RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 021200
(316 letters)
>gnl|CDD|234801 PRK00591, prfA, peptide chain release factor 1; Validated.
Length = 359
Score = 459 bits (1185), Expect = e-164
Identities = 168/308 (54%), Positives = 231/308 (75%), Gaps = 2/308 (0%)
Query: 6 ELRTKQKEIDGLKSLIYECSEDKDMLDMATEELCLAIDEEKRLQSLLLKSLLPKDDADER 65
E + Q++++ K ++ E D +M +MA EEL + + L+ L LLPKD D++
Sbjct: 53 EYKQAQEDLEEAKEML-EEESDPEMREMAKEELKELEERLEELEEELKILLLPKDPNDDK 111
Query: 66 DCILEVRAGTGGEEASLFAVDVFKMYERYSQKKGWKFEVVGVTESDLRGYKEASAAISGV 125
+ ILE+RAGTGG+EA+LFA D+F+MY RY++++GWK E++ +E +L GYKE A ISG
Sbjct: 112 NVILEIRAGTGGDEAALFAGDLFRMYSRYAERQGWKVEILSASEGELGGYKEVIAEISGD 171
Query: 126 GVYGKLKFESGIHRVQRVPLTEKSGRVHTSAVSVAILPQADEVDVRLRNEDLRIDTYRSG 185
GVY KLKFESG+HRVQRVP TE GR+HTSA +VA+LP+A+EV+V + +DLRIDT+RS
Sbjct: 172 GVYSKLKFESGVHRVQRVPATESQGRIHTSAATVAVLPEAEEVEVEINPKDLRIDTFRSS 231
Query: 186 GSGGQHANTTNSAVRVTHIPTGMTISIQDERSQHMNKAKALKVLCAKLYEMERSRIHLSR 245
G+GGQH NTT+SAVR+TH+PTG+ + QDERSQH NKAKA+KVL A+LY+ ER +
Sbjct: 232 GAGGQHVNTTDSAVRITHLPTGIVVECQDERSQHKNKAKAMKVLRARLYDAERQKAQAEE 291
Query: 246 SKLRSEQIGSGDRSERIRTYNFPQGRVTDHRVGITHHAISDMMEGENLDIFIDALLLQQE 305
+ R Q+GSGDRSERIRTYNFPQGRVTDHR+ +T + + ++MEG+ LD IDAL+ + +
Sbjct: 292 AATRKSQVGSGDRSERIRTYNFPQGRVTDHRINLTLYKLDEVMEGD-LDELIDALIAEDQ 350
Query: 306 MDAIASFG 313
+ +A+ G
Sbjct: 351 AEKLAALG 358
>gnl|CDD|223294 COG0216, PrfA, Protein chain release factor A [Translation,
ribosomal structure and biogenesis].
Length = 363
Score = 429 bits (1106), Expect = e-152
Identities = 165/311 (53%), Positives = 229/311 (73%), Gaps = 2/311 (0%)
Query: 4 ISELRTKQKEIDGLKSLIYECSEDKDMLDMATEELCLAIDEEKRLQSLLLKSLLPKDDAD 63
E + Q++++ K ++ E +D +M +MA EE+ + + L+ L LLPKD D
Sbjct: 52 YREYKKAQEDLEDAKEMLAE-EKDPEMREMAEEEIKELEAKIEELEEELKILLLPKDPND 110
Query: 64 ERDCILEVRAGTGGEEASLFAVDVFKMYERYSQKKGWKFEVVGVTESDLRGYKEASAAIS 123
+++ ILE+RAGTGG+EA+LFA D+F+MY RY++ KGWK E++ +ES+L GYKE A+IS
Sbjct: 111 DKNIILEIRAGTGGDEAALFAGDLFRMYSRYAESKGWKVEILSASESELGGYKEIIASIS 170
Query: 124 GVGVYGKLKFESGIHRVQRVPLTEKSGRVHTSAVSVAILPQADEV-DVRLRNEDLRIDTY 182
G GVY +LKFESG+HRVQRVP TE GR+HTSA +VA+LP+ +EV ++ + +DLRIDT+
Sbjct: 171 GKGVYSRLKFESGVHRVQRVPATESQGRIHTSAATVAVLPEVEEVEEIEINPKDLRIDTF 230
Query: 183 RSGGSGGQHANTTNSAVRVTHIPTGMTISIQDERSQHMNKAKALKVLCAKLYEMERSRIH 242
RS G+GGQH NTT+SAVR+TH+PTG+ + QDERSQH NKAKA+KVL A+LY+ ER +
Sbjct: 231 RSSGAGGQHVNTTDSAVRITHLPTGIVVECQDERSQHKNKAKAMKVLRARLYDAERQKAQ 290
Query: 243 LSRSKLRSEQIGSGDRSERIRTYNFPQGRVTDHRVGITHHAISDMMEGENLDIFIDALLL 302
+ R Q+GSGDRSERIRTYNFPQ RVTDHR+ +T + + ++MEG LD IDAL+
Sbjct: 291 AEEASERKSQVGSGDRSERIRTYNFPQNRVTDHRINLTLYKLDEVMEGGKLDEIIDALIA 350
Query: 303 QQEMDAIASFG 313
+ + + +A G
Sbjct: 351 EDQAEQLAELG 361
>gnl|CDD|129130 TIGR00019, prfA, peptide chain release factor 1. This model
describes peptide chain release factor 1 (PrfA, RF-1),
and excludes the related peptide chain release factor 2
(PrfB, RF-2). RF-1 helps recognize and terminate
translation at UAA and UAG stop codons. The
mitochondrial release factors are prfA-like, although
not included above the trusted cutoff for this model.
RF-1 does not have a translational frameshift [Protein
synthesis, Translation factors].
Length = 360
Score = 385 bits (991), Expect = e-134
Identities = 161/309 (52%), Positives = 226/309 (73%), Gaps = 3/309 (0%)
Query: 6 ELRTKQKEIDGLKSLIYECSEDKDMLDMATEELCLAIDEEKRLQSLLLKSLLPKDDADER 65
E + Q++I K ++ E D +M +MA EEL ++ + L+ L LLPKD DE+
Sbjct: 54 EYQQAQEDIKEAKEILEE--SDPEMREMAKEELEELEEKIEELEEQLKVLLLPKDPNDEK 111
Query: 66 DCILEVRAGTGGEEASLFAVDVFKMYERYSQKKGWKFEVVGVTESDLRGYKEASAAISGV 125
+ ILE+RAGTGG+EA++FA D+F+MY RY++ KGWK E++ E++L GYKE A I G
Sbjct: 112 NVILEIRAGTGGDEAAIFAGDLFRMYSRYAESKGWKVEILSANETELGGYKEVIAEIKGD 171
Query: 126 GVYGKLKFESGIHRVQRVPLTEKSGRVHTSAVSVAILPQADEVDVRLRNEDLRIDTYRSG 185
GVY +LKFESG+HRVQRVP+TE GR+HTSA +VA++P+ +EV+V + DLRIDT+RS
Sbjct: 172 GVYSRLKFESGVHRVQRVPVTESQGRIHTSAATVAVMPELEEVEVDINPADLRIDTFRSS 231
Query: 186 GSGGQHANTTNSAVRVTHIPTGMTISIQDERSQHMNKAKALKVLCAKLYEMERSRIHLSR 245
G+GGQH NTT+SAVR+TH+PTG+ + QDERSQH NK KA+KVL A+LYE E+ + ++
Sbjct: 232 GAGGQHVNTTDSAVRITHLPTGIVVECQDERSQHKNKDKAMKVLRARLYEAEQEKQQAAQ 291
Query: 246 SKLRSEQIGSGDRSERIRTYNFPQGRVTDHRVGITHHAISDMMEGENLDIFIDALLLQQE 305
+ R Q+GSGDRSERIRTYNFPQ RVTDHR+ +T + + +++EG+ LD I+AL+ + +
Sbjct: 292 ASTRKSQVGSGDRSERIRTYNFPQNRVTDHRINLTLYKLDEVLEGD-LDELIEALIAEDQ 350
Query: 306 MDAIASFGS 314
+A+
Sbjct: 351 AQQLAALSE 359
>gnl|CDD|234799 PRK00578, prfB, peptide chain release factor 2; Validated.
Length = 367
Score = 241 bits (618), Expect = 5e-78
Identities = 123/305 (40%), Positives = 184/305 (60%), Gaps = 13/305 (4%)
Query: 4 ISELRTKQKEIDGLKSLIYECSEDKDMLDMATEELCLAIDEEKRLQSLLLKSLLPKDDAD 63
+ ELR + +++ L L E +D++ L A EL EK+L +L L+ LL + D
Sbjct: 68 LEELRQRLDDLEELLEL-AEEEDDEETLAEAEAELKAL---EKKLAALELERLL-SGEYD 122
Query: 64 ERDCILEVRAGTGGEEASLFAVDVFKMYERYSQKKGWKFEVVGVTESDLRGYKEASAAIS 123
+ IL + AG GG EA +A + +MY R++++ G+K EV+ +E + G K A+ I
Sbjct: 123 ANNAILTIHAGAGGTEAQDWASMLLRMYLRWAERHGFKVEVLDYSEGEEAGIKSATFKIK 182
Query: 124 GVGVYGKLKFESGIHRVQRVPLTEKSGRVHTSAVSVAILPQADE-VDVRLRNEDLRIDTY 182
G YG LK E+G+HR+ R+ + +GR HTS SV + P+ D+ +++ + +DLRIDTY
Sbjct: 183 GPYAYGYLKSETGVHRLVRISPFDSAGRRHTSFASVEVYPEVDDTIEIEINPKDLRIDTY 242
Query: 183 RSGGSGGQHANTTNSAVRVTHIPTGMTISIQDERSQHMNKAKALKVLCAKLYEMERSRIH 242
RS G+GGQH N T+SAVR+THIPTG+ + Q+ERSQH NKA A+K+L AKLYE+E +
Sbjct: 243 RSSGAGGQHVNKTDSAVRITHIPTGIVVQCQNERSQHQNKASAMKMLKAKLYELELEKRA 302
Query: 243 LSRSKLRSEQ--IGSGDRSERIRTYNF-PQGRVTDHRVGITHHAISDMMEGENLDIFIDA 299
+ L+ E+ IG G +IR+Y P V D R G +++G+ LD FI+A
Sbjct: 303 AEKDALKGEKKEIGWGS---QIRSYVLHPYQMVKDLRTGYETGNTQAVLDGD-LDGFIEA 358
Query: 300 LLLQQ 304
L +
Sbjct: 359 YLRWR 363
>gnl|CDD|232785 TIGR00020, prfB, peptide chain release factor 2. In many but not
all taxa, there is a conserved real translational
frameshift at a TGA codon. RF-2 helps terminate
translation at TGA codons and can therefore regulate its
own production by readthrough when RF-2 is insufficient.
There is a PFAM model called "RF-1" for the superfamily
of RF-1, RF-2, mitochondrial, RF-H, etc [Protein
synthesis, Translation factors].
Length = 364
Score = 225 bits (575), Expect = 1e-71
Identities = 115/310 (37%), Positives = 184/310 (59%), Gaps = 14/310 (4%)
Query: 3 LISELRTKQKEIDGLKSLIYECSEDKDMLDMA----TEELCLAIDEE-----KRLQSLLL 53
+I E + + +D L+ L + ++L++A EE +D E K+L L L
Sbjct: 54 VIKERSSLEAVLDTLEELKNSLEDLSELLELAVEEDDEETFNELDAELKALEKKLAELEL 113
Query: 54 KSLLPKDDADERDCILEVRAGTGGEEASLFAVDVFKMYERYSQKKGWKFEVVGVTESDLR 113
+++L + D + L ++AG GG EA +A +++MY R+++++G+K E++ +E +
Sbjct: 114 RTML-SGEYDANNAYLTIQAGAGGTEAQDWASMLYRMYLRWAERRGFKVEIIDYSEGEEA 172
Query: 114 GYKEASAAISGVGVYGKLKFESGIHRVQRVPLTEKSGRVHTSAVSVAILPQADE-VDVRL 172
G K + I G YG LK E G+HR+ R+ + +GR HTS SV ++P+ D+ +D+ +
Sbjct: 173 GIKSVTILIKGPYAYGYLKSEQGVHRLVRISPFDANGRRHTSFASVFVMPEVDDDIDIEI 232
Query: 173 RNEDLRIDTYRSGGSGGQHANTTNSAVRVTHIPTGMTISIQDERSQHMNKAKALKVLCAK 232
+ EDLRIDTYR+ G+GGQH N T+SAVR+THIPTG+ + Q++RSQH NK A+KVL AK
Sbjct: 233 KPEDLRIDTYRASGAGGQHVNKTDSAVRITHIPTGIVVQCQNDRSQHKNKDSAMKVLKAK 292
Query: 233 LYEMERSRIHLSRSKLRSEQIGSGDRSERIRTYNF-PQGRVTDHRVGITHHAISDMMEGE 291
LYE+E + + E+ G S+ IR+Y P V D R G + +++G
Sbjct: 293 LYELEMEKEQAEKDAKEGEKSEIGWGSQ-IRSYVLHPYSMVKDLRTGYETGNVQAVLDG- 350
Query: 292 NLDIFIDALL 301
++D FI+A L
Sbjct: 351 DIDQFIEAYL 360
>gnl|CDD|235520 PRK05589, PRK05589, peptide chain release factor 2; Provisional.
Length = 325
Score = 193 bits (492), Expect = 1e-59
Identities = 108/293 (36%), Positives = 173/293 (59%), Gaps = 7/293 (2%)
Query: 14 IDGLKSLIYECSEDKDMLDMATEELCLAIDEEKRLQSLLLKSLLPKDDADERDCILEVRA 73
I+ ++ L SE+ D +M E + + ++ + +++LL + D + IL + +
Sbjct: 37 IEDIEVLCEMMSEEDD--EMKKEIISEVKNIKEEIDRFKIETLL-SGEYDRNNAILTLHS 93
Query: 74 GTGGEEASLFAVDVFKMYERYSQKKGWKFEVVGVTESDLRGYKEASAAISGVGVYGKLKF 133
G GG +A + + +MY R+++KKG+K E++ + E D G K + I+G YG LK
Sbjct: 94 GVGGTDAQDWTEMLLRMYTRWAEKKGYKVEIIDLLEGDEAGIKSVTLKITGEFAYGYLKA 153
Query: 134 ESGIHRVQRVPLTEKSGRVHTSAVSVAILPQ-ADEVDVRLRNEDLRIDTYRSGGSGGQHA 192
E GIHR+ R+ +G+ TS SV +LP+ D+ D+ +R+EDL+IDTYR+GG+GGQH
Sbjct: 154 EKGIHRLVRISPFNANGKRQTSFASVEVLPELTDDQDIEIRSEDLKIDTYRAGGAGGQHV 213
Query: 193 NTTNSAVRVTHIPTGMTISIQDERSQHMNKAKALKVLCAKLYEMERSRIHLSRSKLRSEQ 252
N T SAVR+THIPTG+ + Q+ERSQH NK A+K+L +KL E+ + R H + + + +
Sbjct: 214 NKTESAVRITHIPTGIVVQCQNERSQHSNKETAMKMLKSKLVEL-KERAHKEKIEDLTGE 272
Query: 253 IGSGDRSERIRTYNF-PQGRVTDHRVGITHHAISDMMEGENLDIFIDALLLQQ 304
+ +IR+Y F P V DHR G+ + +M+G+ +D FI L
Sbjct: 273 LKDMGWGSQIRSYVFHPYNLVKDHRTGVETSNVDSVMDGD-IDNFITQYLKGN 324
>gnl|CDD|224107 COG1186, PrfB, Protein chain release factor B [Translation,
ribosomal structure and biogenesis].
Length = 239
Score = 184 bits (470), Expect = 3e-57
Identities = 94/240 (39%), Positives = 144/240 (60%), Gaps = 10/240 (4%)
Query: 67 CILEVRAGTGGEEASLFAVDVFKMYERYSQKKGWKFEVVGVTESDLRGYKEASAAISGVG 126
L + AG GG EA +A + +MY R++++KG+K EV+ ++ + G K A+ I G
Sbjct: 1 AYLTIHAGAGGTEAQDWASMLLRMYTRWAERKGFKVEVLDTSDGEEAGIKSATLKIKGEN 60
Query: 127 VYGKLKFESGIHRVQRVPLTEKSGRVHTSAVSVAILPQADE-VDVRLRNEDLRIDTYRSG 185
YG LK E+G+HR+ R+ + +GR HTS SV + P+ D +++ + ++DLRIDTYR+
Sbjct: 61 AYGYLKTETGVHRLVRISPFDSNGRRHTSFASVEVFPELDISIEIEIPDDDLRIDTYRAS 120
Query: 186 GSGGQHANTTNSAVRVTHIPTGMTISIQDERSQHMNKAKALKVLCAKLYEMERSRIHLSR 245
G+GGQH N T+SAVR+TH+PTG+ + Q+ERSQH+NKA A K+L KLY + + R
Sbjct: 121 GAGGQHVNKTDSAVRLTHLPTGIVVLCQNERSQHLNKALARKMLKGKLYILAQE----KR 176
Query: 246 SKLRSEQIGSGDRSER---IRTYNF-PQGRVTDHRVGITHHAISDMMEGENLDIFIDALL 301
S+ ++ + IR+Y P D R G+ S +++G+ D FI A L
Sbjct: 177 SQEKNRERALKKLIGWGNQIRSYVLDPYQPTKDLRTGVERRNKSKVLDGD-KDGFIKAYL 235
>gnl|CDD|235997 PRK07342, PRK07342, peptide chain release factor 2; Provisional.
Length = 339
Score = 182 bits (462), Expect = 5e-55
Identities = 117/314 (37%), Positives = 181/314 (57%), Gaps = 16/314 (5%)
Query: 3 LISELRTKQKEIDGLKSLIYECSEDKDMLDMATEELCLAI--DEEKRLQSLLLK------ 54
L+ E + I+G+ L +++ +++ M EE +I D EK ++ L +
Sbjct: 18 LMRERQQLDDSINGINHLEQTLNDNIELIAMGEEEGDKSIVEDAEKTIRDLKDEIDRRQI 77
Query: 55 SLLPKDDADERDCILEVRAGTGGEEASLFAVDVFKMYERYSQKKGWKFEVVGVTESDLRG 114
L +AD D LEV AG GG E+ +A + +MY R+++++G K EV+ V + + G
Sbjct: 78 DALLSGEADANDTYLEVHAGAGGTESQDWASMLLRMYTRWAERQGRKVEVLEVHDGEEAG 137
Query: 115 YKEASAAISGVGVYGKLKFESGIHRVQRVPLTEKSGRVHTSAVSVAILPQADE-VDVRLR 173
K A+ + G YG LK ESG+HR+ R+ + + R HTS S+ + P D+ ++V +
Sbjct: 138 IKSATILVKGHNAYGWLKTESGVHRLVRISPYDSNARRHTSFASIWVYPVIDDNIEVDVN 197
Query: 174 NEDLRIDTYRSGGSGGQHANTTNSAVRVTHIPTGMTISIQDERSQHMNKAKALKVLCAKL 233
D+RIDTYRS G+GGQH NTT+SAVR+THIPTG+ + Q ERSQH N+AKA +L A+L
Sbjct: 198 ESDVRIDTYRSSGAGGQHVNTTDSAVRITHIPTGIVVQCQQERSQHKNRAKAWSMLRARL 257
Query: 234 YEME-RSRIHLSRSKLRSE-QIGSGDRSERIRTYNF-PQGRVTDHRVGITHHAISDMMEG 290
YE E + R + + S+ IG G +IR+Y P V D R G+ D+++G
Sbjct: 258 YEEELKKREEATNAAAASKTDIGWG---HQIRSYVLQPYQLVKDLRTGVESTNPQDVLDG 314
Query: 291 ENLDIFIDALLLQQ 304
+L+ F++A L +
Sbjct: 315 -DLNEFMEAALAHR 327
>gnl|CDD|75726 PRK06746, PRK06746, peptide chain release factor 2; Provisional.
Length = 326
Score = 177 bits (450), Expect = 2e-53
Identities = 107/250 (42%), Positives = 150/250 (60%), Gaps = 8/250 (3%)
Query: 56 LLPKDDADERDCILEVRAGTGGEEASLFAVDVFKMYERYSQKKGWKFEVVGVTESDLRGY 115
LL D D+ + ILE+ G GG E+ + + +MY R+++K+G+K E V D G
Sbjct: 77 LLLSDPYDKNNAILELHPGAGGTESQDWGSMLLRMYTRWAEKRGFKVETVDYLPGDEAGI 136
Query: 116 KEASAAISGVGVYGKLKFESGIHRVQRVPLTEKSGRVHTSAVSVAILPQ-ADEVDVRLRN 174
K + I G YG LK E G+HR+ R+ + SGR HTS VS ++P+ DEV++ +R
Sbjct: 137 KSVTLLIKGHNAYGYLKAEKGVHRLVRISPFDSSGRRHTSFVSCEVVPEFNDEVEIEVRT 196
Query: 175 EDLRIDTYRSGGSGGQHANTTNSAVRVTHIPTGMTISIQDERSQHMNKAKALKVLCAKLY 234
EDL+IDTYR+ G+GGQH NTT+SAVR+TH PT ++ Q ERSQ N+ A+K+L AKLY
Sbjct: 197 EDLKIDTYRASGAGGQHVNTTDSAVRITHTPTNTVVTCQSERSQIKNREHAMKMLKAKLY 256
Query: 235 EMERSRIHLSRSKLRSEQ--IGSGDRSERIRTYNF-PQGRVTDHRVGITHHAISDMMEGE 291
+ + ++R EQ IG G +IR+Y F P V DHR + +M+GE
Sbjct: 257 QKKLEEQQAELDEIRGEQKEIGWG---SQIRSYVFHPYSLVKDHRTNTEVGNVQAVMDGE 313
Query: 292 NLDIFIDALL 301
+D FIDA L
Sbjct: 314 -IDPFIDAYL 322
>gnl|CDD|136970 PRK08787, PRK08787, peptide chain release factor 2; Provisional.
Length = 313
Score = 174 bits (441), Expect = 3e-52
Identities = 104/302 (34%), Positives = 169/302 (55%), Gaps = 15/302 (4%)
Query: 11 QKEIDGLKSLIYECSEDKDMLDMAT----EELCLAIDEEKRLQSLLLKSL----LPKDDA 62
+K + G+ ++ ++ ++LD+A E+ LA+ + ++ L +
Sbjct: 3 EKTVIGIADVLSGLADAGELLDLAESEQDEDTALAVIADLDKYQAHVEKLEFQRMFSGQM 62
Query: 63 DERDCILEVRAGTGGEEASLFAVDVFKMYERYSQKKGWKFEVVGVTESDLRGYKEASAAI 122
D + ++++AG GG EA +A + +MY R+++ +GWK E++ V+ ++ G K A+ I
Sbjct: 63 DGANAFVDIQAGAGGTEAQDWAEILLRMYLRWAESRGWKTELMEVSGGEVAGIKSATVRI 122
Query: 123 SGVGVYGKLKFESGIHRVQRVPLTEKSGRVHTSAVSVAILPQADE-VDVRLRNEDLRIDT 181
G YG LK E G+HR+ R + R HTS SV + P+ D+ +++ + DLR D
Sbjct: 123 EGEYAYGWLKTEIGVHRLVRKSPFDSDNRRHTSFTSVFVSPEVDDNIEIDINPADLRTDV 182
Query: 182 YRSGGSGGQHANTTNSAVRVTHIPTGMTISIQDERSQHMNKAKALKVLCAKLYEMERSRI 241
YRS G+GGQH N T SAVR+THIPT ++ Q RSQH N+ A+K+L AKLYE+E +
Sbjct: 183 YRSSGAGGQHVNKTESAVRITHIPTNTVVACQTGRSQHQNRDNAMKMLAAKLYELEVQKR 242
Query: 242 HLSRSKLRSEQ--IGSGDRSERIRTYNFPQGRVTDHRVGITHHAISDMMEGENLDIFIDA 299
+ + L + + IG G +IR Y Q R+ D R GI +++G+ LD F++A
Sbjct: 243 NAEKDALEATKSDIGWG---SQIRNYVLDQSRIKDLRTGIERSDTQKVLDGD-LDEFVEA 298
Query: 300 LL 301
L
Sbjct: 299 SL 300
>gnl|CDD|201249 pfam00472, RF-1, RF-1 domain. This domain is found in peptide
chain release factors such as RF-1 and RF-2, and a
number of smaller proteins of unknown function. This
domain contains the peptidyl-tRNA hydrolase activity.
The domain contains a highly conserved motif GGQ, where
the glutamine is thought to coordinate the water that
mediates the hydrolysis.
Length = 114
Score = 165 bits (420), Expect = 1e-51
Identities = 63/114 (55%), Positives = 80/114 (70%)
Query: 163 PQADEVDVRLRNEDLRIDTYRSGGSGGQHANTTNSAVRVTHIPTGMTISIQDERSQHMNK 222
P +EV++ + DLRIDT+RS G GGQ+ N T SAVR+TH+PTG+ + Q+ERSQH N+
Sbjct: 1 PLDEEVEIEIPESDLRIDTFRSSGPGGQNVNKTESAVRLTHLPTGIVVKCQEERSQHKNR 60
Query: 223 AKALKVLCAKLYEMERSRIHLSRSKLRSEQIGSGDRSERIRTYNFPQGRVTDHR 276
KAL+ L AKLYE E + R+ Q+ GDR E+IRTYNFPQGRV DHR
Sbjct: 61 EKALERLKAKLYEAELQKKREKTKPTRASQVRRGDRKEKIRTYNFPQGRVKDHR 114
>gnl|CDD|214923 smart00937, PCRF, This domain is found in peptide chain release
factors.
Length = 116
Score = 148 bits (377), Expect = 5e-45
Identities = 59/110 (53%), Positives = 80/110 (72%), Gaps = 1/110 (0%)
Query: 26 EDKDMLDMATEELC-LAIDEEKRLQSLLLKSLLPKDDADERDCILEVRAGTGGEEASLFA 84
ED +M ++A EEL L + E+ L+ LL LLPKD D+++ ILE+RAG GG+EA+LFA
Sbjct: 7 EDDEMRELAEEELEELEAELEEELEELLKLLLLPKDPNDDKNAILEIRAGAGGDEAALFA 66
Query: 85 VDVFKMYERYSQKKGWKFEVVGVTESDLRGYKEASAAISGVGVYGKLKFE 134
D+ +MY RY+++KGWK EV+ +E +L G KEA+ ISG G YGKLKFE
Sbjct: 67 GDLLRMYLRYAERKGWKVEVLDESEGELGGIKEATLKISGEGAYGKLKFE 116
>gnl|CDD|217573 pfam03462, PCRF, PCRF domain. This domain is found in peptide
chain release factors.
Length = 115
Score = 138 bits (349), Expect = 6e-41
Identities = 53/112 (47%), Positives = 73/112 (65%)
Query: 23 ECSEDKDMLDMATEELCLAIDEEKRLQSLLLKSLLPKDDADERDCILEVRAGTGGEEASL 82
E +D ++ + A EEL E + L+ LL LLP D D+++ ILE+RAG GG EA L
Sbjct: 4 EEEDDPELREEAEEELEELEKELEELEKELLNLLLPLDPYDDKNAILEIRAGAGGTEAQL 63
Query: 83 FAVDVFKMYERYSQKKGWKFEVVGVTESDLRGYKEASAAISGVGVYGKLKFE 134
FA D+ +MY+RY+++KGWK EV+ +E + G KEA+ I G G YG LKFE
Sbjct: 64 FAEDLLRMYQRYAERKGWKVEVIDYSEGEEGGIKEATLEIEGEGAYGYLKFE 115
>gnl|CDD|181271 PRK08179, prfH, peptide chain release factor-like protein;
Reviewed.
Length = 200
Score = 82.8 bits (205), Expect = 6e-19
Identities = 33/79 (41%), Positives = 49/79 (62%), Gaps = 4/79 (5%)
Query: 176 DLRIDTYRSGGSGGQHANTTNSAVRVTHIPTGMTISIQDERSQHMNKAKALKVLCAKL-- 233
++R +T RS G GGQH N T+SAVR TH+ +G+++ +Q ERSQH NK A ++ KL
Sbjct: 108 EIRFETLRSSGPGGQHVNKTDSAVRATHLASGISVKVQSERSQHANKRLARLLIAWKLEQ 167
Query: 234 YEMERSRIHLSRSKLRSEQ 252
+ E+S +S+ R
Sbjct: 168 QQQEQSAAL--KSQRRMFH 184
>gnl|CDD|213768 TIGR03072, release_prfH, putative peptide chain release factor H.
Members of this protein family are bacterial proteins
homologous to peptide chain release factors 1 (RF-1,
product of the prfA gene), and 2 (RF-2, product of the
prfB gene). The member from Escherichia coli K-12,
designated prfH, appears to be a pseudogene. This class
I release factor is always found as the downstream gene
of a two-gene operon [Protein synthesis, Translation
factors].
Length = 200
Score = 80.2 bits (198), Expect = 6e-18
Identities = 50/202 (24%), Positives = 90/202 (44%), Gaps = 25/202 (12%)
Query: 69 LEVRAGTGGEEASLFAVDVFKMYERYSQKKGWKFEVVGVTESDLRG-YKEASAAISGVG- 126
L++ + G E L + R + +G + EV+ ++ G + A ++ G
Sbjct: 3 LQLSSAQGPAECCLAVAKALERLTREAAARGVRVEVLEQEPGEVPGTLRSALVSLDGEAA 62
Query: 127 -VYGKLKFESGIHRVQRVPLTEKSGR------VHTSAVSVAILPQADEVDVRLRNEDLRI 179
++E + + P R V + S +++R
Sbjct: 63 AALAD-RWEGTLLWICPSPYRPHHRRKNWFIGVQRFSASEEATE-----------DEIRF 110
Query: 180 DTYRSGGSGGQHANTTNSAVRVTHIPTGMTISIQDERSQHMNKAKALKVLCAKLYEMERS 239
+T RS G GGQH N T SAVR TH+ +G+++ +Q ERSQH NK A +L +L ++++
Sbjct: 111 ETLRSSGPGGQHVNKTESAVRATHLASGISVKVQSERSQHANKRLATLLLAVRLADLQQE 170
Query: 240 RIHLSRSKLRSEQIGSGDRSER 261
+ + LR+E+ + + ER
Sbjct: 171 Q----AAALRAERRTAHHQIER 188
>gnl|CDD|181730 PRK09256, PRK09256, hypothetical protein; Provisional.
Length = 138
Score = 38.2 bits (90), Expect = 0.001
Identities = 20/85 (23%), Positives = 33/85 (38%), Gaps = 24/85 (28%)
Query: 169 DVRLRNEDLRIDTYRSGGSGGQHANTTNSAV------RVTHIP---------------TG 207
+ + +L R+ G GGQ+ N ++AV + +P T
Sbjct: 7 RLVIPENELEWRFIRASGPGGQNVNKVSTAVELRFDIAASSLPEFYKERLLALAGHRITK 66
Query: 208 ---MTISIQDERSQHMNKAKALKVL 229
+ I Q+ RSQ N+ AL+ L
Sbjct: 67 DGVIVIKAQEFRSQERNREDALERL 91
>gnl|CDD|132951 cd06620, PKc_MAPKK_Byr1_like, Catalytic domain of fungal Byr1-like
dual-specificity MAP kinase kinases. Protein kinases
(PKs), MAP kinase kinase (MAPKK) subfamily, fungal
Byr1-like proteins, catalytic (c) domain. PKs catalyze
the transfer of the gamma-phosphoryl group from ATP to
serine/threonine or tyrosine residues on protein
substrates. The MAPKK subfamily is part of a larger
superfamily that includes the catalytic domains of other
protein serine/threonine kinases, protein tyrosine
kinases, RIO kinases, aminoglycoside phosphotransferase,
choline kinase, and phosphoinositide 3-kinase. The
mitogen-activated protein (MAP) kinase signaling
pathways are important mediators of cellular responses
to extracellular signals. The pathways involve a triple
kinase core cascade comprising of the MAP kinase (MAPK),
which is phosphorylated and activated by a MAPK kinase
(MAPKK or MKK), which itself is phosphorylated and
activated by a MAPK kinase kinase (MAPKKK or MKKK).
Members of this group include the MAPKKs Byr1 from
Schizosaccharomyces pombe, FUZ7 from Ustilago maydis,
and related proteins. Byr1 phosphorylates its downstream
target, the MAPK Spk1, and is regulated by the MAPKKK
Byr2. The Spk1 cascade is pheromone-responsive and is
essential for sporulation and sexual differentiation in
fission yeast. FUZ7 phosphorylates and activates its
target, the MAPK Crk1, which is required in mating and
virulence in U. maydis.
Length = 284
Score = 28.6 bits (64), Expect = 4.0
Identities = 16/40 (40%), Positives = 21/40 (52%), Gaps = 7/40 (17%)
Query: 172 LRNEDLRIDTYRSGGSGGQHANTTNSAVRVTHIPTGMTIS 211
LRNEDL + G+GG S +V HIPTG ++
Sbjct: 2 LRNEDLETISDLGAGNGG-------SVSKVKHIPTGTVMA 34
>gnl|CDD|166487 PLN02846, PLN02846, digalactosyldiacylglycerol synthase.
Length = 462
Score = 28.6 bits (64), Expect = 5.0
Identities = 15/40 (37%), Positives = 22/40 (55%)
Query: 3 LISELRTKQKEIDGLKSLIYECSEDKDMLDMATEELCLAI 42
L+ L QKE+ GL+ +Y ED D + A E+L L +
Sbjct: 246 LLKLLHKHQKELSGLEVDLYGSGEDSDEVKAAAEKLELDV 285
>gnl|CDD|240440 PTZ00493, PTZ00493, phosphomethylpyrimidine kinase; Provisional.
Length = 321
Score = 27.7 bits (61), Expect = 7.7
Identities = 19/77 (24%), Positives = 35/77 (45%), Gaps = 8/77 (10%)
Query: 29 DMLDMATEELCLAIDEEKRLQSLLLKSL-LPKDDADERD-------CILEVRAGTGGEEA 80
D+ ELC + E+ + + L KS + ++ A+E + CI V + GE+
Sbjct: 162 DLSKANMTELCKLVTEKLNINACLFKSCNVGENSAEENEVYAVDHLCIRNVGSYPTGEKQ 221
Query: 81 SLFAVDVFKMYERYSQK 97
+ A V +Y+ Y +
Sbjct: 222 QIDAGGVTYLYDVYKLR 238
>gnl|CDD|240356 PTZ00315, PTZ00315, 2'-phosphotransferase; Provisional.
Length = 582
Score = 27.9 bits (62), Expect = 9.0
Identities = 11/30 (36%), Positives = 16/30 (53%)
Query: 230 CAKLYEMERSRIHLSRSKLRSEQIGSGDRS 259
C L M R IH ++ + EQ+ SG R+
Sbjct: 494 CGYLSTMTRQHIHFAKGLINDEQVISGMRN 523
Database: CDD.v3.10
Posted date: Mar 20, 2013 7:55 AM
Number of letters in database: 10,937,602
Number of sequences in database: 44,354
Lambda K H
0.316 0.132 0.366
Gapped
Lambda K H
0.267 0.0857 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 15,833,933
Number of extensions: 1521565
Number of successful extensions: 1304
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1285
Number of HSP's successfully gapped: 36
Length of query: 316
Length of database: 10,937,602
Length adjustment: 97
Effective length of query: 219
Effective length of database: 6,635,264
Effective search space: 1453122816
Effective search space used: 1453122816
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 (21.6 bits)
S2: 59 (26.3 bits)