RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddB
21,608 sequences; 5,994,473 total letters
Searching..................................................done
Query= gi|254780753|ref|YP_003065166.1| peptide chain release factor 2
[Candidatus Liberibacter asiaticus str. psy62]
(355 letters)
>gnl|CDD|179072 PRK00578, prfB, peptide chain release factor 2; Validated.
Length = 367
Score = 554 bits (1431), Expect = e-159
Identities = 206/352 (58%), Positives = 250/352 (71%)
Query: 1 MKLSRQLNCLGGLFDWDNAVQRLSFLNTKTEDPHLWQNVIEAKMLMRERQHLDNAISFIK 60
L +L + G+ D D +RL L + EDP W + A+ + +E L + ++
Sbjct: 10 KDLDEKLENIRGVLDVDALKERLEELEAEAEDPDFWNDQERAQKVTKELSSLKAKLDTLE 69
Query: 61 EIQDRLCDNLILLELALEEDDCSILQETSDNLQRIKLEVEYKQFESLLSGEADSNDAYLE 120
E++ RL D LLELA EEDD L E L+ ++ ++ + E LLSGE D+N+A L
Sbjct: 70 ELRQRLDDLEELLELAEEEDDEETLAEAEAELKALEKKLAALELERLLSGEYDANNAILT 129
Query: 121 VHAGAGGTESQDWANMLLRMYTRWAEKRKFKTEALEIHDGEEAGIKSATLLIKGPNAYGW 180
+HAGAGGTE+QDWA+MLLRMY RWAE+ FK E L+ +GEEAGIKSAT IKGP AYG+
Sbjct: 130 IHAGAGGTEAQDWASMLLRMYLRWAERHGFKVEVLDYSEGEEAGIKSATFKIKGPYAYGY 189
Query: 181 LKGEQGVHRLVRISPYDSNSRRHTSFSSIWVYPVVDDSIEIEISESDCRIDTYRASGAGG 240
LK E GVHRLVRISP+DS RRHTSF+S+ VYP VDD+IEIEI+ D RIDTYR+SGAGG
Sbjct: 190 LKSETGVHRLVRISPFDSAGRRHTSFASVEVYPEVDDTIEIEINPKDLRIDTYRSSGAGG 249
Query: 241 QHVNTTDSAVRITHIPTGVVVQCQQERSQHKNKAQAWNMLRAKLYELELQKREEIANIGE 300
QHVN TDSAVRITHIPTG+VVQCQ ERSQH+NKA A ML+AKLYELEL+KR + +
Sbjct: 250 QHVNKTDSAVRITHIPTGIVVQCQNERSQHQNKASAMKMLKAKLYELELEKRAAEKDALK 309
Query: 301 SSKTEIGWGRQIRSYVLQPYQMVKDLRTNIEKTSPSDVLDGDLDDFMKATLA 352
K EIGWG QIRSYVL PYQMVKDLRT E + VLDGDLD F++A L
Sbjct: 310 GEKKEIGWGSQIRSYVLHPYQMVKDLRTGYETGNTQAVLDGDLDGFIEAYLR 361
>gnl|CDD|168914 PRK07342, PRK07342, peptide chain release factor 2; Provisional.
Length = 339
Score = 548 bits (1413), Expect = e-157
Identities = 226/324 (69%), Positives = 277/324 (85%)
Query: 29 KTEDPHLWQNVIEAKMLMRERQHLDNAISFIKEIQDRLCDNLILLELALEEDDCSILQET 88
K EDP LW + EA+ LMRERQ LD++I+ I ++ L DN+ L+ + EE D SI+++
Sbjct: 2 KAEDPSLWNDAQEAQKLMRERQQLDDSINGINHLEQTLNDNIELIAMGEEEGDKSIVEDA 61
Query: 89 SDNLQRIKLEVEYKQFESLLSGEADSNDAYLEVHAGAGGTESQDWANMLLRMYTRWAEKR 148
++ +K E++ +Q ++LLSGEAD+ND YLEVHAGAGGTESQDWA+MLLRMYTRWAE++
Sbjct: 62 EKTIRDLKDEIDRRQIDALLSGEADANDTYLEVHAGAGGTESQDWASMLLRMYTRWAERQ 121
Query: 149 KFKTEALEIHDGEEAGIKSATLLIKGPNAYGWLKGEQGVHRLVRISPYDSNSRRHTSFSS 208
K E LE+HDGEEAGIKSAT+L+KG NAYGWLK E GVHRLVRISPYDSN+RRHTSF+S
Sbjct: 122 GRKVEVLEVHDGEEAGIKSATILVKGHNAYGWLKTESGVHRLVRISPYDSNARRHTSFAS 181
Query: 209 IWVYPVVDDSIEIEISESDCRIDTYRASGAGGQHVNTTDSAVRITHIPTGVVVQCQQERS 268
IWVYPV+DD+IE++++ESD RIDTYR+SGAGGQHVNTTDSAVRITHIPTG+VVQCQQERS
Sbjct: 182 IWVYPVIDDNIEVDVNESDVRIDTYRSSGAGGQHVNTTDSAVRITHIPTGIVVQCQQERS 241
Query: 269 QHKNKAQAWNMLRAKLYELELQKREEIANIGESSKTEIGWGRQIRSYVLQPYQMVKDLRT 328
QHKN+A+AW+MLRA+LYE EL+KREE N +SKT+IGWG QIRSYVLQPYQ+VKDLRT
Sbjct: 242 QHKNRAKAWSMLRARLYEEELKKREEATNAAAASKTDIGWGHQIRSYVLQPYQLVKDLRT 301
Query: 329 NIEKTSPSDVLDGDLDDFMKATLA 352
+E T+P DVLDGDL++FM+A LA
Sbjct: 302 GVESTNPQDVLDGDLNEFMEAALA 325
>gnl|CDD|161667 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.
Length = 364
Score = 458 bits (1180), Expect = e-130
Identities = 200/354 (56%), Positives = 255/354 (72%), Gaps = 4/354 (1%)
Query: 3 LSRQLNCLGGLFDWDNAVQRLSFLNTKTEDPHLWQNVIEAKMLMRERQHLDNAISFIKEI 62
L+ +L+ + G D + RL L + EDP+ W + A+ +++ER L+ + ++E+
Sbjct: 12 LTSRLDTVRGSLDPEKKKARLEELEKEMEDPNFWNDQERAQAVIKERSSLEAVLDTLEEL 71
Query: 63 QDRLCDNLILLELALEEDDCSILQETSDNLQRIKLEVEYKQFE--SLLSGEADSNDAYLE 120
++ L D LLELA+EEDD E L+ LE + + E ++LSGE D+N+AYL
Sbjct: 72 KNSLEDLSELLELAVEEDDEETFNELDAELK--ALEKKLAELELRTMLSGEYDANNAYLT 129
Query: 121 VHAGAGGTESQDWANMLLRMYTRWAEKRKFKTEALEIHDGEEAGIKSATLLIKGPNAYGW 180
+ AGAGGTE+QDWA+ML RMY RWAE+R FK E ++ +GEEAGIKS T+LIKGP AYG+
Sbjct: 130 IQAGAGGTEAQDWASMLYRMYLRWAERRGFKVEIIDYSEGEEAGIKSVTILIKGPYAYGY 189
Query: 181 LKGEQGVHRLVRISPYDSNSRRHTSFSSIWVYPVVDDSIEIEISESDCRIDTYRASGAGG 240
LK EQGVHRLVRISP+D+N RRHTSF+S++V P VDD I+IEI D RIDTYRASGAGG
Sbjct: 190 LKSEQGVHRLVRISPFDANGRRHTSFASVFVMPEVDDDIDIEIKPEDLRIDTYRASGAGG 249
Query: 241 QHVNTTDSAVRITHIPTGVVVQCQQERSQHKNKAQAWNMLRAKLYELELQKREEIANIGE 300
QHVN TDSAVRITHIPTG+VVQCQ +RSQHKNK A +L+AKLYELE++K + + E
Sbjct: 250 QHVNKTDSAVRITHIPTGIVVQCQNDRSQHKNKDSAMKVLKAKLYELEMEKEQAEKDAKE 309
Query: 301 SSKTEIGWGRQIRSYVLQPYQMVKDLRTNIEKTSPSDVLDGDLDDFMKATLAIK 354
K+EIGWG QIRSYVL PY MVKDLRT E + VLDGD+D F++A L K
Sbjct: 310 GEKSEIGWGSQIRSYVLHPYSMVKDLRTGYETGNVQAVLDGDIDQFIEAYLKWK 363
>gnl|CDD|180152 PRK05589, PRK05589, peptide chain release factor 2; Provisional.
Length = 325
Score = 360 bits (925), Expect = e-100
Identities = 162/322 (50%), Positives = 228/322 (70%), Gaps = 3/322 (0%)
Query: 31 EDPHLWQNVIEAKMLMRERQHLDNAISFIKEIQDRLCDNLILLELALEEDDCSILQETSD 90
++P+ W ++ EA+ + E ++L + + +++R+ D +L E+ EEDD +E
Sbjct: 2 QEPNFWNDIKEAQEITSEEKYLKDKLDKYNHLRNRIEDIEVLCEMMSEEDDEMK-KEIIS 60
Query: 91 NLQRIKLEVEYKQFESLLSGEADSNDAYLEVHAGAGGTESQDWANMLLRMYTRWAEKRKF 150
++ IK E++ + E+LLSGE D N+A L +H+G GGT++QDW MLLRMYTRWAEK+ +
Sbjct: 61 EVKNIKEEIDRFKIETLLSGEYDRNNAILTLHSGVGGTDAQDWTEMLLRMYTRWAEKKGY 120
Query: 151 KTEALEIHDGEEAGIKSATLLIKGPNAYGWLKGEQGVHRLVRISPYDSNSRRHTSFSSIW 210
K E +++ +G+EAGIKS TL I G AYG+LK E+G+HRLVRISP+++N +R TSF+S+
Sbjct: 121 KVEIIDLLEGDEAGIKSVTLKITGEFAYGYLKAEKGIHRLVRISPFNANGKRQTSFASVE 180
Query: 211 VYPVVDDSIEIEISESDCRIDTYRASGAGGQHVNTTDSAVRITHIPTGVVVQCQQERSQH 270
V P + D +IEI D +IDTYRA GAGGQHVN T+SAVRITHIPTG+VVQCQ ERSQH
Sbjct: 181 VLPELTDDQDIEIRSEDLKIDTYRAGGAGGQHVNKTESAVRITHIPTGIVVQCQNERSQH 240
Query: 271 KNKAQAWNMLRAKLYEL-ELQKREEIANIGESSKTEIGWGRQIRSYVLQPYQMVKDLRTN 329
NK A ML++KL EL E +E+I ++ K ++GWG QIRSYV PY +VKD RT
Sbjct: 241 SNKETAMKMLKSKLVELKERAHKEKIEDLTGELK-DMGWGSQIRSYVFHPYNLVKDHRTG 299
Query: 330 IEKTSPSDVLDGDLDDFMKATL 351
+E ++ V+DGD+D+F+ L
Sbjct: 300 VETSNVDSVMDGDIDNFITQYL 321
>gnl|CDD|136970 PRK08787, PRK08787, peptide chain release factor 2; Provisional.
Length = 313
Score = 338 bits (868), Expect = 1e-93
Identities = 164/300 (54%), Positives = 217/300 (72%), Gaps = 1/300 (0%)
Query: 52 LDNAISFIKEIQDRLCDNLILLELALEEDDCSILQETSDNLQRIKLEVEYKQFESLLSGE 111
L+ + I ++ L D LL+LA E D +L + + VE +F+ + SG+
Sbjct: 2 LEKTVIGIADVLSGLADAGELLDLAESEQDEDTALAVIADLDKYQAHVEKLEFQRMFSGQ 61
Query: 112 ADSNDAYLEVHAGAGGTESQDWANMLLRMYTRWAEKRKFKTEALEIHDGEEAGIKSATLL 171
D +A++++ AGAGGTE+QDWA +LLRMY RWAE R +KTE +E+ GE AGIKSAT+
Sbjct: 62 MDGANAFVDIQAGAGGTEAQDWAEILLRMYLRWAESRGWKTELMEVSGGEVAGIKSATVR 121
Query: 172 IKGPNAYGWLKGEQGVHRLVRISPYDSNSRRHTSFSSIWVYPVVDDSIEIEISESDCRID 231
I+G AYGWLK E GVHRLVR SP+DS++RRHTSF+S++V P VDD+IEI+I+ +D R D
Sbjct: 122 IEGEYAYGWLKTEIGVHRLVRKSPFDSDNRRHTSFTSVFVSPEVDDNIEIDINPADLRTD 181
Query: 232 TYRASGAGGQHVNTTDSAVRITHIPTGVVVQCQQERSQHKNKAQAWNMLRAKLYELELQK 291
YR+SGAGGQHVN T+SAVRITHIPT VV CQ RSQH+N+ A ML AKLYELE+QK
Sbjct: 182 VYRSSGAGGQHVNKTESAVRITHIPTNTVVACQTGRSQHQNRDNAMKMLAAKLYELEVQK 241
Query: 292 REEIANIGESSKTEIGWGRQIRSYVLQPYQMVKDLRTNIEKTSPSDVLDGDLDDFMKATL 351
R + E++K++IGWG QIR+YVL + +KDLRT IE++ VLDGDLD+F++A+L
Sbjct: 242 RNAEKDALEATKSDIGWGSQIRNYVLDQSR-IKDLRTGIERSDTQKVLDGDLDEFVEASL 300
>gnl|CDD|75726 PRK06746, PRK06746, peptide chain release factor 2; Provisional.
Length = 326
Score = 309 bits (793), Expect = 5e-85
Identities = 165/317 (52%), Positives = 214/317 (67%)
Query: 35 LWQNVIEAKMLMRERQHLDNAISFIKEIQDRLCDNLILLELALEEDDCSILQETSDNLQR 94
W + A+ ++ E L + + +++ + + I EL EE D + +E ++
Sbjct: 6 FWDDQQGAQAVINEANALKDMVGKFRQLDETFENLEITHELLKEEYDEDLHEELESEVKG 65
Query: 95 IKLEVEYKQFESLLSGEADSNDAYLEVHAGAGGTESQDWANMLLRMYTRWAEKRKFKTEA 154
+ E+ + + LLS D N+A LE+H GAGGTESQDW +MLLRMYTRWAEKR FK E
Sbjct: 66 LIQEMNEYELQLLLSDPYDKNNAILELHPGAGGTESQDWGSMLLRMYTRWAEKRGFKVET 125
Query: 155 LEIHDGEEAGIKSATLLIKGPNAYGWLKGEQGVHRLVRISPYDSNSRRHTSFSSIWVYPV 214
++ G+EAGIKS TLLIKG NAYG+LK E+GVHRLVRISP+DS+ RRHTSF S V P
Sbjct: 126 VDYLPGDEAGIKSVTLLIKGHNAYGYLKAEKGVHRLVRISPFDSSGRRHTSFVSCEVVPE 185
Query: 215 VDDSIEIEISESDCRIDTYRASGAGGQHVNTTDSAVRITHIPTGVVVQCQQERSQHKNKA 274
+D +EIE+ D +IDTYRASGAGGQHVNTTDSAVRITH PT VV CQ ERSQ KN+
Sbjct: 186 FNDEVEIEVRTEDLKIDTYRASGAGGQHVNTTDSAVRITHTPTNTVVTCQSERSQIKNRE 245
Query: 275 QAWNMLRAKLYELELQKREEIANIGESSKTEIGWGRQIRSYVLQPYQMVKDLRTNIEKTS 334
A ML+AKLY+ +L++++ + + EIGWG QIRSYV PY +VKD RTN E +
Sbjct: 246 HAMKMLKAKLYQKKLEEQQAELDEIRGEQKEIGWGSQIRSYVFHPYSLVKDHRTNTEVGN 305
Query: 335 PSDVLDGDLDDFMKATL 351
V+DG++D F+ A L
Sbjct: 306 VQAVMDGEIDPFIDAYL 322
>gnl|CDD|179074 PRK00591, prfA, peptide chain release factor 1; Validated.
Length = 359
Score = 270 bits (694), Expect = 3e-73
Identities = 132/341 (38%), Positives = 195/341 (57%), Gaps = 13/341 (3%)
Query: 17 DNAVQRLSFLNTKTEDPHLWQNVIEAKMLMRERQHLD---NAISFIKEIQDRLCDNLILL 73
+ +R L DP + + + L +E L+ A K+ Q+ L + +L
Sbjct: 9 EALEERYEELEALLSDPEVISDQKRFRKLSKEYAELEPIVEAYREYKQAQEDLEEAKEML 68
Query: 74 ELALEEDDCSILQETSDNLQRIKLEVEYKQFESLL--SGEADSNDAYLEVHAGAGGTESQ 131
E + + + +E L+ E+E ++ + LL D + LE+ AG GG E+
Sbjct: 69 EEESDPEMREMAKEELKELEERLEELE-EELKILLLPKDPNDDKNVILEIRAGTGGDEAA 127
Query: 132 DWANMLLRMYTRWAEKRKFKTEALEIHDGEEAGIKSATLLIKGPNAYGWLKGEQGVHRLV 191
+A L RMY+R+AE++ +K E L +GE G K I G Y LK E GVHR+
Sbjct: 128 LFAGDLFRMYSRYAERQGWKVEILSASEGELGGYKEVIAEISGDGVYSKLKFESGVHRVQ 187
Query: 192 RISPYDSNSRRHTSFSSIWVYPVVDDSIEIEISESDCRIDTYRASGAGGQHVNTTDSAVR 251
R+ +S R HTS +++ V P ++ +E+EI+ D RIDT+R+SGAGGQHVNTTDSAVR
Sbjct: 188 RVPATESQGRIHTSAATVAVLPEAEE-VEVEINPKDLRIDTFRSSGAGGQHVNTTDSAVR 246
Query: 252 ITHIPTGVVVQCQQERSQHKNKAQAWNMLRAKLYELELQKREEIANIGESSKTEIGWG-R 310
ITH+PTG+VV+CQ ERSQHKNKA+A +LRA+LY+ E QK + A + K+++G G R
Sbjct: 247 ITHLPTGIVVECQDERSQHKNKAKAMKVLRARLYDAERQKAQ--AEEAATRKSQVGSGDR 304
Query: 311 --QIRSYVLQPYQMVKDLRTNIEKTSPSDVLDGDLDDFMKA 349
+IR+Y P V D R N+ +V++GDLD+ + A
Sbjct: 305 SERIRTYNF-PQGRVTDHRINLTLYKLDEVMEGDLDELIDA 344
>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.
Length = 360
Score = 258 bits (660), Expect = 2e-69
Identities = 129/343 (37%), Positives = 202/343 (58%), Gaps = 12/343 (3%)
Query: 17 DNAVQRLSFLNTKTEDPHLWQNVIEAKMLMRERQHLDNAISFIKEIQDRLCDNLILLELA 76
++ ++R L DP + + + + L +E L+ I + +++ +
Sbjct: 10 ESLLERYEELEALLSDPEVISDQDKLRKLSKEYSQLEE-IVDCYREYQQAQEDIKEAKEI 68
Query: 77 LEEDDCSILQETSDNLQRIKLEVE--YKQFESLL--SGEADSNDAYLEVHAGAGGTESQD 132
LEE D + + + L+ ++ ++E +Q + LL D + LE+ AG GG E+
Sbjct: 69 LEESDPEMREMAKEELEELEEKIEELEEQLKVLLLPKDPNDEKNVILEIRAGTGGDEAAI 128
Query: 133 WANMLLRMYTRWAEKRKFKTEALEIHDGEEAGIKSATLLIKGPNAYGWLKGEQGVHRLVR 192
+A L RMY+R+AE + +K E L ++ E G K IKG Y LK E GVHR+ R
Sbjct: 129 FAGDLFRMYSRYAESKGWKVEILSANETELGGYKEVIAEIKGDGVYSRLKFESGVHRVQR 188
Query: 193 ISPYDSNSRRHTSFSSIWVYPVVDDSIEIEISESDCRIDTYRASGAGGQHVNTTDSAVRI 252
+ +S R HTS +++ V P +++ +E++I+ +D RIDT+R+SGAGGQHVNTTDSAVRI
Sbjct: 189 VPVTESQGRIHTSAATVAVMPELEE-VEVDINPADLRIDTFRSSGAGGQHVNTTDSAVRI 247
Query: 253 THIPTGVVVQCQQERSQHKNKAQAWNMLRAKLYELELQKREEIANIGESSKTEIGWG--- 309
TH+PTG+VV+CQ ERSQHKNK +A +LRA+LYE E +K++ A + K+++G G
Sbjct: 248 THLPTGIVVECQDERSQHKNKDKAMKVLRARLYEAEQEKQQ--AAQASTRKSQVGSGDRS 305
Query: 310 RQIRSYVLQPYQMVKDLRTNIEKTSPSDVLDGDLDDFMKATLA 352
+IR+Y P V D R N+ +VL+GDLD+ ++A +A
Sbjct: 306 ERIRTYNF-PQNRVTDHRINLTLYKLDEVLEGDLDELIEALIA 347
>gnl|CDD|132116 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.
Length = 200
Score = 114 bits (286), Expect = 4e-26
Identities = 61/180 (33%), Positives = 88/180 (48%), Gaps = 6/180 (3%)
Query: 118 YLEVHAGAGGTESQDWANMLLRMYTRWAEKRKFKTEALEIHDGEEAG-IKSATLLIKGPN 176
L++ + G E L TR A R + E LE GE G ++SA + + G
Sbjct: 2 LLQLSSAQGPAECCLAVAKALERLTREAAARGVRVEVLEQEPGEVPGTLRSALVSLDGEA 61
Query: 177 AYGWLKGEQGVHRLVRISPYDSNSRRHTSFSSIWVYPVVDDSIEIEISESDCRIDTYRAS 236
A +G + SPY + RR W V S E +E + R +T R+S
Sbjct: 62 AAALADRWEGTLLWICPSPYRPHHRRKN-----WFIGVQRFSASEEATEDEIRFETLRSS 116
Query: 237 GAGGQHVNTTDSAVRITHIPTGVVVQCQQERSQHKNKAQAWNMLRAKLYELELQKREEIA 296
G GGQHVN T+SAVR TH+ +G+ V+ Q ERSQH NK A +L +L +L+ ++ +
Sbjct: 117 GPGGQHVNKTESAVRATHLASGISVKVQSERSQHANKRLATLLLAVRLADLQQEQAAALR 176
>gnl|CDD|181271 PRK08179, prfH, peptide chain release factor-like protein;
Reviewed.
Length = 200
Score = 105 bits (263), Expect = 2e-23
Identities = 54/174 (31%), Positives = 83/174 (47%), Gaps = 6/174 (3%)
Query: 118 YLEVHAGAGGTESQDWANMLLRMYTRWAEKRKFKTEALEIHDGEEAG-IKSATLLIKGPN 176
L++ + G E L + A ++ + LE G ++SA + + G N
Sbjct: 3 LLQLSSAQGPAECCLAVAKALERLLKEAARQGVRVTVLETETGRYPDTLRSALVSLDGDN 62
Query: 177 AYGWLKGEQGVHRLVRISPYDSNSRRHTSFSSIWVYPVVDDSIEIEISESDCRIDTYRAS 236
A + G + + SPY + R F I + S + E + R +T R+S
Sbjct: 63 AEALAESWCGTIQWICPSPYRPHHGRKNWFVGIGRF-----SADEEEQSDEIRFETLRSS 117
Query: 237 GAGGQHVNTTDSAVRITHIPTGVVVQCQQERSQHKNKAQAWNMLRAKLYELELQ 290
G GGQHVN TDSAVR TH+ +G+ V+ Q ERSQH NK A ++ KL + + +
Sbjct: 118 GPGGQHVNKTDSAVRATHLASGISVKVQSERSQHANKRLARLLIAWKLEQQQQE 171
>gnl|CDD|181730 PRK09256, PRK09256, hypothetical protein; Provisional.
Length = 138
Score = 54.8 bits (133), Expect = 3e-08
Identities = 27/93 (29%), Positives = 38/93 (40%), Gaps = 32/93 (34%)
Query: 221 IEISESDCRIDTYRASGAGGQHVNTTDSAV-------------------------RITHI 255
+ I E++ RASG GGQ+VN +AV RIT
Sbjct: 8 LVIPENELEWRFIRASGPGGQNVNKVSTAVELRFDIAASSLPEFYKERLLALAGHRIT-- 65
Query: 256 PTGV-VVQCQQERSQHKNKAQAWNMLRAKLYEL 287
GV V++ Q+ RSQ +N+ A +L L
Sbjct: 66 KDGVIVIKAQEFRSQERNREDA----LERLVAL 94
>gnl|CDD|163484 TIGR03772, anch_rpt_subst, anchored repeat ABC transporter,
substrate-binding protein. Members of this protein
family are ABC transporter permease subunits as
identified by pfam00950, but additionally contain the
Actinobacterial insert domain described by TIGR03769.
Some homologs (lacking the insert) have been described
as transporters of manganese or of chelated iron.
Members of this family typically are found along with an
ATP-binding cassette protein, a permease, and an
LPXTG-anchored protein with two or three copies of the
TIGR03769 insert that occurs just once in this protein
family.
Length = 479
Score = 30.2 bits (68), Expect = 0.92
Identities = 13/35 (37%), Positives = 19/35 (54%), Gaps = 13/35 (37%)
Query: 32 DPHLWQNVIEAKMLMRERQHLDNAISFIKEIQDRL 66
DPHLW NV NAI++++ I+D+L
Sbjct: 310 DPHLWHNV-------------KNAIAYVEVIRDKL 331
>gnl|CDD|184331 PRK13795, PRK13795, hypothetical protein; Provisional.
Length = 636
Score = 28.0 bits (63), Expect = 3.6
Identities = 15/59 (25%), Positives = 29/59 (49%), Gaps = 20/59 (33%)
Query: 36 WQNVIEAKMLMRERQHLD----NAISFIKEIQDRLC-----------DNLILLELALEE 79
++ IEA R+HL+ A++FI+ + ++ D+L++L+LA E
Sbjct: 213 LEDAIEAN-----RKHLEEKEKEAVNFIRGVAEKYNLPVSVSFSGGKDSLVVLDLAREA 266
>gnl|CDD|162983 TIGR02712, urea_carbox, urea carboxylase. Members of this family are
ATP-dependent urea carboxylase, including characterized
members from Oleomonas sagaranensis (alpha class
Proteobacterium) and yeasts such as Saccharomyces
cerevisiae. The allophanate hydrolase domain of the yeast
enzyme is not included in this model and is represented
by an adjacent gene in Oleomonas sagaranensis. The fusion
of urea carboxylase and allophanate hydrolase is
designated urea amidolyase. The enzyme from Oleomonas
sagaranensis was shown to be highly active on acetamide
and formamide as well as urea.
Length = 1201
Score = 28.1 bits (63), Expect = 3.8
Identities = 14/45 (31%), Positives = 21/45 (46%), Gaps = 5/45 (11%)
Query: 94 RIKLEVE-----YKQFESLLSGEADSNDAYLEVHAGAGGTESQDW 133
R K+ VE +++ L+ ADS +A+ E GA E W
Sbjct: 1062 RFKVRVEETVFDLAEYQRFLADNADSIEAFKERQQGAFEAERARW 1106
>gnl|CDD|172808 PRK14332, PRK14332, (dimethylallyl)adenosine tRNA
methylthiotransferase; Provisional.
Length = 449
Score = 27.6 bits (61), Expect = 4.4
Identities = 17/39 (43%), Positives = 23/39 (58%), Gaps = 1/39 (2%)
Query: 141 YTRWAEK-RKFKTEALEIHDGEEAGIKSATLLIKGPNAY 178
YTR E+ R K+ EI D +E GI+ TLL + N+Y
Sbjct: 175 YTRGRERSRDPKSIVREIQDLQEKGIRQVTLLGQNVNSY 213
>gnl|CDD|151997 pfam11561, Saw1, Single strand annealing-weakened 1. This family
of yeast proteins is involved in
single-strand-annealing, or SSA. SSA entails multiple
steps: end resection and ssDNA formation; annealing of
complementary ssDNAs; removal of 3' single-stranded
non-homologous tails; gap fill-in synthesis; and
ligation. Saw1 in combination with Slx4 catalyses the 3'
non-homologous tail removal during recombination. Saw1
interacts physically with Rad1/Rad10, Msh2/Msh3, and
Rad52 proteins, and works by targeting Rad1/Rad10 to
Rad52-coated recombination intermediates.
Length = 208
Score = 27.5 bits (61), Expect = 5.3
Identities = 13/47 (27%), Positives = 23/47 (48%), Gaps = 2/47 (4%)
Query: 57 SFIKEIQDRLCDNLILLELALEEDDCSILQETSDNLQRIKLEVEYKQ 103
S + EI+ L IL EL L + D +IL+ + + K +++
Sbjct: 63 SLLDEIRRDLLL--ILYELKLNQGDQTILRTLNIDDVERKCKMKVPV 107
>gnl|CDD|166155 PLN02514, PLN02514, cinnamyl-alcohol dehydrogenase.
Length = 357
Score = 27.5 bits (61), Expect = 6.1
Identities = 13/40 (32%), Positives = 17/40 (42%), Gaps = 6/40 (15%)
Query: 300 ESSKTEIGWGRQIRSYVLQPYQMVKDLRTNIEKTSPSDVL 339
E+ K GW + S L PY + KT P DV+
Sbjct: 5 EAEKKTTGWAARDPSGHLSPYTY------TLRKTGPEDVV 38
>gnl|CDD|177929 PLN02292, PLN02292, ferric-chelate reductase.
Length = 702
Score = 26.8 bits (59), Expect = 8.5
Identities = 25/104 (24%), Positives = 40/104 (38%), Gaps = 13/104 (12%)
Query: 172 IKGPNAYGWLKGEQGVHRLV-----------RISPYDSNSRRHTSFSSIWVYPVVDDSIE 220
I GPN++ WL L+ I P D NS ++T +Y +V SI
Sbjct: 542 ILGPNSWLWLAAILSSSFLIFIIIIAIITRYHIYPIDQNSNKYTLAYKSLIYLLV-ISIS 600
Query: 221 IEISESDCRIDTYRASGAG-GQHVNTTDSAVRITHIPTGVVVQC 263
+ + + + + Q V+ DS I P ++VQ
Sbjct: 601 VVATSTAAMLWNKKKYYKKSSQQVDNVDSPREIESSPQQLLVQR 644
>gnl|CDD|178860 PRK00095, mutL, DNA mismatch repair protein; Reviewed.
Length = 617
Score = 26.7 bits (60), Expect = 9.8
Identities = 14/31 (45%), Positives = 19/31 (61%)
Query: 70 LILLELALEEDDCSILQETSDNLQRIKLEVE 100
LI L L L ED+ L+E + L R+ LE+E
Sbjct: 482 LIPLVLELSEDEADRLEEHKELLARLGLELE 512
Database: CddB
Posted date: Feb 4, 2011 9:54 PM
Number of letters in database: 5,994,473
Number of sequences in database: 21,608
Lambda K H
0.316 0.132 0.385
Gapped
Lambda K H
0.267 0.0615 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 5,636,012
Number of extensions: 350465
Number of successful extensions: 689
Number of sequences better than 10.0: 1
Number of HSP's gapped: 680
Number of HSP's successfully gapped: 28
Length of query: 355
Length of database: 5,994,473
Length adjustment: 94
Effective length of query: 261
Effective length of database: 3,963,321
Effective search space: 1034426781
Effective search space used: 1034426781
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: 58 (26.4 bits)