RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy15210
(278 letters)
>gnl|CDD|234799 PRK00578, prfB, peptide chain release factor 2; Validated.
Length = 367
Score = 461 bits (1188), Expect = e-165
Identities = 166/275 (60%), Positives = 201/275 (73%), Gaps = 1/275 (0%)
Query: 1 MLKEIEDNTNKLNNKIKEIEFHQFFNDPLDFNNCFIDIQSGAGGIEAQDWASMLLRQYLR 60
L E E L K+ +E + + D NN + I +GAGG EAQDWASMLLR YLR
Sbjct: 93 TLAEAEAELKALEKKLAALELERLLSGEYDANNAILTIHAGAGGTEAQDWASMLLRMYLR 152
Query: 61 YCERKGFIVEILEKSNGEITGIKTVTLKIKGKYAYGFLKSESGIHRLVRKSPFDSSNNRH 120
+ ER GF VE+L+ S GE GIK+ T KIKG YAYG+LKSE+G+HRLVR SPFDS+ RH
Sbjct: 153 WAERHGFKVEVLDYSEGEEAGIKSATFKIKGPYAYGYLKSETGVHRLVRISPFDSAGRRH 212
Query: 121 TSFSSLFVYPEINNLINININPADLRIDTYRASGAGGQHINKTDSAVRITHIPTGIVVQC 180
TSF+S+ VYPE+++ I I INP DLRIDTYR+SGAGGQH+NKTDSAVRITHIPTGIVVQC
Sbjct: 213 TSFASVEVYPEVDDTIEIEINPKDLRIDTYRSSGAGGQHVNKTDSAVRITHIPTGIVVQC 272
Query: 181 QNDRSQHRNKSEAWDMLKSKLYKLKLQYQIKEKKKLEDTKKDIKWGYQIRSYVLDK-SRI 239
QN+RSQH+NK+ A MLK+KLY+L+L+ + EK L+ KK+I WG QIRSYVL +
Sbjct: 273 QNERSQHQNKASAMKMLKAKLYELELEKRAAEKDALKGEKKEIGWGSQIRSYVLHPYQMV 332
Query: 240 KDLRTNLETKNIKDILDGDLDNFIIASLKQHLLNK 274
KDLRT ET N + +LDGDLD FI A L+ K
Sbjct: 333 KDLRTGYETGNTQAVLDGDLDGFIEAYLRWRASQK 367
>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 = 390 bits (1004), Expect = e-137
Identities = 162/266 (60%), Positives = 201/266 (75%), Gaps = 1/266 (0%)
Query: 4 EIEDNTNKLNNKIKEIEFHQFFNDPLDFNNCFIDIQSGAGGIEAQDWASMLLRQYLRYCE 63
E++ L K+ E+E + D NN ++ IQ+GAGG EAQDWASML R YLR+ E
Sbjct: 96 ELDAELKALEKKLAELELRTMLSGEYDANNAYLTIQAGAGGTEAQDWASMLYRMYLRWAE 155
Query: 64 RKGFIVEILEKSNGEITGIKTVTLKIKGKYAYGFLKSESGIHRLVRKSPFDSSNNRHTSF 123
R+GF VEI++ S GE GIK+VT+ IKG YAYG+LKSE G+HRLVR SPFD++ RHTSF
Sbjct: 156 RRGFKVEIIDYSEGEEAGIKSVTILIKGPYAYGYLKSEQGVHRLVRISPFDANGRRHTSF 215
Query: 124 SSLFVYPEINNLINININPADLRIDTYRASGAGGQHINKTDSAVRITHIPTGIVVQCQND 183
+S+FV PE+++ I+I I P DLRIDTYRASGAGGQH+NKTDSAVRITHIPTGIVVQCQND
Sbjct: 216 ASVFVMPEVDDDIDIEIKPEDLRIDTYRASGAGGQHVNKTDSAVRITHIPTGIVVQCQND 275
Query: 184 RSQHRNKSEAWDMLKSKLYKLKLQYQIKEKKKLEDTKKDIKWGYQIRSYVLDK-SRIKDL 242
RSQH+NK A +LK+KLY+L+++ + EK E K +I WG QIRSYVL S +KDL
Sbjct: 276 RSQHKNKDSAMKVLKAKLYELEMEKEQAEKDAKEGEKSEIGWGSQIRSYVLHPYSMVKDL 335
Query: 243 RTNLETKNIKDILDGDLDNFIIASLK 268
RT ET N++ +LDGD+D FI A LK
Sbjct: 336 RTGYETGNVQAVLDGDIDQFIEAYLK 361
>gnl|CDD|224107 COG1186, PrfB, Protein chain release factor B [Translation,
ribosomal structure and biogenesis].
Length = 239
Score = 356 bits (915), Expect = e-125
Identities = 148/237 (62%), Positives = 179/237 (75%), Gaps = 1/237 (0%)
Query: 34 CFIDIQSGAGGIEAQDWASMLLRQYLRYCERKGFIVEILEKSNGEITGIKTVTLKIKGKY 93
++ I +GAGG EAQDWASMLLR Y R+ ERKGF VE+L+ S+GE GIK+ TLKIKG+
Sbjct: 1 AYLTIHAGAGGTEAQDWASMLLRMYTRWAERKGFKVEVLDTSDGEEAGIKSATLKIKGEN 60
Query: 94 AYGFLKSESGIHRLVRKSPFDSSNNRHTSFSSLFVYPEINNLINININPADLRIDTYRAS 153
AYG+LK+E+G+HRLVR SPFDS+ RHTSF+S+ V+PE++ I I I DLRIDTYRAS
Sbjct: 61 AYGYLKTETGVHRLVRISPFDSNGRRHTSFASVEVFPELDISIEIEIPDDDLRIDTYRAS 120
Query: 154 GAGGQHINKTDSAVRITHIPTGIVVQCQNDRSQHRNKSEAWDMLKSKLYKLKLQYQIKEK 213
GAGGQH+NKTDSAVR+TH+PTGIVV CQN+RSQH NK+ A MLK KLY L + + +EK
Sbjct: 121 GAGGQHVNKTDSAVRLTHLPTGIVVLCQNERSQHLNKALARKMLKGKLYILAQEKRSQEK 180
Query: 214 KKLEDTKKDIKWGYQIRSYVLD-KSRIKDLRTNLETKNIKDILDGDLDNFIIASLKQ 269
+ KK I WG QIRSYVLD KDLRT +E +N +LDGD D FI A LK
Sbjct: 181 NRERALKKLIGWGNQIRSYVLDPYQPTKDLRTGVERRNKSKVLDGDKDGFIKAYLKW 237
>gnl|CDD|136970 PRK08787, PRK08787, peptide chain release factor 2; Provisional.
Length = 313
Score = 352 bits (903), Expect = e-122
Identities = 156/271 (57%), Positives = 206/271 (76%)
Query: 1 MLKEIEDNTNKLNNKIKEIEFHQFFNDPLDFNNCFIDIQSGAGGIEAQDWASMLLRQYLR 60
+ + +K ++++EF + F+ +D N F+DIQ+GAGG EAQDWA +LLR YLR
Sbjct: 34 TALAVIADLDKYQAHVEKLEFQRMFSGQMDGANAFVDIQAGAGGTEAQDWAEILLRMYLR 93
Query: 61 YCERKGFIVEILEKSNGEITGIKTVTLKIKGKYAYGFLKSESGIHRLVRKSPFDSSNNRH 120
+ E +G+ E++E S GE+ GIK+ T++I+G+YAYG+LK+E G+HRLVRKSPFDS N RH
Sbjct: 94 WAESRGWKTELMEVSGGEVAGIKSATVRIEGEYAYGWLKTEIGVHRLVRKSPFDSDNRRH 153
Query: 121 TSFSSLFVYPEINNLINININPADLRIDTYRASGAGGQHINKTDSAVRITHIPTGIVVQC 180
TSF+S+FV PE+++ I I+INPADLR D YR+SGAGGQH+NKT+SAVRITHIPT VV C
Sbjct: 154 TSFTSVFVSPEVDDNIEIDINPADLRTDVYRSSGAGGQHVNKTESAVRITHIPTNTVVAC 213
Query: 181 QNDRSQHRNKSEAWDMLKSKLYKLKLQYQIKEKKKLEDTKKDIKWGYQIRSYVLDKSRIK 240
Q RSQH+N+ A ML +KLY+L++Q + EK LE TK DI WG QIR+YVLD+SRIK
Sbjct: 214 QTGRSQHQNRDNAMKMLAAKLYELEVQKRNAEKDALEATKSDIGWGSQIRNYVLDQSRIK 273
Query: 241 DLRTNLETKNIKDILDGDLDNFIIASLKQHL 271
DLRT +E + + +LDGDLD F+ ASLK L
Sbjct: 274 DLRTGIERSDTQKVLDGDLDEFVEASLKAGL 304
>gnl|CDD|235997 PRK07342, PRK07342, peptide chain release factor 2; Provisional.
Length = 339
Score = 337 bits (866), Expect = e-116
Identities = 139/272 (51%), Positives = 203/272 (74%), Gaps = 1/272 (0%)
Query: 1 MLKEIEDNTNKLNNKIKEIEFHQFFNDPLDFNNCFIDIQSGAGGIEAQDWASMLLRQYLR 60
++++ E L ++I + + D N+ ++++ +GAGG E+QDWASMLLR Y R
Sbjct: 57 IVEDAEKTIRDLKDEIDRRQIDALLSGEADANDTYLEVHAGAGGTESQDWASMLLRMYTR 116
Query: 61 YCERKGFIVEILEKSNGEITGIKTVTLKIKGKYAYGFLKSESGIHRLVRKSPFDSSNNRH 120
+ ER+G VE+LE +GE GIK+ T+ +KG AYG+LK+ESG+HRLVR SP+DS+ RH
Sbjct: 117 WAERQGRKVEVLEVHDGEEAGIKSATILVKGHNAYGWLKTESGVHRLVRISPYDSNARRH 176
Query: 121 TSFSSLFVYPEINNLINININPADLRIDTYRASGAGGQHINKTDSAVRITHIPTGIVVQC 180
TSF+S++VYP I++ I +++N +D+RIDTYR+SGAGGQH+N TDSAVRITHIPTGIVVQC
Sbjct: 177 TSFASIWVYPVIDDNIEVDVNESDVRIDTYRSSGAGGQHVNTTDSAVRITHIPTGIVVQC 236
Query: 181 QNDRSQHRNKSEAWDMLKSKLYKLKLQYQIKEKKKLEDTKKDIKWGYQIRSYVLDKSR-I 239
Q +RSQH+N+++AW ML+++LY+ +L+ + + +K DI WG+QIRSYVL + +
Sbjct: 237 QQERSQHKNRAKAWSMLRARLYEEELKKREEATNAAAASKTDIGWGHQIRSYVLQPYQLV 296
Query: 240 KDLRTNLETKNIKDILDGDLDNFIIASLKQHL 271
KDLRT +E+ N +D+LDGDL+ F+ A+L +
Sbjct: 297 KDLRTGVESTNPQDVLDGDLNEFMEAALAHRI 328
>gnl|CDD|235520 PRK05589, PRK05589, peptide chain release factor 2; Provisional.
Length = 325
Score = 306 bits (786), Expect = e-104
Identities = 144/273 (52%), Positives = 186/273 (68%), Gaps = 7/273 (2%)
Query: 1 MLKEIEDNTNKLNNKIKEIEFHQFFNDPLDFNNCFIDIQSGAGGIEAQDWASMLLRQYLR 60
M KEI + +I + + D NN + + SG GG +AQDW MLLR Y R
Sbjct: 54 MKKEIISEVKNIKEEIDRFKIETLLSGEYDRNNAILTLHSGVGGTDAQDWTEMLLRMYTR 113
Query: 61 YCERKGFIVEILEKSNGEITGIKTVTLKIKGKYAYGFLKSESGIHRLVRKSPFDSSNNRH 120
+ E+KG+ VEI++ G+ GIK+VTLKI G++AYG+LK+E GIHRLVR SPF+++ R
Sbjct: 114 WAEKKGYKVEIIDLLEGDEAGIKSVTLKITGEFAYGYLKAEKGIHRLVRISPFNANGKRQ 173
Query: 121 TSFSSLFVYPEINNLINININPADLRIDTYRASGAGGQHINKTDSAVRITHIPTGIVVQC 180
TSF+S+ V PE+ + +I I DL+IDTYRA GAGGQH+NKT+SAVRITHIPTGIVVQC
Sbjct: 174 TSFASVEVLPELTDDQDIEIRSEDLKIDTYRAGGAGGQHVNKTESAVRITHIPTGIVVQC 233
Query: 181 QNDRSQHRNKSEAWDMLKSKLYKLKLQYQIKEKKKLEDTK---KDIKWGYQIRSYVLDK- 236
QN+RSQH NK A MLKSKL +LK + K+K+ED KD+ WG QIRSYV
Sbjct: 234 QNERSQHSNKETAMKMLKSKLVELK---ERAHKEKIEDLTGELKDMGWGSQIRSYVFHPY 290
Query: 237 SRIKDLRTNLETKNIKDILDGDLDNFIIASLKQ 269
+ +KD RT +ET N+ ++DGD+DNFI LK
Sbjct: 291 NLVKDHRTGVETSNVDSVMDGDIDNFITQYLKG 323
>gnl|CDD|75726 PRK06746, PRK06746, peptide chain release factor 2; Provisional.
Length = 326
Score = 275 bits (703), Expect = 5e-92
Identities = 140/270 (51%), Positives = 184/270 (68%), Gaps = 1/270 (0%)
Query: 3 KEIEDNTNKLNNKIKEIEFHQFFNDPLDFNNCFIDIQSGAGGIEAQDWASMLLRQYLRYC 62
+E+E L ++ E E +DP D NN +++ GAGG E+QDW SMLLR Y R+
Sbjct: 57 EELESEVKGLIQEMNEYELQLLLSDPYDKNNAILELHPGAGGTESQDWGSMLLRMYTRWA 116
Query: 63 ERKGFIVEILEKSNGEITGIKTVTLKIKGKYAYGFLKSESGIHRLVRKSPFDSSNNRHTS 122
E++GF VE ++ G+ GIK+VTL IKG AYG+LK+E G+HRLVR SPFDSS RHTS
Sbjct: 117 EKRGFKVETVDYLPGDEAGIKSVTLLIKGHNAYGYLKAEKGVHRLVRISPFDSSGRRHTS 176
Query: 123 FSSLFVYPEINNLINININPADLRIDTYRASGAGGQHINKTDSAVRITHIPTGIVVQCQN 182
F S V PE N+ + I + DL+IDTYRASGAGGQH+N TDSAVRITH PT VV CQ+
Sbjct: 177 FVSCEVVPEFNDEVEIEVRTEDLKIDTYRASGAGGQHVNTTDSAVRITHTPTNTVVTCQS 236
Query: 183 DRSQHRNKSEAWDMLKSKLYKLKLQYQIKEKKKLEDTKKDIKWGYQIRSYVLDK-SRIKD 241
+RSQ +N+ A MLK+KLY+ KL+ Q E ++ +K+I WG QIRSYV S +KD
Sbjct: 237 ERSQIKNREHAMKMLKAKLYQKKLEEQQAELDEIRGEQKEIGWGSQIRSYVFHPYSLVKD 296
Query: 242 LRTNLETKNIKDILDGDLDNFIIASLKQHL 271
RTN E N++ ++DG++D FI A L+ +
Sbjct: 297 HRTNTEVGNVQAVMDGEIDPFIDAYLRSRI 326
>gnl|CDD|234801 PRK00591, prfA, peptide chain release factor 1; Validated.
Length = 359
Score = 260 bits (667), Expect = 6e-86
Identities = 116/277 (41%), Positives = 168/277 (60%), Gaps = 21/277 (7%)
Query: 4 EIEDNTNKLNNKIKEIEFHQFFNDPLDFNNCFIDIQSGAGGIEAQDWASMLLRQYLRYCE 63
E+++ +L +E++ DP D N ++I++G GG EA +A L R Y RY E
Sbjct: 83 ELKELEERLEELEEELKILLLPKDPNDDKNVILEIRAGTGGDEAALFAGDLFRMYSRYAE 142
Query: 64 RKGFIVEILEKSNGEITGIKTVTLKIKGKYAYGFLKSESGIHRLVRKSPFDSSNNR-HTS 122
R+G+ VEIL S GE+ G K V +I G Y LK ESG+HR V++ P S R HTS
Sbjct: 143 RQGWKVEILSASEGELGGYKEVIAEISGDGVYSKLKFESGVHR-VQRVPATESQGRIHTS 201
Query: 123 FSSLFVYPEINNLINININPADLRIDTYRASGAGGQHINKTDSAVRITHIPTGIVVQCQN 182
+++ V PE + + INP DLRIDT+R+SGAGGQH+N TDSAVRITH+PTGIVV+CQ+
Sbjct: 202 AATVAVLPEAEE-VEVEINPKDLRIDTFRSSGAGGQHVNTTDSAVRITHLPTGIVVECQD 260
Query: 183 DRSQHRNKSEAWDMLKSKLYKLKLQYQIKEKKKLEDTKKDIKWGYQ---------IRSYV 233
+RSQH+NK++A +L+++LY + Q K + + T+K Q IR+Y
Sbjct: 261 ERSQHKNKAKAMKVLRARLYDAERQ---KAQAEEAATRKS-----QVGSGDRSERIRTYN 312
Query: 234 LDKSRIKDLRTNLETKNIKDILDGDLDNFIIASLKQH 270
+ R+ D R NL + ++++GDLD +I +L
Sbjct: 313 FPQGRVTDHRINLTLYKLDEVMEGDLDE-LIDALIAE 348
>gnl|CDD|223294 COG0216, PrfA, Protein chain release factor A [Translation,
ribosomal structure and biogenesis].
Length = 363
Score = 254 bits (651), Expect = 2e-83
Identities = 114/273 (41%), Positives = 169/273 (61%), Gaps = 8/273 (2%)
Query: 3 KEIEDNTNKLNNKIKEIEFHQFFNDPLDFNNCFIDIQSGAGGIEAQDWASMLLRQYLRYC 62
+EI++ K+ +E++ DP D N ++I++G GG EA +A L R Y RY
Sbjct: 83 EEIKELEAKIEELEEELKILLLPKDPNDDKNIILEIRAGTGGDEAALFAGDLFRMYSRYA 142
Query: 63 ERKGFIVEILEKSNGEITGIKTVTLKIKGKYAYGFLKSESGIHRLVRKSPFDSSNNR-HT 121
E KG+ VEIL S E+ G K + I GK Y LK ESG+HR V++ P S R HT
Sbjct: 143 ESKGWKVEILSASESELGGYKEIIASISGKGVYSRLKFESGVHR-VQRVPATESQGRIHT 201
Query: 122 SFSSLFVYPEINNLINININPADLRIDTYRASGAGGQHINKTDSAVRITHIPTGIVVQCQ 181
S +++ V PE+ + I INP DLRIDT+R+SGAGGQH+N TDSAVRITH+PTGIVV+CQ
Sbjct: 202 SAATVAVLPEVEEVEEIEINPKDLRIDTFRSSGAGGQHVNTTDSAVRITHLPTGIVVECQ 261
Query: 182 NDRSQHRNKSEAWDMLKSKLYKLKLQYQIKEKKKLEDTKKDIKWG---YQIRSYVLDKSR 238
++RSQH+NK++A +L+++LY + Q + ++ + K + G +IR+Y ++R
Sbjct: 262 DERSQHKNKAKAMKVLRARLYDAER--QKAQAEEASERKSQVGSGDRSERIRTYNFPQNR 319
Query: 239 IKDLRTNLETKNIKDILD-GDLDNFIIASLKQH 270
+ D R NL + ++++ G LD I A + +
Sbjct: 320 VTDHRINLTLYKLDEVMEGGKLDEIIDALIAED 352
>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 = 241 bits (617), Expect = 2e-78
Identities = 117/277 (42%), Positives = 172/277 (62%), Gaps = 11/277 (3%)
Query: 3 KEIEDNTNKLNNKIKEIEFHQFFNDPLDFNNCFIDIQSGAGGIEAQDWASMLLRQYLRYC 62
+E+E+ K+ ++++ DP D N ++I++G GG EA +A L R Y RY
Sbjct: 82 EELEELEEKIEELEEQLKVLLLPKDPNDEKNVILEIRAGTGGDEAAIFAGDLFRMYSRYA 141
Query: 63 ERKGFIVEILEKSNGEITGIKTVTLKIKGKYAYGFLKSESGIHRLVRKSPFDSSNNR-HT 121
E KG+ VEIL + E+ G K V +IKG Y LK ESG+HR V++ P S R HT
Sbjct: 142 ESKGWKVEILSANETELGGYKEVIAEIKGDGVYSRLKFESGVHR-VQRVPVTESQGRIHT 200
Query: 122 SFSSLFVYPEINNLINININPADLRIDTYRASGAGGQHINKTDSAVRITHIPTGIVVQCQ 181
S +++ V PE+ + ++INPADLRIDT+R+SGAGGQH+N TDSAVRITH+PTGIVV+CQ
Sbjct: 201 SAATVAVMPELEE-VEVDINPADLRIDTFRSSGAGGQHVNTTDSAVRITHLPTGIVVECQ 259
Query: 182 NDRSQHRNKSEAWDMLKSKLYKLKLQYQIKEKKKLEDTKKDIKWG---YQIRSYVLDKSR 238
++RSQH+NK +A +L+++LY+ + + Q + K + G +IR+Y ++R
Sbjct: 260 DERSQHKNKDKAMKVLRARLYEAEQEKQQAAQAS--TRKSQVGSGDRSERIRTYNFPQNR 317
Query: 239 IKDLRTNLETKNIKDILDGDLDNFI---IASLKQHLL 272
+ D R NL + ++L+GDLD I IA + L
Sbjct: 318 VTDHRINLTLYKLDEVLEGDLDELIEALIAEDQAQQL 354
>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 = 159 bits (404), Expect = 1e-49
Identities = 52/109 (47%), Positives = 80/109 (73%), Gaps = 1/109 (0%)
Query: 136 INININPADLRIDTYRASGAGGQHINKTDSAVRITHIPTGIVVQCQNDRSQHRNKSEAWD 195
+ I I +DLRIDT+R+SG GGQ++NKT+SAVR+TH+PTGIVV+CQ +RSQH+N+ +A +
Sbjct: 6 VEIEIPESDLRIDTFRSSGPGGQNVNKTESAVRLTHLPTGIVVKCQEERSQHKNREKALE 65
Query: 196 MLKSKLYKLKLQYQIKEKKKLEDTK-KDIKWGYQIRSYVLDKSRIKDLR 243
LK+KLY+ +LQ + ++ K ++ + +IR+Y + R+KD R
Sbjct: 66 RLKAKLYEAELQKKREKTKPTRASQVRRGDRKEKIRTYNFPQGRVKDHR 114
>gnl|CDD|214923 smart00937, PCRF, This domain is found in peptide chain release
factors.
Length = 116
Score = 137 bits (347), Expect = 4e-41
Identities = 47/99 (47%), Positives = 65/99 (65%), Gaps = 1/99 (1%)
Query: 4 EIEDNTNKLNNKIKEIEFHQFFN-DPLDFNNCFIDIQSGAGGIEAQDWASMLLRQYLRYC 62
E+E+ +L +++E+ DP D N ++I++GAGG EA +A LLR YLRY
Sbjct: 18 ELEELEAELEEELEELLKLLLLPKDPNDDKNAILEIRAGAGGDEAALFAGDLLRMYLRYA 77
Query: 63 ERKGFIVEILEKSNGEITGIKTVTLKIKGKYAYGFLKSE 101
ERKG+ VE+L++S GE+ GIK TLKI G+ AYG LK E
Sbjct: 78 ERKGWKVEVLDESEGELGGIKEATLKISGEGAYGKLKFE 116
>gnl|CDD|217573 pfam03462, PCRF, PCRF domain. This domain is found in peptide
chain release factors.
Length = 115
Score = 135 bits (343), Expect = 2e-40
Identities = 46/105 (43%), Positives = 67/105 (63%), Gaps = 4/105 (3%)
Query: 1 MLKEIEDNTNKLNNKIKEIEFHQFF----NDPLDFNNCFIDIQSGAGGIEAQDWASMLLR 56
+ +E E+ +L +++E+E DP D N ++I++GAGG EAQ +A LLR
Sbjct: 11 LREEAEEELEELEKELEELEKELLNLLLPLDPYDDKNAILEIRAGAGGTEAQLFAEDLLR 70
Query: 57 QYLRYCERKGFIVEILEKSNGEITGIKTVTLKIKGKYAYGFLKSE 101
Y RY ERKG+ VE+++ S GE GIK TL+I+G+ AYG+LK E
Sbjct: 71 MYQRYAERKGWKVEVIDYSEGEEGGIKEATLEIEGEGAYGYLKFE 115
>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 = 113 bits (284), Expect = 1e-30
Identities = 54/173 (31%), Positives = 86/173 (49%), Gaps = 10/173 (5%)
Query: 38 IQSGAGGIEAQDWASMLLRQYLRYCERKGFIVEILEKSNGEITG-IKTVTLKIKGKYAYG 96
+ S G E + L + R +G VE+LE+ GE+ G +++ + + G+ A
Sbjct: 5 LSSAQGPAECCLAVAKALERLTREAAARGVRVEVLEQEPGEVPGTLRSALVSLDGEAAAA 64
Query: 97 FLKSESGIHRLVRKSPFDSSNNRHTSFSSL--FVYPEINNLINININPADLRIDTYRASG 154
G + SP+ + R F + F E ++R +T R+SG
Sbjct: 65 LADRWEGTLLWICPSPYRPHHRRKNWFIGVQRFSASE-------EATEDEIRFETLRSSG 117
Query: 155 AGGQHINKTDSAVRITHIPTGIVVQCQNDRSQHRNKSEAWDMLKSKLYKLKLQ 207
GGQH+NKT+SAVR TH+ +GI V+ Q++RSQH NK A +L +L L+ +
Sbjct: 118 PGGQHVNKTESAVRATHLASGISVKVQSERSQHANKRLATLLLAVRLADLQQE 170
>gnl|CDD|181271 PRK08179, prfH, peptide chain release factor-like protein;
Reviewed.
Length = 200
Score = 110 bits (276), Expect = 2e-29
Identities = 51/173 (29%), Positives = 86/173 (49%), Gaps = 6/173 (3%)
Query: 36 IDIQSGAGGIEAQDWASMLLRQYLRYCERKGFIVEILEKSNGEITG-IKTVTLKIKGKYA 94
+ + S G E + L + L+ R+G V +LE G +++ + + G A
Sbjct: 4 LQLSSAQGPAECCLAVAKALERLLKEAARQGVRVTVLETETGRYPDTLRSALVSLDGDNA 63
Query: 95 YGFLKSESGIHRLVRKSPFDSSNNRHTSFSSLFVYPEINNLINININPADLRIDTYRASG 154
+S G + + SP+ + R F + + + ++R +T R+SG
Sbjct: 64 EALAESWCGTIQWICPSPYRPHHGRKNWFVGIGRFSA-----DEEEQSDEIRFETLRSSG 118
Query: 155 AGGQHINKTDSAVRITHIPTGIVVQCQNDRSQHRNKSEAWDMLKSKLYKLKLQ 207
GGQH+NKTDSAVR TH+ +GI V+ Q++RSQH NK A ++ KL + + +
Sbjct: 119 PGGQHVNKTDSAVRATHLASGISVKVQSERSQHANKRLARLLIAWKLEQQQQE 171
>gnl|CDD|181730 PRK09256, PRK09256, hypothetical protein; Provisional.
Length = 138
Score = 52.5 bits (127), Expect = 1e-08
Identities = 28/95 (29%), Positives = 39/95 (41%), Gaps = 30/95 (31%)
Query: 131 EINNLINININPADLRIDTYRASGAGGQHINKTDSAV----------------------- 167
I + I +L RASG GGQ++NK +AV
Sbjct: 3 RITR--RLVIPENELEWRFIRASGPGGQNVNKVSTAVELRFDIAASSLPEFYKERLLALA 60
Query: 168 --RITHIPTG-IVVQCQNDRSQHRNKSEAWDMLKS 199
RIT G IV++ Q RSQ RN+ +A + L +
Sbjct: 61 GHRIT--KDGVIVIKAQEFRSQERNREDALERLVA 93
>gnl|CDD|225918 COG3383, COG3383, Uncharacterized anaerobic dehydrogenase [General
function prediction only].
Length = 978
Score = 28.2 bits (63), Expect = 6.4
Identities = 12/49 (24%), Positives = 23/49 (46%), Gaps = 4/49 (8%)
Query: 64 RKGFIVEILEKSNGEITGIKTVTLKIKGKYAYGFLKSESGIHR-LVRKS 111
+ I+++ G I T +KGK+ + F+ S I + L+R+
Sbjct: 282 KGREILKVQPDPEGPANRISTC---VKGKFGWDFVNSRDRITKPLIREG 327
>gnl|CDD|165273 PHA02968, PHA02968, hypothetical protein; Provisional.
Length = 414
Score = 27.7 bits (61), Expect = 7.0
Identities = 27/128 (21%), Positives = 55/128 (42%), Gaps = 17/128 (13%)
Query: 130 PEINNLINININPADLRIDTYRASGAGGQHINKTDSAVRITHIPTGIVVQCQNDR--SQH 187
P IN+ I I + +L++ R + IN ++++ I + C +D +
Sbjct: 76 PYINDKIKIKVGIDNLKLCLKRLNANSYIVINNSEASNH-------IDITCISDEHIKIN 128
Query: 188 RNKSEAWDMLKSKLYKLKL------QYQIKEKKKLEDTKKD--IKWGYQIRSYVLDKSRI 239
N+ E D+ K K K+ + I K + KK + G+ I ++++K +
Sbjct: 129 NNEEELQDLSLGKNNKFKILICFFDREHINYKPIEQGNKKALIVGCGFIIGEWIIEKKKT 188
Query: 240 KDLRTNLE 247
+ + N+E
Sbjct: 189 EIIDDNIE 196
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
0.318 0.136 0.390
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: 14,119,378
Number of extensions: 1347038
Number of successful extensions: 1560
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1537
Number of HSP's successfully gapped: 43
Length of query: 278
Length of database: 10,937,602
Length adjustment: 96
Effective length of query: 182
Effective length of database: 6,679,618
Effective search space: 1215690476
Effective search space used: 1215690476
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: 58 (25.9 bits)