RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 003875
(790 letters)
>gnl|CDD|99996 cd04300, GT1_Glycogen_Phosphorylase, This is a family of
oligosaccharide phosphorylases. It includes yeast and
mammalian glycogen phosphorylases, plant starch/glucan
phosphorylase, as well as the maltodextrin
phosphorylases of bacteria. The members of this family
catalyze the breakdown of oligosaccharides into
glucose-1-phosphate units. They are important allosteric
enzymes in carbohydrate metabolism. The allosteric
control mechanisms of yeast and mammalian members of
this family are different from that of bacterial
members. The members of this family belong to the GT-B
structural superfamily of glycoslytransferases, which
have characteristic N- and C-terminal domains each
containing a typical Rossmann fold. The two domains have
high structural homology despite minimal sequence
homology. The large cleft that separates the two
domains includes the catalytic center and permits a high
degree of flexibility.
Length = 797
Score = 654 bits (1689), Expect = 0.0
Identities = 210/409 (51%), Positives = 273/409 (66%), Gaps = 23/409 (5%)
Query: 385 EPPQLVRMANLCVVGSHAVNGVAEIHSEIVTNEVFNEFYKLWPEKFQNKTNGVTPRRWIR 444
+ VRMA+L +VGSH+VNGVA +HSE++ VF +FY+L+PEKF NKTNG+TPRRW+
Sbjct: 403 GGEKQVRMAHLAIVGSHSVNGVAALHSELLKETVFKDFYELYPEKFNNKTNGITPRRWLL 462
Query: 445 FCNPDLSSILTSWLGTEDWVTNTGKLAELRKFADNEDLQSQFRAAKRNNKMKVVSFIKEK 504
NP LS+++T +G +DWVT+ +L +L FAD+ +FRA K+ NK ++ ++IK+
Sbjct: 463 QANPGLSALITETIG-DDWVTDLDQLKKLEPFADDPAFLKEFRAIKQANKERLAAYIKKT 521
Query: 505 TGYSVSPDAMFDIQVKRIHEYKRQLMNILGIVYRYKKMKEMSAVERKAKFVPRVCIFGGK 564
TG V PD++FD+QVKRIHEYKRQL+N+L I++ Y ++KE A VPR IFGGK
Sbjct: 522 TGVEVDPDSLFDVQVKRIHEYKRQLLNVLHIIHLYNRIKENP----NADIVPRTFIFGGK 577
Query: 565 AFATYVQAKRIVKFITDVGATVNHDPEIGDLLKVIFVPDYNVSVAELLIPASELSQHIST 624
A Y AK I+K I V VN+DP++GD LKV+F+P+YNVS+AE +IPA++LS+ IST
Sbjct: 578 AAPGYYMAKLIIKLINAVADVVNNDPDVGDKLKVVFLPNYNVSLAEKIIPAADLSEQIST 637
Query: 625 AGMEASGTSNMKFAMNGCILIGTLDGANVEIRQEVGEENFFLFGARAHEIAGLRKERSEG 684
AG EASGT NMKF +NG + IGTLDGANVEI +EVGEEN F+FG A E+ LR
Sbjct: 638 AGKEASGTGNMKFMLNGALTIGTLDGANVEIAEEVGEENIFIFGLTAEEVEALRANGYYP 697
Query: 685 KFV--PDARFEEVKKFVKSGVFGSYN-------YDELMGSLEGNEGFGQADYFLVGKDFP 735
D V + SG F + D L L GN D +LV DF
Sbjct: 698 ADYYEADPELRRVLDQIASGFFSPGDPGEFRPLVDSL---LNGN------DEYLVLADFE 748
Query: 736 SYLECQEKVDEAYCDQKRWTRMSIMNTAGSSKFSSDRTIQEYARDIWNI 784
SY++ QEKVD Y DQ+ W R SI+N A S KFSSDRTI+EYA DIWN+
Sbjct: 749 SYVDAQEKVDALYRDQEEWARKSILNIARSGKFSSDRTIREYAEDIWNV 797
Score = 438 bits (1128), Expect = e-142
Identities = 151/263 (57%), Positives = 186/263 (70%), Gaps = 9/263 (3%)
Query: 1 MATLNYPAWGYGLRYKYGLFKQRITKDG-QEEVAEDWLELGNPWEIERNDVSYPVKFYGK 59
+ATL P +GYG+RY+YGLFKQ+I DG Q E+ ++WL GNPWEI R DV+ PV+F G+
Sbjct: 120 LATLGLPGYGYGIRYEYGLFKQKI-VDGYQVELPDNWLRYGNPWEIRRPDVAVPVRFGGR 178
Query: 60 IVPGSDG---KSHWIGGEDIKAVAYDIPIPGYKTKTTINLRLWSTMVPSEDFDLSAFNAG 116
+ DG + W+ GE + AV YD PIPGY T T LRLWS SE+FDL AFN G
Sbjct: 179 VEHYEDGGRLRVRWVDGETVLAVPYDTPIPGYGTNTVNTLRLWSA-EASEEFDLDAFNRG 237
Query: 117 DHTKAAEALTNAEKICYILYPGDESVEGKVLRLKQQYTLCSASLQDIIARFEKRSGANVN 176
D+ +A E AE I +LYP D + EGK LRLKQQY SASLQDII RF+K G
Sbjct: 238 DYIRAVEEKNRAENISKVLYPNDSTEEGKELRLKQQYFFVSASLQDIIRRFKKTHG---P 294
Query: 177 WEEFPEKVAVQMNDTHPTLCIPELIRILIDLKGLSWKEAWNITQRTVAYTNHTVLPEALE 236
EFP+KVA+Q+NDTHP L IPEL+RIL+D +GL W EAW+IT +T AYTNHT+LPEALE
Sbjct: 295 LSEFPDKVAIQLNDTHPALAIPELMRILVDEEGLDWDEAWDITTKTFAYTNHTLLPEALE 354
Query: 237 KWSFELMQKLLPRHMEIIEMIDE 259
KW +L ++LLPRH+EII I+
Sbjct: 355 KWPVDLFERLLPRHLEIIYEINR 377
>gnl|CDD|215868 pfam00343, Phosphorylase, Carbohydrate phosphorylase. The members
of this family catalyze the formation of glucose
1-phosphate from one of the following polyglucoses;
glycogen, starch, glucan or maltodextrin.
Length = 712
Score = 598 bits (1543), Expect = 0.0
Identities = 211/402 (52%), Positives = 287/402 (71%), Gaps = 16/402 (3%)
Query: 390 VRMANLCVVGSHAVNGVAEIHSEIVTNEVFNEFYKLWPEKFQNKTNGVTPRRWIRFCNPD 449
VRMA+L +VGSHAVNGVA +HS++V ++F +F++LWP KFQNKTNG+TPRRW+ NP
Sbjct: 322 VRMAHLAIVGSHAVNGVAALHSDLVKKDLFPDFHELWPNKFQNKTNGITPRRWLLQANPG 381
Query: 450 LSSILTSWLGTEDWVTNTGKLAELRKFADNEDLQSQFRAAKRNNKMKVVSFIKEKTGYSV 509
L++I+T LG ++WVT+ +L +L FAD+ ++ K+ NK ++ +I+++TG V
Sbjct: 382 LAAIITKSLG-DEWVTDLEQLIKLEPFADDPAFIEEWAEIKQANKQRLAEYIEKETGVVV 440
Query: 510 SPDAMFDIQVKRIHEYKRQLMNILGIVYRYKKMKEMSAVERKAKFVPRVCIFGGKAFATY 569
+P+A+FD+QVKRIHEYKRQL+N+L ++YRY ++KE VPRV IFGGKA Y
Sbjct: 441 NPNALFDVQVKRIHEYKRQLLNVLHVIYRYNRIKEDP----PKDVVPRVVIFGGKAAPGY 496
Query: 570 VQAKRIVKFITDVGATVNHDPEIGDLLKVIFVPDYNVSVAELLIPASELSQHISTAGMEA 629
AKRI+K I V VN+DP +GD LKV+F+P+Y VS+AE +IPAS++S+ ISTAG EA
Sbjct: 497 YMAKRIIKLINSVADVVNNDPAVGDKLKVVFLPNYRVSLAEKIIPASDISEQISTAGTEA 556
Query: 630 SGTSNMKFAMNGCILIGTLDGANVEIRQEVGEENFFLFGARAHEIAGLRKE--RSEGKFV 687
SGTSNMKFA+NG + IGTLDGANVEI +EVGEEN F+FG A E+ LRK+ RS +
Sbjct: 557 SGTSNMKFALNGALTIGTLDGANVEIAEEVGEENIFIFGLTAEEVEALRKKGYRSREYYK 616
Query: 688 PDARFEEVKKFVKSGVFG---SYNYDELMGSLEGNEGFGQADYFLVGKDFPSYLECQEKV 744
D R +V + SG F + +++ SL+G DY+LV DFPSY++ Q++V
Sbjct: 617 KDPRLRQVLDQIISGFFSPEDPDRFRDILDSLQGG------DYYLVFADFPSYVDAQKRV 670
Query: 745 DEAYCDQKRWTRMSIMNTAGSSKFSSDRTIQEYARDIWNIIP 786
DE Y D++ WT+ SI+N A S KFSSDRTI+EYA+ IW I P
Sbjct: 671 DELYKDREAWTKKSILNIANSGKFSSDRTIKEYAKRIWGIEP 712
Score = 404 bits (1040), Expect = e-130
Identities = 160/288 (55%), Positives = 202/288 (70%), Gaps = 9/288 (3%)
Query: 1 MATLNYPAWGYGLRYKYGLFKQRITKDGQEEVAEDWLELGNPWEIERNDVSYPVKFYGKI 60
+ATL PA+GYG+RY+YG+F+Q+I Q E+ +DWLE GNPWEIER DV YPV+FYGK+
Sbjct: 37 LATLGLPAYGYGIRYEYGMFEQKIVDGWQVELPDDWLEYGNPWEIERPDVRYPVRFYGKV 96
Query: 61 VPGSDGKSHWIGGEDIKAVAYDIPIPGYKTKTTINLRLWSTMVPSEDFDLSAFNAGDHTK 120
K+ W E + AVAYD PIPGY+T T LRLWS SE+F+L+ FN GD+
Sbjct: 97 EEKEGRKTKWDDTEVVLAVAYDTPIPGYRTNNTNTLRLWSAK-ASEEFNLADFNDGDYLA 155
Query: 121 AAEALTNAEKICYILYPGDESVEGKVLRLKQQYTLCSASLQDIIARFEKRSGANVNWEEF 180
A E AE I +LYP D + EGK LRLKQQY L SA+LQDII RF K+S + EF
Sbjct: 156 AVEDKNRAENISRVLYPNDNTFEGKELRLKQQYFLVSATLQDIIRRF-KKSHK--SLSEF 212
Query: 181 PEKVAVQMNDTHPTLCIPELIRILIDLKGLSWKEAWNITQRTVAYTNHTVLPEALEKWSF 240
P+KVA+Q+NDTHPTL IPEL+RILID +GLSW EAW IT +T AYTNHTVLPEALEKW
Sbjct: 213 PDKVAIQLNDTHPTLAIPELMRILIDEEGLSWDEAWEITTKTFAYTNHTVLPEALEKWPV 272
Query: 241 ELMQKLLPRHMEIIEMIDEELVHTIVSEYGTADPDLLEKRLKETRILE 288
L++KLLPRH++II I+E + + ++ P E +L+ I++
Sbjct: 273 HLVEKLLPRHLQIIYEINERFLKLVWEKW----PG-DEDKLRRMSIID 315
>gnl|CDD|233722 TIGR02093, P_ylase, glycogen/starch/alpha-glucan phosphorylases.
This family consists of phosphorylases. Members use
phosphate to break alpha 1,4 linkages between pairs of
glucose residues at the end of long glucose polymers,
releasing alpha-D-glucose 1-phosphate. The nomenclature
convention is to preface the name according to the
natural substrate, as in glycogen phosphorylase, starch
phosphorylase, maltodextrin phosphorylase, etc. Name
differences among these substrates reflect differences
in patterns of branching with alpha 1,6 linkages.
Members include allosterically regulated and unregulated
forms. A related family, TIGR02094, contains examples
known to act well on particularly small alpha 1,4
glucans, as may be found after import from exogenous
sources [Energy metabolism, Biosynthesis and degradation
of polysaccharides].
Length = 794
Score = 591 bits (1525), Expect = 0.0
Identities = 200/400 (50%), Positives = 274/400 (68%), Gaps = 15/400 (3%)
Query: 390 VRMANLCVVGSHAVNGVAEIHSEIVTNEVFNEFYKLWPEKFQNKTNGVTPRRWIRFCNPD 449
VRMANL +VGSH+VNGVA +H+E++ ++ +FY+L+PEKF NKTNG+TPRRW+R NP
Sbjct: 405 VRMANLAIVGSHSVNGVAALHTELLKEDLLKDFYELYPEKFNNKTNGITPRRWLRLANPG 464
Query: 450 LSSILTSWLGTEDWVTNTGKLAELRKFADNEDLQSQFRAAKRNNKMKVVSFIKEKTGYSV 509
LS++LT +G +DW+T+ L +L +AD+ + +FR K+ NK ++ ++IKE TG V
Sbjct: 465 LSALLTETIG-DDWLTDLDLLKKLEPYADDSEFLEEFRQVKQANKQRLAAYIKEHTGVEV 523
Query: 510 SPDAMFDIQVKRIHEYKRQLMNILGIVYRYKKMKEMSAVERKAKFVPRVCIFGGKAFATY 569
P+++FD+QVKR+HEYKRQL+N+L ++Y Y ++KE VPR IFGGKA Y
Sbjct: 524 DPNSIFDVQVKRLHEYKRQLLNVLHVIYLYNRIKEDPP----KDIVPRTVIFGGKAAPGY 579
Query: 570 VQAKRIVKFITDVGATVNHDPEIGDLLKVIFVPDYNVSVAELLIPASELSQHISTAGMEA 629
AK I+K I V VN+DP +GD LKV+FVP+YNVS+AEL+IPA++LS+ ISTAG EA
Sbjct: 580 HMAKLIIKLINSVAEVVNNDPAVGDKLKVVFVPNYNVSLAELIIPAADLSEQISTAGKEA 639
Query: 630 SGTSNMKFAMNGCILIGTLDGANVEIRQEVGEENFFLFGARAHEIAGLRKE--RSEGKFV 687
SGT NMKF +NG + IGTLDGANVEIR+EVG EN F+FG E+ LR++ +
Sbjct: 640 SGTGNMKFMLNGALTIGTLDGANVEIREEVGAENIFIFGLTVEEVEALREKGYNPREYYE 699
Query: 688 PDARFEEVKKFVKSGVFGSYN---YDELMGSLEGNEGFGQADYFLVGKDFPSYLECQEKV 744
D + V + SG F + + L SL + D F V DF +Y++ QE+V
Sbjct: 700 ADPELKRVLDLISSGTFSPGDPGLFRPLYDSLLNHG-----DPFFVLADFAAYVDAQERV 754
Query: 745 DEAYCDQKRWTRMSIMNTAGSSKFSSDRTIQEYARDIWNI 784
D Y DQ WT+ SI+N A S KFSSDRTI+EYA++IW++
Sbjct: 755 DALYRDQLEWTKKSILNIANSGKFSSDRTIREYAKEIWHV 794
Score = 400 bits (1029), Expect = e-128
Identities = 148/292 (50%), Positives = 192/292 (65%), Gaps = 12/292 (4%)
Query: 1 MATLNYPAWGYGLRYKYGLFKQRITKDGQEEVAEDWLELGNPWEIERNDVSYPVKFYGKI 60
+ATL PA GYG+RY+YGLFKQ+I Q E+ +DWL GNPWEI R D SY V+F G++
Sbjct: 117 LATLGLPATGYGIRYEYGLFKQKIVDGWQVELPDDWLRYGNPWEIRRPDRSYEVRFGGRV 176
Query: 61 VPGSDGKSH---WIGGEDIKAVAYDIPIPGYKTKTTINLRLWSTMVPSEDFDLSAFNAGD 117
D W+ E + A+ YD+P+PGY+T T LRLWS E+FDL AFNAGD
Sbjct: 177 ELQPDSDRLRPRWVPAETVLAIPYDVPVPGYRTDTVNTLRLWSAE-APEEFDLDAFNAGD 235
Query: 118 HTKAAEALTNAEKICYILYPGDESVEGKVLRLKQQYTLCSASLQDIIARFEKRSGANVNW 177
+ +A E AE I +LYP D + EGK LRLKQQY SASLQDII R + +
Sbjct: 236 YYEAVEEKNRAENISRVLYPNDSTYEGKELRLKQQYFFVSASLQDIIRRHLETHP---DL 292
Query: 178 EEFPEKVAVQMNDTHPTLCIPELIRILIDLKGLSWKEAWNITQRTVAYTNHTVLPEALEK 237
+FP+KVA+Q+NDTHP L IPEL+R+LID +G+ W EAW+IT +T AYTNHT+LPEALEK
Sbjct: 293 SDFPKKVAIQLNDTHPALAIPELMRLLIDEEGMDWDEAWDITTKTFAYTNHTLLPEALEK 352
Query: 238 WSFELMQKLLPRHMEIIEMIDEELVHTIVSEYGTADPDLLEKRLKETRILEN 289
W +L QKLLPRH+EII I+ + + ++ P E +++ I+E
Sbjct: 353 WPVDLFQKLLPRHLEIIYEINRRFLAELAAKG----PG-DEAKIRRMSIIEE 399
>gnl|CDD|237881 PRK14985, PRK14985, maltodextrin phosphorylase; Provisional.
Length = 798
Score = 444 bits (1143), Expect = e-144
Identities = 186/402 (46%), Positives = 266/402 (66%), Gaps = 23/402 (5%)
Query: 390 VRMANLCVVGSHAVNGVAEIHSEIVTNEVFNEFYKLWPEKFQNKTNGVTPRRWIRFCNPD 449
VRMANLCVV AVNGVA +HS++V ++F E+++LWP KF N TNG+TPRRWI+ CNP
Sbjct: 407 VRMANLCVVSGFAVNGVAALHSDLVVKDLFPEYHQLWPNKFHNVTNGITPRRWIKQCNPA 466
Query: 450 LSSILTSWLGTEDWVTNTGKLAELRKFADNEDLQSQFRAAKRNNKMKVVSFIKEKTGYSV 509
L+++L L E W + +L L K+AD+ + Q+R K+ NK+++ F+K++TG +
Sbjct: 467 LAALLDKTLKKE-WANDLDQLINLEKYADDAAFRQQYREIKQANKVRLAEFVKQRTGIEI 525
Query: 510 SPDAMFDIQVKRIHEYKRQLMNILGIVYRYKKMKEMSAVERKAKFVPRVCIFGGKAFATY 569
+P A+FD+Q+KR+HEYKRQ +N+L I+ YK+++E +R VPRV +FG KA Y
Sbjct: 526 NPQAIFDVQIKRLHEYKRQHLNLLHILALYKEIRENPQADR----VPRVFLFGAKAAPGY 581
Query: 570 VQAKRIVKFITDVGATVNHDPEIGDLLKVIFVPDYNVSVAELLIPASELSQHISTAGMEA 629
AK I+ I V +N+DP +GD LKV+F+PDY VS AELLIPA+++S+ ISTAG EA
Sbjct: 582 YLAKNIIFAINKVAEVINNDPLVGDKLKVVFLPDYCVSAAELLIPAADISEQISTAGKEA 641
Query: 630 SGTSNMKFAMNGCILIGTLDGANVEIRQEVGEENFFLFGARAHEIAGLRKERSEGKFVP- 688
SGT NMK A+NG + +GTLDGANVEI ++VGEEN F+FG ++ L + P
Sbjct: 642 SGTGNMKLALNGALTVGTLDGANVEIAEQVGEENIFIFGHTVEQVKALLA----KGYDPV 697
Query: 689 -----DARFEEVKKFVKSGVFGSYN---YDELMGSLEGNEGFGQADYFLVGKDFPSYLEC 740
D + V K ++SG + + +D+++ SL+ D +LV DF +Y+E
Sbjct: 698 KWRKKDKVLDAVLKELESGKYSDGDKHAFDQMLHSLKQG-----GDPYLVLADFAAYVEA 752
Query: 741 QEKVDEAYCDQKRWTRMSIMNTAGSSKFSSDRTIQEYARDIW 782
Q++VD Y DQ+ WTR +I+NTA FSSDR+I++Y IW
Sbjct: 753 QKQVDALYRDQEAWTRAAILNTARCGMFSSDRSIRDYQARIW 794
Score = 264 bits (677), Expect = 6e-77
Identities = 112/261 (42%), Positives = 149/261 (57%), Gaps = 5/261 (1%)
Query: 1 MATLNYPAWGYGLRYKYGLFKQRITKDGQEEVAEDWLELGNPWEIERNDVSYPVKFYGKI 60
MAT+ PA GYGL Y+YGLF+Q Q E +DW PW + V GK+
Sbjct: 126 MATVGQPATGYGLNYQYGLFRQSFVDGKQVEAPDDWHRDSYPWFRHNEALDVQVGIGGKV 185
Query: 61 VPGSDGKSHWIGGEDIKAVAYDIPIPGYKTKTTINLRLWSTMVPSEDFDLSAFNAGDHTK 120
DG+ W I A+D+P+ GY+ LRLW FDL+ FN GD +
Sbjct: 186 TK-QDGRERWEPAFTITGEAWDLPVVGYRNGVAQPLRLWQATHAHP-FDLTKFNDGDFLR 243
Query: 121 AAEALTNAEKICYILYPGDESVEGKVLRLKQQYTLCSASLQDIIARFEKRSGANVNWEEF 180
A + +AEK+ +LYP D GK LRL QQY C+ S+ DI+ R A E
Sbjct: 244 AEQQGIDAEKLTKVLYPNDNHTAGKKLRLMQQYFQCACSVADILRRHHL---AGRKLHEL 300
Query: 181 PEKVAVQMNDTHPTLCIPELIRILIDLKGLSWKEAWNITQRTVAYTNHTVLPEALEKWSF 240
P+ +Q+NDTHPT+ IPEL+R+L+D LSW +AW IT +T AYTNHT++PEALE W
Sbjct: 301 PDYEVIQLNDTHPTIAIPELLRVLLDEHQLSWDDAWAITSKTFAYTNHTLMPEALECWDE 360
Query: 241 ELMQKLLPRHMEIIEMIDEEL 261
+L++ LLPRHM+II+ I+
Sbjct: 361 KLVKSLLPRHMQIIKEINTRF 381
>gnl|CDD|223136 COG0058, GlgP, Glucan phosphorylase [Carbohydrate transport and
metabolism].
Length = 750
Score = 435 bits (1120), Expect = e-141
Identities = 175/403 (43%), Positives = 243/403 (60%), Gaps = 19/403 (4%)
Query: 386 PPQLVRMANLCVVGSHAVNGVAEIHSEIVTNEVFNEFYKLWPEKFQNKTNGVTPRRWIRF 445
P + V MA L +VGSH+VNGV+++HSE+ F +F+ L+PEK N TNG+TPRRW+
Sbjct: 361 PIEEVNMAVLALVGSHSVNGVSKLHSELSKKMWFADFHGLYPEKINNVTNGITPRRWLAP 420
Query: 446 CNPDLSSILTSWLGTEDWVTNTGKLAELRKFADNEDLQSQFRAAKRNNKMKVVSFIKEKT 505
NP L+ +L +G E W+ + L EL FAD++ + KR NK ++ I ++T
Sbjct: 421 ANPGLADLLDEKIGDE-WLNDLDILDELLWFADDKAFRELIAEIKRENKKRLAEEIADRT 479
Query: 506 GYSVSPDAMFDIQVKRIHEYKRQLMNILGIVYRYKKMKEMSAVERKAKFVPRV-CIFGGK 564
G V P+A+FD Q +RIHEYKRQL+N+L I Y+ +KE +VPRV IF GK
Sbjct: 480 GIEVDPNALFDGQARRIHEYKRQLLNLLDIERLYRILKE--------DWVPRVQIIFAGK 531
Query: 565 AFATYVQAKRIVKFITDVGATVNHDPEIGDLLKVIFVPDYNVSVAELLIPASELSQHIST 624
A AK I+K I DV +N+ LKV+F+P+Y+VS+AELLIPA+++ + I T
Sbjct: 532 AHPADYAAKEIIKLINDVADVINN------KLKVVFLPNYDVSLAELLIPAADVWEQIPT 585
Query: 625 AGMEASGTSNMKFAMNGCILIGTLDGANVEIRQEVGEENFFLFGARAHEIAGLRKERSEG 684
AG EASGTSNMK A+NG + +GTLDGANVEI + VG EN ++FG E+ LR + +
Sbjct: 586 AGKEASGTSNMKAALNGALTLGTLDGANVEIYEHVGGENGWIFGETVEEVDALRADGYDP 645
Query: 685 KFVPDARFEEVK---KFVKSGVFGSYNYDELMGSLEGNEGFGQADYFLVGKDFPSYLECQ 741
+ EVK + G F ++ D +V DF +Y+ Q
Sbjct: 646 NALYYELENEVKPVLDEIIDGRFSPGWKSRFKNLIDSLLPKFGTDRMMVLYDFKAYVPAQ 705
Query: 742 EKVDEAYCDQKRWTRMSIMNTAGSSKFSSDRTIQEYARDIWNI 784
E+VD Y DQ+ WT+ +I+N A S FSSDRTI+EYA +IW+I
Sbjct: 706 EEVDALYRDQEAWTKKAILNIANSGLFSSDRTIREYAGEIWHI 748
Score = 260 bits (667), Expect = 7e-76
Identities = 109/260 (41%), Positives = 139/260 (53%), Gaps = 47/260 (18%)
Query: 1 MATLNYPAWGYGLRYKYGLFKQRITKDG-QEEVAEDWLELGNPWEIERNDVSYPVKFYGK 59
A L P GYGLRY+YG F+Q DG Q E+ ++WL+ GNPWE R+
Sbjct: 128 AADLGLPLTGYGLRYRYGYFRQSD-VDGWQVELPDEWLKYGNPWEFLRDAE--------- 177
Query: 60 IVPGSDGKSHWIGGEDIKAVAYDIPIPGYKTKTTINLRLWSTMVPSEDFDLSAFNAGDHT 119
V YD+P+PGY + LRLW V L FN G++
Sbjct: 178 ------------------GVPYDVPVPGYDN-RVVTLRLWQAQVGRVPLYLLDFNVGENK 218
Query: 120 KAAEALTNAEKICYILYPGDESVEGKVLRLKQQYTLCSASLQDIIARFEKRSGANVNWEE 179
+A I +LYPGD K LRLKQ+Y L SA +QDI+AR + +
Sbjct: 219 ------NDARNITRVLYPGDS----KELRLKQEYFLGSAGVQDILARGHLEHH---DLDV 265
Query: 180 FPEKVAVQMNDTHPTLCIPELIRILIDLKGLSWKEAWNITQRTVAYTNHTVLPEALEKWS 239
+ +NDTHP L IPEL+R+LID +GLSW EAW I ++T YTNHT LPEALE W
Sbjct: 266 LADH----LNDTHPALAIPELMRLLIDEEGLSWDEAWEIVRKTFVYTNHTPLPEALETWP 321
Query: 240 FELMQKLLPRHMEIIEMIDE 259
EL +KLLPRH++II I+
Sbjct: 322 VELFKKLLPRHLQIIYEINA 341
>gnl|CDD|184948 PRK14986, PRK14986, glycogen phosphorylase; Provisional.
Length = 815
Score = 425 bits (1095), Expect = e-137
Identities = 195/405 (48%), Positives = 273/405 (67%), Gaps = 15/405 (3%)
Query: 390 VRMANLCVVGSHAVNGVAEIHSEIVTNEVFNEFYKLWPEKFQNKTNGVTPRRWIRFCNPD 449
VRMA L VV SH VNGV+E+HS ++ +F +F K++P +F N TNGVTPRRW+ NP
Sbjct: 421 VRMAWLAVVVSHKVNGVSELHSNLMVQSLFADFAKIFPGRFCNVTNGVTPRRWLALANPS 480
Query: 450 LSSILTSWLGTEDWVTNTGKLAELRKFADNEDLQSQFRAAKRNNKMKVVSFIKEKTGYSV 509
LS++L +G W T+ +L+EL++ D + R AK NK ++ +I ++ V
Sbjct: 481 LSAVLDEHIG-RTWRTDLSQLSELKQHCDYPMVNHAVRQAKLENKKRLAEYIAQQLNVVV 539
Query: 510 SPDAMFDIQVKRIHEYKRQLMNILGIVYRYKKMKEMSAVERKAKFVPRVCIFGGKAFATY 569
+P A+FD+Q+KRIHEYKRQLMN+L ++ RY ++K + AK+VPRV IF GKA + Y
Sbjct: 540 NPKALFDVQIKRIHEYKRQLMNVLHVITRYNRIKA----DPDAKWVPRVNIFAGKAASAY 595
Query: 570 VQAKRIVKFITDVGATVNHDPEIGDLLKVIFVPDYNVSVAELLIPASELSQHISTAGMEA 629
AK I+ I DV +N+DP+IGD LKV+F+P+Y+VS+A+L+IPA++LS+ IS AG EA
Sbjct: 596 YMAKHIIHLINDVAKVINNDPQIGDKLKVVFIPNYSVSLAQLIIPAADLSEQISLAGTEA 655
Query: 630 SGTSNMKFAMNGCILIGTLDGANVEIRQEVGEENFFLFGARAHEIAGLRKE--RSEGKFV 687
SGTSNMKFA+NG + IGTLDGANVE+ + VGEEN F+FG A E+ LR++ + +
Sbjct: 656 SGTSNMKFALNGALTIGTLDGANVEMLEHVGEENIFIFGNTAEEVEALRRQGYKPREYYE 715
Query: 688 PDARFEEVKKFVKSGVFG---SYNYDELMGSLEGNEGFGQADYFLVGKDFPSYLECQEKV 744
D +V + SGVF Y +L+ SL FG D++ V D+ SY++CQ+KV
Sbjct: 716 KDEELHQVLTQIGSGVFSPEEPGRYRDLVDSL---INFG--DHYQVLADYRSYVDCQDKV 770
Query: 745 DEAYCDQKRWTRMSIMNTAGSSKFSSDRTIQEYARDIWNIIPVEL 789
DE Y +Q+ WTR +++N A FSSDRTI+EYA +IW+I PV L
Sbjct: 771 DELYRNQEEWTRKAMLNIANMGYFSSDRTIKEYADEIWHIDPVRL 815
Score = 265 bits (678), Expect = 6e-77
Identities = 123/280 (43%), Positives = 178/280 (63%), Gaps = 8/280 (2%)
Query: 1 MATLNYPAWGYGLRYKYGLFKQRITKDGQEEVAEDWLELGNPWEIERNDVSYPVKFYGKI 60
+ATL P GYG+RY YG+FKQ I Q+E + WLE GNPWE +R++ Y V+F G+I
Sbjct: 137 LATLGLPGRGYGIRYDYGMFKQNIVNGRQKESPDYWLEYGNPWEFKRHNTRYKVRFGGRI 196
Query: 61 -VPGSDGKSHWIGGEDIKAVAYDIPIPGYKTKTTINLRLWSTMVPSEDFDLSAFNAGDHT 119
G K+ WI E+I AVAYD IPGY T T LRLWS SE +L FN GD+
Sbjct: 197 QQEGK--KTRWIETEEILAVAYDQIIPGYDTDATNTLRLWSAQASSE-INLGKFNQGDYF 253
Query: 120 KAAEALTNAEKICYILYPGDESVEGKVLRLKQQYTLCSASLQDIIARFEKRSGANVNWEE 179
A E ++E + +LYP D + G+ LRL+Q+Y L SA++QDI++R + + ++
Sbjct: 254 AAVEDKNHSENVSRVLYPDDSTYSGRELRLRQEYFLVSATVQDILSRHYQ---LHKTYDN 310
Query: 180 FPEKVAVQMNDTHPTLCIPELIRILIDLKGLSWKEAWNITQRTVAYTNHTVLPEALEKWS 239
+K+A+ +NDTHP L IPEL+R+LID SW +A+ + + +YTNHT++ EALE W
Sbjct: 311 LADKIAIHLNDTHPVLSIPELMRLLIDEHKFSWDDAFEVCCQVFSYTNHTLMSEALETWP 370
Query: 240 FELMQKLLPRHMEIIEMIDEELVHTIVSEYGTADPDLLEK 279
+++ K+LPRH++II I++ + T+ +Y D DLL +
Sbjct: 371 VDMLGKILPRHLQIIFEINDYFLKTLQEQY-PNDTDLLGR 409
>gnl|CDD|233723 TIGR02094, more_P_ylases, alpha-glucan phosphorylases. This family
consists of known phosphorylases, and homologs believed
to share the function of using inorganic phosphate to
cleave an alpha 1,4 linkage between the terminal glucose
residue and the rest of the polymer (maltodextrin,
glycogen, etc.). The name of the glucose storage polymer
substrate, and therefore the name of this enzyme,
depends on the chain lengths and branching patterns. A
number of the members of this family have been shown to
operate on small maltodextrins, as may be obtained by
utilization of exogenous sources. This family represents
a distinct clade from the related family modeled by
TIGR02093/pfam00343.
Length = 601
Score = 88.9 bits (221), Expect = 3e-18
Identities = 66/283 (23%), Positives = 116/283 (40%), Gaps = 49/283 (17%)
Query: 392 MANLCVVGSHAVNGVAEIHSEIVTNEVFNEFYKLWPEK---FQNKTNGVTPRRWIRFCNP 448
M L + S NGV+++H E V+ +++ Y + E+ TNGV W P
Sbjct: 255 MTVLALRLSRIANGVSKLHGE-VSRKMWQFLYPGYEEEEVPIGYVTNGVHNPTW---VAP 310
Query: 449 DLSSILTSWLGTEDWVT--NTGKLAELRKFADNEDLQSQFRAAKRNNKMKVVSFIKEKTG 506
+L + +LG E+W +L E +E+L K +++ +I+ +
Sbjct: 311 ELRDLYERYLG-ENWRELLADEELWEAIDDIPDEELWE----VHLKLKARLIDYIRRRLR 365
Query: 507 YSVSPDAMFDIQVKRIHEYKRQLMN----------ILGIVYRYKKMKE----MSAVERKA 552
+ R LM +G R+ K +ER A
Sbjct: 366 ----------ERWLRRGADAAILMATDRFLDPDVLTIGFARRFATYKRADLIFRDLERLA 415
Query: 553 KFV-----PRVCIFGGKAFATYVQAKRIVKFITDVGATVNHDPEIGDLLKVIFVPDYNVS 607
+ + P +F GKA + K I++ I + PE +++F+ +Y+++
Sbjct: 416 RILNNPERPVQIVFAGKAHPADGEGKEIIQRI----VEFSKRPEFRG--RIVFLENYDIN 469
Query: 608 VAELLIPASELSQHISTAGMEASGTSNMKFAMNGCILIGTLDG 650
+A L+ ++ + +EASGTS MK AMNG + + LDG
Sbjct: 470 LARYLVSGVDVWLNNPRRPLEASGTSGMKAAMNGVLNLSILDG 512
Score = 62.3 bits (152), Expect = 7e-10
Identities = 52/250 (20%), Positives = 90/250 (36%), Gaps = 65/250 (26%)
Query: 4 LNYPAWGYGLRYKYGLFKQRITKDGQEEVAEDWLELGN-PWEIERNDVSYPVKFYGKIVP 62
L P GL YK G F+QR+ +DG ++ A + + P E +
Sbjct: 35 LGLPLVAVGLLYKQGYFRQRLDEDGWQQEAYPNNDFESLPIEKVLDT------------- 81
Query: 63 GSDGKSHWIGGEDIKAVAYDIPIPGYKTKTTINLRLWSTMVPSE-----DFDLSAFNAGD 117
G+ +K + I G + ++W V D ++ + D
Sbjct: 82 ---------DGKWLKI---SVRIRGRD----VYAKVWRVQVGRVPLYLLDTNIPENSEDD 125
Query: 118 HTKAAEALTNAEKICYILYPGDESVEGKVLRLKQQYTLCSASLQDIIARFEKRSGANVNW 177
I LY GD+ +R+ Q+ L ++ + A
Sbjct: 126 R-----------WITGRLYGGDKE-----MRIAQEIVLGIGGVRALRALGIDPDV----- 164
Query: 178 EEFPEKVAVQMNDTHPTLCIPELIRILIDLKGLSWKEAWNITQRTVAYTNHTVLPEALEK 237
+N+ H E IR LI +GLS++EAW +++ +T HT +P +
Sbjct: 165 --------YHLNEGHAAFVTLERIRELIA-QGLSFEEAWEAVRKSSLFTTHTPVPAGHDV 215
Query: 238 WSFELMQKLL 247
+ +LM+K
Sbjct: 216 FPEDLMRKYF 225
>gnl|CDD|99995 cd04299, GT1_Glycogen_Phosphorylase_like, This family is most
closely related to the oligosaccharide phosphorylase
domain family and other unidentified sequences.
Oligosaccharide phosphorylase catalyzes the breakdown of
oligosaccharides into glucose-1-phosphate units. They
are important allosteric enzymes in carbohydrate
metabolism. The members of this family are found in
bacteria and Archaea.
Length = 778
Score = 68.7 bits (169), Expect = 8e-12
Identities = 68/296 (22%), Positives = 125/296 (42%), Gaps = 51/296 (17%)
Query: 380 AEAVQEPPQLVRMANLCVVGSHAVNGVAEIHSEIVTNEVFNEFYKLWPEK---FQNKTNG 436
E + P+ MA L + + NGV+ +H E V+ E+F + +P + + TNG
Sbjct: 332 RENPGDDPEPFNMAVLALRLAQRANGVSRLHGE-VSREMFAGLWPGFPVEEVPIGHVTNG 390
Query: 437 VTPRRWIRFCNPDLSSILTSWLGTED-WVTNTGKLAELRKFADNEDLQSQFRAAKRNNKM 495
V W+ P++ + +LG + +L E +E+L ++ +
Sbjct: 391 VHVPTWV---APEMRELYDRYLGGDWRERPTDPELWEAVDDIPDEELWE----VRQQLRR 443
Query: 496 KVVSFIKEKT-------GYSVSPDAMFDIQVKRIHEYKRQL-MNILGI-----VYRYKK- 541
+++ F++ + G S I E L N+L I YK+
Sbjct: 444 RLIEFVRRRLRRQWLRRGASAE----------EIGEADDVLDPNVLTIGFARRFATYKRA 493
Query: 542 --MKEMSAVERKAKFV-----PRVCIFGGKAFATYVQAKRIVKFITDVGATVNHDPEIGD 594
+ + ER + + P IF GKA K +++ I + + PE
Sbjct: 494 TLL--LRDPERLKRLLNDPERPVQFIFAGKAHPADEPGKELIQEIVEF----SRRPEFRG 547
Query: 595 LLKVIFVPDYNVSVAELLIPASELSQHISTAGMEASGTSNMKFAMNGCILIGTLDG 650
+++F+ DY++++A L+ ++ + +EASGTS MK A+NG + + LDG
Sbjct: 548 --RIVFLEDYDMALARHLVQGVDVWLNTPRRPLEASGTSGMKAALNGGLNLSVLDG 601
Score = 50.6 bits (122), Expect = 2e-06
Identities = 61/252 (24%), Positives = 93/252 (36%), Gaps = 72/252 (28%)
Query: 4 LNYPAWGYGLRYKYGLFKQRITKDGQEEVAEDWLELGNPWEIERNDVSYPV-KFYG-KIV 61
L P G GL Y+ G F+QR+ DG W+ E YPV F +
Sbjct: 122 LGLPLVGVGLLYRQGYFRQRLDADG--------------WQQET----YPVNDFEQLPLE 163
Query: 62 PGSDGKSHWIGGEDIKAVAYDIPIPGYKTKTTINLRLWSTMVPSE-----DFDLSAFNAG 116
P D GE ++ + +PG T+ R+W V D D+ +
Sbjct: 164 PVRDAD-----GEPVRV---SVELPGR----TVYARVWKAQVGRVPLYLLDTDIPENSPD 211
Query: 117 DHTKAAEALTNAEKICYILYPGDESVEGKVLRLKQQYTLCSASLQDIIA--RFEKRSGAN 174
D I LY GD+ R++Q+ L I R + G
Sbjct: 212 DR-----------GITDRLYGGDQET-----RIQQEILLG-------IGGVRALRALG-- 246
Query: 175 VNWEEFPEKVAV-QMNDTHPTLCIPELIRILIDLKGLSWKEAWNITQRTVAYTNHTVLPE 233
K V MN+ H E IR L+ GLS+ EA + + +T HT +P
Sbjct: 247 -------IKPTVYHMNEGHAAFLGLERIRELMAEGGLSFDEALEAVRASTVFTTHTPVPA 299
Query: 234 ALEKWSFELMQK 245
+++ +L+++
Sbjct: 300 GHDRFPPDLVER 311
>gnl|CDD|227596 COG5271, MDN1, AAA ATPase containing von Willebrand factor type A
(vWA) domain [General function prediction only].
Length = 4600
Score = 41.1 bits (96), Expect = 0.003
Identities = 44/145 (30%), Positives = 61/145 (42%), Gaps = 21/145 (14%)
Query: 258 DEELVHTIVSEYGTADPDLLEKRLKETRILENVDLPATFADLFVKTKESTDVVPDDELEN 317
DEE + V PD+ E + E++DLP DL + KE DV D +LE+
Sbjct: 3955 DEEEMSDDVGIDDEIQPDIQENNSQPPPENEDLDLPE---DLKLDEKEG-DVSKDSDLED 4010
Query: 318 CDEEGGPVDEEL------ESAQEDGVLEEEST-----------DVVPDDELENCDEEGGP 360
D E ++E E Q++ LEE +T D+ DDE N D
Sbjct: 4011 MDMEAADENKEEADAEKDEPMQDEDPLEENNTLDEDIQQDDFSDLAEDDEKMNEDGFEEN 4070
Query: 361 VDEELESEQEDDVLEEEKEAEAVQE 385
V E ES ++ +EE E V E
Sbjct: 4071 VQENEESTEDGVKSDEELEQGEVPE 4095
Score = 38.1 bits (88), Expect = 0.023
Identities = 27/100 (27%), Positives = 42/100 (42%), Gaps = 9/100 (9%)
Query: 304 KESTDVVPDDEL---ENCDEEGGPVDEELESAQEDGVLEEESTDVVPDDELENCDEEGGP 360
+ S DV DDE+ + P + E ED L+E+ DV D +LE+ D E
Sbjct: 3958 EMSDDVGIDDEIQPDIQENNSQPPPENEDLDLPEDLKLDEKEGDVSKDSDLEDMDMEAAD 4017
Query: 361 VDEEL------ESEQEDDVLEEEKEAEAVQEPPQLVRMAN 394
++E E Q++D LEE + + +A
Sbjct: 4018 ENKEEADAEKDEPMQDEDPLEENNTLDEDIQQDDFSDLAE 4057
Score = 31.5 bits (71), Expect = 2.2
Identities = 31/133 (23%), Positives = 67/133 (50%), Gaps = 11/133 (8%)
Query: 258 DEELVHTIVSEYGTADPDLLEKRLKETRILENVDLPATFADLFVKTKESTDVVPDDELEN 317
D++L + +E TA+ L++ E R LE+ D+ D V E++D ++E ++
Sbjct: 3834 DDDLEE-LANEEDTANQSDLDE--SEARELES-DMNGVTKDSVVSENENSDS--EEENQD 3887
Query: 318 CDEEGGPVDEELESAQEDGVLEEESTDVVPDDELENCDEEGGPVDEELESEQED-----D 372
DEE + E+L ++ + + +E + + + + E ++ ++ + +L S+++D D
Sbjct: 3888 LDEEVNDIPEDLSNSLNEKLWDEPNEEDLLETEQKSNEQSAANNESDLVSKEDDNKALED 3947
Query: 373 VLEEEKEAEAVQE 385
+EKE E
Sbjct: 3948 KDRQEKEDEEEMS 3960
>gnl|CDD|217927 pfam04147, Nop14, Nop14-like family. Emg1 and Nop14 are novel
proteins whose interaction is required for the
maturation of the 18S rRNA and for 40S ribosome
production.
Length = 809
Score = 38.4 bits (90), Expect = 0.014
Identities = 29/77 (37%), Positives = 43/77 (55%), Gaps = 4/77 (5%)
Query: 312 DDELENCDEE--GGPVDEELESAQEDGVLEEESTDVVPDDELENCDEEGGPVDEELESEQ 369
DDE E D++ G EE E +EDGV +E+ D DD+LE +E+ DEE + E
Sbjct: 303 DDEFEPDDDDNFGLGQGEEDEEEEEDGVDDEDEEDD--DDDLEEEEEDVDLSDEEEDEED 360
Query: 370 EDDVLEEEKEAEAVQEP 386
ED E+++E E ++
Sbjct: 361 EDSDDEDDEEEEEEEKE 377
Score = 37.3 bits (87), Expect = 0.037
Identities = 23/74 (31%), Positives = 41/74 (55%), Gaps = 1/74 (1%)
Query: 312 DDELENCDEEGGPVDEELESAQEDGVLEEESTDVVPDDELENCDEEGGPVDEELESEQED 371
E+ +EE VD+E + +D LEEE DV DE E+ ++E +++ E E+E+
Sbjct: 317 GQGEEDEEEEEDGVDDE-DEEDDDDDLEEEEEDVDLSDEEEDEEDEDSDDEDDEEEEEEE 375
Query: 372 DVLEEEKEAEAVQE 385
+++K AE+ +
Sbjct: 376 KEKKKKKSAESTRS 389
Score = 33.8 bits (78), Expect = 0.39
Identities = 21/78 (26%), Positives = 39/78 (50%)
Query: 308 DVVPDDELENCDEEGGPVDEELESAQEDGVLEEESTDVVPDDELENCDEEGGPVDEELES 367
+ D+E E+ E +D+E E +D + + ++E DE+ D++LE
Sbjct: 285 EEEDDEEEEDSKESADDLDDEFEPDDDDNFGLGQGEEDEEEEEDGVDDEDEEDDDDDLEE 344
Query: 368 EQEDDVLEEEKEAEAVQE 385
E+ED L +E+E E ++
Sbjct: 345 EEEDVDLSDEEEDEEDED 362
>gnl|CDD|217503 pfam03344, Daxx, Daxx Family. The Daxx protein (also known as the
Fas-binding protein) is thought to play a role in
apoptosis, but precise role played by Daxx remains to be
determined. Daxx forms a complex with Axin.
Length = 715
Score = 37.2 bits (86), Expect = 0.033
Identities = 24/94 (25%), Positives = 36/94 (38%), Gaps = 5/94 (5%)
Query: 304 KESTDVV--PDDELENCDEEGGPVDEELESAQEDGVLEEESTDVVPDDELENCDEEGGPV 361
K S+ P + +EE +EE E +E+ +E + D+E E E
Sbjct: 423 KASSTSGESPSMASQESEEEESVEEEEEEEEEEEEEEQESEEEEGEDEEEEEEVEADNGS 482
Query: 362 DEELESEQE---DDVLEEEKEAEAVQEPPQLVRM 392
+EE+E E D EE E + RM
Sbjct: 483 EEEMEGSSEGDGDGEEPEEDAERRNSEMAGISRM 516
Score = 30.7 bits (69), Expect = 3.6
Identities = 19/93 (20%), Positives = 36/93 (38%), Gaps = 5/93 (5%)
Query: 301 VKTKESTDVVPDDELENCDEEGGPVDEELESAQEDGVLEEE-----STDVVPDDELENCD 355
V+ +E + ++E + +EE G +EE E + D EEE D ++ E+ +
Sbjct: 445 VEEEEEEEEEEEEEEQESEEEEGEDEEEEEEVEADNGSEEEMEGSSEGDGDGEEPEEDAE 504
Query: 356 EEGGPVDEELESEQEDDVLEEEKEAEAVQEPPQ 388
+ + + E+ QE P
Sbjct: 505 RRNSEMAGISRMSEGQQPRGSSVQPESPQEEPL 537
>gnl|CDD|219069 pfam06512, Na_trans_assoc, Sodium ion transport-associated.
Members of this family contain a region found
exclusively in eukaryotic sodium channels or their
subunits, many of which are voltage-gated. Members very
often also contain between one and four copies of
pfam00520 and, less often, one copy of pfam00612.
Length = 230
Score = 35.8 bits (83), Expect = 0.059
Identities = 23/70 (32%), Positives = 32/70 (45%), Gaps = 9/70 (12%)
Query: 313 DELENCDEEGGPVDEELESAQEDGVLEEESTDVVPDDELENCD---EEGGPVDEELESEQ 369
+LEN + DE+ S G EE +LE D EG VD E E+
Sbjct: 112 SDLENLN------DEDTSSESSYGFKEESKKGSAETLKLEEKDSSSSEGSTVDLEPPEEE 165
Query: 370 EDDVLEEEKE 379
E+++ EEE+E
Sbjct: 166 EEEIAEEEEE 175
>gnl|CDD|223003 PHA03169, PHA03169, hypothetical protein; Provisional.
Length = 413
Score = 35.3 bits (81), Expect = 0.11
Identities = 15/74 (20%), Positives = 21/74 (28%), Gaps = 1/74 (1%)
Query: 314 ELENCDEEGGPVDEELESAQEDGVLEEESTDVVPD-DELENCDEEGGPVDEELESEQEDD 372
E+ EE P E E E T P + E P ++ S
Sbjct: 170 SHEDSPEEPEPPTSEPEPDSPGPPQSETPTSSPPPQSPPDEPGEPQSPTPQQAPSPNTQQ 229
Query: 373 VLEEEKEAEAVQEP 386
+E E E +
Sbjct: 230 AVEHEDEPTEPERE 243
Score = 30.7 bits (69), Expect = 2.9
Identities = 15/87 (17%), Positives = 21/87 (24%), Gaps = 1/87 (1%)
Query: 303 TKESTDVVPDDELENCDEEGGPVDEELESAQEDGVLEEESTDVVPDDELENCDEEGGPVD 362
T S+ P P E + + E+ EE P
Sbjct: 123 TSGSSPESPASHSPPPSPPSHPGPHEPAPPESHNPSPNQQPSSFLQPSHEDSPEEPEPPT 182
Query: 363 EELESEQED-DVLEEEKEAEAVQEPPQ 388
E E + E + Q PP
Sbjct: 183 SEPEPDSPGPPQSETPTSSPPPQSPPD 209
>gnl|CDD|217840 pfam04006, Mpp10, Mpp10 protein. This family includes proteins
related to Mpp10 (M phase phosphoprotein 10). The U3
small nucleolar ribonucleoprotein (snoRNP) is required
for three cleavage events that generate the mature 18S
rRNA from the pre-rRNA. In Saccharomyces cerevisiae,
depletion of Mpp10, a U3 snoRNP-specific protein, halts
18S rRNA production and impairs cleavage at the three U3
snoRNP-dependent sites.
Length = 613
Score = 35.7 bits (82), Expect = 0.11
Identities = 24/117 (20%), Positives = 53/117 (45%), Gaps = 3/117 (2%)
Query: 272 ADPDLLEKRLKETRILENVDLPATFADLFVKTKESTDVVPDDELENCDEEGGPVDEELES 331
DL +K ++ E++ + A D ++ +D D ++ D+E +EE ES
Sbjct: 70 ILDDLNQKYVEFLINKEHIRVLAKLQDS-ESHEDGSDGSDMDSEDSADDEEE--EEEDES 126
Query: 332 AQEDGVLEEESTDVVPDDELENCDEEGGPVDEELESEQEDDVLEEEKEAEAVQEPPQ 388
+++ + +E+ D+ + E D +++ E + E++ EEKE+ +
Sbjct: 127 LEDEMIDDEDEADLFNESESSLEDLSDDETEDDEEKKMEEEEAGEEKESVEQATREK 183
Score = 30.7 bits (69), Expect = 3.2
Identities = 18/89 (20%), Positives = 33/89 (37%), Gaps = 4/89 (4%)
Query: 298 DLFVKTKESTDVVPDDELENCDEEGGPVDEELESAQEDGVLEEESTDVVPDDELENCDEE 357
D + ++ D+ + E D +++ E E+ EE V + D+
Sbjct: 129 DEMIDDEDEADLFNESESSLEDLSDDETEDDEEKKMEEEEAGEEKESVEQATREKKFDKS 188
Query: 358 GGPVDEEL--ESEQEDDVLEEEKEAEAVQ 384
G VD++ E + + E E EA
Sbjct: 189 G--VDDKFFKLDEMNEFLEATEAEEEAAL 215
Score = 29.6 bits (66), Expect = 7.3
Identities = 18/118 (15%), Positives = 44/118 (37%), Gaps = 2/118 (1%)
Query: 274 PDLLEKRLKETRILENVDLPATFADLFVKTKESTDVVPDDELENCDEEGGPVDEELESAQ 333
+L+ L +I + + L + K ++ + + + E S
Sbjct: 47 DELVVDGLDAEQIWQQLKLQNKPILDDLNQKYVEFLINKEHIRVLAKLQDSESHEDGSDG 106
Query: 334 EDGVLEEESTDVVPDDELENCDEEGGPVDEE--LESEQEDDVLEEEKEAEAVQEPPQL 389
D E+ + D ++E E+ ++E ++E L +E E + + + E ++
Sbjct: 107 SDMDSEDSADDEEEEEEDESLEDEMIDDEDEADLFNESESSLEDLSDDETEDDEEKKM 164
>gnl|CDD|235640 PRK05901, PRK05901, RNA polymerase sigma factor; Provisional.
Length = 509
Score = 35.4 bits (82), Expect = 0.13
Identities = 22/131 (16%), Positives = 51/131 (38%), Gaps = 1/131 (0%)
Query: 258 DEELVHTIVSEYGTADPDLLEKRLKETRILENVDLPATFADLFVKTKESTDVVPDDELEN 317
+ +V + A + K+ +T L + S + L+
Sbjct: 55 VLIFLSGMVKDTDDATESDIPKKKTKTAAKAAAAKAPAKKKLKDELDSSKKAEKKNALDK 114
Query: 318 CDEEGGPVDEELESAQEDGVLEEESTDVVPDDELENCDEEGG-PVDEELESEQEDDVLEE 376
D+ D ++ + +D +++ D+ DD ++ D+E D++ + + ED+ +E
Sbjct: 115 DDDLNYVKDIDVLNQADDDDDDDDDDDLDDDDIDDDDDDEDDDEDDDDDDVDDEDEEKKE 174
Query: 377 EKEAEAVQEPP 387
KE E + +
Sbjct: 175 AKELEKLSDDD 185
Score = 32.7 bits (75), Expect = 0.87
Identities = 14/89 (15%), Positives = 35/89 (39%), Gaps = 2/89 (2%)
Query: 302 KTKESTDVVPDDELENCDEEGGPVDEELESAQEDGVLEEESTDVVPDDELENCDEEGGPV 361
D+ ++ ++ D++ D + + +D E++ D DD + ++E
Sbjct: 117 DLNYVKDIDVLNQADDDDDDDDDDDLDDDDIDDDDDDEDDDEDDDDDDVDD--EDEEKKE 174
Query: 362 DEELESEQEDDVLEEEKEAEAVQEPPQLV 390
+ELE +DD +++ +
Sbjct: 175 AKELEKLSDDDDFVWDEDDSEALRQARKD 203
Score = 31.5 bits (72), Expect = 1.7
Identities = 20/87 (22%), Positives = 35/87 (40%)
Query: 270 GTADPDLLEKRLKETRILENVDLPATFADLFVKTKESTDVVPDDELENCDEEGGPVDEEL 329
D D +K+ +L D D + D DDE ++ D++ VD+E
Sbjct: 110 NALDKDDDLNYVKDIDVLNQADDDDDDDDDDDLDDDDIDDDDDDEDDDEDDDDDDVDDED 169
Query: 330 ESAQEDGVLEEESTDVVPDDELENCDE 356
E +E LE+ S D + ++ +
Sbjct: 170 EEKKEAKELEKLSDDDDFVWDEDDSEA 196
Score = 31.5 bits (72), Expect = 2.1
Identities = 18/95 (18%), Positives = 38/95 (40%), Gaps = 3/95 (3%)
Query: 294 ATFADLFVKTKESTDVVPDDELENCDEEGGPVDEELES---AQEDGVLEEESTDVVPDDE 350
+L K D + + + V + + +D L+++ D DDE
Sbjct: 95 KLKDELDSSKKAEKKNALDKDDDLNYVKDIDVLNQADDDDDDDDDDDLDDDDIDDDDDDE 154
Query: 351 LENCDEEGGPVDEELESEQEDDVLEEEKEAEAVQE 385
++ D++ VD+E E ++E LE+ + +
Sbjct: 155 DDDEDDDDDDVDDEDEEKKEAKELEKLSDDDDFVW 189
>gnl|CDD|226920 COG4547, CobT, Cobalamin biosynthesis protein CobT
(nicotinate-mononucleotide:5, 6-dimethylbenzimidazole
phosphoribosyltransferase) [Coenzyme metabolism].
Length = 620
Score = 35.2 bits (81), Expect = 0.13
Identities = 36/164 (21%), Positives = 61/164 (37%), Gaps = 13/164 (7%)
Query: 229 TVLPEALEKWSFELMQKLLPRHMEIIE--MIDEELVHTIVSEYGTADPDLLEKRLKE--- 283
+L E +K +F +E ++ E+L + DL +++
Sbjct: 130 AMLEEKYDKANFSKRTDKEDAPLEEAVALLVREKLTGDAPPDSAGKVLDLWRDEIEDKAG 189
Query: 284 ---TRILENVDLPATFADLFVKTKESTDV---VPDDEL-ENCDEEGGPVDEELESAQED- 335
+ +D FA + S D+ DD + E+ DEE G D+ + +
Sbjct: 190 EDLDGLAAEIDDQQAFARVVRDMLGSMDMAEETGDDGIEEDADEEDGDDDQPDNNEDSEA 249
Query: 336 GVLEEESTDVVPDDELENCDEEGGPVDEELESEQEDDVLEEEKE 379
G E E +D +DE E D EG + + ED +E E
Sbjct: 250 GREESEGSDESEEDEAEATDGEGEEGEMDAAEASEDSESDESDE 293
Score = 31.4 bits (71), Expect = 2.3
Identities = 23/96 (23%), Positives = 38/96 (39%), Gaps = 7/96 (7%)
Query: 286 ILENVDLPATFADLFVK-TKESTDVVPDDELENCDEEGGPVDEELESAQEDGVLEEESTD 344
+L ++D+ D ++ + D D N D E G ES D E+E+
Sbjct: 212 MLGSMDMAEETGDDGIEEDADEEDGDDDQPDNNEDSEAG----REESEGSDESEEDEAEA 267
Query: 345 VVPDDELENCDEEGGPVDEELESEQEDDVLEEEKEA 380
D E E + + E+ ES++ D+ E E
Sbjct: 268 T--DGEGEEGEMDAAEASEDSESDESDEDTETPGED 301
>gnl|CDD|220972 pfam11081, DUF2890, Protein of unknown function (DUF2890). This
family is conserved in dsDNA adenoviruses of
vertebrates. The function is not known.
Length = 172
Score = 33.7 bits (77), Expect = 0.17
Identities = 17/42 (40%), Positives = 24/42 (57%), Gaps = 2/42 (4%)
Query: 347 PDDELENCDEEGGPV--DEELESEQEDDVLEEEKEAEAVQEP 386
DE E+ D + V DEE + ED + EE++EAE V+E
Sbjct: 17 TKDEEEDWDSQAEEVEEDEEEMEDWEDSLDEEDEEAEEVEEE 58
>gnl|CDD|173534 PTZ00341, PTZ00341, Ring-infected erythrocyte surface antigen;
Provisional.
Length = 1136
Score = 35.1 bits (80), Expect = 0.19
Identities = 26/80 (32%), Positives = 40/80 (50%), Gaps = 3/80 (3%)
Query: 310 VPDDELE---NCDEEGGPVDEELESAQEDGVLEEESTDVVPDDELENCDEEGGPVDEELE 366
V D+E E + +EE VDE +E D E++S D + + N E V+E +E
Sbjct: 436 VEDNEEEHSGDANEEELSVDEHVEEHNADDSGEQQSDDESGEHQSVNEIVEEQSVNEHVE 495
Query: 367 SEQEDDVLEEEKEAEAVQEP 386
D++E+E E V+EP
Sbjct: 496 EPTVADIVEQETVDEHVEEP 515
>gnl|CDD|218538 pfam05285, SDA1, SDA1. This family consists of several SDA1
protein homologues. SDA1 is a Saccharomyces cerevisiae
protein which is involved in the control of the actin
cytoskeleton. The protein is essential for cell
viability and is localised in the nucleus.
Length = 317
Score = 34.2 bits (79), Expect = 0.21
Identities = 14/74 (18%), Positives = 31/74 (41%), Gaps = 2/74 (2%)
Query: 312 DDELENCDEEGGPVDEELESAQEDGVLEEESTDVVPDDELENCDEEGGPVDEELESEQED 371
+E E ++ + + +E+ EE D + E + + + E +SE E+
Sbjct: 79 KEEERKKKEAEQGLESDDDDDEEEEWEVEEDEDSDDEGEWIDVESDKE--IESSDSEDEE 136
Query: 372 DVLEEEKEAEAVQE 385
+ E K+A+ +
Sbjct: 137 EKDEAAKKAKEDSD 150
Score = 30.0 bits (68), Expect = 4.2
Identities = 16/71 (22%), Positives = 33/71 (46%), Gaps = 2/71 (2%)
Query: 312 DDELENCDEEGGPVDEELESAQEDGVLEEESTDVVPDDELENCDEEGGPVDEELESEQED 371
+E E+ D+EG +D ES +E + E + + + ++ + EE E E +
Sbjct: 106 VEEDEDSDDEGEWIDV--ESDKEIESSDSEDEEEKDEAAKKAKEDSDEELSEEDEEEAAE 163
Query: 372 DVLEEEKEAEA 382
+ E ++ +A
Sbjct: 164 EEEAEAEKEKA 174
>gnl|CDD|233191 TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger. [Transport and
binding proteins, Cations and iron carrying compounds].
Length = 1096
Score = 35.0 bits (80), Expect = 0.22
Identities = 20/99 (20%), Positives = 38/99 (38%), Gaps = 14/99 (14%)
Query: 303 TKESTDVVPDDELENCDEEGGPVDEELESAQEDGVLEEESTDVVPDDELENCDEEGG--- 359
V + E E +++ E ++ + E ++ +++ E +E G
Sbjct: 795 EGAEGKVEHEGETEAGEKDEHEGQSETQADDTEVKDETGEQELNAENQGEAKQDEKGVDG 854
Query: 360 -----------PVDEELESEQEDDVLEEEKEAEAVQEPP 387
+EE E E+E++ EEE+E E E P
Sbjct: 855 GGGSDGGDSEEEEEEEEEEEEEEEEEEEEEEEEEENEEP 893
Score = 30.3 bits (68), Expect = 5.2
Identities = 20/64 (31%), Positives = 29/64 (45%), Gaps = 1/64 (1%)
Query: 319 DEEGGPVDEELESAQED-GVLEEESTDVVPDDELENCDEEGGPVDEELESEQEDDVLEEE 377
+E G + E + QE G +E + D + E E + EG E E E E + EE
Sbjct: 679 NESEGEIPAERKGEQEGEGEIEAKEADHKGETEAEEVEHEGETEAEGTEDEGEIETGEEG 738
Query: 378 KEAE 381
+E E
Sbjct: 739 EEVE 742
Score = 30.0 bits (67), Expect = 6.1
Identities = 20/71 (28%), Positives = 34/71 (47%), Gaps = 5/71 (7%)
Query: 312 DDELENCDEEGGPVDEELESAQEDGVLEEESTDVVPDDELENCDEEGGPVDEELESEQED 371
+ E E+ G + E + A G E E + + E E ++EG E+E+ +E
Sbjct: 684 EIPAERKGEQEGEGEIEAKEADHKGETEAEEVEHEGETEAEGTEDEG-----EIETGEEG 738
Query: 372 DVLEEEKEAEA 382
+ +E+E E EA
Sbjct: 739 EEVEDEGEGEA 749
>gnl|CDD|130712 TIGR01651, CobT, cobaltochelatase, CobT subunit. This model
describes Pseudomonas denitrificans CobT gene product,
which is a cobalt chelatase subunit that functions in
cobalamin biosynthesis. Cobalamin (vitamin B12) can be
synthesized via several pathways, including an aerobic
pathway (found in Pseudomonas denitrificans) and an
anaerobic pathway (found in P. shermanii and Salmonella
typhimurium). These pathways differ in the point of
cobalt insertion during corrin ring formation. There are
apparently a number of variations on these two pathways,
where the major differences seem to be concerned with
the process of ring contraction. Confusion regarding the
functions of enzymes found in the aerobic vs. anaerobic
pathways has arisen because nonhomologous genes in these
different pathways were given the same gene symbols.
Thus, cobT in the aerobic pathway (P. denitrificans) is
not a homolog of cobT in the anaerobic pathway (S.
typhimurium). It should be noted that E. coli
synthesizes cobalamin only when it is supplied with the
precursor cobinamide, which is a complex intermediate.
Additionally, all E. coli cobalamin synthesis genes
(cobU, cobS and cobT) were named after their Salmonella
typhimurium homologs which function in the anaerobic
cobalamin synthesis pathway. This model describes the
aerobic cobalamin pathway Pseudomonas denitrificans CobT
gene product, which is a cobalt chelatase subunit, with
a MW ~70 kDa. The aerobic pathway cobalt chelatase is a
heterotrimeric, ATP-dependent enzyme that catalyzes
cobalt insertion during cobalamin biosynthesis. The
other two subunits are the P. denitrificans CobS
(TIGR01650) and CobN (pfam02514 CobN/Magnesium
Chelatase) proteins. To avoid potential confusion with
the nonhomologous Salmonella typhimurium/E.coli cobT
gene product, the P. denitrificans gene symbol is not
used in the name of this model [Biosynthesis of
cofactors, prosthetic groups, and carriers, Heme,
porphyrin, and cobalamin].
Length = 600
Score = 34.5 bits (79), Expect = 0.26
Identities = 26/101 (25%), Positives = 43/101 (42%), Gaps = 7/101 (6%)
Query: 286 ILENVDLPATFADLFVKTKESTDVVPDDELENCDEEGGPVDEELESAQEDGVLEEESTDV 345
+L +++L D ++++ D D EN EE G E E ++G +ES
Sbjct: 193 MLRSMELAEEMGDD-TESEDEEDGDDDQPTENEQEEQG----EGEGEGQEGSAPQESE-- 245
Query: 346 VPDDELENCDEEGGPVDEELESEQEDDVLEEEKEAEAVQEP 386
D E E+ +EE D++ ++ DD E E P
Sbjct: 246 ATDRESESGEEEMVQSDQDDLPDESDDDSETPGEGARPARP 286
Score = 34.1 bits (78), Expect = 0.28
Identities = 25/83 (30%), Positives = 41/83 (49%), Gaps = 3/83 (3%)
Query: 313 DELENCDEEGGPVDEELESAQED-GVLEEESTDVVPDDELENCDEEGGPVDEELESEQED 371
D+ E+ DEE G D+ E+ QE+ G E E + E E D E +EE+ + +
Sbjct: 205 DDTESEDEEDGDDDQPTENEQEEQGEGEGEGQEGSAPQESEATDRESESGEEEM-VQSDQ 263
Query: 372 DVLEEEKEAEAVQEPPQLVRMAN 394
D L +E + ++ + P + R A
Sbjct: 264 DDLPDESDDDS-ETPGEGARPAR 285
>gnl|CDD|99959 cd01635, Glycosyltransferase_GTB_type, Glycosyltransferases
catalyze the transfer of sugar moieties from activated
donor molecules to specific acceptor molecules, forming
glycosidic bonds. The acceptor molecule can be a lipid,
a protein, a heterocyclic compound, or another
carbohydrate residue. The structures of the formed
glycoconjugates are extremely diverse, reflecting a wide
range of biological functions. The members of this
family share a common GTB topology, one of the two
protein topologies observed for
nucleotide-sugar-dependent glycosyltransferases. GTB
proteins have distinct N- and C- terminal domains each
containing a typical Rossmann fold. The two domains have
high structural homology despite minimal sequence
homology. The large cleft that separates the two domains
includes the catalytic center and permits a high degree
of flexibility.
Length = 229
Score = 33.4 bits (76), Expect = 0.29
Identities = 21/151 (13%), Positives = 40/151 (26%), Gaps = 31/151 (20%)
Query: 518 QVKRIHEYKRQLMNILGIVYRYKKMKEMSAVERKAKFVPRVCIFGGKAFATYVQAKRIVK 577
V R+ K I + K + + G + +
Sbjct: 109 FVGRLAPEKGLDDLIE------------AFALLKERGPDLKLVIAGDGPEREYLEELLAA 156
Query: 578 FITDVGATVNHDPEIGDLLKVIFVPDYNVSVAELLIPA-SELSQHISTAGMEASGTSNMK 636
+ L +VIF+ + L+ A +++ + + E G ++
Sbjct: 157 --------------LLLLDRVIFLGGLDPEELLALLLAAADVF--VLPSLREGFGLVVLE 200
Query: 637 FAMNGCILIGTLDGANVEIRQEVGEENFFLF 667
G +I T G EI L
Sbjct: 201 AMACGLPVIATDVGGPPEI--VEDGLTGLLV 229
>gnl|CDD|148630 pfam07133, Merozoite_SPAM, Merozoite surface protein (SPAM). This
family consists of several Plasmodium falciparum SPAM
(secreted polymorphic antigen associated with
merozoites) proteins. Variation among SPAM alleles is
the result of deletions and amino acid substitutions in
non-repetitive sequences within and flanking the alanine
heptad-repeat domain. Heptad repeats in which the a and
d position contain hydrophobic residues generate
amphipathic alpha-helices which give rise to helical
bundles or coiled-coil structures in proteins. SPAM is
an example of a P. falciparum antigen in which a
repetitive sequence has features characteristic of a
well-defined structural element.
Length = 164
Score = 32.9 bits (75), Expect = 0.36
Identities = 25/101 (24%), Positives = 52/101 (51%), Gaps = 7/101 (6%)
Query: 282 KETRILENVDLPATFADLFVKTKESTDVVPDDELENCDEEGGPVDEELESAQEDGVLEEE 341
K+ +LE+V + + + +K E V D++ E+ +EE +EE+E ++ E+
Sbjct: 18 KDENLLEHVKITSWDKEDIIKENED---VKDEKQEDDEEEEEEDEEEIEEPEDI----ED 70
Query: 342 STDVVPDDELENCDEEGGPVDEELESEQEDDVLEEEKEAEA 382
++V D+E E DEE +++E + +D+ ++ A
Sbjct: 71 EEEIVEDEEEEEEDEEDNVDLKDIEKKNINDIFNSTQDDNA 111
>gnl|CDD|177354 PHA02151, PHA02151, hypothetical protein.
Length = 217
Score = 33.0 bits (75), Expect = 0.40
Identities = 22/84 (26%), Positives = 33/84 (39%), Gaps = 19/84 (22%)
Query: 60 IVPGSDGKSHWIGGEDIKAVAYDIPIPGYKTKTTINLRLWSTMVPSEDFDLSAFNAGDHT 119
I+ G G W+ +DI +D+P P + + + W TM HT
Sbjct: 91 ILGGLTGVMDWLDNDDI---TFDVPTPDFNLEIKTSFNRWPTM---------------HT 132
Query: 120 KAAEALTNAEKIC-YILYPGDESV 142
AE A+ +C Y Y G+ V
Sbjct: 133 AGAEPYGRADGLCLYAGYKGNADV 156
>gnl|CDD|227563 COG5238, RNA1, Ran GTPase-activating protein (RanGAP) involved in
mRNA processing and transport [Signal transduction
mechanisms / RNA processing and modification].
Length = 388
Score = 33.4 bits (76), Expect = 0.41
Identities = 29/121 (23%), Positives = 44/121 (36%), Gaps = 8/121 (6%)
Query: 262 VHTIVSEYGTADPDLLEKRLKETRILENVDLPATFADLFVKTKESTDVVPDDELENCDEE 321
+ + +Y ++ + V L + KE D D E+ E
Sbjct: 274 LMPLPGDYNERRGGIILDISLNEFEQDAVPLLVDLERNGNRIKELADFG--DYYEDIFE- 330
Query: 322 GGPVDEELESAQEDGVLEEESTDVVPDDELENCDE-EGGPVDEELESEQEDDVLEEEKEA 380
E+ QE V+ EESTD +DE+E + + EL Q DD+ E E
Sbjct: 331 ----VVEVVEKQEGDVVTEESTDEESEDEVEIDESVIEEVAEMELLEVQVDDLAERLAET 386
Query: 381 E 381
E
Sbjct: 387 E 387
>gnl|CDD|227693 COG5406, COG5406, Nucleosome binding factor SPN, SPT16 subunit
[Transcription / DNA replication, recombination, and
repair / Chromatin structure and dynamics].
Length = 1001
Score = 33.4 bits (76), Expect = 0.55
Identities = 19/72 (26%), Positives = 36/72 (50%), Gaps = 8/72 (11%)
Query: 320 EEGG------PVDEELESAQEDGVLEEESTDVVPDDELENCDEEGGPVDEELESEQEDDV 373
E+GG D+E + ++E+ V E E++ DE + DEE E+L ++ ++
Sbjct: 916 EDGGWSFLMVGSDDESDESEEE-VSEYEASSDDESDETDE-DEESDESSEDLSEDESEND 973
Query: 374 LEEEKEAEAVQE 385
+E++ E E
Sbjct: 974 SSDEEDGEDWDE 985
>gnl|CDD|227466 COG5137, COG5137, Histone chaperone involved in gene silencing
[Transcription / Chromatin structure and dynamics].
Length = 279
Score = 32.7 bits (74), Expect = 0.62
Identities = 25/146 (17%), Positives = 49/146 (33%), Gaps = 3/146 (2%)
Query: 243 MQKLLPRHMEIIEMIDEEL-VHTIVSEYGTADPDLLEKRLKETRILENVDLPATFADLFV 301
+ +E E++ + E P + + +N + P D+
Sbjct: 117 YPGITKLEKSDVEEPSEKVDEEDVEREILAEKPRVTRFNIVWDNDEDNDEAPPAQPDVDN 176
Query: 302 KTKESTDVVPDDELENCDEEGGPVDEELESAQEDGVLEEESTDVVPDDELENCDE--EGG 359
+ +E + E E +E G E + EE +D ++ E +
Sbjct: 177 EEEERLEESDGREEEEDEEVGSDSYGEGNRELNEEEEEEAEGSDDGEDVVDYEGERIDKK 236
Query: 360 PVDEELESEQEDDVLEEEKEAEAVQE 385
+EE E+ ++ E E E E+ E
Sbjct: 237 QGEEEEMEEEVINLFEIEWEEESPSE 262
>gnl|CDD|218752 pfam05793, TFIIF_alpha, Transcription initiation factor IIF, alpha
subunit (TFIIF-alpha). Transcription initiation factor
IIF, alpha subunit (TFIIF-alpha) or RNA polymerase
II-associating protein 74 (RAP74) is the large subunit
of transcription factor IIF (TFIIF), which is essential
for accurate initiation and stimulates elongation by RNA
polymerase II.
Length = 528
Score = 32.6 bits (74), Expect = 0.81
Identities = 17/93 (18%), Positives = 34/93 (36%), Gaps = 4/93 (4%)
Query: 302 KTKESTDVVPDDELENCDEEGGPVDEELESAQEDGVLEEESTDVVPDDELENCDEEGGPV 361
+ D + + ++ D+EG D S + E + E+ E
Sbjct: 261 GKRGGDDDADEYDSDDGDDEGREED--YISDSSASGNDPEEREDKLSPEIPAKPEIE--Q 316
Query: 362 DEELESEQEDDVLEEEKEAEAVQEPPQLVRMAN 394
DE+ E +E+ EE ++ ++ +L N
Sbjct: 317 DEDSEESEEEKNEEEGGLSKKGKKLKKLKGKKN 349
>gnl|CDD|148051 pfam06213, CobT, Cobalamin biosynthesis protein CobT. This family
consists of several bacterial cobalamin biosynthesis
(CobT) proteins. CobT is involved in the transformation
of precorrin-3 into cobyrinic acid.
Length = 282
Score = 32.1 bits (73), Expect = 0.88
Identities = 20/98 (20%), Positives = 34/98 (34%), Gaps = 11/98 (11%)
Query: 285 RILENVDLPATFADLFVKTKESTDVVP---DDELENCDEEGGPVDEELESAQEDGVLEEE 341
R+ VD FA + S D+ D+ E+ D+ E +D EEE
Sbjct: 184 RLAACVDDQQAFARVVRDMLSSMDMAEELGDEPESADSEDNEDEDDPKEDEDDDQGEEEE 243
Query: 342 STDV--------VPDDELENCDEEGGPVDEELESEQED 371
S +E+E+ + E + + +D
Sbjct: 244 SGSSDSLSEDSDASSEEMESGEMEAAEASADDTPDSDD 281
>gnl|CDD|227519 COG5192, BMS1, GTP-binding protein required for 40S ribosome
biogenesis [Translation, ribosomal structure and
biogenesis].
Length = 1077
Score = 32.4 bits (73), Expect = 1.0
Identities = 22/118 (18%), Positives = 43/118 (36%), Gaps = 8/118 (6%)
Query: 273 DPDLLEKRLKETRILENVDLPATFADLFVKTKESTDVVPDDELENCDEEGGPVD-----E 327
+P+ K + + F + K+ + +L++ ++ +D E
Sbjct: 536 EPEDFFDVSKVANESISSNHEKLMESEFEELKKKWSSL--AQLKSRFQKDATLDSIEGEE 593
Query: 328 ELESAQEDGVLEEESTDVVPDDELENCDEEGGPVDEELESEQEDDVLEEEKEAEAVQE 385
EL E G E+ D + E + G V E E ++ E E+E A ++
Sbjct: 594 ELIQDDEKGNFEDLE-DEENSSDNEMEESRGSSVTAENEESADEVDYETEREENARKK 650
Score = 29.7 bits (66), Expect = 8.3
Identities = 32/173 (18%), Positives = 64/173 (36%), Gaps = 13/173 (7%)
Query: 208 KGLSWKEAWNITQRTVAYTNHTVLPEALEKWSFELMQKLLPRHMEIIEMIDEELVHTIVS 267
S K NI + + Y E +E++ E + +++ + E +
Sbjct: 491 YSQSGKRGRNIQK--IFYDESLSPEECIEEYKGESAKS---SESDLVVQDEPEDFFDVSK 545
Query: 268 EYGTADPDLLEKRLKET--RILENVDLPATFADLFVKTKESTDVVPDDELENCDEEGGPV 325
+ EK ++ + + A F K + ++EL DE+G
Sbjct: 546 VANESISSNHEKLMESEFEELKKKWSSLAQLKSRFQKDATLDSIEGEEELIQDDEKGNFE 605
Query: 326 DEELESAQEDGVLEEESTDVVPDDELENCDEEGGPVDEELESEQEDDVLEEEK 378
D E E D +EE V + E+ D + + E+E+E++ ++E+
Sbjct: 606 DLEDEENSSDNEMEESRGSSVTAENEESAD------EVDYETEREENARKKEE 652
>gnl|CDD|227880 COG5593, COG5593, Nucleic-acid-binding protein possibly involved in
ribosomal biogenesis [Translation, ribosomal structure
and biogenesis].
Length = 821
Score = 31.9 bits (72), Expect = 1.6
Identities = 30/117 (25%), Positives = 51/117 (43%), Gaps = 8/117 (6%)
Query: 268 EYGTADPDLLEKRLKETRILENVDLPATFADLFVKTKESTDVVPDDE--LENCDEEGGPV 325
D + + L ++R +V+ + ++L + +D DDE L+ D+E
Sbjct: 681 SDDEMDENEIWSALVKSR--PDVEDDSDDSELDFAEDDFSDSTSDDEPKLDAIDDEDAKS 738
Query: 326 DEELESAQEDGVLEEESTDVVPDDELENCDEEGGPVDEELESEQEDDVLEEEKEAEA 382
+ ES QE+G+ E + D ++ E EE ES +E+ EE KE A
Sbjct: 739 EGSQESDQEEGLDEIFYSFDGEQDNSDSFAES----SEEDESSEEEKEEEENKEVSA 791
>gnl|CDD|217861 pfam04050, Upf2, Up-frameshift suppressor 2. Transcripts
harbouring premature signals for translation termination
are recognised and rapidly degraded by eukaryotic cells
through a pathway known as nonsense-mediated mRNA decay.
In Saccharomyces cerevisiae, three trans-acting factors
(Upf1 to Upf3) are required for nonsense-mediated mRNA
decay.
Length = 171
Score = 30.8 bits (70), Expect = 1.7
Identities = 21/63 (33%), Positives = 33/63 (52%), Gaps = 3/63 (4%)
Query: 323 GPVDEELESAQEDGVLEEESTDVVPDDELENCDEEGGPVDEELESEQEDDVLEEEKEAEA 382
G DEEL ED +E +PDDE DEE +E++ ++++ ++ E EAE
Sbjct: 10 GEEDEELPEEDEDDESSDEEEVDLPDDEQ---DEESDSEEEQIFVTRQEEEVDPEAEAEF 66
Query: 383 VQE 385
+E
Sbjct: 67 DRE 69
>gnl|CDD|232988 TIGR00468, pheS, phenylalanyl-tRNA synthetase, alpha subunit. Most
phenylalanyl-tRNA synthetases are heterodimeric, with 2
alpha (pheS) and 2 beta (pheT) subunits. This model
describes the alpha subunit, which shows some similarity
to class II aminoacyl-tRNA ligases. Mitochondrial
phenylalanyl-tRNA synthetase is a single polypeptide
chain, active as a monomer, and similar to this chain
rather than to the beta chain, but excluded from this
model. An interesting feature of the alignment of all
sequences captured by this model is a deep split between
non-spirochete bacterial examples and all other
examples; supporting this split is a relative deletion
of about 50 residues in the former set between two
motifs well conserved throughout the alignment [Protein
synthesis, tRNA aminoacylation].
Length = 293
Score = 31.1 bits (71), Expect = 2.2
Identities = 19/106 (17%), Positives = 34/106 (32%), Gaps = 20/106 (18%)
Query: 493 NKMKVVSFIKEKTGYSVSPDAMFDIQVKRIHEYKRQLMNILGIVYRYKKMKEMSAVERKA 552
++ ++ + K I+E K +L + L + K E + + K
Sbjct: 7 KQLGKLTKEETKPALG-----------ALINEVKIELQDELT---KLKPELESAGLWSKL 52
Query: 553 KF------VPRVCIFGGKAFATYVQAKRIVKFITDVGATVNHDPEI 592
KF +P I+ G I +G T PE+
Sbjct: 53 KFETYDVSLPGTKIYPGSLHPLTRVIDEIRDIFLGLGFTEETGPEV 98
>gnl|CDD|236410 PRK09202, nusA, transcription elongation factor NusA; Validated.
Length = 470
Score = 31.4 bits (72), Expect = 2.3
Identities = 32/130 (24%), Positives = 55/130 (42%), Gaps = 25/130 (19%)
Query: 275 DLLEKRLKETR-----ILENVDLPATFADLFVK----TKESTDVVPDDEL---ENCDEEG 322
+ EKR E +E +D+ A L V+ + E VP +EL E DEE
Sbjct: 342 EASEKRQAEFDAILDLFMEALDIDEEIAQLLVEEGFSSLEELAYVPVEELLEIEGFDEE- 400
Query: 323 GPVDEELESA------QEDGVLEEESTDVVPDDELE-----NCDEEGGPVDEELESEQED 371
V+E E A + E+ + D++ + L+ E+G E+L + D
Sbjct: 401 -TVEELRERAKEALETEALAQEEKLADDLLSLEGLDRELAFKLAEKGIKTLEDLAEQAVD 459
Query: 372 DVLEEEKEAE 381
++++ E + E
Sbjct: 460 ELIDIEGDEE 469
>gnl|CDD|215774 pfam00183, HSP90, Hsp90 protein.
Length = 529
Score = 30.9 bits (70), Expect = 2.8
Identities = 16/46 (34%), Positives = 25/46 (54%)
Query: 337 VLEEESTDVVPDDELENCDEEGGPVDEELESEQEDDVLEEEKEAEA 382
+E+E VPD+E E EE +E+ ++E+ EEEKE +
Sbjct: 26 WVEKEVEKEVPDEEEEEEKEEKKEEEEKTTDKEEEVDEEEEKEEKK 71
>gnl|CDD|237629 PRK14160, PRK14160, heat shock protein GrpE; Provisional.
Length = 211
Score = 30.1 bits (68), Expect = 3.0
Identities = 16/66 (24%), Positives = 29/66 (43%), Gaps = 3/66 (4%)
Query: 313 DELENCDEEGGPVDEELESAQEDGVLEEESTDVVPDDELENCDEEGGPVDEELESEQEDD 372
E E D + ++E+ E+ +EE D E E ++E D E +E + +
Sbjct: 1 MEKECKDAKHENMEEDCCKENEN---KEEDKGKEEDLEFEEIEKEEIIEDSEESNEVKIE 57
Query: 373 VLEEEK 378
L++E
Sbjct: 58 ELKDEN 63
>gnl|CDD|224181 COG1261, FlgA, Flagellar basal body P-ring biosynthesis protein
[Cell motility and secretion / Posttranslational
modification, protein turnover, chaperones].
Length = 220
Score = 30.4 bits (69), Expect = 3.2
Identities = 24/146 (16%), Positives = 41/146 (28%), Gaps = 12/146 (8%)
Query: 74 EDIKAVAYDIPIPGYKTKTTINLRLWST-MVPSEDFDLSAFNAGDHTKAAEALTNAEKIC 132
I P Y + N R+W V + +L F E + A I
Sbjct: 46 LIITERNLLAPCDQYLLTASNNARVWGNVNVLASCSNLPRFVRVAVQAPGEVVVAARTI- 104
Query: 133 YILYPGD-------ESVEGKVLRLKQQYTLCSASLQDIIARFEKRSGANVNWEEFPEKVA 185
Y G+ + G + L Y L + +++ G + +
Sbjct: 105 ---YRGEKISAADVKLKRGDLDALPPGYVLDPDEVVGKVSKRTLLPGQPILASMLRQAWL 161
Query: 186 VQMNDTHPTLCIPELIRILIDLKGLS 211
V+ + I I + K L
Sbjct: 162 VKRGQIVTVVAEGGGISITAEGKALE 187
>gnl|CDD|224530 COG1614, CdhC, CO dehydrogenase/acetyl-CoA synthase beta subunit
[Energy production and conversion].
Length = 470
Score = 30.6 bits (69), Expect = 3.3
Identities = 18/48 (37%), Positives = 28/48 (58%), Gaps = 2/48 (4%)
Query: 339 EEESTDVVPDDELENCDEEGGPVDEELESEQEDDVLEEEKEAEAVQEP 386
EE++T + D+ E E+G PV E E+E++ EEE+EA + P
Sbjct: 377 EEDATTI--DELREFLKEKGHPVVERWAEEEEEEEEEEEEEAAEAEAP 422
>gnl|CDD|185677 cd00817, ValRS_core, catalytic core domain of valyl-tRNA
synthetases. Valine amino-acyl tRNA synthetase (ValRS)
catalytic core domain. This enzyme is a monomer which
aminoacylates the 2'-OH of the nucleotide at the 3' of
the appropriate tRNA. The core domain is based on the
Rossman fold and is responsible for the ATP-dependent
formation of the enzyme bound aminoacyl-adenylate. It
contains the characteristic class I HIGH and KMSKS
motifs, which are involved in ATP binding. ValRS has an
insertion in the core domain, which is subject to both
deletions and rearrangements. This editing region
hydrolyzes mischarged cognate tRNAs and thus prevents
the incorporation of chemically similar amino acids.
Length = 382
Score = 30.3 bits (69), Expect = 3.7
Identities = 10/21 (47%), Positives = 16/21 (76%)
Query: 157 SASLQDIIARFEKRSGANVNW 177
+ ++QDIIAR+++ G NV W
Sbjct: 23 NNTIQDIIARYKRMKGYNVLW 43
>gnl|CDD|184885 PRK14891, PRK14891, 50S ribosomal protein L24e/unknown domain
fusion protein; Provisional.
Length = 131
Score = 29.1 bits (65), Expect = 3.7
Identities = 19/55 (34%), Positives = 26/55 (47%)
Query: 328 ELESAQEDGVLEEESTDVVPDDELENCDEEGGPVDEELESEQEDDVLEEEKEAEA 382
E A ED E+ DE E DE +E ++E E+ EE++EAEA
Sbjct: 77 EAADADEDADEAAEADAADEADEEEETDEAVDETADEADAEAEEADEEEDEEAEA 131
>gnl|CDD|235302 PRK04456, PRK04456, acetyl-CoA decarbonylase/synthase complex
subunit beta; Reviewed.
Length = 463
Score = 30.4 bits (69), Expect = 3.9
Identities = 16/58 (27%), Positives = 29/58 (50%), Gaps = 4/58 (6%)
Query: 339 EEESTDVVPDDELEN-CDEEGGPVDEELESEQEDDVLEEEKEAEAVQEPPQLVRMANL 395
EE+ D+ +EL+ E+ PV E +E+E++ EEE+E E ++ +
Sbjct: 378 EEDVKDI---EELKKFLKEKEHPVVERWAAEEEEEEEEEEEEEEEPVAEVMMMPAPEM 432
>gnl|CDD|218333 pfam04931, DNA_pol_phi, DNA polymerase phi. This family includes
the fifth essential DNA polymerase in yeast EC:2.7.7.7.
Pol5p is localised exclusively to the nucleolus and
binds near or at the enhancer region of rRNA-encoding
DNA repeating units.
Length = 784
Score = 30.6 bits (69), Expect = 4.2
Identities = 17/56 (30%), Positives = 28/56 (50%), Gaps = 2/56 (3%)
Query: 335 DGVLEEESTDVVPDDELENCDEEGGPVDEELESEQED-DVLEEEKEAEAVQEPPQL 389
+G E+E DD+ + C E + E ES+ ED + E+E +AEA + +
Sbjct: 646 EGEEEDEDDLEETDDDEDEC-EAIEDSESESESDGEDGEEDEQEDDAEANEGVVPI 700
>gnl|CDD|220102 pfam09073, BUD22, BUD22. BUD22 has been shown in yeast to be a
nuclear protein involved in bud-site selection. It plays
a role in positioning the proximal bud pole signal. More
recently it has been shown to be involved in ribosome
biogenesis.
Length = 424
Score = 30.2 bits (68), Expect = 4.5
Identities = 20/91 (21%), Positives = 36/91 (39%), Gaps = 6/91 (6%)
Query: 301 VKTKESTDVVPDDELENCDEEGGPVDEELESAQEDGVL----EEESTDVVPDDELENCDE 356
++++ + E ++ DEE D E +Q DG+L +EE + P N D
Sbjct: 175 SESEDESKSEESAEDDSDDEEEEDSDSED-YSQYDGMLVDSSDEEEGEEAPSIN-YNEDT 232
Query: 357 EGGPVDEELESEQEDDVLEEEKEAEAVQEPP 387
DE E + + +E+ + P
Sbjct: 233 SESESDESDSEISESRSVSDSEESSPPSKKP 263
>gnl|CDD|218561 pfam05340, DUF740, Protein of unknown function (DUF740). This
family consists of several uncharacterized plant
proteins of unknown function.
Length = 565
Score = 30.4 bits (68), Expect = 5.0
Identities = 18/73 (24%), Positives = 36/73 (49%), Gaps = 10/73 (13%)
Query: 309 VVPDDELENCDEEGGPVDEELESAQEDGVLEEESTDVVPDDELENCDEEGGPVDE--ELE 366
+VPD LE +EE+E +++ E+E VV + E +EE + + +LE
Sbjct: 134 IVPDLVLE--------EEEEVEMEEDEEYYEKEPGKVVDEKSEEEEEEELKTMKDFIDLE 185
Query: 367 SEQEDDVLEEEKE 379
S+ + +++ +
Sbjct: 186 SQTKKPSVKDNGK 198
>gnl|CDD|223190 COG0112, GlyA, Glycine/serine hydroxymethyltransferase [Amino acid
transport and metabolism].
Length = 413
Score = 30.3 bits (69), Expect = 5.0
Identities = 16/46 (34%), Positives = 25/46 (54%), Gaps = 1/46 (2%)
Query: 545 MSAVERKAKFV-PRVCIFGGKAFATYVQAKRIVKFITDVGATVNHD 589
VE+ AK V P++ I GG A++ + KR + +VGA + D
Sbjct: 155 YDEVEKLAKEVKPKLIIAGGSAYSRPIDFKRFREIADEVGAYLMVD 200
>gnl|CDD|232931 TIGR00344, alaS, alanine--tRNA ligase. The model describes
alanine--tRNA ligase. This enzyme catalyzes the reaction
(tRNAala + L-alanine + ATP = L-alanyl-tRNAala +
pyrophosphate + AMP) [Protein synthesis, tRNA
aminoacylation].
Length = 851
Score = 30.4 bits (69), Expect = 5.1
Identities = 23/99 (23%), Positives = 42/99 (42%), Gaps = 11/99 (11%)
Query: 249 RHMEIIEM---IDEELVHTIVSEYGTADPDLLEK--------RLKETRILENVDLPATFA 297
RH + + + +LV T++ G P+L EK L+E R + ++
Sbjct: 312 RHGKKLGLKEAFLYKLVPTLIEVLGDYYPELKEKQEFVEQILELEEERFAKTLERGLRLF 371
Query: 298 DLFVKTKESTDVVPDDELENCDEEGGPVDEELESAQEDG 336
+ +K ++ +D + D G PV+ E A+E G
Sbjct: 372 EKLLKKLGKKELDGEDAFKLYDTYGFPVELTKEIAEERG 410
>gnl|CDD|221279 pfam11867, DUF3387, Domain of unknown function (DUF3387). This
domain is functionally uncharacterized. This domain is
found in bacteria and archaea. This presumed domain is
typically between 255 to 340 amino acids in length. This
domain is found associated with pfam04851, pfam04313.
Length = 333
Score = 29.8 bits (68), Expect = 5.2
Identities = 19/58 (32%), Positives = 26/58 (44%), Gaps = 12/58 (20%)
Query: 108 FDLSAFNAGDHTKAAEALTNAEKICYILYPGDESVEGK------VLRLKQQYTLCSAS 159
FD S F GD + + L A +IL G + +GK VL L + + LCS
Sbjct: 34 FDYSDFFTGDPAERLKLLLGAAN--HIL--GLD--DGKKRFLDAVLALSKAFALCSPH 85
>gnl|CDD|215173 PLN02304, PLN02304, probable pectinesterase.
Length = 379
Score = 29.8 bits (67), Expect = 5.6
Identities = 20/65 (30%), Positives = 30/65 (46%), Gaps = 7/65 (10%)
Query: 379 EAEAVQEPPQLVRMANLCVVGSHAVNGVAEIHSEIVTNEVFNEFYKLWPEKFQNKTNGVT 438
+A ++ E +L+ MAN GS ++NG H +E N + F N T G T
Sbjct: 235 DARSLYENCRLISMANPVPPGSKSINGAVTAHGRTSKDE--NTGF-----SFVNCTIGGT 287
Query: 439 PRRWI 443
R W+
Sbjct: 288 GRIWL 292
>gnl|CDD|225880 COG3343, RpoE, DNA-directed RNA polymerase, delta subunit
[Transcription].
Length = 175
Score = 29.3 bits (66), Expect = 5.7
Identities = 18/83 (21%), Positives = 35/83 (42%), Gaps = 2/83 (2%)
Query: 299 LFVKTKESTDVVPDDELENCDEEGGPVDEELESAQEDGVLEEESTDVVPDDELENCDEEG 358
+ K D E DE+ DE+ E +E+ + D D++ ++ +
Sbjct: 94 MTEKKDIKAKDKEVDAFEEGDEDELDYDEDKE--EEEDDEVDSLDDENDDEDEDDDEIVE 151
Query: 359 GPVDEELESEQEDDVLEEEKEAE 381
++++ E EDD +EE E +
Sbjct: 152 ILIEDDEVDEDEDDDEDEEDEED 174
>gnl|CDD|187568 cd05258, CDP_TE_SDR_e, CDP-tyvelose 2-epimerase, extended (e) SDRs.
CDP-tyvelose 2-epimerase is a tetrameric SDR that
catalyzes the conversion of CDP-D-paratose to
CDP-D-tyvelose, the last step in tyvelose biosynthesis.
This subgroup is a member of the extended SDR subfamily,
with a characteristic active site tetrad and NAD-binding
motif. Extended SDRs are distinct from classical SDRs.
In addition to the Rossmann fold (alpha/beta folding
pattern with a central beta-sheet) core region typical
of all SDRs, extended SDRs have a less conserved
C-terminal extension of approximately 100 amino acids.
Extended SDRs are a diverse collection of proteins, and
include isomerases, epimerases, oxidoreductases, and
lyases; they typically have a TGXXGXXG cofactor binding
motif. SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold, an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Sequence identity between different
SDR enzymes is typically in the 15-30% range; they
catalyze a wide range of activities including the
metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser and/or an Asn, contributing to the active site;
while substrate binding is in the C-terminal region,
which determines specificity. The standard reaction
mechanism is a 4-pro-S hydride transfer and proton relay
involving the conserved Tyr and Lys, a water molecule
stabilized by Asn, and nicotinamide. Atypical SDRs
generally lack the catalytic residues characteristic of
the SDRs, and their glycine-rich NAD(P)-binding motif is
often different from the forms normally seen in
classical or extended SDRs. Complex (multidomain) SDRs
such as ketoreductase domains of fatty acid synthase
have a GGXGXXG NAD(P)-binding motif and an altered
active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 337
Score = 29.6 bits (67), Expect = 5.9
Identities = 14/63 (22%), Positives = 25/63 (39%), Gaps = 23/63 (36%)
Query: 733 DFPSYLECQEKVDEAYCDQKRWTR-------------MSIMNTA---GSSKFSSDRTIQE 776
D P+YL +E + R+ + + G+SK ++D+ +QE
Sbjct: 131 DLPNYLPLEE-------LETRYELAPEGWSPAGISESFPLDFSHSLYGASKGAADQYVQE 183
Query: 777 YAR 779
Y R
Sbjct: 184 YGR 186
>gnl|CDD|227701 COG5414, COG5414, TATA-binding protein-associated factor
[Transcription].
Length = 392
Score = 29.7 bits (66), Expect = 6.2
Identities = 20/118 (16%), Positives = 39/118 (33%), Gaps = 3/118 (2%)
Query: 275 DLLEKRLKETRILENVDLPATFADLFVKTKESTDVVPDDELENCDEEGGPVDEELESAQ- 333
L ++ KE E V F + + + + + + E G +E+L+
Sbjct: 225 VLKDE--KELARQERVSSWENFKEEPGEPLSRPALKKEKQGAEEEGEEGMSEEDLDVGAA 282
Query: 334 EDGVLEEESTDVVPDDELENCDEEGGPVDEELESEQEDDVLEEEKEAEAVQEPPQLVR 391
E E D E E + ++ + EE+ E E + +L+
Sbjct: 283 EIENKEVSEGDKEQQQEEVENAEAHKEEVQSDRPDEIGEEKEEDDENEENERHTELLA 340
>gnl|CDD|218737 pfam05764, YL1, YL1 nuclear protein. The proteins in this family
are designated YL1. These proteins have been shown to be
DNA-binding and may be a transcription factor.
Length = 238
Score = 29.3 bits (66), Expect = 6.4
Identities = 18/61 (29%), Positives = 25/61 (40%), Gaps = 8/61 (13%)
Query: 326 DEELESAQEDGVLEEESTDVVPDDELENCDEEGGPVDE-----ELESEQEDDVLEEEKEA 380
EE E + EEE D ++ +EE VD E + + DD E EKE
Sbjct: 22 LEEDEFFWTYLLFEEEEDD---EEFEIEEEEEEEEVDSDFDDSEDDEPESDDEEEGEKEL 78
Query: 381 E 381
+
Sbjct: 79 Q 79
>gnl|CDD|237063 PRK12329, nusA, transcription elongation factor NusA; Provisional.
Length = 449
Score = 29.8 bits (67), Expect = 7.5
Identities = 18/82 (21%), Positives = 37/82 (45%), Gaps = 2/82 (2%)
Query: 310 VPDDELENCDEEGGPVDEELESAQEDGVLEEESTDVVPDDELENCDEEGGPVDEELESEQ 369
+ D + + E V E + +E+ L+ E+ + + ++ E +E+ EL
Sbjct: 370 IKDSAEYDQEAEDAKVAELISQREEEEALQREAEERLEAEQAERAEEDA--RLRELYPLP 427
Query: 370 EDDVLEEEKEAEAVQEPPQLVR 391
ED+ +E++ EA E + R
Sbjct: 428 EDEFEDEDELEEAQPEEEEEAR 449
>gnl|CDD|220271 pfam09507, CDC27, DNA polymerase subunit Cdc27. This protein forms
the C subunit of DNA polymerase delta. It carries the
essential residues for binding to the Pol1 subunit of
polymerase alpha, from residues 293-332, which are
characterized by the motif D--G--VT, referred to as the
DPIM motif. The first 160 residues of the protein form
the minimal domain for binding to the B subunit, Cdc1,
of polymerase delta, the final 10 C-terminal residues,
362-372, being the DNA sliding clamp, PCNA, binding
motif.
Length = 427
Score = 29.4 bits (66), Expect = 8.3
Identities = 26/92 (28%), Positives = 42/92 (45%), Gaps = 9/92 (9%)
Query: 302 KTKESTDVVPDDELENCDEEGGPVDEELESAQEDGVLEEESTD-VVPDDELENCDEEGGP 360
K + S V ++ E + V E ESA+ G+ E+E D P E + +EE
Sbjct: 232 KKEASESTVKEESEEESGKR--DVILEDESAEPTGLDEDEDEDEPKPSGERSDSEEETEE 289
Query: 361 VD----EELESEQEDDVLEEEKEAEAVQEPPQ 388
+ + L+ ED+ +E++E E V E P
Sbjct: 290 KEKEKRKRLKKMMEDE--DEDEEMEIVPESPV 319
>gnl|CDD|223020 PHA03246, PHA03246, large tegument protein UL36; Provisional.
Length = 3095
Score = 29.6 bits (66), Expect = 8.8
Identities = 24/132 (18%), Positives = 41/132 (31%), Gaps = 18/132 (13%)
Query: 259 EELVHTIVSEYGTADPDLLEKRLKETR----ILENVDLPA----TFADLFVKTKEST--- 307
EE++ + YGTAD L R E + + D P+ + + T +S
Sbjct: 285 EEIISAVSRLYGTADIVLDLGRADEEDNLKVVSADFDPPSRPQPWQTKIVIGTADSYADS 344
Query: 308 -DVVPDDELENCDEEGGPVDEELESAQEDGVLEEESTDVVPDDELENC-DEEGGPVDEEL 365
+ + + E G D + ++ +C G V E
Sbjct: 345 SPKLHSESTDLTPHEHGEYDPSTLVGG-----ASTNINISDPPARTDCRRYSEGSVIHES 399
Query: 366 ESEQEDDVLEEE 377
+DV E
Sbjct: 400 VDSHIEDVTEAT 411
>gnl|CDD|184308 PRK13761, PRK13761, hypothetical protein; Provisional.
Length = 248
Score = 29.0 bits (66), Expect = 9.0
Identities = 11/41 (26%), Positives = 17/41 (41%), Gaps = 3/41 (7%)
Query: 196 CIPELIRILIDLKGLSWKEAWNITQRTVAYTNHTVLPEALE 236
+P + +LK +E I + Y N L EAL+
Sbjct: 200 AVPNMTEYARELKKKDREELEEIVEN---YDNKKNLSEALK 237
>gnl|CDD|218418 pfam05076, SUFU, Suppressor of fused protein (SUFU). SUFU,
encoding the human orthologue of Drosophila suppressor
of fused, appears to have a conserved role in the
repression of Hedgehog signaling. SUFU exerts its
repressor role by physically interacting with GLI
proteins in both the cytoplasm and the nucleus. SUFU has
been found to be a tumour-suppressor gene that
predisposes individuals to medulloblastoma by modulating
the SHH signaling pathway. Genomic contextual analysis
of bacterial SUFU versions revealed that they are
immunity proteins against diverse nuclease toxins in
polymorphic toxin systems.
Length = 168
Score = 28.4 bits (64), Expect = 9.9
Identities = 18/56 (32%), Positives = 24/56 (42%), Gaps = 15/56 (26%)
Query: 306 STDVVPDDELENCDEEGGPV---------DEELESAQEDGV------LEEESTDVV 346
+ + D EL D GG V +EELE A+E+G LEE D+
Sbjct: 109 TAPFLFDPELPELDTPGGKVNFLQLVPITEEELEFAKENGAEALLELLEEGGIDIT 164
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 0.134 0.397
Gapped
Lambda K H
0.267 0.0539 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 41,571,670
Number of extensions: 4227942
Number of successful extensions: 5111
Number of sequences better than 10.0: 1
Number of HSP's gapped: 4598
Number of HSP's successfully gapped: 197
Length of query: 790
Length of database: 10,937,602
Length adjustment: 105
Effective length of query: 685
Effective length of database: 6,280,432
Effective search space: 4302095920
Effective search space used: 4302095920
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: 63 (28.5 bits)