
++TI G +++ Y + G++ + K S + F
Sbjct: 1671 --NLTIHFGGEK------GKRIRENYSAMIFETIVDGKLKTEKIFKEINEHSTSYTFRSE 1722
Query: 147 ----------------FEYA-FGYLSGETGAHCLINFPNGSFP--H---E--ATLACV-D 181
E A F L G P + H E A LA + D
Sbjct: 1723 KGLLSATQFTQPALTLMEKAAFEDLK-SKG-----LIPADATFAGHSLGEYAA-LASLAD 1775
Query: 182 VVPLFLETSPDLQISDED---LLFSSPSLPGERQSIAKPAACIQHIPTGIAVQSLGERNH 238
V+ + E ++F R G+ +Q R+
Sbjct: 1776 VMSI------------ESLVEVVF-------YR---------------GMTMQVAVPRDE 1801
Query: 239 FANK---MKALNRLKAKLLVIVGEQGVSN-VSCIKREA-----IVNI----WQRETRRYV 285
M A+N ++ ++ + V + + IVN Q YV
Sbjct: 1802 LGRSNYGMIAIN--PGRVAASFSQEALQYVVERVGKRTGWLVEIVNYNVENQQ-----YV 1854
Query: 286 S--HPYKLVQDVKTGIQLPDFNSVLDGNIK 313
+ ++ + T + +F + I
Sbjct: 1855 AAGD----LRALDTVTNVLNFIKL--QKID 1878
>2b3t_B RF-1, peptide chain release factor 1; translation termination,
methylation, conformational changes; HET: SAH; 3.10A
{Escherichia coli} SCOP: e.38.1.1
Length = 360
Score = 66.0 bits (162), Expect = 3e-12
Identities = 65/247 (26%), Positives = 113/247 (45%), Gaps = 25/247 (10%)
Query: 21 LADSLKVVNALKDLRYKAEEAKLIAQLAEMEAIDYGLFKRAYRASLDVSKLLDQYEMSKL 80
L+D + + ++ E A+++ EM + + R + + S+ L+Q ++ L
Sbjct: 45 LSDVSRCFTDWQQVQEDIETAQMMLDDPEMRE----MAQDELREAKEKSEQLEQ-QLQVL 99
Query: 81 L--RGPNDVEGASVTIKAGSNGICPEIWAEQLLNMYVRWADKEGYRGRVVDKCCCKNGGV 138
L + P+D A + ++AG+ G ++A L MY R+A+ +R ++ ++GG
Sbjct: 100 LLPKDPDDERNAFLEVRAGTGGDEAALFAGDLFRMYSRYAEARRWRVEIMSASEGEHGGY 159
Query: 139 KSATIEFEFEYAFGYLSGETGAHCLINFPNGSFPHEA-----TLAC-VDVVPLFLETSPD 192
K + + +G L E+G H + P E+ T AC V V+P +
Sbjct: 160 KEIIAKISGDGVYGRLKFESGGHRVQRVPAT----ESQGRIHTSACTVAVMPELPDAE-L 214
Query: 193 LQISDEDL---LFSSPSLPGERQSIAK--PAACIQHIPTGIAVQSLGERNHFANKMKALN 247
++ DL F S S G Q + A I H+PTGI V+ ER+ NK KAL+
Sbjct: 215 PDVNPADLRIDTFRS-SGAGG-QHVNTTDSAIRITHLPTGIVVECQDERSQHKNKAKALS 272
Query: 248 RLKAKLL 254
L A++
Sbjct: 273 VLGARIH 279
>2rsm_A Probable peptide chain release factor C12ORF65 HO mitochondrial;
GGQ domain, translation; NMR {Mus musculus}
Length = 115
Score = 44.6 bits (106), Expect = 3e-06
Identities = 20/88 (22%), Positives = 37/88 (42%), Gaps = 8/88 (9%)
Query: 178 ACVDVVPLFLETSPDLQISDEDL---LFSSPSLPGERQSIAKPAAC--IQHIPTGIAVQS 232
+ V V + L +++ +L PG Q+ K + C ++H+P+GI V+
Sbjct: 27 STVQVAGR-KDYPALLPLNESELEEQFVKG-HGPGG-QATNKTSNCVVLKHVPSGIVVKC 83
Query: 233 LGERNHFANKMKALNRLKAKLLVIVGEQ 260
R+ N+ A L+ K+ V
Sbjct: 84 HQTRSVDQNRKIARKVLQEKVDVFYNSG 111
>4dh9_Y YAEJ; ribosome, YAEJ, ribosome stalling, ribosome rescue, rescue F
alternative rescue factor, ARFB, release factor, rescue
of ribosomes; 3.20A {Escherichia coli} PDB: 2jy9_A
Length = 140
Score = 35.1 bits (81), Expect = 0.010
Identities = 15/97 (15%), Positives = 37/97 (38%), Gaps = 3/97 (3%)
Query: 203 SSPSLP-GERQSIAKPAACIQHIPTGIAVQSLGERNHFANKMKALNRLKAKLLVIVGEQG 261
+ SLP ++ + + + I +++ R+ N+ AL RL A + + E+
Sbjct: 44 RASSLPEYYKERLLAASHHLISSDGVIVIKAQEYRSQELNREAALARLVAMIKELTTEKK 103
Query: 262 VSNVSCIKREAIVNIWQRETRRYVSHPYKLVQDVKTG 298
+ R + + ++ + V++G
Sbjct: 104 ARRPTRPTRASKERRLASKAQKSSVK--AMRGKVRSG 138
>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 = 33.4 bits (75), Expect = 0.050
Identities = 12/34 (35%), Positives = 15/34 (44%), Gaps = 8/34 (23%)
Query: 18 LVKLADSLKVVNALKDLRYKAEEAKLIAQLAEME 51
L KL SLK+ Y + A +A A ME
Sbjct: 22 LKKLQASLKL--------YADDSAPALAIKATME 47
Score = 27.6 bits (60), Expect = 3.6
Identities = 6/26 (23%), Positives = 10/26 (38%), Gaps = 13/26 (50%)
Query: 210 ERQSIAK-------------PAACIQ 222
E+Q++ K PA I+
Sbjct: 18 EKQALKKLQASLKLYADDSAPALAIK 43
>1xzp_A Probable tRNA modification GTPase TRME; GTP-binding, THF-binding,
hydrolase; 2.30A {Thermotoga maritima} SCOP: a.24.25.1
c.37.1.8 d.250.1.2 PDB: 1xzq_A* 1xzp_B 1xzq_B*
Length = 482
Score = 32.9 bits (76), Expect = 0.12
Identities = 16/76 (21%), Positives = 28/76 (36%), Gaps = 20/76 (26%)
Query: 29 NALKDLRYKAEEAKLIAQLAEMEA-IDY---------GLFKRAYRASLDVSKLLDQYEMS 78
+ + LR +LI LAE+ +DY + R R +++ L + +
Sbjct: 183 DFVDSLR-----RELIEVLAEIRVELDYPDEIETNTGEVVTRLERIKEKLTEELKKADAG 237
Query: 79 KLLRGPNDVEGASVTI 94
LL G + I
Sbjct: 238 ILLN-----RGLRMVI 248
>3geh_A MNME, tRNA modification GTPase MNME; G protein, U34, GTP-binding,
HYDR magnesium, metal-binding, nucleotide-binding,
potassium, TR processing; HET: GDP FON; 3.20A {Nostoc
SP}
Length = 462
Score = 32.9 bits (76), Expect = 0.16
Identities = 19/77 (24%), Positives = 32/77 (41%), Gaps = 21/77 (27%)
Query: 29 NALKDLRYKAEEAKLIAQLAEMEA-IDY----------GLFKRAYRASLDVSKLLDQYEM 77
+ ++ LR A + LAE+EA ID+ + + ++S+LL +
Sbjct: 163 HPIRQLR-----ANCLDILAEIEARIDFEEDLPPLDDEAIISDIENIAAEISQLLATKDK 217
Query: 78 SKLLRGPNDVEGASVTI 94
+LLR G V I
Sbjct: 218 GELLR-----TGLKVAI 229
>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 = 32.1 bits (72), Expect = 0.26
Identities = 25/168 (14%), Positives = 56/168 (33%), Gaps = 32/168 (19%)
Query: 161 HCLINFPNGSFPHEATLACVDVVPLFLET-SPDLQISD-EDLL---FSSPSL------PG 209
H ++F G E D++ +F + + D +D+ S +
Sbjct: 4 HHHMDFETG----EHQYQYKDILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKD 59
Query: 210 ERQSIAKPAACIQHIPTGIA---VQSLGERNH--FANKMKALNRLKAKLLVIVGEQGVSN 264
+ + + V+ + N+ + +K R + + + EQ
Sbjct: 60 AVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQ---- 115
Query: 265 VSCIKREAIVNIWQRETRRYVSHPYKLVQDVKTGI-QL-PDFNSVLDG 310
R+ + N Q + VS + ++ + +L P N ++DG
Sbjct: 116 -----RDRLYNDNQVFAKYNVSRL-QPYLKLRQALLELRPAKNVLIDG 157
>3gee_A MNME, tRNA modification GTPase MNME; G protein, cytoplasm, GTP-
binding, hydrolase, magnesium, metal-binding,
nucleotide- binding, potassium; HET: GDP FON; 2.95A
{Chlorobium tepidum} PDB: 3gei_A*
Length = 476
Score = 32.1 bits (74), Expect = 0.27
Identities = 17/78 (21%), Positives = 30/78 (38%), Gaps = 22/78 (28%)
Query: 29 NALKDLRYKAEEAKLIAQLAEMEA-IDY-----------GLFKRAYRASLDVSKLLDQYE 76
L LR +LI A +E +D+ L + +V++L+D Y+
Sbjct: 171 VRLGGLR-----EQLIRSCALIELELDFSEEDVEFQSRDELTMQIETLRSEVNRLIDSYQ 225
Query: 77 MSKLLRGPNDVEGASVTI 94
+++ EG S I
Sbjct: 226 HGRIVS-----EGVSTVI 238
>2jva_A Peptidyl-tRNA hydrolase domain protein; GFT hydrolase, structural
genomics, PSI-2, protein STRU initiative; NMR
{Pseudomonas syringae PV}
Length = 108
Score = 29.5 bits (66), Expect = 0.50
Identities = 10/53 (18%), Positives = 21/53 (39%), Gaps = 1/53 (1%)
Query: 203 SSPSLP-GERQSIAKPAACIQHIPTGIAVQSLGERNHFANKMKALNRLKAKLL 254
++ SLP ++ + I +++ R N+ AL RL ++
Sbjct: 44 NASSLPPFYKERLLALNDSRITSDGVIVLKAQQYRTQEQNRADALLRLSELIV 96
>3lc0_A Histidyl-tRNA synthetase; tRNA-ligase, aminoacyl-tRNA synthetase,
ligase, structural G medical structural genomics of
pathogenic protozoa; HET: HIS; 1.80A {Trypanosoma cruzi}
PDB: 3hrk_A* 3hri_A
Length = 456
Score = 29.2 bits (66), Expect = 1.9
Identities = 6/35 (17%), Positives = 13/35 (37%), Gaps = 2/35 (5%)
Query: 227 GIAVQ-SLGERNHFANKMKALNRLKAKLLVIVGEQ 260
G + L ++ +R+ A V+V +
Sbjct: 388 GRSADIILDKKK-VVQAFNYADRVGAVRAVLVAPE 421
>4e51_A Histidine--tRNA ligase; seattle structural genomics center for
infectious disease, S aminoacylation, tRNA activation,
charged tRNA; HET: HIS; 2.65A {Burkholderia
thailandensis}
Length = 467
Score = 28.8 bits (65), Expect = 2.9
Identities = 10/38 (26%), Positives = 15/38 (39%), Gaps = 4/38 (10%)
Query: 227 GIAVQSLGERNH----FANKMKALNRLKAKLLVIVGEQ 260
G+ V + F ++MK + A VI GE
Sbjct: 381 GLDVILHCSADGAGASFKSQMKRADASGAAFAVIFGED 418
>3odm_A Pepcase, PEPC, phosphoenolpyruvate carboxylase; beta-barrel, lyase;
2.95A {Clostridium perfringens}
Length = 560
Score = 28.5 bits (63), Expect = 3.6
Identities = 9/36 (25%), Positives = 17/36 (47%), Gaps = 1/36 (2%)
Query: 163 LINFPNGSFPHEATLACVDVVPLFLETSPDLQISDE 198
+++ N ++ + L V ++PL E P L D
Sbjct: 164 VVDMGNKNYKTKLDLNSVRIIPLV-EDVPALANIDR 198
>1wu7_A Histidyl-tRNA synthetase; ligase, structural genomics, dimer; 2.40A
{Thermoplasma acidophilum} SCOP: c.51.1.1 d.104.1.1
Length = 434
Score = 28.3 bits (64), Expect = 3.6
Identities = 10/35 (28%), Positives = 18/35 (51%), Gaps = 2/35 (5%)
Query: 227 GIAVQS-LGERNHFANKMKALNRLKAKLLVIVGEQ 260
G+ V + ER + ++K + + A VI GE+
Sbjct: 359 GMNVTVEIMERG-LSAQLKYASAIGADFAVIFGER 392
>1qe0_A Histidyl-tRNA synthetase; class II tRNA synthetase, beta sheet,
ligase; 2.70A {Staphylococcus aureus} SCOP: c.51.1.1
d.104.1.1
Length = 420
Score = 27.9 bits (63), Expect = 5.3
Identities = 11/35 (31%), Positives = 18/35 (51%), Gaps = 2/35 (5%)
Query: 227 GIAVQ-SLGERNHFANKMKALNRLKAKLLVIVGEQ 260
GI +R +MK +RL AK +++G+Q
Sbjct: 356 GIKADKDYLQRK-IKGQMKQADRLGAKFTIVIGDQ 389
>1htt_A Histidyl-tRNA synthetase; complex (tRNA synthetase/His-adenylate),
aminoacyl-tRNA synthase, ligase; HET: HIS AMP; 2.60A
{Escherichia coli} SCOP: c.51.1.1 d.104.1.1 PDB: 1kmm_A*
1kmn_A* 2el9_A*
Length = 423
Score = 27.5 bits (62), Expect = 5.7
Identities = 8/35 (22%), Positives = 18/35 (51%), Gaps = 2/35 (5%)
Query: 227 GIAVQ-SLGERNHFANKMKALNRLKAKLLVIVGEQ 260
G+ + + G N F + ++ A++ V++GE
Sbjct: 356 GVKLMTNHGGGN-FKKQFARADKWGARVAVVLGES 389
>1j26_A Immature colon carcinoma transcript 1; peptide chain release
factors, RF-1, the GGQ motif, immature carcinoma
transcript 1; NMR {Mus musculus} SCOP: d.50.4.1
Length = 112
Score = 26.2 bits (57), Expect = 7.7
Identities = 10/52 (19%), Positives = 20/52 (38%), Gaps = 1/52 (1%)
Query: 203 SSPSLP-GERQSIAKPAACIQHIPTGIAVQSLGERNHFANKMKALNRLKAKL 253
S+ + RQ IA + + + S R F N + L +++ +
Sbjct: 52 SADWIEEPVRQKIALTHKNKINKAGELVLTSESSRYQFRNLAECLQKIRDMI 103
>1h4v_B Histidyl-tRNA synthetase; class IIA aminoacyl-tRNA synthetase, ATP
+ L-histidine tRNA(His)-> AMP + PPI +
L-histidyl-tRNA(His); 2.4A {Thermus thermophilus} SCOP:
c.51.1.1 d.104.1.1 PDB: 1ady_A* 1adj_A
Length = 421
Score = 27.1 bits (61), Expect = 7.8
Identities = 6/35 (17%), Positives = 13/35 (37%), Gaps = 2/35 (5%)
Query: 227 GIAVQ-SLGERNHFANKMKALNRLKAKLLVIVGEQ 260
+ + +L R A ++ + A +GE
Sbjct: 354 RLRAEYALAPRK-PAKGLEEALKRGAAFAGFLGED 387
>3net_A Histidyl-tRNA synthetase; aminoacyl-tRNA synthetase, ligase,
structural genomics, PSI- nostoc, protein structure
initiative; 2.70A {Nostoc SP}
Length = 465
Score = 27.3 bits (61), Expect = 7.8
Identities = 7/35 (20%), Positives = 16/35 (45%), Gaps = 2/35 (5%)
Query: 227 GIAVQ-SLGERNHFANKMKALNRLKAKLLVIVGEQ 260
G+ V + +R + +A ++ + VI+G
Sbjct: 398 GLNVITNFEKRQ-LGKQFQAADKQGIRFCVIIGAD 431
>3jqq_A Ferredoxin NADP reductase; FAD, oxidoreductase; HET: FAD A2P; 2.20A
{Plasmodium falciparum} PDB: 2ok8_A* 2ok7_A* 3jqr_A*
3jqp_A*
Length = 316
Score = 27.1 bits (60), Expect = 8.4
Identities = 17/108 (15%), Positives = 32/108 (29%), Gaps = 11/108 (10%)
Query: 111 LNMYVRWADKEGYRGRVVDKCCCKNGGVKSAT--IEFEFEYAFGYLSGETGAHCLINFPN 168
+N+Y K + ++VDK + +E F YL G T
Sbjct: 7 INLYTV---KNPLKCKIVDKINLVRPNSPNEVYHLEINHNGLFKYLEGHTCGIIPYYNEL 63
Query: 169 GSFPHEATLACVDVVPLFLETSPDLQISDEDLLFSSPSLPGERQ-SIA 215
+ P+ +++ T+ + R SI+
Sbjct: 64 DNNPNNQINKDHNIINTTNHTNHNNIALSHIKKQRCA-----RLYSIS 106
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
0.318 0.135 0.398
Gapped
Lambda K H
0.267 0.0747 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 5,040,414
Number of extensions: 305309
Number of successful extensions: 630
Number of sequences better than 10.0: 1
Number of HSP's gapped: 610
Number of HSP's successfully gapped: 41
Length of query: 329
Length of database: 6,701,793
Length adjustment: 94
Effective length of query: 235
Effective length of database: 4,077,219
Effective search space: 958146465
Effective search space used: 958146465
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 57 (25.7 bits)