RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy13354
(1342 letters)
>gnl|CDD|235362 PRK05192, PRK05192, tRNA uridine 5-carboxymethylaminomethyl
modification enzyme GidA; Validated.
Length = 618
Score = 971 bits (2513), Expect = 0.0
Identities = 334/576 (57%), Positives = 426/576 (73%), Gaps = 19/576 (3%)
Query: 757 KGNLIHAVLTVLDAMGGIMAIATDKSGIQFRILNSSKGAAVRATRAQVDRILYKQAIRFY 816
KG+L+ + DA+GG M A DK+GIQFR+LN+SKG AVRA RAQ DR LY+ A+R
Sbjct: 54 KGHLVREI----DALGGEMGKAIDKTGIQFRMLNTSKGPAVRALRAQADRKLYRAAMREI 109
Query: 817 LENQLNLYLFQEEVDDLIIKTNKILGVVTKIGIKFFSKTVILTTGTFLNGKIHIGLKSYS 876
LENQ NL LFQ EV+DLI++ +++GVVT+ G++F +K V+LTTGTFL GKIHIG K+YS
Sbjct: 110 LENQPNLDLFQGEVEDLIVENGRVVGVVTQDGLEFRAKAVVLTTGTFLRGKIHIGEKNYS 169
Query: 877 AGRFGDFSTTSLAKRLKELQLSHGRLKTGTPPRIDKRTIDFSKMEEQIGDFDPVPVFSVL 936
GR G+ + L++ L+EL GRLKTGTPPRID R+IDFSK+EEQ GD DP P FS +
Sbjct: 170 GGRAGEPPSIGLSESLRELGFELGRLKTGTPPRIDGRSIDFSKLEEQPGD-DPPPPFSFM 228
Query: 937 GNINLHPKQLSCFITHTNEKTHNIIRSEFKNSPIFSGKIESIGPRYCPSIEDKVYRFPKK 996
+HP Q+ C+IT+TNE+TH IIR SP++SG IE +GPRYCPSIEDK+ RF K
Sbjct: 229 -TEKIHPPQVPCYITYTNEETHEIIRENLHRSPMYSGVIEGVGPRYCPSIEDKIVRFADK 287
Query: 997 KSHHIFLEPEGIVINEYYPNGISTSLPFEAQIELVQSIDGMKNANIIRPGYAIEYDYFNP 1056
H IFLEPEG+ NE YPNGISTSLP + Q+E+++SI G++NA I+RPGYAIEYDY +P
Sbjct: 288 DRHQIFLEPEGLDTNEVYPNGISTSLPEDVQLEMLRSIPGLENAEILRPGYAIEYDYVDP 347
Query: 1057 CNLKSSLETKQIHGLFFAGQINGTTGYEEAASQGLLAGLNAALFSQDRDPWIPGRDQAYL 1116
LK +LETK+I GLFFAGQINGTTGYEEAA+QGL+AG+NAAL Q +P+I R +AY+
Sbjct: 348 RQLKPTLETKKIKGLFFAGQINGTTGYEEAAAQGLIAGINAALKVQ-GEPFILKRSEAYI 406
Query: 1117 GVLVDDLITKGIQEPYRMFTSRAEYRLNLREDNADLRLTEIGWKLGCVSYKQWKIFEKKR 1176
GVL+DDL+TKG +EPYRMFTSRAEYRL LREDNADLRLTE G++LG V ++W FE+K+
Sbjct: 407 GVLIDDLVTKGTKEPYRMFTSRAEYRLLLREDNADLRLTEKGYELGLVDDERWARFEEKK 466
Query: 1177 EIITKELQRLKDTWINPSILNTGESERVLGKRIKHEYSLSNLLTWPNVNYNTLTSLKGIN 1236
E I +E++RLK T + P LN + G +K E SL +LL P + Y L L
Sbjct: 467 EAIEEEIERLKSTRVTPDELN-----ELGGDPLKREVSLLDLLRRPEITYEDLAKLDPEL 521
Query: 1237 GKNLYNTEIYQEDIKKQLKIQLQYEGYILRQINEVEKNKINENLKLPHNLDYMKIQSLSI 1296
++ +Q++I+++YEGYI RQ E+EK K EN K+P ++DY I LS
Sbjct: 522 -------ADLDPEVAEQVEIEIKYEGYIERQQEEIEKLKRLENKKIPEDIDYDAISGLSN 574
Query: 1297 EARQKLNKYKPETIGQASRISGVTPAALTLLLIYLK 1332
EAR+KLNK +PETIGQASRISGVTPA +++LL+YLK
Sbjct: 575 EAREKLNKIRPETIGQASRISGVTPADISILLVYLK 610
>gnl|CDD|223522 COG0445, GidA, Flavin-dependent tRNA uridine
5-carboxymethylaminomethyl modification enzyme GidA
[Cell cycle control, cell division, chromosome
partitioning].
Length = 621
Score = 874 bits (2262), Expect = 0.0
Identities = 334/582 (57%), Positives = 434/582 (74%), Gaps = 16/582 (2%)
Query: 757 KGNLIHAVLTVLDAMGGIMAIATDKSGIQFRILNSSKGAAVRATRAQVDRILYKQAIRFY 816
KG+L+ + DA+GG+M A DK+GIQFR+LNSSKG AVRA RAQ D+ LY++A++
Sbjct: 54 KGHLVREI----DALGGLMGKAADKAGIQFRMLNSSKGPAVRAPRAQADKWLYRRAMKNE 109
Query: 817 LENQLNLYLFQEEVDDLIIKTNK-ILGVVTKIGIKFFSKTVILTTGTFLNGKIHIGLKSY 875
LENQ NL+L Q EV+DLI++ + ++GVVT G +F +K V+LTTGTFL GKIHIG +Y
Sbjct: 110 LENQPNLHLLQGEVEDLIVEEGQRVVGVVTADGPEFHAKAVVLTTGTFLRGKIHIGDTNY 169
Query: 876 SAGRFGDFSTTSLAKRLKELQLSHGRLKTGTPPRIDKRTIDFSKMEEQIGDFDPVPVFSV 935
SAGR G+ + L+ RL+EL GRLKTGTPPRID R+IDFSK+EEQ GD +P PVFS
Sbjct: 170 SAGRLGEPPSIGLSDRLRELGFKLGRLKTGTPPRIDARSIDFSKLEEQPGD-EPPPVFSF 228
Query: 936 LGNINLHPKQLSCFITHTNEKTHNIIRSEFKNSPIFSGKIESIGPRYCPSIEDKVYRFPK 995
HP Q+ C+IT+TNEKTH IIR SP++SG+IE +GPRYCPSIEDK+ RF
Sbjct: 229 TTEP--HPPQIPCYITYTNEKTHEIIRDNLHRSPMYSGEIEGVGPRYCPSIEDKIVRFAD 286
Query: 996 KKSHHIFLEPEGIVINEYYPNGISTSLPFEAQIELVQSIDGMKNANIIRPGYAIEYDYFN 1055
K+ H IFLEPEG+ +E YPNG+STSLP + Q ++++SI G++NA I+RPGYAIEYDY +
Sbjct: 287 KERHQIFLEPEGLDTDEVYPNGLSTSLPEDVQEQIIRSIPGLENAEILRPGYAIEYDYVD 346
Query: 1056 PCNLKSSLETKQIHGLFFAGQINGTTGYEEAASQGLLAGLNAALFSQDRDPWIPGRDQAY 1115
P LK +LETK+I GLFFAGQINGTTGYEEAA+QGL+AG+NAAL Q ++P+I RD+AY
Sbjct: 347 PRQLKPTLETKKIKGLFFAGQINGTTGYEEAAAQGLIAGINAALKVQGKEPFILRRDEAY 406
Query: 1116 LGVLVDDLITKGIQEPYRMFTSRAEYRLNLREDNADLRLTEIGWKLGCVSYKQWKIFEKK 1175
+GVL+DDL+TKG EPYRMFTSRAEYRL LREDNADLRLTEIG +LG V ++++ F KK
Sbjct: 407 IGVLIDDLVTKGTNEPYRMFTSRAEYRLLLREDNADLRLTEIGRELGLVDDERYERFLKK 466
Query: 1176 REIITKELQRLKDTWINPSILNTGESERVLGKRIKHEYSLSNLLTWPNVNYNTLTSLKGI 1235
+E I +E++RLK TW+ PS + E + G+ +K SL +LL P ++Y+ L SL
Sbjct: 467 KENIEEEIERLKSTWVTPSEVAK-ELLALGGQPLKRRSSLYDLLRRPEISYDDLISLFP- 524
Query: 1236 NGKNLYNTEIYQEDIKKQLKIQLQYEGYILRQINEVEKNKINENLKLPHNLDYMKIQSLS 1295
++ +Q++I+++YEGYI RQ ++EK K EN K+P ++DY KI LS
Sbjct: 525 ------LPADLDAEVLEQVEIEIKYEGYIKRQQEQIEKLKRLENTKIPEDIDYDKIPGLS 578
Query: 1296 IEARQKLNKYKPETIGQASRISGVTPAALTLLLIYLKSGFLK 1337
EAR+KLNK +P TIGQASRISGVTPA +++LL+YLK G K
Sbjct: 579 NEAREKLNKIRPLTIGQASRISGVTPADISILLVYLKKGKNK 620
>gnl|CDD|129242 TIGR00136, gidA, glucose-inhibited division protein A. GidA, the
longer of two forms of GidA-related proteins, appears to
be present in all complete eubacterial genomes so far, as
well as Saccharomyces cerevisiae. A subset of these
organisms have a closely related protein. GidA is absent
in the Archaea. It appears to act with MnmE, in an
alpha2/beta2 heterotetramer, in the
5-carboxymethylaminomethyl modification of uridine 34 in
certain tRNAs. The shorter, related protein, previously
called gid or gidA(S), is now called TrmFO (see model
TIGR00137) [Protein synthesis, tRNA and rRNA base
modification].
Length = 617
Score = 779 bits (2013), Expect = 0.0
Identities = 332/577 (57%), Positives = 432/577 (74%), Gaps = 13/577 (2%)
Query: 757 KGNLIHAVLTVLDAMGGIMAIATDKSGIQFRILNSSKGAAVRATRAQVDRILYKQAIRFY 816
KG L+ + DA+GG+M A DK+G+QFR+LNSSKG AVRATRAQ+D++LY++A+R
Sbjct: 50 KGILVKEI----DALGGLMGKAADKAGLQFRVLNSSKGPAVRATRAQIDKVLYRKAMRNA 105
Query: 817 LENQLNLYLFQEEVDDLIIKTN-KILGVVTKIGIKFFSKTVILTTGTFLNGKIHIGLKSY 875
LENQ NL LFQ EV+DLI++ N +I GVVT+ G+KF +K VI+TTGTFL GKIHIG KSY
Sbjct: 106 LENQPNLSLFQGEVEDLILEDNDEIKGVVTQDGLKFRAKAVIITTGTFLRGKIHIGDKSY 165
Query: 876 SAGRFGDFSTTSLAKRLKELQLSHGRLKTGTPPRIDKRTIDFSKMEEQIGDFDPVPVFSV 935
SAGR G+ + L+ L+EL GRLKTGTPPRIDKR+IDFSK+E Q GD +P P FS
Sbjct: 166 SAGRAGEQPSIGLSTTLRELGFKVGRLKTGTPPRIDKRSIDFSKLEVQHGD-NPPPAFSF 224
Query: 936 LGNINLHPKQLSCFITHTNEKTHNIIRSEFKNSPIFSGKIESIGPRYCPSIEDKVYRFPK 995
+ L +QL C++THTN KTH++IRS SP++SG IE GPRYCPSIEDKV RF
Sbjct: 225 MNKNFLPLQQLPCYLTHTNPKTHDLIRSNLHRSPMYSGVIEGNGPRYCPSIEDKVVRFAD 284
Query: 996 KKSHHIFLEPEGIVINEYYPNGISTSLPFEAQIELVQSIDGMKNANIIRPGYAIEYDYFN 1055
K+ H IFLEPEG+ +E YPNG+STSLP + Q+++V+SI G++NA I+RPGYAIEYD+F+
Sbjct: 285 KERHQIFLEPEGLNSDEIYPNGLSTSLPEDVQLQIVRSIPGLENAEILRPGYAIEYDFFD 344
Query: 1056 PCNLKSSLETKQIHGLFFAGQINGTTGYEEAASQGLLAGLNAALFSQDRDPWIPGRDQAY 1115
P LK +LETK I GLFFAGQINGTTGYEEAA+QGL+AG+NAAL Q+++P+I R +AY
Sbjct: 345 PRQLKPTLETKLIQGLFFAGQINGTTGYEEAAAQGLMAGINAALKLQNKEPFILKRSEAY 404
Query: 1116 LGVLVDDLITKGIQEPYRMFTSRAEYRLNLREDNADLRLTEIGWKLGCVSYKQWKIFEKK 1175
+GVL+DDL+TKG +EPYRMFTSRAEYRL LREDNAD RLTEIG +LG + +++ F KK
Sbjct: 405 IGVLIDDLVTKGTKEPYRMFTSRAEYRLLLREDNADFRLTEIGRELGLIDDERYARFLKK 464
Query: 1176 REIITKELQRLKDTWINPSILNTGESERVLGKRIKHEYSLSNLLTWPNVNYNTLTSLKGI 1235
+E I +E+QRLK TW+ PS E + L +K E S +LL P +N LT L
Sbjct: 465 KENIEEEIQRLKSTWLTPSKEVKEELKNHLQSPLKREASGEDLLRRPEMNLEKLTKL--- 521
Query: 1236 NGKNLYNTEIYQEDIKKQLKIQLQYEGYILRQINEVEKNKINENLKLPHNLDYMKIQSLS 1295
E++ +Q++IQ++YEGYI +Q +E++K EN+K+P DY K+ LS
Sbjct: 522 ----TPFLPALDEEVLEQVEIQIKYEGYIKKQQDEIKKLDRLENVKIPATFDYRKVPGLS 577
Query: 1296 IEARQKLNKYKPETIGQASRISGVTPAALTLLLIYLK 1332
EAR+KL+K++P +IGQASRISG+TPA +++LL+YLK
Sbjct: 578 TEAREKLSKFRPLSIGQASRISGITPADISILLVYLK 614
>gnl|CDD|234571 PRK00011, glyA, serine hydroxymethyltransferase; Reviewed.
Length = 416
Score = 719 bits (1859), Expect = 0.0
Identities = 239/379 (63%), Positives = 306/379 (80%), Gaps = 2/379 (0%)
Query: 3 IKNENLSKIDPKIWEIILKEKQRQNNNIELIASENYTSLAVMEAQGTLLTNKYAEGYPGK 62
+NL++ DP+I + I +E +RQ +IELIASEN+ S AVMEAQG++LTNKYAEGYPGK
Sbjct: 1 FFMDNLAEYDPEIADAIEQELKRQEEHIELIASENFVSPAVMEAQGSVLTNKYAEGYPGK 60
Query: 63 RYYGGCKFIDLIEKIAINRLKKIFNAEAANVQPHSGSQANQAVFFSVLNPGDTIMGMSLQ 122
RYYGGC+++D++E++AI+R K++F AE ANVQPHSGSQAN AV+F++L PGDTI+GM L
Sbjct: 61 RYYGGCEYVDVVEQLAIDRAKELFGAEYANVQPHSGSQANAAVYFALLKPGDTILGMDLA 120
Query: 123 EGGHLTHGMMLNMSGKWFNSICYGLNKK-EKIDYKKVEYLAKKNKPKLIIAGASAYSQYI 181
GGHLTHG +N SGK +N + YG++++ IDY +VE LA ++KPKLIIAGASAYS+ I
Sbjct: 121 HGGHLTHGSPVNFSGKLYNVVSYGVDEETGLIDYDEVEKLALEHKPKLIIAGASAYSRPI 180
Query: 182 DFERFYHIAKNINSYFMVDMAHYAGLIAAGEYPNPVPFADFITSTTHKSLRGPRGGFILM 241
DF+RF IA + +Y MVDMAH AGL+AAG +P+PVP AD +T+TTHK+LRGPRGG IL
Sbjct: 181 DFKRFREIADEVGAYLMVDMAHIAGLVAAGVHPSPVPHADVVTTTTHKTLRGPRGGLILT 240
Query: 242 KKK-YKKIINSAVFPGIQGGPLMHVIAAKAVAFKEVLKPDFKIYQKQVVKNAKILSKILD 300
+ K INSAVFPGIQGGPLMHVIAAKAVAFKE L+P+FK Y +QVVKNAK L++ L
Sbjct: 241 NDEELAKKINSAVFPGIQGGPLMHVIAAKAVAFKEALEPEFKEYAQQVVKNAKALAEALA 300
Query: 301 QRGIRIVSGGTKSHIILVDLRNKKITGKIAESILESANIICNKNSIPNDPEKPYFTSGIR 360
+RG R+VSGGT +H++LVDLR+K +TGK AE+ LE ANI NKN++P DP P+ TSGIR
Sbjct: 301 ERGFRVVSGGTDNHLVLVDLRSKGLTGKEAEAALEEANITVNKNAVPFDPRSPFVTSGIR 360
Query: 361 LGSSAITTRGFSELEIIKV 379
+G+ AITTRGF E E+ ++
Sbjct: 361 IGTPAITTRGFKEAEMKEI 379
>gnl|CDD|223190 COG0112, GlyA, Glycine/serine hydroxymethyltransferase [Amino acid
transport and metabolism].
Length = 413
Score = 643 bits (1662), Expect = 0.0
Identities = 242/377 (64%), Positives = 301/377 (79%), Gaps = 4/377 (1%)
Query: 6 ENLSKIDPKIWEIILKEKQRQNNNIELIASENYTSLAVMEAQGTLLTNKYAEGYPGKRYY 65
+L+ DP+I+E I +E +RQ +IELIASEN+TS AVMEAQG+ LTNKYAEGYPGKRYY
Sbjct: 5 ASLADYDPEIFEAIQQELERQREHIELIASENFTSPAVMEAQGSDLTNKYAEGYPGKRYY 64
Query: 66 GGCKFIDLIEKIAINRLKKIFNAEAANVQPHSGSQANQAVFFSVLNPGDTIMGMSLQEGG 125
GGC+++D +E++AI R KK+F AE ANVQPHSGSQANQAV+ ++L PGDTIMG+ L GG
Sbjct: 65 GGCEYVDEVEELAIERAKKLFGAEYANVQPHSGSQANQAVYLALLQPGDTIMGLDLSHGG 124
Query: 126 HLTHGMMLNMSGKWFNSICYGLNKK-EKIDYKKVEYLAKKNKPKLIIAGASAYSQYIDFE 184
HLTHG +N SGK FN + YG++ + IDY +VE LAK+ KPKLIIAG SAYS+ IDF+
Sbjct: 125 HLTHGSPVNFSGKLFNVVSYGVDPETGLIDYDEVEKLAKEVKPKLIIAGGSAYSRPIDFK 184
Query: 185 RFYHIAKNINSYFMVDMAHYAGLIAAGEYPNPVPFADFITSTTHKSLRGPRGGFILMKKK 244
RF IA + +Y MVDMAH AGLIA G +PNP+P AD +T+TTHK+LRGPRGG IL +
Sbjct: 185 RFREIADEVGAYLMVDMAHVAGLIAGGVHPNPLPHADVVTTTTHKTLRGPRGGIILTNDE 244
Query: 245 --YKKIINSAVFPGIQGGPLMHVIAAKAVAFKEVLKPDFKIYQKQVVKNAKILSKILDQR 302
KK INSAVFPG+QGGPLMHVIAAKAVAFKE L+P+FK Y KQVVKNAK L++ L +R
Sbjct: 245 ELAKK-INSAVFPGLQGGPLMHVIAAKAVAFKEALEPEFKEYAKQVVKNAKALAEALKER 303
Query: 303 GIRIVSGGTKSHIILVDLRNKKITGKIAESILESANIICNKNSIPNDPEKPYFTSGIRLG 362
G ++VSGGT +H++LVDLR+K +TGK AE+ LE A I NKN+IP DPE P+ TSGIR+G
Sbjct: 304 GFKVVSGGTDNHLVLVDLRSKGLTGKKAEAALERAGITVNKNAIPFDPESPFVTSGIRIG 363
Query: 363 SSAITTRGFSELEIIKV 379
+ A+TTRGF E E+ ++
Sbjct: 364 TPAVTTRGFGEAEMEEI 380
>gnl|CDD|237280 PRK13034, PRK13034, serine hydroxymethyltransferase; Reviewed.
Length = 416
Score = 629 bits (1624), Expect = 0.0
Identities = 226/377 (59%), Positives = 294/377 (77%), Gaps = 2/377 (0%)
Query: 1 MIIKNENLSKIDPKIWEIILKEKQRQNNNIELIASENYTSLAVMEAQGTLLTNKYAEGYP 60
M +++L + D +++ I KE +RQ +++ELIASEN+TS AVMEAQG++LTNKYAEGYP
Sbjct: 2 MFFFSDSLEEYDDEVFAAINKELERQQDHLELIASENFTSPAVMEAQGSVLTNKYAEGYP 61
Query: 61 GKRYYGGCKFIDLIEKIAINRLKKIFNAEAANVQPHSGSQANQAVFFSVLNPGDTIMGMS 120
GKRYYGGC+F+D +E +AI R K++F + ANVQPHSGSQAN AV+ ++L PGDTI+GMS
Sbjct: 62 GKRYYGGCEFVDEVEALAIERAKQLFGCDYANVQPHSGSQANGAVYLALLKPGDTILGMS 121
Query: 121 LQEGGHLTHGMMLNMSGKWFNSICYGLNKKE-KIDYKKVEYLAKKNKPKLIIAGASAYSQ 179
L GGHLTHG +++SGKW+N++ YG+++ IDY +VE LAK++KPKLIIAG SAY +
Sbjct: 122 LSHGGHLTHGAKVSLSGKWYNAVQYGVDRLTGLIDYDEVEELAKEHKPKLIIAGFSAYPR 181
Query: 180 YIDFERFYHIAKNINSYFMVDMAHYAGLIAAGEYPNPVPFADFITSTTHKSLRGPRGGFI 239
+DF RF IA + + MVDMAH AGL+AAGE+PNP P A +T+TTHK+LRGPRGG I
Sbjct: 182 ELDFARFREIADEVGALLMVDMAHIAGLVAAGEHPNPFPHAHVVTTTTHKTLRGPRGGMI 241
Query: 240 LMK-KKYKKIINSAVFPGIQGGPLMHVIAAKAVAFKEVLKPDFKIYQKQVVKNAKILSKI 298
L ++ K INSAVFPG+QGGPLMHVIAAKAVAF E L+P+FK Y KQV+ NA+ L+++
Sbjct: 242 LTNDEEIAKKINSAVFPGLQGGPLMHVIAAKAVAFGEALQPEFKTYAKQVIANAQALAEV 301
Query: 299 LDQRGIRIVSGGTKSHIILVDLRNKKITGKIAESILESANIICNKNSIPNDPEKPYFTSG 358
L +RG +VSGGT +H++LVDLR K ++GK AE LE A I NKN++P D E P+ TSG
Sbjct: 302 LKERGYDLVSGGTDNHLLLVDLRPKGLSGKDAEQALERAGITVNKNTVPGDTESPFVTSG 361
Query: 359 IRLGSSAITTRGFSELE 375
IR+G+ A TTRGF E E
Sbjct: 362 IRIGTPAGTTRGFGEAE 378
>gnl|CDD|189558 pfam00464, SHMT, Serine hydroxymethyltransferase.
Length = 380
Score = 595 bits (1536), Expect = 0.0
Identities = 223/377 (59%), Positives = 289/377 (76%), Gaps = 4/377 (1%)
Query: 8 LSKIDPKIWEIILKEKQRQNNNIELIASENYTSLAVMEAQGTLLTNKYAEGYPGKRYYGG 67
LS DP+I++II KEK+RQ IELIASEN+TS AVMEA G++LTNKYAEGYPGKRYYGG
Sbjct: 1 LSDSDPEIFDIIKKEKERQREGIELIASENFTSRAVMEALGSVLTNKYAEGYPGKRYYGG 60
Query: 68 CKFIDLIEKIAINRLKKIFNAEAANVQPHSGSQANQAVFFSVLNPGDTIMGMSLQEGGHL 127
C+++D +E +A +R K++F + NVQP SGSQAN AV+ ++LNPGD IMG+ L GGHL
Sbjct: 61 CEYVDEVETLAQDRAKELFGLDGVNVQPLSGSQANLAVYTALLNPGDRIMGLDLPHGGHL 120
Query: 128 THGMMLNMSGKWFNSICYGLNKKEK-IDYKKVEYLAKKNKPKLIIAGASAYSQYIDFERF 186
THG +N SGK+F S+ YG++ IDY ++E AK KPKLI+AG SAYS+ ID+ RF
Sbjct: 121 THGYPVNFSGKFFESMPYGVDPDTGLIDYDQLEKNAKLFKPKLIVAGTSAYSRLIDYARF 180
Query: 187 YHIAKNINSYFMVDMAHYAGLIAAGEYPNPVPFADFITSTTHKSLRGPRGGFILMKK--- 243
IA + +Y MVDMAH AGL+AAG P+P P+A +T+TTHK+LRGPRGG I ++
Sbjct: 181 REIADEVGAYLMVDMAHIAGLVAAGVIPSPFPYAHVVTTTTHKTLRGPRGGMIFFREILY 240
Query: 244 KYKKIINSAVFPGIQGGPLMHVIAAKAVAFKEVLKPDFKIYQKQVVKNAKILSKILDQRG 303
+ +K INSAVFPG+QGGPL HVIAAKAVA K+ L P+FK+YQ+QV+KNAK L++ L +RG
Sbjct: 241 ELEKKINSAVFPGLQGGPLNHVIAAKAVALKQALTPEFKVYQQQVLKNAKALAEALKERG 300
Query: 304 IRIVSGGTKSHIILVDLRNKKITGKIAESILESANIICNKNSIPNDPEKPYFTSGIRLGS 363
++VSGGT +H++LVDLR K + GK AE LE ANI NKN+IP DP+ P+ TSG+RLG+
Sbjct: 301 YKLVSGGTDNHLVLVDLRPKGLDGKRAEKALERANITANKNTIPGDPKSPFVTSGLRLGT 360
Query: 364 SAITTRGFSELEIIKVV 380
A+T+RGF E + +V
Sbjct: 361 PALTSRGFGEADFEEVA 377
>gnl|CDD|237057 PRK12323, PRK12323, DNA polymerase III subunits gamma and tau;
Provisional.
Length = 700
Score = 607 bits (1566), Expect = 0.0
Identities = 220/360 (61%), Positives = 292/360 (81%)
Query: 380 VLARKYRPSNFNTLIGQNHISKSLINALDKKRLHHAYLFTGTRGVGKTTISRILAKCLNC 439
VLARK+RP +F TL+GQ H+ ++L +AL+++RLHHAYLFTGTRGVGKTT+SRILAK LNC
Sbjct: 5 VLARKWRPRDFTTLVGQEHVVRALTHALEQQRLHHAYLFTGTRGVGKTTLSRILAKSLNC 64
Query: 440 IGIDGNGGITSQPCGKCSVCVKIDNGCFMDYIEMDAASTRGINEMAQLLEQTIYAPINAR 499
G DG GGIT+QPCG+C C +ID G F+DYIEMDAAS RG++EMAQLL++ +YAP R
Sbjct: 65 TGADGEGGITAQPCGQCRACTEIDAGRFVDYIEMDAASNRGVDEMAQLLDKAVYAPTAGR 124
Query: 500 YKIYVIDEVHMLTHHAFNAMLKTLEEPPKYIKFILATTEPQKIPITVLSRCIQFNLKKML 559
+K+Y+IDEVHMLT+HAFNAMLKTLEEPP+++KFILATT+PQKIP+TVLSRC+QFNLK+M
Sbjct: 125 FKVYMIDEVHMLTNHAFNAMLKTLEEPPEHVKFILATTDPQKIPVTVLSRCLQFNLKQMP 184
Query: 560 HHDIVNNLCYILNKENIKFETSALNLIATGAQGSMRDALSLTDQAINYSSEKITLNSMQE 619
IV++L IL +E I E +AL L+A AQGSMRDALSLTDQAI YS+ ++ +++
Sbjct: 185 PGHIVSHLDAILGEEGIAHEVNALRLLAQAAQGSMRDALSLTDQAIAYSAGNVSEEAVRG 244
Query: 620 MLSIIDQKYLIQILDALAEQDGNLILSIANKIEIYNLSYSIVLKDLSLLLHQISLIQISP 679
ML IDQ YL+++LDALA +DG +L+IA+++ +LS++ L+DL+ LL +I+L Q+ P
Sbjct: 245 MLGAIDQSYLVRLLDALAAEDGAALLAIADEMAGRSLSFAGALQDLASLLQKIALAQVVP 304
Query: 680 EILIKDSPNYNEIIQLSKKFNIEQIQLFYQISIHGRNELELAPDEYAGFTMTLLRMLVFQ 739
+ D P ++I +L+ +F+ +++QLFYQI+ GR+EL LAPDEYAGFTMTLLRML F+
Sbjct: 305 AAVQDDWPEADDIRRLAGRFDAQEVQLFYQIANLGRSELALAPDEYAGFTMTLLRMLAFR 364
>gnl|CDD|99733 cd00378, SHMT, Serine-glycine hydroxymethyltransferase (SHMT). This
family belongs to pyridoxal phosphate (PLP)-dependent
aspartate aminotransferase superfamily (fold I). SHMT
carries out interconversion of serine and glycine; it
catalyzes the transfer of hydroxymethyl group of N5,
N10-methylene tetrahydrofolate to glycine resulting in
the formation of serine and tetrahydrofolate. Both
eukaryotic and prokaryotic SHMT enzymes form tight
obligate homodimers; the mammalian enzyme forms a
homotetramer comprising four pyridoxal phosphate-bound
active sites.
Length = 402
Score = 592 bits (1528), Expect = 0.0
Identities = 228/375 (60%), Positives = 287/375 (76%), Gaps = 4/375 (1%)
Query: 10 KIDPKIWEIILKEKQRQNNNIELIASENYTSLAVMEAQGTLLTNKYAEGYPGKRYYGGCK 69
+DP+I EII KE +RQ +ELIASEN+TS AVMEA G+ LTNKYAEGYPGKRYYGGC+
Sbjct: 2 DVDPEIAEIIKKENERQRETLELIASENFTSPAVMEAMGSDLTNKYAEGYPGKRYYGGCE 61
Query: 70 FIDLIEKIAINRLKKIFNAEAANVQPHSGSQANQAVFFSVLNPGDTIMGMSLQEGGHLTH 129
++D IE +AI R KK+F AE ANVQPHSGSQAN AV+F++L PGDTIMG+ L GGHLTH
Sbjct: 62 YVDEIEDLAIERAKKLFGAEYANVQPHSGSQANLAVYFALLEPGDTIMGLDLSHGGHLTH 121
Query: 130 GMM--LNMSGKWFNSICYGLNKK-EKIDYKKVEYLAKKNKPKLIIAGASAYSQYIDFERF 186
G ++ SGK F S+ YG++ + IDY +E +A + KPKLI+AGASAY + IDF+RF
Sbjct: 122 GSFTKVSASGKLFESVPYGVDPETGLIDYDALEKMALEFKPKLIVAGASAYPRPIDFKRF 181
Query: 187 YHIAKNINSYFMVDMAHYAGLIAAGEYPNPVPFADFITSTTHKSLRGPRGGFILMKKK-Y 245
IA + +Y +VDMAH AGL+A G +PNP+P AD +T+TTHK+LRGPRGG IL +K
Sbjct: 182 REIADEVGAYLLVDMAHVAGLVAGGVFPNPLPGADVVTTTTHKTLRGPRGGLILTRKGEL 241
Query: 246 KKIINSAVFPGIQGGPLMHVIAAKAVAFKEVLKPDFKIYQKQVVKNAKILSKILDQRGIR 305
K INSAVFPG+QGGP +HVIAAKAVA KE L+P+FK Y KQVV+NAK L++ L +RG +
Sbjct: 242 AKKINSAVFPGLQGGPHLHVIAAKAVALKEALEPEFKAYAKQVVENAKALAEALKERGFK 301
Query: 306 IVSGGTKSHIILVDLRNKKITGKIAESILESANIICNKNSIPNDPEKPYFTSGIRLGSSA 365
+VSGGT +H++LVDLR K ITGK AE LE A I NKN++P DP P+ SGIR+G+ A
Sbjct: 302 VVSGGTDNHLVLVDLRPKGITGKAAEDALEEAGITVNKNTLPWDPSSPFVPSGIRIGTPA 361
Query: 366 ITTRGFSELEIIKVV 380
+TTRG E E+ ++
Sbjct: 362 MTTRGMGEEEMEEIA 376
>gnl|CDD|237865 PRK14951, PRK14951, DNA polymerase III subunits gamma and tau;
Provisional.
Length = 618
Score = 595 bits (1536), Expect = 0.0
Identities = 188/360 (52%), Positives = 268/360 (74%), Gaps = 1/360 (0%)
Query: 380 VLARKYRPSNFNTLIGQNHISKSLINALDKKRLHHAYLFTGTRGVGKTTISRILAKCLNC 439
VLARKYRP +F+ ++GQ H+ ++L NAL ++RLHHAYLFTGTRGVGKTT+SRILAK LNC
Sbjct: 5 VLARKYRPRSFSEMVGQEHVVQALTNALTQQRLHHAYLFTGTRGVGKTTVSRILAKSLNC 64
Query: 440 IGIDGNGGITSQPCGKCSVCVKIDNGCFMDYIEMDAASTRGINEMAQLLEQTIYAPINAR 499
G DG GGIT+ PCG C C ID+G F+DY E+DAAS RG++E+ QLLEQ +Y P+ R
Sbjct: 65 QGPDGQGGITATPCGVCQACRDIDSGRFVDYTELDAASNRGVDEVQQLLEQAVYKPVQGR 124
Query: 500 YKIYVIDEVHMLTHHAFNAMLKTLEEPPKYIKFILATTEPQKIPITVLSRCIQFNLKKML 559
+K+++IDEVHMLT+ AFNAMLKTLEEPP+Y+KF+LATT+PQK+P+TVLSRC+QFNL+ M
Sbjct: 125 FKVFMIDEVHMLTNTAFNAMLKTLEEPPEYLKFVLATTDPQKVPVTVLSRCLQFNLRPMA 184
Query: 560 HHDIVNNLCYILNKENIKFETSALNLIATGAQGSMRDALSLTDQAINYSSEKITLNSMQE 619
++ +L +L EN+ E AL L+A A+GSMRDALSLTDQAI + S ++ ++++
Sbjct: 185 PETVLEHLTQVLAAENVPAEPQALRLLARAARGSMRDALSLTDQAIAFGSGQLQEAAVRQ 244
Query: 620 MLSIIDQKYLIQILDALAEQDGNLILSIANKIEIYNLSYSIVLKDLSLLLHQISLIQISP 679
ML +D+ ++ +++DALA+ DG ++ A+++ + LS + L++++ +L +++++Q P
Sbjct: 245 MLGSVDRSHVFRLIDALAQGDGRTVVETADELRLNGLSAASTLEEMAAVLQRMAVLQAVP 304
Query: 680 EILIKDS-PNYNEIIQLSKKFNIEQIQLFYQISIHGRNELELAPDEYAGFTMTLLRMLVF 738
+ + P E+ +L+ ++ QL Y I +HGR EL LAPDEYA TM LLR+L F
Sbjct: 305 QAAAAATDPEAAEVARLAALMPADETQLLYSICLHGRAELGLAPDEYAALTMVLLRLLAF 364
>gnl|CDD|235906 PRK07003, PRK07003, DNA polymerase III subunits gamma and tau;
Validated.
Length = 830
Score = 553 bits (1427), Expect = e-180
Identities = 214/360 (59%), Positives = 282/360 (78%), Gaps = 5/360 (1%)
Query: 380 VLARKYRPSNFNTLIGQNHISKSLINALDKKRLHHAYLFTGTRGVGKTTISRILAKCLNC 439
VLARK+RP +F +L+GQ H+ ++L +ALD RLHHAYLFTGTRGVGKTT+SRI AK LNC
Sbjct: 5 VLARKWRPKDFASLVGQEHVVRALTHALDGGRLHHAYLFTGTRGVGKTTLSRIFAKALNC 64
Query: 440 IGIDGNGGITSQPCGKCSVCVKIDNGCFMDYIEMDAASTRGINEMAQLLEQTIYAPINAR 499
G+TSQPCG C C +ID G F+DY+EMDAAS RG++EMA LLE+ +YAP++AR
Sbjct: 65 -----ETGVTSQPCGVCRACREIDEGRFVDYVEMDAASNRGVDEMAALLERAVYAPVDAR 119
Query: 500 YKIYVIDEVHMLTHHAFNAMLKTLEEPPKYIKFILATTEPQKIPITVLSRCIQFNLKKML 559
+K+Y+IDEVHMLT+HAFNAMLKTLEEPP ++KFILATT+PQKIP+TVLSRC+QFNLK+M
Sbjct: 120 FKVYMIDEVHMLTNHAFNAMLKTLEEPPPHVKFILATTDPQKIPVTVLSRCLQFNLKQMP 179
Query: 560 HHDIVNNLCYILNKENIKFETSALNLIATGAQGSMRDALSLTDQAINYSSEKITLNSMQE 619
IV++L IL +E I FE AL L+A AQGSMRDALSLTDQAI YS+ ++T ++
Sbjct: 180 AGHIVSHLERILGEERIAFEPQALRLLARAAQGSMRDALSLTDQAIAYSANEVTETAVSG 239
Query: 620 MLSIIDQKYLIQILDALAEQDGNLILSIANKIEIYNLSYSIVLKDLSLLLHQISLIQISP 679
ML +DQ Y++++LDALA DG IL++A+++ + +LS+S L+DL+ LLH+I+ Q +P
Sbjct: 240 MLGALDQTYMVRLLDALAAGDGPEILAVADEMALRSLSFSTALQDLASLLHRIAWAQFAP 299
Query: 680 EILIKDSPNYNEIIQLSKKFNIEQIQLFYQISIHGRNELELAPDEYAGFTMTLLRMLVFQ 739
++ + P ++ + ++ + EQ+QLFYQI+ GR EL LAPDEYAGFTMTLLRML F+
Sbjct: 300 ASVLDEWPEAADLRRFAELLSPEQVQLFYQIATVGRGELGLAPDEYAGFTMTLLRMLAFE 359
>gnl|CDD|237873 PRK14969, PRK14969, DNA polymerase III subunits gamma and tau;
Provisional.
Length = 527
Score = 538 bits (1389), Expect = e-178
Identities = 202/359 (56%), Positives = 273/359 (76%), Gaps = 5/359 (1%)
Query: 380 VLARKYRPSNFNTLIGQNHISKSLINALDKKRLHHAYLFTGTRGVGKTTISRILAKCLNC 439
VLARK+RP +F+ L+GQ H+ ++L NAL+++RLHHAYLFTGTRGVGKTT++RILAK LNC
Sbjct: 5 VLARKWRPKSFSELVGQEHVVRALTNALEQQRLHHAYLFTGTRGVGKTTLARILAKSLNC 64
Query: 440 IGIDGNGGITSQPCGKCSVCVKIDNGCFMDYIEMDAASTRGINEMAQLLEQTIYAPINAR 499
G+T+ PCG CS C++ID+G F+D IE+DAAS ++ M +LL+ YAP R
Sbjct: 65 -----ETGVTATPCGVCSACLEIDSGRFVDLIEVDAASNTQVDAMRELLDNAQYAPTRGR 119
Query: 500 YKIYVIDEVHMLTHHAFNAMLKTLEEPPKYIKFILATTEPQKIPITVLSRCIQFNLKKML 559
+K+Y+IDEVHML+ AFNAMLKTLEEPP+++KFILATT+PQKIP+TVLSRC+QFNLK+M
Sbjct: 120 FKVYIIDEVHMLSKSAFNAMLKTLEEPPEHVKFILATTDPQKIPVTVLSRCLQFNLKQMP 179
Query: 560 HHDIVNNLCYILNKENIKFETSALNLIATGAQGSMRDALSLTDQAINYSSEKITLNSMQE 619
IV++L +IL +ENI F+ +AL L+A A GSMRDALSL DQAI Y + + ++
Sbjct: 180 PPLIVSHLQHILEQENIPFDATALQLLARAAAGSMRDALSLLDQAIAYGGGTVNESEVRA 239
Query: 620 MLSIIDQKYLIQILDALAEQDGNLILSIANKIEIYNLSYSIVLKDLSLLLHQISLIQISP 679
ML IDQ YL +L+AL QDG +L+IA+ +E +LS+ L+DL+ LLH++++ Q P
Sbjct: 240 MLGAIDQDYLFALLEALLAQDGAALLAIADAMEERSLSFDAALQDLAALLHRLAIAQTVP 299
Query: 680 EILIKDSPNYNEIIQLSKKFNIEQIQLFYQISIHGRNELELAPDEYAGFTMTLLRMLVF 738
+ + D P + ++ L+K+ + E IQL+YQI++HGR +L LAPDEYAGFTMTLLRML F
Sbjct: 300 DSIADDLPERDRLLDLAKRLSPEDIQLYYQIALHGRRDLGLAPDEYAGFTMTLLRMLAF 358
>gnl|CDD|216319 pfam01134, GIDA, Glucose inhibited division protein A.
Length = 391
Score = 529 bits (1366), Expect = e-177
Identities = 204/349 (58%), Positives = 253/349 (72%), Gaps = 6/349 (1%)
Query: 757 KGNLIHAVLTVLDAMGGIMAIATDKSGIQFRILNSSKGAAVRATRAQVDRILYKQAIRFY 816
KG+L+ + DA+GG+M A DK+GIQFR+LN+SKG AVRA RAQVDR LY + +
Sbjct: 49 KGHLVREI----DALGGLMGKAADKTGIQFRMLNTSKGPAVRALRAQVDRDLYSKEMTET 104
Query: 817 LENQLNLYLFQEEVDDLIIKTNKILGVVTKIGIKFFSKTVILTTGTFLNGKIHIGLKSYS 876
LEN NL L Q EV DLI + K+ GVVT+ G ++ +K V+L TGTFLNGKIHIGLK Y
Sbjct: 105 LENHPNLTLIQGEVTDLIPENGKVKGVVTEDGEEYKAKAVVLATGTFLNGKIHIGLKCYP 164
Query: 877 AGRFGDFSTTSLAKRLKELQLSHGRLKTGTPPRIDKRTIDFSKMEEQIGDFDPVPVFSVL 936
AGR G+ ++ L++ LKEL GR KTGTPPRIDK +IDFSK+EEQ GD P P FS L
Sbjct: 165 AGRLGELTSEGLSESLKELGFELGRFKTGTPPRIDKDSIDFSKLEEQPGD-KPGPPFSYL 223
Query: 937 GNINLHPKQLSCFITHTNEKTHNIIRSEFKNSPIFSGKIESIGPRYCPSIEDKVYRFPKK 996
N ++ +Q CF+T+TNE TH IIR SP+F G IE IGPRYCPSIEDK RF K
Sbjct: 224 -NCPMNKEQYPCFLTYTNEATHEIIRDNLHRSPMFEGCIEGIGPRYCPSIEDKPVRFADK 282
Query: 997 KSHHIFLEPEGIVINEYYPNGISTSLPFEAQIELVQSIDGMKNANIIRPGYAIEYDYFNP 1056
H +FLEPEG+ +EYY G STSLP + Q ++++I G++NA I+RPGYAIEYDY +P
Sbjct: 283 PYHQVFLEPEGLDTDEYYLVGFSTSLPEDVQKRVLRTIPGLENAEIVRPGYAIEYDYIDP 342
Query: 1057 CNLKSSLETKQIHGLFFAGQINGTTGYEEAASQGLLAGLNAALFSQDRD 1105
L +LETK+I GLFFAGQINGT GYEEAA+QGLLAG+NAA + ++
Sbjct: 343 PQLLPTLETKKIPGLFFAGQINGTEGYEEAAAQGLLAGINAARKALGKE 391
>gnl|CDD|240264 PTZ00094, PTZ00094, serine hydroxymethyltransferase; Provisional.
Length = 452
Score = 504 bits (1301), Expect = e-166
Identities = 196/389 (50%), Positives = 262/389 (67%), Gaps = 14/389 (3%)
Query: 5 NENLSKIDPKIWEIILKEKQRQNNNIELIASENYTSLAVMEAQGTLLTNKYAEGYPGKRY 64
N++L + DP+++E+I KEK+RQ +ELIASEN+TS AV+E G+ TNKYAEG PG RY
Sbjct: 12 NQSLKEADPELYELIEKEKERQIEGLELIASENFTSRAVLECLGSCFTNKYAEGLPGNRY 71
Query: 65 YGGCKFIDLIEKIAINRLKKIFNAEA----ANVQPHSGSQANQAVFFSVLNPGDTIMGMS 120
YGG + +D IE + R + F + NVQP+SGS AN AV+ ++L P D IMG+
Sbjct: 72 YGGNEVVDKIENLCQKRALEAFGLDPEEWGVNVQPYSGSPANFAVYTALLQPHDRIMGLD 131
Query: 121 LQEGGHLTHGMM-----LNMSGKWFNSICYGLNKKEKIDYKKVEYLAKKNKPKLIIAGAS 175
L GGHLTHG ++ + +F S+ Y +N+K IDY K+E LAK +PKLIIAGAS
Sbjct: 132 LPSGGHLTHGFYTAKKKVSATSIYFESLPYQVNEKGLIDYDKLEELAKAFRPKLIIAGAS 191
Query: 176 AYSQYIDFERFYHIAKNINSYFMVDMAHYAGLIAAGEYPNPVPFADFITSTTHKSLRGPR 235
AY + ID++RF I ++ +Y M D+AH +GL+AAG P+P P+AD +T+TTHKSLRGPR
Sbjct: 192 AYPRDIDYKRFREICDSVGAYLMADIAHTSGLVAAGVLPSPFPYADVVTTTTHKSLRGPR 251
Query: 236 GGFILMKKK----YKKIINSAVFPGIQGGPLMHVIAAKAVAFKEVLKPDFKIYQKQVVKN 291
G I +KK + IN AVFPG+QGGP H IAA AV KEV P++K Y KQV+KN
Sbjct: 252 SGLIFYRKKVKPDIENKINEAVFPGLQGGPHNHQIAAIAVQLKEVQSPEWKEYAKQVLKN 311
Query: 292 AKILSKILDQRGIRIVSGGTKSHIILVDLRNKKITGKIAESILESANIICNKNSIPNDPE 351
AK L+ L++RG +V+GGT +H++LVDLR ITG E +L++ NI NKN+IP D
Sbjct: 312 AKALAAALEKRGYDLVTGGTDNHLVLVDLRPFGITGSKMEKLLDAVNISVNKNTIPGDKS 371
Query: 352 KPYFTSGIRLGSSAITTRGFSELEIIKVV 380
SG+RLG+ A+TTRG E + V
Sbjct: 372 ALN-PSGVRLGTPALTTRGAKEKDFKFVA 399
>gnl|CDD|236138 PRK07994, PRK07994, DNA polymerase III subunits gamma and tau;
Validated.
Length = 647
Score = 498 bits (1285), Expect = e-161
Identities = 175/360 (48%), Positives = 243/360 (67%), Gaps = 6/360 (1%)
Query: 380 VLARKYRPSNFNTLIGQNHISKSLINALDKKRLHHAYLFTGTRGVGKTTISRILAKCLNC 439
VLARK+RP F ++GQ H+ +L NALD RLHHAYLF+GTRGVGKTTI+R+LAK LNC
Sbjct: 5 VLARKWRPQTFAEVVGQEHVLTALANALDLGRLHHAYLFSGTRGVGKTTIARLLAKGLNC 64
Query: 440 IGIDGNGGITSQPCGKCSVCVKIDNGCFMDYIEMDAASTRGINEMAQLLEQTIYAPINAR 499
GIT+ PCG+C C +I+ G F+D IE+DAAS + + +LL+ YAP R
Sbjct: 65 ET-----GITATPCGECDNCREIEQGRFVDLIEIDAASRTKVEDTRELLDNVQYAPARGR 119
Query: 500 YKIYVIDEVHMLTHHAFNAMLKTLEEPPKYIKFILATTEPQKIPITVLSRCIQFNLKKML 559
+K+Y+IDEVHML+ H+FNA+LKTLEEPP+++KF+LATT+PQK+P+T+LSRC+QF+LK +
Sbjct: 120 FKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLPVTILSRCLQFHLKALD 179
Query: 560 HHDIVNNLCYILNKENIKFETSALNLIATGAQGSMRDALSLTDQAINYSSEKITLNSMQE 619
I L +IL E I FE AL L+A A GSMRDALSLTDQAI + ++T + +
Sbjct: 180 VEQIRQQLEHILQAEQIPFEPRALQLLARAADGSMRDALSLTDQAIASGNGQVTTDDVSA 239
Query: 620 MLSIIDQKYLIQILDALAEQDGNLILSIANKIEIYNLSYSIVLKDLSLLLHQISLIQISP 679
ML +D + +L+AL E DG ++++ N++ + +L +L LLH+I++ Q+ P
Sbjct: 240 MLGTLDDDQALSLLEALVEGDGERVMALINQLAERGPDWEGLLVELLELLHRIAMAQLLP 299
Query: 680 EILIKDSPNYN-EIIQLSKKFNIEQIQLFYQISIHGRNELELAPDEYAGFTMTLLRMLVF 738
L D + + +L++ E +QL+YQ + GR +L LAPD G MTLLRML F
Sbjct: 300 AALDNDMADIELRLRELARTLPPEDVQLYYQTLLIGRKDLPLAPDRRMGVEMTLLRMLAF 359
>gnl|CDD|233847 TIGR02397, dnaX_nterm, DNA polymerase III, subunit gamma and tau.
This model represents the well-conserved first ~ 365
amino acids of the translation of the dnaX gene. The
full-length product of the dnaX gene in the model
bacterium E. coli is the DNA polymerase III tau subunit.
A translational frameshift leads to early termination
and a truncated protein subunit gamma, about 1/3 shorter
than tau and present in roughly equal amounts. This
frameshift mechanism is not necessarily universal for
species with DNA polymerase III but appears conserved in
the exterme thermophile Thermus thermophilis [DNA
metabolism, DNA replication, recombination, and repair].
Length = 355
Score = 448 bits (1155), Expect = e-146
Identities = 158/359 (44%), Positives = 229/359 (63%), Gaps = 6/359 (1%)
Query: 379 VVLARKYRPSNFNTLIGQNHISKSLINALDKKRLHHAYLFTGTRGVGKTTISRILAKCLN 438
VLARKYRP F +IGQ HI ++L NA+ R+ HAYLF+G RG GKT+I+RI AK LN
Sbjct: 2 QVLARKYRPQTFEDVIGQEHIVQTLKNAIKNGRIAHAYLFSGPRGTGKTSIARIFAKALN 61
Query: 439 CIGIDGNGGITSQPCGKCSVCVKIDNGCFMDYIEMDAASTRGINEMAQLLEQTIYAPINA 498
C G +PC +C C +I++G +D IE+DAAS G++++ ++L+ YAP +
Sbjct: 62 CQN-----GPDGEPCNECESCKEINSGSSLDVIEIDAASNNGVDDIREILDNVKYAPSSG 116
Query: 499 RYKIYVIDEVHMLTHHAFNAMLKTLEEPPKYIKFILATTEPQKIPITVLSRCIQFNLKKM 558
+YK+Y+IDEVHML+ AFNA+LKTLEEPP+++ FILATTEP KIP T+LSRC +F+ K++
Sbjct: 117 KYKVYIIDEVHMLSKSAFNALLKTLEEPPEHVVFILATTEPHKIPATILSRCQRFDFKRI 176
Query: 559 LHHDIVNNLCYILNKENIKFETSALNLIATGAQGSMRDALSLTDQAINYSSEKITLNSMQ 618
DIV L IL+KE IK E AL LIA A GS+RDALSL DQ I++ + IT +
Sbjct: 177 PLEDIVERLKKILDKEGIKIEDEALELIARAADGSLRDALSLLDQLISFGNGNITYEDVN 236
Query: 619 EMLSIIDQKYLIQILDALAEQDGNLILSIANKIEIYNLSYSIVLKDLSLLLHQISLIQIS 678
E+L ++D + LI++L+A+ +D L I ++I + L+DL +L + LI+ +
Sbjct: 237 ELLGLVDDEKLIELLEAILNKDTAEALKILDEILESGVDPEKFLEDLIEILRDLLLIKKT 296
Query: 679 PEILIKDSPNYNEIIQ-LSKKFNIEQIQLFYQISIHGRNELELAPDEYAGFTMTLLRML 736
P L+ + E ++ L+ K ++E + I + +L + D MTLLR+L
Sbjct: 297 PSNLLAVLESEQEFLKELALKLSLEFLLRLLDILLEALKDLRFSNDPRIWLEMTLLRLL 355
>gnl|CDD|215639 PLN03226, PLN03226, serine hydroxymethyltransferase; Provisional.
Length = 475
Score = 447 bits (1152), Expect = e-144
Identities = 188/405 (46%), Positives = 250/405 (61%), Gaps = 37/405 (9%)
Query: 5 NENLSKIDPKIWEIILKEKQRQNNNIELIASENYTSLAVMEAQGTLLTNKYAEGYPGKRY 64
N L ++DP+I +II KEK+RQ +ELIASEN+TS AVMEA G+ LTNKY+EG PG RY
Sbjct: 12 NAPLEEVDPEIADIIEKEKRRQWKGLELIASENFTSRAVMEALGSCLTNKYSEGLPGARY 71
Query: 65 YGGCKFIDLIEKIAINRLKKIFNAEAA----NVQPHSGSQANQAVFFSVLNPGDTIMGMS 120
YGG ++ID IE + R + F + NVQP SGS AN AV+ ++L P D IMG+
Sbjct: 72 YGGNEYIDQIETLCQKRALEAFRLDPEKWGVNVQPLSGSPANFAVYTALLQPHDRIMGLD 131
Query: 121 LQEGGHLTHGMMLNMSGK------WFNSICYGLNKKEK-IDYKKVEYLAKKNKPKLIIAG 173
L GGHL+HG K +F S+ Y L++ IDY K+E A +PKLIIAG
Sbjct: 132 LPHGGHLSHGYQ-TDGKKISATSIYFESMPYRLDESTGLIDYDKLEKKAMLFRPKLIIAG 190
Query: 174 ASAYSQYIDFERFYHIAKNINSYFMVDMAHYAGLIAAGEYPNPVPFADFITSTTHKSLRG 233
ASAY + D+ R IA + + M DMAH +GL+AA E +P + D +T+TTHKSLRG
Sbjct: 191 ASAYPRDWDYARMRKIADKVGALLMCDMAHISGLVAAQEAASPFEYCDVVTTTTHKSLRG 250
Query: 234 PRGGFILMKK--------------KYKKIINSAVFPGIQGGPLMHVIAAKAVAFKEVLKP 279
PRGG I +K Y+ IN AVFPG+QGGP H IAA AVA K+ + P
Sbjct: 251 PRGGMIFFRKGPKPPKGQGEGAVYDYEDKINFAVFPGLQGGPHNHTIAALAVALKQAMTP 310
Query: 280 DFKIYQKQVVKNAKILSKILDQRGIRIVSGGTKSHIILVDLRNKKITGKIAESILESANI 339
+FK YQKQV NA L+ L +G ++V+GGT +H++L DLR +TG E +L+ A+I
Sbjct: 311 EFKAYQKQVKANAAALANRLMSKGYKLVTGGTDNHLVLWDLRPLGLTGSRVEKVLDLAHI 370
Query: 340 ICNKNSIPNDPEKPYFTS-----GIRLGSSAITTRGFSELEIIKV 379
NKN++P D +S G+R+G+ A+T+RG E + KV
Sbjct: 371 TLNKNAVPGD------SSALVPGGVRIGTPAMTSRGLVEKDFEKV 409
>gnl|CDD|184161 PRK13580, PRK13580, serine hydroxymethyltransferase; Provisional.
Length = 493
Score = 436 bits (1124), Expect = e-140
Identities = 180/418 (43%), Positives = 262/418 (62%), Gaps = 44/418 (10%)
Query: 6 ENLSKIDPKIWEIILKEKQRQNNNIELIASENYTSLAVMEAQGTLLTNKYAEGYPGKRYY 65
+ + ++P+I E I +E Q ++++LIASENY+SLAV A G LLT+KYAEG PG R+Y
Sbjct: 28 DVILHVEPRIAEAIRQELADQRSSLKLIASENYSSLAVQLAMGNLLTDKYAEGTPGHRFY 87
Query: 66 GGCKFIDLIEKIAINRLKKIFNAEAANVQPHSGSQANQAVFFSVL-----NPG------- 113
GC+ +D +E A K++F AE A VQPHSG+ AN F+++L +P
Sbjct: 88 AGCQNVDTVEWEAAEHAKELFGAEHAYVQPHSGADANLVAFWAILAHKVESPALEKLGAK 147
Query: 114 -------------------DTIMGMSLQEGGHLTHGMMLNMSGKWFNSICYGLNKK-EKI 153
++GMSL GGHLTHG N+SGK F+ YG++ +
Sbjct: 148 TVNDLTEEDWEALRAELGNQRLLGMSLDSGGHLTHGFRPNISGKMFHQRSYGVDPDTGLL 207
Query: 154 DYKKVEYLAKKNKPKLIIAGASAYSQYIDFERFYHIAKNINSYFMVDMAHYAGLIAA--- 210
DY ++ LA++ KP +++AG SAY + ++F + IA + + MVDMAH+AGL+A
Sbjct: 208 DYDEIAALAREFKPLILVAGYSAYPRRVNFAKLREIADEVGAVLMVDMAHFAGLVAGKVF 267
Query: 211 -GEYPNPVPFADFITSTTHKSLRGPRGGFILMKKKYKKIINSAVFPGIQGGPLMHVIAAK 269
G+ +PVP AD +T+TTHK+LRGPRGG +L KK+Y ++ P + GGPL HV+AAK
Sbjct: 268 TGDE-DPVPHADIVTTTTHKTLRGPRGGLVLAKKEYADAVDKGC-PLVLGGPLPHVMAAK 325
Query: 270 AVAFKEVLKPDFKIYQKQVVKNAKILSKILDQRGIRIVSGGTKSHIILVDLRNKKITGKI 329
AVA E P+F+ Y +QVV NA+ L++ +RG R+V+GGT +H++L+D+ + +TG+
Sbjct: 326 AVALAEARTPEFQKYAQQVVDNARALAEGFLKRGARLVTGGTDNHLVLIDVTSFGLTGRQ 385
Query: 330 AESILESANIICNKNSIPNDPEKPYFTSGIRLGSSAITTRGF--SEL----EIIKVVL 381
AES L A I+ N+NSIP+DP ++TSGIRLG+ A+TT G E+ E+I VL
Sbjct: 386 AESALLDAGIVTNRNSIPSDPNGAWYTSGIRLGTPALTTLGMGSDEMDEVAELIVKVL 443
>gnl|CDD|236333 PRK08691, PRK08691, DNA polymerase III subunits gamma and tau;
Validated.
Length = 709
Score = 437 bits (1124), Expect = e-137
Identities = 185/362 (51%), Positives = 255/362 (70%), Gaps = 5/362 (1%)
Query: 380 VLARKYRPSNFNTLIGQNHISKSLINALDKKRLHHAYLFTGTRGVGKTTISRILAKCLNC 439
VLARK+RP F L+GQ H+ K+L NALD+ RLHHAYL TGTRGVGKTTI+RILAK LNC
Sbjct: 5 VLARKWRPKTFADLVGQEHVVKALQNALDEGRLHHAYLLTGTRGVGKTTIARILAKSLNC 64
Query: 440 IGIDGNGGITSQPCGKCSVCVKIDNGCFMDYIEMDAASTRGINEMAQLLEQTIYAPINAR 499
+PCG C C +ID G ++D +E+DAAS GI+ + ++LE YAP +
Sbjct: 65 -----ENAQHGEPCGVCQSCTQIDAGRYVDLLEIDAASNTGIDNIREVLENAQYAPTAGK 119
Query: 500 YKIYVIDEVHMLTHHAFNAMLKTLEEPPKYIKFILATTEPQKIPITVLSRCIQFNLKKML 559
YK+Y+IDEVHML+ AFNAMLKTLEEPP+++KFILATT+P K+P+TVLSRC+QF L+ M
Sbjct: 120 YKVYIIDEVHMLSKSAFNAMLKTLEEPPEHVKFILATTDPHKVPVTVLSRCLQFVLRNMT 179
Query: 560 HHDIVNNLCYILNKENIKFETSALNLIATGAQGSMRDALSLTDQAINYSSEKITLNSMQE 619
+ ++L ++L+ E I +E AL L+ A GSMRDALSL DQAI S K+ N +++
Sbjct: 180 AQQVADHLAHVLDSEKIAYEPPALQLLGRAAAGSMRDALSLLDQAIALGSGKVAENDVRQ 239
Query: 620 MLSIIDQKYLIQILDALAEQDGNLILSIANKIEIYNLSYSIVLKDLSLLLHQISLIQISP 679
M+ +D++YL ++L + QDG +L+ A ++ + + L +L++LL Q++LIQ P
Sbjct: 240 MIGAVDKQYLYELLTGIINQDGAALLAKAQEMAACAVGFDNALGELAILLQQLALIQAVP 299
Query: 680 EILIKDSPNYNEIIQLSKKFNIEQIQLFYQISIHGRNELELAPDEYAGFTMTLLRMLVFQ 739
L D P+ + + +L++ + EQIQL+YQI++HG+ +L LAPDEYAGF MTLLRML F
Sbjct: 300 SALAHDDPDSDILHRLAQTISGEQIQLYYQIAVHGKRDLSLAPDEYAGFMMTLLRMLAFA 359
Query: 740 TL 741
L
Sbjct: 360 PL 361
>gnl|CDD|225369 COG2812, DnaX, DNA polymerase III, gamma/tau subunits [DNA
replication, recombination, and repair].
Length = 515
Score = 409 bits (1054), Expect = e-130
Identities = 165/359 (45%), Positives = 236/359 (65%), Gaps = 7/359 (1%)
Query: 380 VLARKYRPSNFNTLIGQNHISKSLINALDKKRLHHAYLFTGTRGVGKTTISRILAKCLNC 439
VLARKYRP F+ ++GQ H+ K+L NAL+ R+ HAYLF+G RGVGKTTI+RILAK LNC
Sbjct: 5 VLARKYRPKTFDDVVGQEHVVKTLSNALENGRIAHAYLFSGPRGVGKTTIARILAKALNC 64
Query: 440 IGIDGNGGITSQPCGKCSVCVKIDNGCFMDYIEMDAASTRGINEMAQLLEQTIYAPINAR 499
G T++PCGKC C +I+ G +D IE+DAAS G++++ +++E+ YAP R
Sbjct: 65 EN-----GPTAEPCGKCISCKEINEGSLIDVIEIDAASNTGVDDIREIIEKVNYAPSEGR 119
Query: 500 YKIYVIDEVHMLTHHAFNAMLKTLEEPPKYIKFILATTEPQKIPITVLSRCIQFNLKKML 559
YK+Y+IDEVHML+ AFNA+LKTLEEPP ++KFILATTEPQKIP T+LSRC +F+ K++
Sbjct: 120 YKVYIIDEVHMLSKQAFNALLKTLEEPPSHVKFILATTEPQKIPNTILSRCQRFDFKRLD 179
Query: 560 HHDIVNNLCYILNKENIKFETSALNLIATGAQGSMRDALSLTDQAINYSSEKITLNSMQE 619
+I +L IL+KE I E AL+LIA A+GS+RDALSL DQAI + +ITL S+++
Sbjct: 180 LEEIAKHLAAILDKEGINIEEDALSLIARAAEGSLRDALSLLDQAIAFGEGEITLESVRD 239
Query: 620 MLSIIDQKYLIQILDALAEQDGNLILSIANKIEIYNLSYSIVLKDLSLLLHQ-ISLIQIS 678
ML + D + L+ +L+A+ + D L + N++ L+DL L + Q
Sbjct: 240 MLGLTDIEKLLSLLEAILKGDAKEALRLINELIEEGKDPEAFLEDLLNFLRDLLLFKQTV 299
Query: 679 PEILIKDSPNYNE-IIQLSKKFNIEQIQLFYQISIHGRNELELAPDEYAGFTMTLLRML 736
P L ++ E +L+ + ++ +Q YQ+ + G EL+ + G MTL+R+L
Sbjct: 300 PNELQLNTTEIEERTKELASQISVLNLQRLYQLLLPGLKELKRSLSPRLGLEMTLIRLL 358
>gnl|CDD|237863 PRK14949, PRK14949, DNA polymerase III subunits gamma and tau;
Provisional.
Length = 944
Score = 410 bits (1055), Expect = e-125
Identities = 181/373 (48%), Positives = 251/373 (67%), Gaps = 34/373 (9%)
Query: 380 VLARKYRPSNFNTLIGQNHISKSLINALDKKRLHHAYLFTGTRGVGKTTISRILAKCLNC 439
VLARK+RP+ F ++GQ+H+ +L NAL ++RLHHAYLFTGTRGVGKT+++R+ AK LNC
Sbjct: 5 VLARKWRPATFEQMVGQSHVLHALTNALTQQRLHHAYLFTGTRGVGKTSLARLFAKGLNC 64
Query: 440 IGIDGNGGITSQPCGKCSVCVKIDNGCFMDYIEMDAASTRGINEMAQLLEQTIYAPINAR 499
G+T+ PCG CS CV+I G F+D IE+DAAS +++ +LL+ Y P R
Sbjct: 65 -----EQGVTATPCGVCSSCVEIAQGRFVDLIEVDAASRTKVDDTRELLDNVQYRPSRGR 119
Query: 500 YKIYVIDEVHMLTHHAFNAMLKTLEEPPKYIKFILATTEPQKIPITVLSRCIQFNLKKML 559
+K+Y+IDEVHML+ +FNA+LKTLEEPP+++KF+LATT+PQK+P+TVLSRC+QFNLK +
Sbjct: 120 FKVYLIDEVHMLSRSSFNALLKTLEEPPEHVKFLLATTDPQKLPVTVLSRCLQFNLKSLT 179
Query: 560 HHDIVNNLCYILNKENIKFETSALNLIATGAQGSMRDALSLTDQAINYSSEKITLNSMQE 619
+I L +IL +E + FE AL L+A A GSMRDALSLTDQAI + ++ L +Q
Sbjct: 180 QDEIGTQLNHILTQEQLPFEAEALTLLAKAANGSMRDALSLTDQAIAFGGGQVMLTQVQT 239
Query: 620 MLSIIDQKYLIQILDALAEQD-GNLILSIANKIEIYNLSYSI----VLKDLSLLLHQISL 674
ML ID++++I +L AL + D G L+ + A ++ L++ VL+ L LLHQI+L
Sbjct: 240 MLGSIDEQHVIALLKALTDADIGVLMQTCA-QV----LAFGADAQEVLRSLLELLHQITL 294
Query: 675 IQISP----EILIKDSPNYNEII-----QLSKKFNIEQIQLFYQISIHGRNELELAPDEY 725
Q +P + L Y+E I QLS EQ+QL+YQI + GR +L APD
Sbjct: 295 TQFAPAAAQQSL------YSEQIRAFAEQLSP----EQVQLYYQILLTGRKDLPHAPDPK 344
Query: 726 AGFTMTLLRMLVF 738
+G M LLR + F
Sbjct: 345 SGLEMALLRAVAF 357
>gnl|CDD|237868 PRK14960, PRK14960, DNA polymerase III subunits gamma and tau;
Provisional.
Length = 702
Score = 375 bits (964), Expect = e-114
Identities = 178/363 (49%), Positives = 251/363 (69%), Gaps = 6/363 (1%)
Query: 380 VLARKYRPSNFNTLIGQNHISKSLINALDKKRLHHAYLFTGTRGVGKTTISRILAKCLNC 439
VLARKYRP NFN L+GQNH+S++L +AL++ RLHHAYLFTGTRGVGKTTI+RILAKCLNC
Sbjct: 4 VLARKYRPRNFNELVGQNHVSRALSSALERGRLHHAYLFTGTRGVGKTTIARILAKCLNC 63
Query: 440 IGIDGNGGITSQPCGKCSVCVKIDNGCFMDYIEMDAASTRGINEMAQLLEQTIYAPINAR 499
G+TS PC C+ C ++ G F+D IE+DAAS + + +LL+ YAP R
Sbjct: 64 -----ETGVTSTPCEVCATCKAVNEGRFIDLIEIDAASRTKVEDTRELLDNVPYAPTQGR 118
Query: 500 YKIYVIDEVHMLTHHAFNAMLKTLEEPPKYIKFILATTEPQKIPITVLSRCIQFNLKKML 559
+K+Y+IDEVHML+ H+FNA+LKTLEEPP+++KF+ ATT+PQK+PITV+SRC+QF L+ +
Sbjct: 119 FKVYLIDEVHMLSTHSFNALLKTLEEPPEHVKFLFATTDPQKLPITVISRCLQFTLRPLA 178
Query: 560 HHDIVNNLCYILNKENIKFETSALNLIATGAQGSMRDALSLTDQAINYSSEKITLNSMQE 619
+I +L IL KE I + A+ IA AQGS+RDALSLTDQAI Y + ++E
Sbjct: 179 VDEITKHLGAILEKEQIAADQDAIWQIAESAQGSLRDALSLTDQAIAYGQGAVHHQDVKE 238
Query: 620 MLSIIDQKYLIQILDALAEQDGNLILSIANKIEIYNLSYSIVLKDLSLLLHQISLIQISP 679
ML +ID+ + ++ A+ + + + + L S+VL L LH+++L+Q P
Sbjct: 239 MLGLIDRTIIYDLILAVHQNQREKVSQLLLQFRYQALDVSLVLDQLISTLHELALLQYLP 298
Query: 680 EILIKDSPNYN-EIIQLSKKFNIEQIQLFYQISIHGRNELELAPDEYAGFTMTLLRMLVF 738
E+ +K S N +I+QLSK + + +QL+YQI+ GR++L+LA + GF M +LR+L F
Sbjct: 299 ELGLKYSEEINAKILQLSKLISAQDLQLYYQIACKGRSDLQLAVTQEQGFEMCVLRLLAF 358
Query: 739 QTL 741
+ L
Sbjct: 359 RPL 361
>gnl|CDD|184925 PRK14961, PRK14961, DNA polymerase III subunits gamma and tau;
Provisional.
Length = 363
Score = 362 bits (932), Expect = e-114
Identities = 169/364 (46%), Positives = 237/364 (65%), Gaps = 7/364 (1%)
Query: 380 VLARKYRPSNFNTLIGQNHISKSLINALDKKRLHHAYLFTGTRGVGKTTISRILAKCLNC 439
+LARK+RP F +IGQ HI ++ N L R+HHA+L +GTRGVGKTTI+R+LAK LNC
Sbjct: 5 ILARKWRPQYFRDIIGQKHIVTAISNGLSLGRIHHAWLLSGTRGVGKTTIARLLAKSLNC 64
Query: 440 IGIDGNGGITSQPCGKCSVCVKIDNGCFMDYIEMDAASTRGINEMAQLLEQTIYAPINAR 499
GITS PC KC +C +I+ G +D IE+DAAS + EM ++L+ Y+P +R
Sbjct: 65 -----QNGITSNPCRKCIICKEIEKGLCLDLIEIDAASRTKVEEMREILDNIYYSPSKSR 119
Query: 500 YKIYVIDEVHMLTHHAFNAMLKTLEEPPKYIKFILATTEPQKIPITVLSRCIQFNLKKML 559
+K+Y+IDEVHML+ H+FNA+LKTLEEPP++IKFILATT+ +KIP T+LSRC+QF LK +
Sbjct: 120 FKVYLIDEVHMLSRHSFNALLKTLEEPPQHIKFILATTDVEKIPKTILSRCLQFKLKIIS 179
Query: 560 HHDIVNNLCYILNKENIKFETSALNLIATGAQGSMRDALSLTDQAINYSSEKITLNSMQE 619
I N L YIL KE+I + AL LIA A GSMRDAL+L + AIN I + ++ +
Sbjct: 180 EEKIFNFLKYILIKESIDTDEYALKLIAYHAHGSMRDALNLLEHAINLGKGNINIKNVTD 239
Query: 620 MLSIIDQKYLIQILDALAEQDGNLILSIANKIEIYNLSYSIVLKDLSLLLHQISLIQISP 679
ML ++++K + DAL ++D + + NKI + + +L ++ LH IS+ Q P
Sbjct: 240 MLGLLNEKQSFLLTDALLKKDSKKTMLLLNKISSIGIEWENILIEMLRFLHHISMSQSFP 299
Query: 680 EI--LIKDSPNYNEIIQLSKKFNIEQIQLFYQISIHGRNELELAPDEYAGFTMTLLRMLV 737
+I I N+I ++++ IQL YQI ++GR EL+ APD+ G MTLLR +
Sbjct: 300 KIWNTIFIKNYKNQIQKIAQNNKKTNIQLCYQILLNGRKELKFAPDQKIGVEMTLLRAIN 359
Query: 738 FQTL 741
T
Sbjct: 360 AITK 363
>gnl|CDD|235505 PRK05563, PRK05563, DNA polymerase III subunits gamma and tau;
Validated.
Length = 559
Score = 370 bits (952), Expect = e-114
Identities = 147/333 (44%), Positives = 211/333 (63%), Gaps = 19/333 (5%)
Query: 381 LARKYRPSNFNTLIGQNHISKSLINALDKKRLHHAYLFTGTRGVGKTTISRILAKCLNCI 440
L RK+RP F ++GQ HI+K+L NA+ + ++ HAYLF+G RG GKT+ ++I AK +NC+
Sbjct: 6 LYRKWRPQTFEDVVGQEHITKTLKNAIKQGKISHAYLFSGPRGTGKTSAAKIFAKAVNCL 65
Query: 441 -GIDGNGGITSQPCGKCSVCVKIDNGCFMDYIEMDAASTRGINEMAQLLEQTIYAPINAR 499
DG PC +C +C I NG MD IE+DAAS G++E+ + ++ YAP A+
Sbjct: 66 NPPDGE------PCNECEICKAITNGSLMDVIEIDAASNNGVDEIRDIRDKVKYAPSEAK 119
Query: 500 YKIYVIDEVHMLTHHAFNAMLKTLEEPPKYIKFILATTEPQKIPITVLSRCIQFNLKKML 559
YK+Y+IDEVHML+ AFNA+LKTLEEPP ++ FILATTEP KIP T+LSRC +F+ K++
Sbjct: 120 YKVYIIDEVHMLSTGAFNALLKTLEEPPAHVIFILATTEPHKIPATILSRCQRFDFKRIS 179
Query: 560 HHDIVNNLCYILNKENIKFETSALNLIATGAQGSMRDALSLTDQAINYSSEKITLNSMQE 619
DIV L YIL+KE I++E AL LIA A+G MRDALS+ DQAI++ K+T E
Sbjct: 180 VEDIVERLKYILDKEGIEYEDEALRLIARAAEGGMRDALSILDQAISFGDGKVTYEDALE 239
Query: 620 MLSIIDQKYLIQILDALAEQDGNLILSIANKI-----EIYNLSYSIVLKDLSLLLHQISL 674
+ + Q+ L ++DA+ E D L I ++ + ++DL L + L
Sbjct: 240 VTGSVSQEALDDLVDAIVEGDVAKALKILEELLDEGKDPNRF-----IEDLIYYLRDLLL 294
Query: 675 IQISPEILIKDSP--NYNEIIQLSKKFNIEQIQ 705
++ SPE+ I D N +LS+K +IE++
Sbjct: 295 VKTSPELEILDESTENDELFKELSEKLDIERLY 327
>gnl|CDD|236382 PRK09111, PRK09111, DNA polymerase III subunits gamma and tau;
Validated.
Length = 598
Score = 361 bits (930), Expect = e-111
Identities = 148/367 (40%), Positives = 228/367 (62%), Gaps = 19/367 (5%)
Query: 380 VLARKYRPSNFNTLIGQNHISKSLINALDKKRLHHAYLFTGTRGVGKTTISRILAKCLNC 439
VLARKYRP F+ LIGQ + ++L NA + R+ A++ TG RGVGKTT +RILA+ LN
Sbjct: 13 VLARKYRPQTFDDLIGQEAMVRTLTNAFETGRIAQAFMLTGVRGVGKTTTARILARALNY 72
Query: 440 IGIDGNGGITSQPCGKCSVCVKIDNGCFMDYIEMDAASTRGINEMAQLLEQTIYAPINAR 499
G DG+GG T CG C I G +D +EMDAAS G++++ +++E Y P++AR
Sbjct: 73 EGPDGDGGPTIDLCGVGEHCQAIMEGRHVDVLEMDAASHTGVDDIREIIESVRYRPVSAR 132
Query: 500 YKIYVIDEVHMLTHHAFNAMLKTLEEPPKYIKFILATTEPQKIPITVLSRCIQFNLKKML 559
YK+Y+IDEVHML+ AFNA+LKTLEEPP ++KFI ATTE +K+P+TVLSRC +F+L+++
Sbjct: 133 YKVYIIDEVHMLSTAAFNALLKTLEEPPPHVKFIFATTEIRKVPVTVLSRCQRFDLRRIE 192
Query: 560 HHDIVNNLCYILNKENIKFETSALNLIATGAQGSMRDALSLTDQAINYSSEKITLNSMQE 619
+ +L I KE ++ E AL LIA A+GS+RD LSL DQAI + + ++T ++++
Sbjct: 193 ADVLAAHLSRIAAKEGVEVEDEALALIARAAEGSVRDGLSLLDQAIAHGAGEVTAEAVRD 252
Query: 620 MLSIIDQKYLIQILDALAEQDGNLILSIANKIEIYNLSYS------IVLKDLSLLLHQIS 673
ML + D+ +I + +AL D +A + + Y +VL DL+ H ++
Sbjct: 253 MLGLADRARVIDLFEALMRGD------VAAALAEFRAQYDAGADPVVVLTDLAEFTHLVT 306
Query: 674 LIQISPEILIKDSPNYNEI-----IQLSKKFNIEQIQLFYQISIHGRNELELAPDEYAGF 728
++I P+ + P+ +E + +KK ++ + +Q+ + G E++ AP A
Sbjct: 307 RLKIVPDAA--EDPSLSEAERTRGAEFAKKLSMRVLSRLWQMLLKGIEEVQGAPRPLAAA 364
Query: 729 TMTLLRM 735
M L+R+
Sbjct: 365 EMVLIRL 371
>gnl|CDD|184922 PRK14958, PRK14958, DNA polymerase III subunits gamma and tau;
Provisional.
Length = 509
Score = 353 bits (907), Expect = e-109
Identities = 177/359 (49%), Positives = 247/359 (68%), Gaps = 7/359 (1%)
Query: 380 VLARKYRPSNFNTLIGQNHISKSLINALDKKRLHHAYLFTGTRGVGKTTISRILAKCLNC 439
VLARK+RP F +IGQ + ++L NALD++ LHHAYLFTGTRGVGKTTISRILAKCLNC
Sbjct: 5 VLARKWRPRCFQEVIGQAPVVRALSNALDQQYLHHAYLFTGTRGVGKTTISRILAKCLNC 64
Query: 440 IGIDGNGGITSQPCGKCSVCVKIDNGCFMDYIEMDAASTRGINEMAQLLEQTIYAPINAR 499
G+++ PC C C +ID G F D E+DAAS + + +LL+ YAP R
Sbjct: 65 -----EKGVSANPCNDCENCREIDEGRFPDLFEVDAASRTKVEDTRELLDNIPYAPTKGR 119
Query: 500 YKIYVIDEVHMLTHHAFNAMLKTLEEPPKYIKFILATTEPQKIPITVLSRCIQFNLKKML 559
+K+Y+IDEVHML+ H+FNA+LKTLEEPP ++KFILATT+ K+P+TVLSRC+QF+L ++
Sbjct: 120 FKVYLIDEVHMLSGHSFNALLKTLEEPPSHVKFILATTDHHKLPVTVLSRCLQFHLAQLP 179
Query: 560 HHDIVNNLCYILNKENIKFETSALNLIATGAQGSMRDALSLTDQAINYSSEKITLNSMQE 619
I + ++L +EN++FE +AL+L+A A GS+RDALSL DQ+I Y + K+ + ++
Sbjct: 180 PLQIAAHCQHLLKEENVEFENAALDLLARAANGSVRDALSLLDQSIAYGNGKVLIADVKT 239
Query: 620 MLSIIDQKYLIQILDALAEQDGNLILSIANKIEIYNLSYSIVLKDLSLLLHQISLIQISP 679
ML I+ L IL+ALA + G+ +L ++ + +S L DL LLHQI++IQ P
Sbjct: 240 MLGTIEPLLLFDILEALAAKAGDRLLGCVTRLVEQGVDFSNALADLLSLLHQIAIIQTVP 299
Query: 680 EILIKDSPNYNEIIQLSKKFNIEQIQLFYQISIHGRNELELAPDEYAGFTMTLLRMLVF 738
E LI++ + ++ QL+K + E +QLFYQI + G+ +L +P GF MTLLRML F
Sbjct: 300 EALIEN--DSEQLRQLAKLLDREDVQLFYQIGLIGQRDLAYSPTPQTGFEMTLLRMLAF 356
>gnl|CDD|215153 PLN02271, PLN02271, serine hydroxymethyltransferase.
Length = 586
Score = 349 bits (896), Expect = e-106
Identities = 177/413 (42%), Positives = 242/413 (58%), Gaps = 36/413 (8%)
Query: 5 NENLSKIDPKIWEIILKEKQRQNNNIELIASENYTSLAVMEAQGTLLTNKYAEGYPGKRY 64
N+ L + DP I E++ KEKQRQ IELIASEN+ AVMEA G+ LTNKY+EG PG RY
Sbjct: 126 NQPLPEADPDIHELMEKEKQRQFKGIELIASENFVCRAVMEALGSHLTNKYSEGMPGARY 185
Query: 65 YGGCKFIDLIEKIAINRLKKIFNAEAA----NVQPHSGSQANQAVFFSVLNPGDTIMGMS 120
Y G ++ID IE++ R F ++ NVQP+S + AN AV+ +L PGD IMG+
Sbjct: 186 YTGNQYIDQIERLCCERALAAFGLDSEKWGVNVQPYSCTSANFAVYTGLLLPGDRIMGLD 245
Query: 121 LQEGGHLTHGMMLNMSGK-------WFNSICYGLNKKEK-IDYKKVEYLAKKNKPKLIIA 172
GGH++HG GK +F S+ Y +N + IDY K+E A +PK++I
Sbjct: 246 SPSGGHMSHGYYTP-GGKKVSGASIFFESLPYKVNPQTGYIDYDKLEEKALDFRPKILIC 304
Query: 173 GASAYSQYIDFERFYHIAKNINSYFMVDMAHYAGLIAAGEYPNPVPFADFITSTTHKSLR 232
G S+Y + D+ RF IA + M DMAH +GL+AA E NP + D +TSTTHKSLR
Sbjct: 305 GGSSYPREWDYARFRQIADKCGAVLMCDMAHISGLVAAKECVNPFDYCDIVTSTTHKSLR 364
Query: 233 GPRGGFILMKK--------------------KYKKIINSAVFPGIQGGPLMHVIAAKAVA 272
GPRGG I +K +++ IN AVFP +QGGP + IAA A+A
Sbjct: 365 GPRGGIIFYRKGPKLRKQGMLLSHGDDNSHYDFEEKINFAVFPSLQGGPHNNHIAALAIA 424
Query: 273 FKEVLKPDFKIYQKQVVKNAKILSKILDQRGIRIVSGGTKSHIILVDLRNKKITGKIAES 332
K+V P++K Y +QV KNA+ L+ L +R R+V+GGT +H++L DL +TGK E
Sbjct: 425 LKQVATPEYKAYMQQVKKNAQALASALLRRKCRLVTGGTDNHLLLWDLTTLGLTGKNYEK 484
Query: 333 ILESANIICNKNSIPNDPEKPYFTSGIRLGSSAITTRGF--SELEIIKVVLAR 383
+ E +I NK +I D G+R+G+ A+T+RG S+ E I L R
Sbjct: 485 VCEMCHITLNKTAIFGD-NGTISPGGVRIGTPAMTSRGCLESDFETIADFLLR 536
>gnl|CDD|236267 PRK08451, PRK08451, DNA polymerase III subunits gamma and tau;
Validated.
Length = 535
Score = 341 bits (876), Expect = e-104
Identities = 149/363 (41%), Positives = 211/363 (58%), Gaps = 28/363 (7%)
Query: 380 VLARKYRPSNFNTLIGQNHISKSLINALDKKRLHHAYLFTGTRGVGKTTISRILAKCLNC 439
LA KYRP +F+ LIGQ +SK+L ALD RL HAYLF+G RG GKT+ +RI A+ L C
Sbjct: 3 ALALKYRPKHFDELIGQESVSKTLSLALDNNRLAHAYLFSGLRGSGKTSSARIFARALVC 62
Query: 440 IGIDGNGGITSQPCGKCSVCVKIDNGCFMDYIEMDAASTRGINEMAQLLEQTIYAPINAR 499
G +S PC C C +D IEMDAAS RGI+++ +L+EQT Y P AR
Sbjct: 63 -----EQGPSSTPCDTCIQCQSALENRHIDIIEMDAASNRGIDDIRELIEQTKYKPSMAR 117
Query: 500 YKIYVIDEVHMLTHHAFNAMLKTLEEPPKYIKFILATTEPQKIPITVLSRCIQFNLKKML 559
+KI++IDEVHMLT AFNA+LKTLEEPP Y+KFILATT+P K+P T+LSR F K++
Sbjct: 118 FKIFIIDEVHMLTKEAFNALLKTLEEPPSYVKFILATTDPLKLPATILSRTQHFRFKQIP 177
Query: 560 HHDIVNNLCYILNKENIKFETSALNLIATGAQGSMRDALSLTDQAINYSSEKITLNSMQE 619
+ I+++L IL KE + +E AL ++A GS+RD L+L DQAI Y IT + + +
Sbjct: 178 QNSIISHLKTILEKEGVSYEPEALEILARSGNGSLRDTLTLLDQAIIYCKNAITESKVAD 237
Query: 620 MLSIIDQKYLIQILDALAEQDGNLILSIANKIEIYNLSYSIVLKDLSLLLHQISLIQISP 679
ML ++D L A+ QD + + ++E Y +VL ++ L L +
Sbjct: 238 MLGLLDPSKLEDFFQAILNQDKEKLFELLKELEDYEA--EMVLDEMMLFLKE-------- 287
Query: 680 EILIKDSPNYNEIIQLSKKFNIEQIQLFYQISIHGRNELELAPDEYAGFTMTLLRMLVFQ 739
+ L KDS +F+I + F++I ++ L+ D GF + L+ + +
Sbjct: 288 KFLSKDS-----------EFSILLYERFFRILSSAKSLLKEGAD--DGFVLLLMLFKMKE 334
Query: 740 TLH 742
L
Sbjct: 335 ALK 337
>gnl|CDD|184921 PRK14957, PRK14957, DNA polymerase III subunits gamma and tau;
Provisional.
Length = 546
Score = 320 bits (820), Expect = 3e-96
Identities = 160/359 (44%), Positives = 232/359 (64%), Gaps = 5/359 (1%)
Query: 381 LARKYRPSNFNTLIGQNHISKSLINALDKKRLHHAYLFTGTRGVGKTTISRILAKCLNCI 440
LARKYRP +F + GQ H SL++AL+ +++HHAYLFTGTRGVGKTT+ R+LAKCLNC
Sbjct: 6 LARKYRPQSFAEVAGQQHALNSLVHALETQKVHHAYLFTGTRGVGKTTLGRLLAKCLNC- 64
Query: 441 GIDGNGGITSQPCGKCSVCVKIDNGCFMDYIEMDAASTRGINEMAQLLEQTIYAPINARY 500
G+T++PC KC CV I+N F+D IE+DAAS G+ E ++L+ Y P RY
Sbjct: 65 ----KTGVTAEPCNKCENCVAINNNSFIDLIEIDAASRTGVEETKEILDNIQYMPSQGRY 120
Query: 501 KIYVIDEVHMLTHHAFNAMLKTLEEPPKYIKFILATTEPQKIPITVLSRCIQFNLKKMLH 560
K+Y+IDEVHML+ +FNA+LKTLEEPP+Y+KFILATT+ KIP+T+LSRCIQ +LK +
Sbjct: 121 KVYLIDEVHMLSKQSFNALLKTLEEPPEYVKFILATTDYHKIPVTILSRCIQLHLKHISQ 180
Query: 561 HDIVNNLCYILNKENIKFETSALNLIATGAQGSMRDALSLTDQAINYSSEKITLNSMQEM 620
DI + L IL KENI + +L IA A+GS+RDALSL DQAI++ ++ +++M
Sbjct: 181 ADIKDQLKIILAKENINSDEQSLEYIAYHAKGSLRDALSLLDQAISFCGGELKQAQIKQM 240
Query: 621 LSIIDQKYLIQILDALAEQDGNLILSIANKIEIYNLSYSIVLKDLSLLLHQISLIQISPE 680
L IID + + I++A+ + D IL + + S VL ++ + + +
Sbjct: 241 LGIIDSEEVYSIINAIIDNDPKAILPAIKNLALTESSADAVLDRIAEIWFACCIYSFTQS 300
Query: 681 ILIKDSPNYNEIIQLSKKFNIEQIQLFYQISIHGRNELELAPDEYAGFTMTLLRMLVFQ 739
+ + + + I + K +IEQ YQ++I + ++ LAP+ G TM +LR++ FQ
Sbjct: 301 LDAVNDIDVDIINNILAKISIEQAHFLYQLTITAKKDIALAPNFETGVTMAILRLIAFQ 359
>gnl|CDD|237871 PRK14965, PRK14965, DNA polymerase III subunits gamma and tau;
Provisional.
Length = 576
Score = 320 bits (822), Expect = 3e-96
Identities = 141/361 (39%), Positives = 218/361 (60%), Gaps = 12/361 (3%)
Query: 380 VLARKYRPSNFNTLIGQNHISKSLINALDKKRLHHAYLFTGTRGVGKTTISRILAKCLNC 439
VLARKYRP F+ L GQ H+S++L NA+D R+ HA+LFTG RGVGKT+ +RILAK LNC
Sbjct: 5 VLARKYRPQTFSDLTGQEHVSRTLQNAIDTGRVAHAFLFTGARGVGKTSTARILAKALNC 64
Query: 440 IGIDGNGGITSQPCGKCSVCVKIDNGCFMDYIEMDAASTRGINEMAQLLEQTIYAPINAR 499
G+T++PC C CV+I G +D E+D AS G++++ +L E Y P +R
Sbjct: 65 -----EQGLTAEPCNVCPPCVEITEGRSVDVFEIDGASNTGVDDIRELRENVKYLPSRSR 119
Query: 500 YKIYVIDEVHMLTHHAFNAMLKTLEEPPKYIKFILATTEPQKIPITVLSRCIQFNLKKML 559
YKI++IDEVHML+ +AFNA+LKTLEEPP ++KFI ATTEP K+PIT+LSRC +F+ +++
Sbjct: 120 YKIFIIDEVHMLSTNAFNALLKTLEEPPPHVKFIFATTEPHKVPITILSRCQRFDFRRIP 179
Query: 560 HHDIVNNLCYILNKENIKFETSALNLIATGAQGSMRDALSLTDQAINYSSEKITLNSMQE 619
IV+ L YI ++E I +AL L+A GSMRD+LS DQ + + + + + + E
Sbjct: 180 LQKIVDRLRYIADQEGISISDAALALVARKGDGSMRDSLSTLDQVLAFCGDAVGDDDVAE 239
Query: 620 MLSIIDQKYLIQILDALAEQDGNLILSIANKIEIYNLSYSIVLKDLSLLLHQISLIQISP 679
+L ++D++ L+ I A+ +D +L I +++ + + ++L L + +++
Sbjct: 240 LLGVVDRRLLLDISAAVFGRDTRALLEIVERVDEFGYNMRQFCQELIDHLRNLVVLRAVG 299
Query: 680 E---ILIKDSPNYNEIIQLSKKFNIEQIQLFYQISIHGRNELELAPDEYAGFT--MTLLR 734
E +L E+ + + +Q + + R E E+A + M LL+
Sbjct: 300 EPGDLLDLSEAELAELRAQAAAADAADLQRHLTLLL--RAEGEMAHASFPRLVLEMALLK 357
Query: 735 M 735
M
Sbjct: 358 M 358
>gnl|CDD|237867 PRK14953, PRK14953, DNA polymerase III subunits gamma and tau;
Provisional.
Length = 486
Score = 296 bits (760), Expect = 1e-88
Identities = 134/294 (45%), Positives = 178/294 (60%), Gaps = 5/294 (1%)
Query: 382 ARKYRPSNFNTLIGQNHISKSLINALDKKRLHHAYLFTGTRGVGKTTISRILAKCLNCIG 441
ARKYRP F +IGQ + + L NA+ +R+ HAY+F G RG GKTTI+RILAK LNC+
Sbjct: 7 ARKYRPKFFKEVIGQEIVVRILKNAVKLQRVSHAYIFAGPRGTGKTTIARILAKVLNCLN 66
Query: 442 IDGNGGITSQPCGKCSVCVKIDNGCFMDYIEMDAASTRGINEMAQLLEQTIYAPINARYK 501
+PCGKC CV+ID G F D IE+DAAS RGI+++ L + Y PI +YK
Sbjct: 67 -----PQEGEPCGKCENCVEIDKGSFPDLIEIDAASNRGIDDIRALRDAVSYTPIKGKYK 121
Query: 502 IYVIDEVHMLTHHAFNAMLKTLEEPPKYIKFILATTEPQKIPITVLSRCIQFNLKKMLHH 561
+Y+IDE HMLT AFNA+LKTLEEPP FIL TTE KIP T+LSRC +F K
Sbjct: 122 VYIIDEAHMLTKEAFNALLKTLEEPPPRTIFILCTTEYDKIPPTILSRCQRFIFSKPTKE 181
Query: 562 DIVNNLCYILNKENIKFETSALNLIATGAQGSMRDALSLTDQAINYSSEKITLNSMQEML 621
I L I N+E I++E AL+L+A ++G MRDA SL DQA Y K+T+ ++E L
Sbjct: 182 QIKEYLKRICNEEKIEYEEKALDLLAQASEGGMRDAASLLDQASTYGEGKVTIKVVEEFL 241
Query: 622 SIIDQKYLIQILDALAEQDGNLILSIANKIEIYNLSYSIVLKDLSLLLHQISLI 675
I+ Q+ + + L+ L E D + + +E + + K L + I L
Sbjct: 242 GIVSQESVRKFLNLLLESDVDEAIKFLRTLEEKGYNLNKFWKQLEEEIRNILLN 295
>gnl|CDD|237869 PRK14962, PRK14962, DNA polymerase III subunits gamma and tau;
Provisional.
Length = 472
Score = 284 bits (729), Expect = 1e-84
Identities = 129/322 (40%), Positives = 194/322 (60%), Gaps = 20/322 (6%)
Query: 380 VLARKYRPSNFNTLIGQNHISKSLINALDKKRLHHAYLFTGTRGVGKTTISRILAKCLNC 439
L RKYRP F+ ++GQ+H+ K +INAL K + HAY+F G RG GKTT++RILAK LNC
Sbjct: 3 ALYRKYRPKTFSEVVGQDHVKKLIINALKKNSISHAYIFAGPRGTGKTTVARILAKSLNC 62
Query: 440 IGIDGNGGITSQPCGKCSVCVKIDNGCFMDYIEMDAASTRGINEMAQLLEQTIYAPINAR 499
+ G+ +PC +C C ID G FMD IE+DAAS RGI+E+ ++ + Y P+ +
Sbjct: 63 ---ENRKGV--EPCNECRACRSIDEGTFMDVIELDAASNRGIDEIRKIRDAVGYRPMEGK 117
Query: 500 YKIYVIDEVHMLTHHAFNAMLKTLEEPPKYIKFILATTEPQKIPITVLSRCIQFNLKKML 559
YK+Y+IDEVHMLT AFNA+LKTLEEPP ++ F+LATT +K+P T++SRC + +
Sbjct: 118 YKVYIIDEVHMLTKEAFNALLKTLEEPPSHVVFVLATTNLEKVPPTIISRCQVIEFRNIS 177
Query: 560 HHDIVNNLCYILNKENIKFETSALNLIATGAQGSMRDALSLTDQAINYSSEKITLNSMQE 619
I+ L + E I+ + AL+ IA A G +RDAL++ +Q +S KITL ++ E
Sbjct: 178 DELIIKRLQEVAEAEGIEIDREALSFIAKRASGGLRDALTMLEQVWKFSEGKITLETVHE 237
Query: 620 MLSIIDQKYLIQILDALAEQDGNLILSIANKIEIYNLSYSIVLKDLSLLLHQISLIQISP 679
L +I + + ++A+ D + ++ + + Y + LIQ +
Sbjct: 238 ALGLIPIEVVRDYINAIFNGDVKRVFTVLDDVYYSGKDYEV-------------LIQQAI 284
Query: 680 EILIKD--SPNYNEIIQLSKKF 699
E L++D N+IIQ+S++
Sbjct: 285 EDLVEDLERERANDIIQVSRQL 306
>gnl|CDD|237862 PRK14948, PRK14948, DNA polymerase III subunits gamma and tau;
Provisional.
Length = 620
Score = 288 bits (739), Expect = 3e-84
Identities = 134/336 (39%), Positives = 208/336 (61%), Gaps = 31/336 (9%)
Query: 384 KYRPSNFNTLIGQNHISKSLINALDKKRLHHAYLFTGTRGVGKTTISRILAKCLNCIGID 443
KYRP F+ L+GQ I+ +L NAL R+ AYLFTG RG GKT+ +RILAK LNC+ D
Sbjct: 9 KYRPQRFDELVGQEAIATTLKNALISNRIAPAYLFTGPRGTGKTSSARILAKSLNCLNSD 68
Query: 444 GNGGITSQPCGKCSVCVKIDNGCFMDYIEMDAASTRGINEMAQLLEQTIYAPINARYKIY 503
T +PCGKC +C I G +D IE+DAAS G++ + +L+E+ +AP+ AR+K+Y
Sbjct: 69 KP---TPEPCGKCELCRAIAAGNALDVIEIDAASNTGVDNIRELIERAQFAPVQARWKVY 125
Query: 504 VIDEVHMLTHHAFNAMLKTLEEPPKYIKFILATTEPQKIPITVLSRCIQFNLKKMLHHDI 563
VIDE HML+ AFNA+LKTLEEPP + F+LATT+PQ++ T++SRC +F+ +++ +
Sbjct: 126 VIDECHMLSTAAFNALLKTLEEPPPRVVFVLATTDPQRVLPTIISRCQRFDFRRIPLEAM 185
Query: 564 VNNLCYILNKENIKFETSALNLIATGAQGSMRDALSLTDQAINYSSEKITLNSMQEMLSI 623
V +L I KE+I+ E AL L+A +QG +RDA SL DQ ++ IT ++ ++L
Sbjct: 186 VQHLSEIAEKESIEIEPEALTLVAQRSQGGLRDAESLLDQ-LSLLPGPITPEAVWDLLGA 244
Query: 624 IDQKYLIQILDALAEQDGNLILSIANKIEIYN-----LSYSIVLKDLS-----LLLH--- 670
+ ++ L+ +L ALA D +L + + + L+ +L+ L+ LLL
Sbjct: 245 VPEQDLLNLLKALASNDPESLLDSCRQ--LLDRGREPLA---ILQGLAAFYRDLLLAKTA 299
Query: 671 --QISLIQISPEILIKDSPNYNEIIQLSKKFNIEQI 704
+ L+ +S + ++E+ +L+K+ N+E+I
Sbjct: 300 PNRPDLVAVSQQ-------TWDELCKLAKQINLERI 328
>gnl|CDD|180523 PRK06305, PRK06305, DNA polymerase III subunits gamma and tau;
Validated.
Length = 451
Score = 279 bits (715), Expect = 6e-83
Identities = 124/297 (41%), Positives = 180/297 (60%), Gaps = 4/297 (1%)
Query: 380 VLARKYRPSNFNTLIGQNHISKSLINALDKKRLHHAYLFTGTRGVGKTTISRILAKCLNC 439
V +RKYRP F+ ++GQ+ + L NAL R HAYLF+G RG GKTT++RI AK LNC
Sbjct: 6 VSSRKYRPQTFSEILGQDAVVAVLKNALRFNRAAHAYLFSGIRGTGKTTLARIFAKALNC 65
Query: 440 IGIDGNGGITSQPCGKCSVCVKIDNGCFMDYIEMDAASTRGINEMAQLLEQTIYAPINAR 499
+ +PC +C+ C +I +G +D +E+D AS RGI ++ Q+ E ++ P +R
Sbjct: 66 QNPTEDQ----EPCNQCASCKEISSGTSLDVLEIDGASHRGIEDIRQINETVLFTPSKSR 121
Query: 500 YKIYVIDEVHMLTHHAFNAMLKTLEEPPKYIKFILATTEPQKIPITVLSRCIQFNLKKML 559
YKIY+IDEVHMLT AFN++LKTLEEPP+++KF LATTE KIP T+LSRC + +LK++
Sbjct: 122 YKIYIIDEVHMLTKEAFNSLLKTLEEPPQHVKFFLATTEIHKIPGTILSRCQKMHLKRIP 181
Query: 560 HHDIVNNLCYILNKENIKFETSALNLIATGAQGSMRDALSLTDQAINYSSEKITLNSMQE 619
I++ L I +E I+ AL IA AQGS+RDA SL D + + + +S+ +
Sbjct: 182 EETIIDKLALIAKQEGIETSREALLPIARAAQGSLRDAESLYDYVVGLFPKSLDPDSVAK 241
Query: 620 MLSIIDQKYLIQILDALAEQDGNLILSIANKIEIYNLSYSIVLKDLSLLLHQISLIQ 676
L ++ Q L + +A+ Q+ L ++ + L DL+L I L Q
Sbjct: 242 ALGLLSQDSLYTLDEAITTQNYAQALEPVTDAMNSGVAPAHFLHDLTLFFRNILLKQ 298
>gnl|CDD|237864 PRK14950, PRK14950, DNA polymerase III subunits gamma and tau;
Provisional.
Length = 585
Score = 282 bits (722), Expect = 2e-82
Identities = 121/272 (44%), Positives = 167/272 (61%), Gaps = 4/272 (1%)
Query: 380 VLARKYRPSNFNTLIGQNHISKSLINALDKKRLHHAYLFTGTRGVGKTTISRILAKCLNC 439
VL RK+R F L+GQ H+ ++L NA+ + R+ HAYLFTG RGVGKT+ +RILAK +NC
Sbjct: 5 VLYRKWRSQTFAELVGQEHVVQTLRNAIAEGRVAHAYLFTGPRGVGKTSTARILAKAVNC 64
Query: 440 IGIDGNGGITSQPCGKCSVCVKIDNGCFMDYIEMDAASTRGINEMAQLLEQTIYAPINAR 499
D G +PCG C +C I G +D IEMDAAS +++ +++E+ + P AR
Sbjct: 65 TTNDPKG----RPCGTCEMCRAIAEGSAVDVIEMDAASHTSVDDAREIIERVQFRPALAR 120
Query: 500 YKIYVIDEVHMLTHHAFNAMLKTLEEPPKYIKFILATTEPQKIPITVLSRCIQFNLKKML 559
YK+Y+IDEVHML+ AFNA+LKTLEEPP + FILATTE K+P T+LSRC +F+ +
Sbjct: 121 YKVYIIDEVHMLSTAAFNALLKTLEEPPPHAIFILATTEVHKVPATILSRCQRFDFHRHS 180
Query: 560 HHDIVNNLCYILNKENIKFETSALNLIATGAQGSMRDALSLTDQAINYSSEKITLNSMQE 619
D+ +L I E I E AL IA A GSMRDA +L Q +I+L+ +Q
Sbjct: 181 VADMAAHLRKIAAAEGINLEPGALEAIARAATGSMRDAENLLQQLATTYGGEISLSQVQS 240
Query: 620 MLSIIDQKYLIQILDALAEQDGNLILSIANKI 651
+L I + + + +AL +D L N +
Sbjct: 241 LLGISGDEEVKALAEALLAKDLKAALRTLNAV 272
>gnl|CDD|237870 PRK14964, PRK14964, DNA polymerase III subunits gamma and tau;
Provisional.
Length = 491
Score = 276 bits (707), Expect = 2e-81
Identities = 135/360 (37%), Positives = 214/360 (59%), Gaps = 16/360 (4%)
Query: 381 LARKYRPSNFNTLIGQNHISKSLINALDKKRLHHAYLFTGTRGVGKTTISRILAKCLNCI 440
LA KYRPS+F L+GQ+ + + L NA ++ + L G GVGKTT +RI++ CLNC
Sbjct: 3 LALKYRPSSFKDLVGQDVLVRILRNAFTLNKIPQSILLVGASGVGKTTCARIISLCLNCS 62
Query: 441 GIDGNGGITSQPCGKCSVCVKIDNGCFMDYIEMDAASTRGINEMAQLLEQTIYAPINARY 500
G TS PCG C C+ I N D IE+DAAS ++++ +LE + Y PI++++
Sbjct: 63 N-----GPTSDPCGTCHNCISIKNSNHPDVIEIDAASNTSVDDIKVILENSCYLPISSKF 117
Query: 501 KIYVIDEVHMLTHHAFNAMLKTLEEPPKYIKFILATTEPQKIPITVLSRCIQFNLKKMLH 560
K+Y+IDEVHML++ AFNA+LKTLEEP ++KFILATTE +KIP+T++SRC +F+L+K+
Sbjct: 118 KVYIIDEVHMLSNSAFNALLKTLEEPAPHVKFILATTEVKKIPVTIISRCQRFDLQKIPT 177
Query: 561 HDIVNNLCYILNKENIKFETSALNLIATGAQGSMRDALSLTDQAINYSSEKITLNSMQEM 620
+V +L I KENI+ + +L LIA + GSMR+AL L +QA YS+ KI+ S++++
Sbjct: 178 DKLVEHLVDIAKKENIEHDEESLKLIAENSSGSMRNALFLLEQAAIYSNNKISEKSVRDL 237
Query: 621 LSIIDQKYLIQILDALAEQDGNLILSIANKIEIYNLSYS--IVLKDLSLLLHQISLIQIS 678
L +D+ L +++A+ D S N + + I+L+ + ++++I I+
Sbjct: 238 LGCVDKHILEDLVEAILLGD---AQSALNVFRELCNTSNPVIILEGMLQIIYEICYFSIT 294
Query: 679 PEILIKDSPNYNEIIQLSKKFNIEQIQLF---YQISIHGRNELELAPDEYAGFTMTLLRM 735
EI D ++I K I +Q+ + G E++ + M ++R+
Sbjct: 295 KEI---DFLLGEDLITRIKSLKIGSTIFLSRLWQMLLKGIQEVKSSTCVKQAAEMMIIRL 351
>gnl|CDD|237874 PRK14971, PRK14971, DNA polymerase III subunits gamma and tau;
Provisional.
Length = 614
Score = 279 bits (715), Expect = 4e-81
Identities = 123/262 (46%), Positives = 167/262 (63%), Gaps = 4/262 (1%)
Query: 379 VVLARKYRPSNFNTLIGQNHISKSLINALDKKRLHHAYLFTGTRGVGKTTISRILAKCLN 438
+V ARKYRPS F +++GQ ++ +L NA+ +L HAYLF G RGVGKTT +RI AK +N
Sbjct: 5 IVSARKYRPSTFESVVGQEALTTTLKNAIATNKLAHAYLFCGPRGVGKTTCARIFAKTIN 64
Query: 439 CIGIDGNGGITSQPCGKCSVCVKIDNGCFMDYIEMDAASTRGINEMAQLLEQTIYAPINA 498
C + +G + C +C CV + + E+DAAS ++++ L+EQ P
Sbjct: 65 CQNLTADG----EACNECESCVAFNEQRSYNIHELDAASNNSVDDIRNLIEQVRIPPQIG 120
Query: 499 RYKIYVIDEVHMLTHHAFNAMLKTLEEPPKYIKFILATTEPQKIPITVLSRCIQFNLKKM 558
+YKIY+IDEVHML+ AFNA LKTLEEPP Y FILATTE KI T+LSRC F+ ++
Sbjct: 121 KYKIYIIDEVHMLSQAAFNAFLKTLEEPPSYAIFILATTEKHKILPTILSRCQIFDFNRI 180
Query: 559 LHHDIVNNLCYILNKENIKFETSALNLIATGAQGSMRDALSLTDQAINYSSEKITLNSMQ 618
DIVN+L Y+ +KE I E ALN+IA A G MRDALS+ DQ ++++ IT S+
Sbjct: 181 QVADIVNHLQYVASKEGITAEPEALNVIAQKADGGMRDALSIFDQVVSFTGGNITYKSVI 240
Query: 619 EMLSIIDQKYLIQILDALAEQD 640
E L+I+D Y ++ DAL
Sbjct: 241 ENLNILDYDYYFRLTDALLAGK 262
>gnl|CDD|235845 PRK06647, PRK06647, DNA polymerase III subunits gamma and tau;
Validated.
Length = 563
Score = 268 bits (686), Expect = 8e-78
Identities = 125/357 (35%), Positives = 207/357 (57%), Gaps = 25/357 (7%)
Query: 380 VLARKYRPSNFNTLIGQNHISKSLINALDKKRLHHAYLFTGTRGVGKTTISRILAKCLNC 439
A K RP +FN+L GQ+ + ++L ++++ ++ +AY+F+G RGVGKT+ +R A+CLNC
Sbjct: 5 GTATKRRPRDFNSLEGQDFVVETLKHSIESNKIANAYIFSGPRGVGKTSSARAFARCLNC 64
Query: 440 IGIDGNGGITSQPCGKCSVCVKIDNGCFMDYIEMDAASTRGINEMAQLLEQTIYAPINAR 499
+ G T PCG+CS C IDN +D IE+D AS + ++ Q+ E+ ++ P ++R
Sbjct: 65 VN-----GPTPMPCGECSSCKSIDNDNSLDVIEIDGASNTSVQDVRQIKEEIMFPPASSR 119
Query: 500 YKIYVIDEVHMLTHHAFNAMLKTLEEPPKYIKFILATTEPQKIPITVLSRCIQFNLKKML 559
Y++Y+IDEVHML++ AFNA+LKT+EEPP YI FI ATTE K+P T+ SRC FN + +
Sbjct: 120 YRVYIIDEVHMLSNSAFNALLKTIEEPPPYIVFIFATTEVHKLPATIKSRCQHFNFRLLS 179
Query: 560 HHDIVNNLCYILNKENIKFETSALNLIATGAQGSMRDALSLTDQAINYSSEKITLNSMQE 619
I N L + ++ IK+E AL IA + GS+RDA +L DQ +++S ITL ++
Sbjct: 180 LEKIYNMLKKVCLEDQIKYEDEALKWIAYKSTGSVRDAYTLFDQVVSFSDSDITLEQIRS 239
Query: 620 MLSIIDQKYLIQILDALAEQDGNLILSIANKIEIYNLSYSIVLKDLSLLLHQISLIQ--I 677
+ + ++L ++ ++ +D +L + + + + +S L D ++ ++ I
Sbjct: 240 KMGLTGDEFLEKLASSILNEDAKELLCVLDSVFLSGVSVEQFLLDCIEFFRELLFLKHGI 299
Query: 678 SPEILIKDSPNYNEIIQLSKK---FNIEQI--------QLF--YQISIHGRNELELA 721
E I +L +K F++ QI + + Q S++ R ELE+
Sbjct: 300 KNEAFIGIKAE-----RLPEKLREFDLSQIERAISVLLETYRDLQFSVNPRYELEIN 351
>gnl|CDD|235943 PRK07133, PRK07133, DNA polymerase III subunits gamma and tau;
Validated.
Length = 725
Score = 267 bits (685), Expect = 5e-76
Identities = 135/326 (41%), Positives = 211/326 (64%), Gaps = 17/326 (5%)
Query: 381 LARKYRPSNFNTLIGQNHISKSLINALDKKRLHHAYLFTGTRGVGKTTISRILAKCLNCI 440
L RKYRP F+ ++GQ+HI ++L N + ++ HAYLF+G RG GKT++++I A LNC
Sbjct: 8 LYRKYRPKTFDDIVGQDHIVQTLKNIIKSNKISHAYLFSGPRGTGKTSVAKIFANALNCS 67
Query: 441 GIDGNGGITSQPCGKCSVCVKIDNGCFMDYIEMDAASTRGINEMAQLLEQTIYAPINARY 500
+ +PC +C ++N +D IEMDAAS G++E+ +L+E P ++Y
Sbjct: 68 ----HKTDLLEPCQEC--IENVNNS--LDIIEMDAASNNGVDEIRELIENVKNLPTQSKY 119
Query: 501 KIYVIDEVHMLTHHAFNAMLKTLEEPPKYIKFILATTEPQKIPITVLSRCIQFNLKKMLH 560
KIY+IDEVHML+ AFNA+LKTLEEPPK++ FILATTE KIP+T+LSR +FN +++
Sbjct: 120 KIYIIDEVHMLSKSAFNALLKTLEEPPKHVIFILATTEVHKIPLTILSRVQRFNFRRISE 179
Query: 561 HDIVNNLCYILNKENIKFETSALNLIATGAQGSMRDALSLTDQAINYSSEKITLNSMQEM 620
+IV+ L +IL KENI +E +AL LIA + GS+RDALS+ +Q + + KITL +++E+
Sbjct: 180 DEIVSRLEFILEKENISYEKNALKLIAKLSSGSLRDALSIAEQVSIFGNNKITLKNVEEL 239
Query: 621 LSIIDQKYLIQILDALAEQDGNLILSIANKIEIYNLSYSIVLKDLSLLLHQISLIQISPE 680
++ + LI +L+ L +D +L+I N+I+ D LLL ISLI + E
Sbjct: 240 FGLVSNENLINLLNLLYSKDIKEVLNILNQIKEQG-------IDPELLL--ISLINLVKE 290
Query: 681 ILIKDSPNYNEIIQLSKKFNIEQIQL 706
+I + N +++ + ++E++++
Sbjct: 291 FIIFNKTKDNSLLEYYSEEDLEKLKI 316
>gnl|CDD|184919 PRK14955, PRK14955, DNA polymerase III subunits gamma and tau;
Provisional.
Length = 397
Score = 257 bits (658), Expect = 5e-76
Identities = 118/277 (42%), Positives = 166/277 (59%), Gaps = 8/277 (2%)
Query: 380 VLARKYRPSNFNTLIGQNHISKSLINALDKKRLHHAYLFTGTRGVGKTTISRILAKCLNC 439
V+ARKYRP F + Q HI++++ N+L R+ H Y+F+G RGVGKTT +R+ AK +NC
Sbjct: 5 VIARKYRPKKFADITAQEHITRTIQNSLRMGRVGHGYIFSGLRGVGKTTAARVFAKAVNC 64
Query: 440 IGIDGNGGI---TSQPCGKCSVCVKIDNGCFMDYIEMDAASTRGINEMAQLLEQTIYAPI 496
+ + ++PCG+C C D G ++ E DAAS ++++ L E Y P
Sbjct: 65 QRMIDDADYLQEVTEPCGECESCRDFDAGTSLNISEFDAASNNSVDDIRLLRENVRYGPQ 124
Query: 497 NARYKIYVIDEVHMLTHHAFNAMLKTLEEPPKYIKFILATTEPQKIPITVLSRCIQFNLK 556
RY++Y+IDEVHML+ AFNA LKTLEEPP + FI ATTE KIP T+ SRC +FN K
Sbjct: 125 KGRYRVYIIDEVHMLSIAAFNAFLKTLEEPPPHAIFIFATTELHKIPATIASRCQRFNFK 184
Query: 557 KMLHHDIVNNLCYILNKENIKFETSALNLIATGAQGSMRDALSLTDQAINYSSEK----- 611
++ +I L I E I + AL LI AQGSMRDA S+ DQ I +S E
Sbjct: 185 RIPLEEIQQQLQGICEAEGISVDADALQLIGRKAQGSMRDAQSILDQVIAFSVESEGEGS 244
Query: 612 ITLNSMQEMLSIIDQKYLIQILDALAEQDGNLILSIA 648
I + + E+L+ ID ++ + DA+A+ D +L +A
Sbjct: 245 IRYDKVAELLNYIDDEHFFAVTDAVADGDAVAMLDVA 281
>gnl|CDD|235638 PRK05896, PRK05896, DNA polymerase III subunits gamma and tau;
Validated.
Length = 605
Score = 256 bits (655), Expect = 3e-73
Identities = 116/292 (39%), Positives = 185/292 (63%), Gaps = 5/292 (1%)
Query: 378 KVVLARKYRPSNFNTLIGQNHISKSLINALDKKRLHHAYLFTGTRGVGKTTISRILAKCL 437
++ RKYRP NF +IGQ I K L+NA+ +L HAY+F+G RG+GKT+I++I AK +
Sbjct: 3 EITFYRKYRPHNFKQIIGQELIKKILVNAILNNKLTHAYIFSGPRGIGKTSIAKIFAKAI 62
Query: 438 NCIGIDGNGGITSQPCGKCSVCVKIDNGCFMDYIEMDAASTRGINEMAQLLEQTIYAPIN 497
NC+ +G C CSVC I+ +D +E+DAAS G++E+ +++ Y P
Sbjct: 63 NCLNPK-DGDC----CNSCSVCESINTNQSVDIVELDAASNNGVDEIRNIIDNINYLPTT 117
Query: 498 ARYKIYVIDEVHMLTHHAFNAMLKTLEEPPKYIKFILATTEPQKIPITVLSRCIQFNLKK 557
+YK+Y+IDE HML+ A+NA+LKTLEEPPK++ FI ATTE QKIP+T++SRC ++N KK
Sbjct: 118 FKYKVYIIDEAHMLSTSAWNALLKTLEEPPKHVVFIFATTEFQKIPLTIISRCQRYNFKK 177
Query: 558 MLHHDIVNNLCYILNKENIKFETSALNLIATGAQGSMRDALSLTDQAINYSSEKITLNSM 617
+ + ++ L I KE IK E +A++ IA A GS+RD LS+ DQ + + +I + +
Sbjct: 178 LNNSELQELLKSIAKKEKIKIEDNAIDKIADLADGSLRDGLSILDQLSTFKNSEIDIEDI 237
Query: 618 QEMLSIIDQKYLIQILDALAEQDGNLILSIANKIEIYNLSYSIVLKDLSLLL 669
+ ++D I +++ + + D + ++ N++E +++ +DL LL
Sbjct: 238 NKTFGLVDNNKKINLIELIQKNDIEELRNLINELESKGINFEAFCRDLINLL 289
>gnl|CDD|184923 PRK14959, PRK14959, DNA polymerase III subunits gamma and tau;
Provisional.
Length = 624
Score = 256 bits (656), Expect = 3e-73
Identities = 120/339 (35%), Positives = 196/339 (57%), Gaps = 9/339 (2%)
Query: 381 LARKYRPSNFNTLIGQNHISKSLINALDKKRLHHAYLFTGTRGVGKTTISRILAKCLNCI 440
L +YRP F + GQ + L A + R+ AYLF+GTRGVGKTTI+RI AK LNC
Sbjct: 6 LTARYRPQTFAEVAGQETVKAILSRAAQENRVAPAYLFSGTRGVGKTTIARIFAKALNC- 64
Query: 441 GIDGNGGITSQPCGKCSVCVKIDNGCFMDYIEMDAASTRGINEMAQLLEQTIYAPINARY 500
T +PC C C K+ G +D +E+D AS RGI++ +L E YAP+ RY
Sbjct: 65 ----ETAPTGEPCNTCEQCRKVTQGMHVDVVEIDGASNRGIDDAKRLKEAIGYAPMEGRY 120
Query: 501 KIYVIDEVHMLTHHAFNAMLKTLEEPPKYIKFILATTEPQKIPITVLSRCIQFNLKKMLH 560
K+++IDE HMLT AFNA+LKTLEEPP + F+LATTEP K P+T++SRC F ++
Sbjct: 121 KVFIIDEAHMLTREAFNALLKTLEEPPARVTFVLATTEPHKFPVTIVSRCQHFTFTRLSE 180
Query: 561 HDIVNNLCYILNKENIKFETSALNLIATGAQGSMRDALSLTDQAINYSSEKITLNSMQEM 620
+ +L +L +E + ++ +A+ LIA A GS+RD++SL Q + ++T++ + +
Sbjct: 181 AGLEAHLTKVLGREGVDYDPAAVRLIARRAAGSVRDSMSLLGQVLALGESRLTIDGARGV 240
Query: 621 LSIIDQKYLIQILDALAEQDGNLILSIANKIEIYNLSYSIVLKDLSLLLHQISLIQISPE 680
L + Q+ +++++ALA QD + ++ ++ + L++L + +++ + E
Sbjct: 241 LGLAGQELFLRLMEALAAQDCLGVANVVRELLDRGVDMGFFLRELVATWRNLFMLRQAGE 300
Query: 681 ILIK--DSP--NYNEIIQLSKKFNIEQIQLFYQISIHGR 715
+ D P + + +K+F I +Q+++ G+
Sbjct: 301 AALASLDLPEDEARQWLGWAKRFEPAHIHACWQMTLEGQ 339
>gnl|CDD|236090 PRK07764, PRK07764, DNA polymerase III subunits gamma and tau;
Validated.
Length = 824
Score = 259 bits (663), Expect = 2e-72
Identities = 112/282 (39%), Positives = 163/282 (57%), Gaps = 38/282 (13%)
Query: 379 VVLA--RKYRPSNFNTLIGQNHISKSLINALDKKRLHHAYLFTGTRGVGKTTISRILAKC 436
+ LA R+YRP+ F +IGQ H+++ L ALD R++HAYLF+G RG GKT+ +RILA+
Sbjct: 1 MALALYRRYRPATFAEVIGQEHVTEPLSTALDSGRINHAYLFSGPRGCGKTSSARILARS 60
Query: 437 LNCIGIDGNGGITSQPCGKCSVCVKI--DNGCFMDYIEMDAASTRGINEMAQLLEQTIYA 494
LNC+ G TS PCG+C CV + +D E+DAAS G+++ +L E+ +A
Sbjct: 61 LNCVE-----GPTSTPCGECDSCVALAPGGPGSLDVTEIDAASHGGVDDARELRERAFFA 115
Query: 495 PINARYKIYVIDEVHMLTHHAFNAMLKTLEEPPKYIKFILATTEPQKIPITVLSRCIQFN 554
P +RYKI++IDE HM+T FNA+LK +EEPP+++KFI ATTEP K+ T+ SR
Sbjct: 116 PAESRYKIFIIDEAHMVTPQGFNALLKIVEEPPEHLKFIFATTEPDKVIGTIRSRT---- 171
Query: 555 LKKMLHH------------DIVNNLCYILNKENIKFETSALNLI--ATGAQGSMRDALSL 600
HH + +C +E + E L L+ A G GS+RD+LS+
Sbjct: 172 -----HHYPFRLVPPEVMRGYLERIC---AQEGVPVEPGVLPLVIRAGG--GSVRDSLSV 221
Query: 601 TDQAINYSS-EKITLNSMQEMLSIIDQKYLIQILDALAEQDG 641
DQ + + E +T +L + D + + +DALA DG
Sbjct: 222 LDQLLAGAGPEGVTYERAVALLGVTDSALIDEAVDALAAGDG 263
>gnl|CDD|184934 PRK14970, PRK14970, DNA polymerase III subunits gamma and tau;
Provisional.
Length = 367
Score = 245 bits (627), Expect = 3e-72
Identities = 116/273 (42%), Positives = 163/273 (59%), Gaps = 17/273 (6%)
Query: 379 VVLARKYRPSNFNTLIGQNHISKSLINALDKKRLHHAYLFTGTRGVGKTTISRILAKCLN 438
VV ARKYRP F+ ++GQ+HI+ +L+NA++ L A LF G RGVGKTT +RILA+ +N
Sbjct: 5 VVSARKYRPQTFDDVVGQSHITNTLLNAIENNHLAQALLFCGPRGVGKTTCARILARKIN 64
Query: 439 CIGIDGNGGITSQPCGKCSVCVKIDNGCFMDYIEMDAASTRGINEMAQLLEQTIYAPINA 498
G D + + E+DAAS ++++ L++Q P
Sbjct: 65 QPGYDDP-----------------NEDFSFNIFELDAASNNSVDDIRNLIDQVRIPPQTG 107
Query: 499 RYKIYVIDEVHMLTHHAFNAMLKTLEEPPKYIKFILATTEPQKIPITVLSRCIQFNLKKM 558
+YKIY+IDEVHML+ AFNA LKTLEEPP + FILATTE KI T+LSRC F+ K++
Sbjct: 108 KYKIYIIDEVHMLSSAAFNAFLKTLEEPPAHAIFILATTEKHKIIPTILSRCQIFDFKRI 167
Query: 559 LHHDIVNNLCYILNKENIKFETSALNLIATGAQGSMRDALSLTDQAINYSSEKITLNSMQ 618
DI +L I KE IKFE AL++IA A G++RDALS+ D+ + + + IT ++
Sbjct: 168 TIKDIKEHLAGIAVKEGIKFEDDALHIIAQKADGALRDALSIFDRVVTFCGKNITRQAVT 227
Query: 619 EMLSIIDQKYLIQILDALAEQDGNLILSIANKI 651
E L+I+D I + D + E +L N+I
Sbjct: 228 ENLNILDYDTYINVTDLILENKIPELLLAFNEI 260
>gnl|CDD|184918 PRK14954, PRK14954, DNA polymerase III subunits gamma and tau;
Provisional.
Length = 620
Score = 253 bits (647), Expect = 5e-72
Identities = 123/277 (44%), Positives = 169/277 (61%), Gaps = 8/277 (2%)
Query: 380 VLARKYRPSNFNTLIGQNHISKSLINALDKKRLHHAYLFTGTRGVGKTTISRILAKCLNC 439
V+ARKYRPS F + Q HI+ ++ N+L R+ H Y+F+G RGVGKTT +R+ AK +NC
Sbjct: 5 VIARKYRPSKFADITAQEHITHTIQNSLRMDRVGHGYIFSGLRGVGKTTAARVFAKAVNC 64
Query: 440 IG-IDGNGGI--TSQPCGKCSVCVKIDNGCFMDYIEMDAASTRGINEMAQLLEQTIYAPI 496
ID + ++PCG+C C D G ++ E DAAS ++++ QL E Y P
Sbjct: 65 QRMIDDPVYLQEVTEPCGECESCRDFDAGTSLNISEFDAASNNSVDDIRQLRENVRYGPQ 124
Query: 497 NARYKIYVIDEVHMLTHHAFNAMLKTLEEPPKYIKFILATTEPQKIPITVLSRCIQFNLK 556
RY++Y+IDEVHML+ AFNA LKTLEEPP + FI ATTE KIP T+ SRC +FN K
Sbjct: 125 KGRYRVYIIDEVHMLSTAAFNAFLKTLEEPPPHAIFIFATTELHKIPATIASRCQRFNFK 184
Query: 557 KMLHHDIVNNLCYILNKENIKFETSALNLIATGAQGSMRDALSLTDQAINYS-----SEK 611
++ +I + L I E I+ + AL LIA AQGSMRDA S+ DQ I +S +
Sbjct: 185 RIPLDEIQSQLQMICRAEGIQIDADALQLIARKAQGSMRDAQSILDQVIAFSVGSEAEKV 244
Query: 612 ITLNSMQEMLSIIDQKYLIQILDALAEQDGNLILSIA 648
I + E+L+ ID + + DA+AE D +L +A
Sbjct: 245 IAYQGVAELLNYIDDEQFFDVTDAIAENDAVKMLEVA 281
>gnl|CDD|180643 PRK06645, PRK06645, DNA polymerase III subunits gamma and tau;
Validated.
Length = 507
Score = 245 bits (628), Expect = 1e-70
Identities = 130/384 (33%), Positives = 229/384 (59%), Gaps = 11/384 (2%)
Query: 379 VVLARKYRPSNFNTLIGQNHISKSLINALDKKRLHHAYLFTGTRGVGKTTISRILAKCLN 438
+ ARKYRPSNF L GQ + K L + RL YL TG RGVGKTT +RI+AK +N
Sbjct: 9 IPFARKYRPSNFAELQGQEVLVKVLSYTILNDRLAGGYLLTGIRGVGKTTSARIIAKAVN 68
Query: 439 CIG-IDGNGGITSQPCGKCSVCVKIDNGCFMDYIEMDAASTRGINEMAQLLEQTIYAPIN 497
C I N I + C +C+ C+ +N D IE+DAAS ++++ +++E Y P+
Sbjct: 69 CSALITENTTIKT--CEQCTNCISFNNHNHPDIIEIDAASKTSVDDIRRIIESAEYKPLQ 126
Query: 498 ARYKIYVIDEVHMLTHHAFNAMLKTLEEPPKYIKFILATTEPQKIPITVLSRCIQFNLKK 557
++KI++IDEVHML+ AFNA+LKTLEEPP +I FI ATTE QKIP T++SRC +++L++
Sbjct: 127 GKHKIFIIDEVHMLSKGAFNALLKTLEEPPPHIIFIFATTEVQKIPATIISRCQRYDLRR 186
Query: 558 MLHHDIVNNLCYILNKENIKFETSALNLIATGAQGSMRDALSLTDQAINYSSEK---ITL 614
+ +I L YI +EN+K + AL +IA ++GS RDA+S+ DQA + S++ I+
Sbjct: 187 LSFEEIFKLLEYITKQENLKTDIEALRIIAYKSEGSARDAVSILDQAASMSAKSDNIISP 246
Query: 615 NSMQEMLSIIDQKYLIQILDALAEQDGNLILSIANKIEIYNLSYSIVLKDLSLLLHQISL 674
+ +ML ++D +I+ ++ + ++ +++ NK+ +++ I ++ +S + ++
Sbjct: 247 QVINQMLGLVDSSVIIEFVEYIIHRETEKAINLINKLYGSSVNLEIFIESVSDFIAYLNK 306
Query: 675 IQISPEILIKDSPNYNEIIQ-LSKKFNIEQIQLFYQISIHGRNELELAPDEYAGFTMTLL 733
+++ P + ++N+ + + K ++ + + +QI G E++++ ++ M ++
Sbjct: 307 VKMLPNYSLPIYESFNDRTKSILDKISLPHLSILWQIYNKGVGEIKISYNQLTETEMLVI 366
Query: 734 RMLVFQTLHNHLDYN----NLKNS 753
+ + +L D++ NL S
Sbjct: 367 KSIYSTSLPLLTDFDGNNQNLNQS 390
>gnl|CDD|184927 PRK14963, PRK14963, DNA polymerase III subunits gamma and tau;
Provisional.
Length = 504
Score = 242 bits (620), Expect = 1e-69
Identities = 110/268 (41%), Positives = 166/268 (61%), Gaps = 7/268 (2%)
Query: 381 LARKYRPSNFNTLIGQNHISKSLINALDKKRLHHAYLFTGTRGVGKTTISRILAKCLNCI 440
L ++ RP F+ ++GQ H+ + L+ AL + RL HAYLF+G RGVGKTT +R++A +NC
Sbjct: 4 LYQRARPITFDEVVGQEHVKEVLLAALRQGRLGHAYLFSGPRGVGKTTTARLIAMAVNCS 63
Query: 441 GIDGNGGITSQPCGKCSVCVKIDNGCFMDYIEMDAASTRGINEMAQLLEQTIYAPINARY 500
G D +PCG+C C+ + G D +E+DAAS + ++ L E+ + AP+
Sbjct: 64 GED------PKPCGECESCLAVRRGAHPDVLEIDAASNNSVEDVRDLREKVLLAPLRGGR 117
Query: 501 KIYVIDEVHMLTHHAFNAMLKTLEEPPKYIKFILATTEPQKIPITVLSRCIQFNLKKMLH 560
K+Y++DE HM++ AFNA+LKTLEEPP+++ FILATTEP+K+P T+LSR F +++
Sbjct: 118 KVYILDEAHMMSKSAFNALLKTLEEPPEHVIFILATTEPEKMPPTILSRTQHFRFRRLTE 177
Query: 561 HDIVNNLCYILNKENIKFETSALNLIATGAQGSMRDALSLTDQAINYSSEKITLNSMQEM 620
+I L +L E + E AL L+A A G+MRDA SL ++ + + +T ++E
Sbjct: 178 EEIAGKLRRLLEAEGREAEPEALQLVARLADGAMRDAESLLERLLALGT-PVTRKQVEEA 236
Query: 621 LSIIDQKYLIQILDALAEQDGNLILSIA 648
L + Q+ L I ALA+ D LS A
Sbjct: 237 LGLPPQERLRGIAAALAQGDAAEALSGA 264
>gnl|CDD|184920 PRK14956, PRK14956, DNA polymerase III subunits gamma and tau;
Provisional.
Length = 484
Score = 229 bits (586), Expect = 2e-65
Identities = 136/350 (38%), Positives = 196/350 (56%), Gaps = 27/350 (7%)
Query: 380 VLARKYRPSNFNTLIGQNHISKSLINALDKKRLHHAYLFTGTRGVGKTTISRILAKCLNC 439
VL+RKYRP F +I Q+ +L NAL ++ HAY+F G RGVGKTTI+RILAK LNC
Sbjct: 7 VLSRKYRPQFFRDVIHQDLAIGALQNALKSGKIGHAYIFFGPRGVGKTTIARILAKRLNC 66
Query: 440 IGIDGNGGITSQPCGKCSVCVKIDNGCFMDYIEMDAASTRGINEMAQLLEQTIYAPINAR 499
GN +PC +C+ C++I G D +E+DAAS RGI + +L + +AP+ +
Sbjct: 67 ENPIGN-----EPCNECTSCLEITKGISSDVLEIDAASNRGIENIRELRDNVKFAPMGGK 121
Query: 500 YKIYVIDEVHMLTHHAFNAMLKTLEEPPKYIKFILATTEPQKIPITVLSRCIQFNLKKM- 558
YK+Y+IDEVHMLT +FNA+LKTLEEPP +I FILATTE KIP T+LSRC F KK+
Sbjct: 122 YKVYIIDEVHMLTDQSFNALLKTLEEPPAHIVFILATTEFHKIPETILSRCQDFIFKKVP 181
Query: 559 --LHHDIVNNLCYILNKENIKFETSALNLIATGAQGSMRDALSLTDQAINYSSEKITLNS 616
+ D LC EN++++ L IA GS+RD LS +QAI ++ K+T
Sbjct: 182 LSVLQDYSEKLC---KIENVQYDQEGLFWIAKKGDGSVRDMLSFMEQAIVFTDSKLTGVK 238
Query: 617 MQEMLSIIDQKYLIQILDALAEQDGNL-ILSIANK-----IEIYNLSYSIVLKDLSLLLH 670
+++M+ ++L + +L + D + L I +IY + + +L L
Sbjct: 239 IRKMIGYHGIEFLTSFIKSLIDPDNHSKSLEILESLYQEGQDIYKFLWDSIEFTHTLNLI 298
Query: 671 QISL-----IQISPEILIKDSPNYNEIIQLSKKFNIEQIQLFYQISIHGR 715
+ SL + E L K ++ + S K N +LF I+ +
Sbjct: 299 RDSLADRESVNFPKEDLQKMKSDFENVD--SSKLNFLSGKLF---EIYEK 343
>gnl|CDD|237866 PRK14952, PRK14952, DNA polymerase III subunits gamma and tau;
Provisional.
Length = 584
Score = 231 bits (591), Expect = 6e-65
Identities = 100/265 (37%), Positives = 155/265 (58%), Gaps = 10/265 (3%)
Query: 381 LARKYRPSNFNTLIGQNHISKSLINALDKKRLHHAYLFTGTRGVGKTTISRILAKCLNCI 440
L RKYRP+ F ++GQ H+++ L +ALD R++HAYLF+G RG GKT+ +RILA+ LNC
Sbjct: 3 LYRKYRPATFAEVVGQEHVTEPLSSALDAGRINHAYLFSGPRGCGKTSSARILARSLNCA 62
Query: 441 GIDGNGGITSQPCGKCSVCVKI---DNGCFMDYIEMDAASTRGINEMAQLLEQTIYAPIN 497
G T+ PCG C CV + G +D +E+DAAS G+++ +L ++ YAP
Sbjct: 63 Q-----GPTATPCGVCESCVALAPNGPGS-IDVVELDAASHGGVDDTRELRDRAFYAPAQ 116
Query: 498 ARYKIYVIDEVHMLTHHAFNAMLKTLEEPPKYIKFILATTEPQKIPITVLSRCIQFNLKK 557
+RY+I+++DE HM+T FNA+LK +EEPP+++ FI ATTEP+K+ T+ SR + +
Sbjct: 117 SRYRIFIVDEAHMVTTAGFNALLKIVEEPPEHLIFIFATTEPEKVLPTIRSRTHHYPFRL 176
Query: 558 MLHHDIVNNLCYILNKENIKFETSALNLIATGAQGSMRDALSLTDQAI-NYSSEKITLNS 616
+ + + I +E + + + L+ GS RD LS+ DQ + + +T
Sbjct: 177 LPPRTMRALIARICEQEGVVVDDAVYPLVIRAGGGSPRDTLSVLDQLLAGAADTHVTYQR 236
Query: 617 MQEMLSIIDQKYLIQILDALAEQDG 641
+L D + +DALA D
Sbjct: 237 ALGLLGATDVALIDDAVDALAADDA 261
>gnl|CDD|221959 pfam13177, DNA_pol3_delta2, DNA polymerase III, delta subunit. DNA
polymerase III, delta subunit (EC 2.7.7.7) is required
for, along with delta' subunit, the assembly of the
processivity factor beta(2) onto primed DNA in the DNA
polymerase III holoenzyme-catalyzed reaction. The delta
subunit is also known as HolA.
Length = 161
Score = 141 bits (358), Expect = 1e-38
Identities = 62/165 (37%), Positives = 93/165 (56%), Gaps = 6/165 (3%)
Query: 395 GQNHISKSLINALDKKRLHHAYLFTGTRGVGKTTISRILAKCLNCIGIDGNGGITSQPCG 454
GQ + K L N++ K +L HAYLF+G GVGK ++ AK L C + PCG
Sbjct: 1 GQPKVIKLLKNSIKKNKLSHAYLFSGPDGVGKLELALEFAKALFCENPQDDE-----PCG 55
Query: 455 KCSVCVKIDNGCFMDYIEMDAASTR-GINEMAQLLEQTIYAPINARYKIYVIDEVHMLTH 513
+C C +I+NG D I ++ I+++ +L+E+ P + K+Y+I++ +T
Sbjct: 56 ECKSCKRIENGNHPDVIIIEPEGKSIKIDQIRELIEEFSKKPFEGKKKVYIIEDAEKMTE 115
Query: 514 HAFNAMLKTLEEPPKYIKFILATTEPQKIPITVLSRCIQFNLKKM 558
A NA+LKTLEEPP+ FIL T+ P K+ T+ SRC N K +
Sbjct: 116 SAANALLKTLEEPPENTYFILLTSNPNKLLPTIRSRCQVINFKPL 160
>gnl|CDD|233087 TIGR00678, holB, DNA polymerase III, delta' subunit. This model
describes the N-terminal half of the delta' subunit of
DNA polymerase III. Delta' is homologous to the gamma
and tau subunits, which form an outgroup for
phylogenetic comparison. The gamma/tau branch of the
tree is much more tighly conserved than the delta'
branch, and some members of that branch score more
highly against this model than some proteins
classisified as delta'. The noise cutoff is set to
detect weakly scoring delta' subunits rather than to
exclude gamma/tau subunits. At position 126-127 of the
seed alignment, this family lacks the HM motif of
gamma/tau; at 132 it has a near-invariant A vs. an
invariant F in gamma/tau [DNA metabolism, DNA
replication, recombination, and repair].
Length = 188
Score = 138 bits (350), Expect = 3e-37
Identities = 65/195 (33%), Positives = 96/195 (49%), Gaps = 14/195 (7%)
Query: 401 KSLINALDKKRLHHAYLFTGTRGVGKTTISRILAKCLNCIGIDGNGGITSQPCGKCSVCV 460
+ L AL+K RL HAYLF G GVGK ++ LAK L C G +PCG+C C
Sbjct: 2 QQLKRALEKGRLAHAYLFAGPEGVGKELLALALAKALLCEQPGG-----GEPCGECPSCR 56
Query: 461 KIDNGCFMDY--IEMDAASTRGINEMAQLLEQTIYAPINARYKIYVIDEVHMLTHHAFNA 518
I+ G D +E + S ++++ +L+E P + ++ +I++ + A NA
Sbjct: 57 LIEAGNHPDLHRLEPEGQSI-KVDQVRELVEFLSRTPQESGRRVVIIEDAERMNEAAANA 115
Query: 519 MLKTLEEPPKYIKFILATTEPQKIPITVLSRCIQFNLKKMLHHDIVNNLCYILNKENIKF 578
+LKTLEEPP FIL T P+K+ T+ SRC L + + L ++ I
Sbjct: 116 LLKTLEEPPPNTLFILITPSPEKLLPTIRSRCQVLPFPP-LSEEALLQ---WLIRQGI-- 169
Query: 579 ETSALNLIATGAQGS 593
A L+ A GS
Sbjct: 170 SEEAAELLLALAGGS 184
>gnl|CDD|206103 pfam13932, GIDA_assoc_3, GidA associated domain 3. The GidA
associated domain 3 is a motif that has been identified
at the C-terminus of protein GidA. It consists of 4
helices, the last three being rather short and forming
small bundle at the top end of the first longer one. It
is here named helical domain 3 because in GidA it is
preceded by two other C-terminal helical domain (based on
crystal structures). GidA is an tRNA modification enzyme
found in bacteria and mitochondrial. Based on mutational
analysis this domain has been suggested to be implicated
in binding of the D-stem of tRNA and to be responsible
for the interaction with protein MnmE. Structures of GidA
in complex with either tRNA or MnmE are missing. Reported
to bind to Pfam family MnmE, pfam12631.
Length = 72
Score = 111 bits (281), Expect = 2e-29
Identities = 42/70 (60%), Positives = 55/70 (78%)
Query: 1260 YEGYILRQINEVEKNKINENLKLPHNLDYMKIQSLSIEARQKLNKYKPETIGQASRISGV 1319
YEGYI RQ ++EK K EN ++P ++DY +I LS EAR+KL K +PETIGQASRISGV
Sbjct: 3 YEGYIERQQQQIEKAKRLENKRIPEDIDYARISGLSNEAREKLAKIRPETIGQASRISGV 62
Query: 1320 TPAALTLLLI 1329
TPA +++LL+
Sbjct: 63 TPADISVLLV 72
>gnl|CDD|181214 PRK08058, PRK08058, DNA polymerase III subunit delta'; Validated.
Length = 329
Score = 105 bits (263), Expect = 3e-24
Identities = 56/157 (35%), Positives = 84/157 (53%), Gaps = 8/157 (5%)
Query: 396 QNHISKSLINALDKKRLHHAYLFTGTRGVGKTTISRILAKCLNCIGIDGNGGITSQPCGK 455
Q + K L N++ K RL HAYLF G +G GK + LAK L C+ +G +PCG
Sbjct: 11 QPVVVKMLQNSIAKNRLSHAYLFEGAKGTGKKATALWLAKSLFCLERNGV-----EPCGT 65
Query: 456 CSVCVKIDNGCFMD--YIEMDAASTRGINEMAQLLEQTIYAPINARYKIYVIDEVHMLTH 513
C+ C +ID+G D + D S + +++ L E+ + + + K+Y+I+ +T
Sbjct: 66 CTNCKRIDSGNHPDVHLVAPDGQSIK-KDQIRYLKEEFSKSGVESNKKVYIIEHADKMTA 124
Query: 514 HAFNAMLKTLEEPPKYIKFILATTEPQKIPITVLSRC 550
A N++LK LEEP IL T +I T+LSRC
Sbjct: 125 SAANSLLKFLEEPSGGTTAILLTENKHQILPTILSRC 161
>gnl|CDD|237090 PRK12402, PRK12402, replication factor C small subunit 2; Reviewed.
Length = 337
Score = 92.7 bits (231), Expect = 5e-20
Identities = 74/278 (26%), Positives = 119/278 (42%), Gaps = 40/278 (14%)
Query: 384 KYRPSNFNTLIGQNHISKSLINALDKKRLHHAYLFTGTRGVGKTTISRILAKCLNCIGID 443
KYRP+ ++GQ+ + + L A+D L H L G G GKT R LA+ L +
Sbjct: 8 KYRPALLEDILGQDEVVERLSRAVDSPNLPH-LLVQGPPGSGKTAAVRALARELYGDPWE 66
Query: 444 GNGGITSQPCGKCSVCVKIDNGCFMD----YIEMD-------------AASTRG-INEMA 485
N + + F D Y+ D +S +
Sbjct: 67 NN-------------FTEFNVADFFDQGKKYLVEDPRFAHFLGTDKRIRSSKIDNFKHV- 112
Query: 486 QLLEQTIYAPINARYKIYVIDEVHMLTHHAFNAMLKTLEEPPKYIKFILATTEPQKI--P 543
L E Y P++A YK ++D L A A+ + +E+ + +FI+AT +P K+ P
Sbjct: 113 -LKEYASYRPLSADYKTILLDNAEALREDAQQALRRIMEQYSRTCRFIIATRQPSKLIPP 171
Query: 544 ITVLSRCIQFNLKKMLHHDIVNNLCYILNKENIKFETSALNLIATGAQGSMRDALSLTDQ 603
I SRC+ + ++V+ L I E + ++ L LIA A G +R A+ LT Q
Sbjct: 172 IR--SRCLPLFFRAPTDDELVDVLESIAEAEGVDYDDDGLELIAYYAGGDLRKAI-LTLQ 228
Query: 604 AINYSSEKITLNSMQEMLSIIDQKYLI-QILDALAEQD 640
++ +IT+ + E L + +I +LDA D
Sbjct: 229 TAALAAGEITMEAAYEALGDVGTDEVIESLLDAAEAGD 266
>gnl|CDD|234763 PRK00440, rfc, replication factor C small subunit; Reviewed.
Length = 319
Score = 91.5 bits (228), Expect = 1e-19
Identities = 67/254 (26%), Positives = 109/254 (42%), Gaps = 54/254 (21%)
Query: 384 KYRPSNFNTLIGQNHISKSLINALDKKRLHHAYLFTGTRGVGKTTISRILAKCLNCIGID 443
KYRP + ++GQ I + L + + +K + H LF G G GKTT + LA+ L
Sbjct: 10 KYRPRTLDEIVGQEEIVERLKSYVKEKNMPH-LLFAGPPGTGKTTAALALAREL------ 62
Query: 444 GNGGITSQPCGKCSVCVKIDNGCFMDY-----IEMDAASTRGIN-------EMAQLLEQT 491
+ + +E++A+ RGI+ E A+
Sbjct: 63 -----------------------YGEDWRENFLELNASDERGIDVIRNKIKEFART---- 95
Query: 492 IYAPIN-ARYKIYVIDEVHMLTHHAFNAMLKTLEEPPKYIKFILATTEPQKI--PITVLS 548
AP+ A +KI +DE LT A A+ +T+E + +FIL+ KI PI S
Sbjct: 96 --APVGGAPFKIIFLDEADNLTSDAQQALRRTMEMYSQNTRFILSCNYSSKIIDPIQ--S 151
Query: 549 RCIQFNLKKMLHHDIVNNLCYILNKENIKFETSALNLIATGAQGSMRDALSLTDQAINYS 608
RC F + + L YI E I+ AL I ++G MR A++ QA +
Sbjct: 152 RCAVFRFSPLKKEAVAERLRYIAENEGIEITDDALEAIYYVSEGDMRKAINAL-QAAAAT 210
Query: 609 SEKITLNSMQEMLS 622
+++T ++ ++
Sbjct: 211 GKEVTEEAVYKITG 224
>gnl|CDD|99742 cd01494, AAT_I, Aspartate aminotransferase (AAT) superfamily (fold
type I) of pyridoxal phosphate (PLP)-dependent enzymes.
PLP combines with an alpha-amino acid to form a compound
called a Schiff base or aldimine intermediate, which
depending on the reaction, is the substrate in four
kinds of reactions (1) transamination (movement of amino
groups), (2) racemization (redistribution of
enantiomers), (3) decarboxylation (removing COOH
groups), and (4) various side-chain reactions depending
on the enzyme involved. Pyridoxal phosphate (PLP)
dependent enzymes were previously classified into alpha,
beta and gamma classes, based on the chemical
characteristics (carbon atom involved) of the reaction
they catalyzed. The availability of several structures
allowed a comprehensive analysis of the evolutionary
classification of PLP dependent enzymes, and it was
found that the functional classification did not always
agree with the evolutionary history of these enzymes.
Structure and sequence analysis has revealed that the
PLP dependent enzymes can be classified into four major
groups of different evolutionary origin: aspartate
aminotransferase superfamily (fold type I), tryptophan
synthase beta superfamily (fold type II), alanine
racemase superfamily (fold type III), and D-amino acid
superfamily (fold type IV) and Glycogen phophorylase
family (fold type V).
Length = 170
Score = 86.7 bits (215), Expect = 2e-19
Identities = 40/169 (23%), Positives = 67/169 (39%), Gaps = 7/169 (4%)
Query: 78 AINRLKKIFN--AEAANVQPHSGSQANQAVFFSVLNPGDTIMGMSLQEGGHLTHGMMLNM 135
+L ++ + A P SG+ AN+A ++L PGD ++ + G +
Sbjct: 5 LEEKLARLLQPGNDKAVFVP-SGTGANEAALLALLGPGDEVIVDANGHGSRYWV--AAEL 61
Query: 136 SGKWFNSICYGLNKKEKIDYKKVEYLAKKNKPKLIIAGASAYSQ--YIDFERFYHIAKNI 193
+G + +D +E L K LI+ + S + + IAK
Sbjct: 62 AGAKPVPVPVDDAGYGGLDVAILEELKAKPNVALIVITPNTTSGGVLVPLKEIRKIAKEY 121
Query: 194 NSYFMVDMAHYAGLIAAGEYPNPVPFADFITSTTHKSLRGPRGGFILMK 242
+VD A G A P AD +T + HK+L G GG +++K
Sbjct: 122 GILLLVDAASAGGASPAPGVLIPEGGADVVTFSLHKNLGGEGGGVVIVK 170
>gnl|CDD|236134 PRK07940, PRK07940, DNA polymerase III subunit delta'; Validated.
Length = 394
Score = 88.8 bits (221), Expect = 2e-18
Identities = 52/172 (30%), Positives = 80/172 (46%), Gaps = 18/172 (10%)
Query: 390 FNTLIGQNHISKSLINALDKKRLH---------HAYLFTGTRGVGKTTISRILAKCLNCI 440
++ L+GQ + L A R HA+LFTG G G++ +R A L C
Sbjct: 4 WDDLVGQEAVVAELRAAARAARADVAAAGSGMTHAWLFTGPPGSGRSVAARAFAAALQCT 63
Query: 441 GIDGNGGITSQPCGKCSVCVKIDNGCFMD--YIEMDAASTRGINEMAQLLEQTIYAPINA 498
D G CG+C C + G D + + S G++E+ +L+ P
Sbjct: 64 DPDEPG------CGECRACRTVLAGTHPDVRVVAPEGLSI-GVDEVRELVTIAARRPSTG 116
Query: 499 RYKIYVIDEVHMLTHHAFNAMLKTLEEPPKYIKFILATTEPQKIPITVLSRC 550
R++I VI++ LT A NA+LK +EEPP ++L P+ + T+ SRC
Sbjct: 117 RWRIVVIEDADRLTERAANALLKAVEEPPPRTVWLLCAPSPEDVLPTIRSRC 168
>gnl|CDD|152604 pfam12169, DNA_pol3_gamma3, DNA polymerase III subunits gamma and
tau domain III. This domain family is found in
bacteria, and is approximately 110 amino acids in
length. The family is found in association with
pfam00004. Domains I-III are shared between the tau and
the gamma subunits, while most of the DnaB-binding
Domain IV and all of the alpha-interacting Domain V are
unique to tau.
Length = 143
Score = 79.6 bits (197), Expect = 3e-17
Identities = 36/135 (26%), Positives = 67/135 (49%), Gaps = 7/135 (5%)
Query: 612 ITLNSMQEMLSIIDQKYLIQILDALAEQDGNLILSIANKIEIYNLSY--SIVLKDLSLLL 669
++ +++ML + D+ +I +L+A+ E D L+ + Y +VL+DL LL
Sbjct: 1 VSAAQVRDMLGLADRGRVIDLLEAILEGDAAAALAEFR--DQYAAGADPVVVLRDLLELL 58
Query: 670 HQISLIQISPEILIKDSPNYNEIIQ---LSKKFNIEQIQLFYQISIHGRNELELAPDEYA 726
H ++ ++I+P+ S E + L+KK + E + +Q+ + G E++ APD
Sbjct: 59 HLLTRLKIAPDAADDLSLPEEERERIAALAKKLSPEVLSRLWQMLLKGIEEVKNAPDPRQ 118
Query: 727 GFTMTLLRMLVFQTL 741
M LLR+ L
Sbjct: 119 AAEMALLRLAYAADL 133
>gnl|CDD|181538 PRK08699, PRK08699, DNA polymerase III subunit delta'; Validated.
Length = 325
Score = 80.3 bits (198), Expect = 7e-16
Identities = 46/163 (28%), Positives = 72/163 (44%), Gaps = 30/163 (18%)
Query: 411 RLHHAYLFTGTRGVGKTTISRILAKCLNC-IGIDGNGGITSQPCGKCSVCVKIDNGCFMD 469
R +A+LF G +G+GKT +R A+ L C G+ +PCG+C C G D
Sbjct: 19 RRPNAWLFAGKKGIGKTAFARFAAQALLCETPAPGH-----KPCGECMSCHLFGQGSHPD 73
Query: 470 YIEMDAASTRGINEMAQLLEQTIYAPINARYKIYVIDEVHMLTHH--------------- 514
+ E+ + +LL+ I A +ID V++ +
Sbjct: 74 FYEI-TPLSDEPENGRKLLQIKIDAVRE------IIDNVYLTSVRGGLRVILIHPAESMN 126
Query: 515 --AFNAMLKTLEEPPKYIKFILATTEPQKIPITVLSRCIQFNL 555
A N++LK LEEPP + F+L + K+ T+ SRC + L
Sbjct: 127 LQAANSLLKVLEEPPPQVVFLLVSHAADKVLPTIKSRCRKMVL 169
>gnl|CDD|180215 PRK05707, PRK05707, DNA polymerase III subunit delta'; Validated.
Length = 328
Score = 80.1 bits (198), Expect = 8e-16
Identities = 45/156 (28%), Positives = 72/156 (46%), Gaps = 20/156 (12%)
Query: 407 LDKKRLHHAYLFTGTRGVGKTTISRILAKCLNCIGIDGNGGITSQPCGKCSVCVKIDNGC 466
+ R HAYL G G+GK ++ LA L C G G CG C C + G
Sbjct: 16 AGRGRHPHAYLLHGPAGIGKRALAERLAAALLCEAPQGGGA-----CGSCKGCQLLRAGS 70
Query: 467 FMDYIEM---DAASTRGINEMAQL---LEQTIYAPINAR---YKIYVIDEVHMLTHHAFN 517
D + +A T ++++ +L + QT A+ K+ +I+ + +A N
Sbjct: 71 HPDNFVLEPEEADKTIKVDQVRELVSFVVQT------AQLGGRKVVLIEPAEAMNRNAAN 124
Query: 518 AMLKTLEEPPKYIKFILATTEPQKIPITVLSRCIQF 553
A+LK+LEEP +L + +P ++ T+ SRC Q
Sbjct: 125 ALLKSLEEPSGDTVLLLISHQPSRLLPTIKSRCQQQ 160
>gnl|CDD|225165 COG2256, MGS1, ATPase related to the helicase subunit of the
Holliday junction resolvase [DNA replication,
recombination, and repair].
Length = 436
Score = 78.0 bits (193), Expect = 9e-15
Identities = 61/255 (23%), Positives = 108/255 (42%), Gaps = 47/255 (18%)
Query: 381 LARKYRPSNFNTLIGQNHI---SKSLINALDKKRLHHAYLFTGTRGVGKTTISRILAKCL 437
LA + RP + + ++GQ H+ K L A++ LH L+ G G GKTT++R++A
Sbjct: 14 LAERLRPKSLDEVVGQEHLLGEGKPLRRAVEAGHLHSMILW-GPPGTGKTTLARLIAGTT 72
Query: 438 NCIGIDGNGGITSQPCGKCSVCVKIDNGCFMDYIEMDAASTRGINEMAQLLEQTIYAPIN 497
N + + A ++ G+ ++ +++E+ +
Sbjct: 73 NA-----------------------------AFEALSAVTS-GVKDLREIIEEARKNRLL 102
Query: 498 ARYKIYVIDEVHMLTHHAFNAMLKTLEEPPKYIKFILATTEPQKIPIT--VLSRCIQFNL 555
R I +DE+H +A+L +E I I ATTE + +LSR F L
Sbjct: 103 GRRTILFLDEIHRFNKAQQDALLPHVEN--GTIILIGATTENPSFELNPALLSRARVFEL 160
Query: 556 KKMLHHDI-------VNNLCYILNKENIKFETSALNLIATGAQGSMRDALSLTDQAINYS 608
K + DI + + L + I + AL+ + + G R AL+L + A +
Sbjct: 161 KPLSSEDIKKLLKRALLDEERGLGGQIIVLDEEALDYLVRLSNGDARRALNLLELAALSA 220
Query: 609 S--EKITLNSMQEML 621
E + L ++E+L
Sbjct: 221 EPDEVLILELLEEIL 235
>gnl|CDD|236011 PRK07399, PRK07399, DNA polymerase III subunit delta'; Validated.
Length = 314
Score = 76.5 bits (189), Expect = 9e-15
Identities = 52/184 (28%), Positives = 75/184 (40%), Gaps = 35/184 (19%)
Query: 390 FNTLIGQNHISKSLINALDKKRLHHAYLFTGTRGVGKTTISRILAKCLNCIGIDGNGGIT 449
F LIGQ + L A+ + R+ AYLF G GVG+ ++ A C G ++
Sbjct: 3 FANLIGQPLAIELLTAAIKQNRIAPAYLFAGPEGVGR----KLAALCF------IEGLLS 52
Query: 450 SQPCGKCSVCVKIDNGCFMD-------YIEMDAASTRGINEMAQL---------LEQ--- 490
K +++ G D Y T E A L LEQ
Sbjct: 53 QGSPSKNIRR-RLEEGNHPDLLWVEPTYQHQGKLITASEAEEAGLKRKAPPQIRLEQIRE 111
Query: 491 --TIYA--PINARYKIYVIDEVHMLTHHAFNAMLKTLEEPPKYIKFILATTEPQKIPITV 546
+ P+ A K+ VI++ + A NA+LKTLEEP IL P+ + T+
Sbjct: 112 IKRFLSRPPLEAPRKVVVIEDAETMNEAAANALLKTLEEPGNGT-LILIAPSPESLLPTI 170
Query: 547 LSRC 550
+SRC
Sbjct: 171 VSRC 174
>gnl|CDD|224127 COG1206, Gid, NAD(FAD)-utilizing enzyme possibly involved in
translation [Translation, ribosomal structure and
biogenesis].
Length = 439
Score = 77.4 bits (191), Expect = 1e-14
Identities = 44/112 (39%), Positives = 61/112 (54%), Gaps = 2/112 (1%)
Query: 1017 GISTSLPFEAQIELVQSIDGMKNANIIRPGYAIEYDYFN-PCNLKSSLETKQIHGLFFAG 1075
G T L + Q + + I G++NA +R G + N P L +L+ K+ LFFAG
Sbjct: 282 GFQTHLKWGEQKRVFRMIPGLENAEFVRYGVMHRNTFINSPKLLDPTLQLKKRPNLFFAG 341
Query: 1076 QINGTTGYEEAASQGLLAGLNAALFSQDRDPWIPGRDQAYLGVLVDDLITKG 1127
QI G GY E+A+ GLLAG+NAA + +P IP A LG LV+ + G
Sbjct: 342 QITGVEGYVESAASGLLAGINAARLALGEEPLIPPPTTA-LGALVNYITGAG 392
>gnl|CDD|237355 PRK13342, PRK13342, recombination factor protein RarA; Reviewed.
Length = 413
Score = 77.0 bits (191), Expect = 1e-14
Identities = 67/257 (26%), Positives = 106/257 (41%), Gaps = 58/257 (22%)
Query: 381 LARKYRPSNFNTLIGQNHI---SKSLINALDKKRLHHAYLFTGTRGVGKTTISRILAKCL 437
LA + RP + ++GQ H+ K L ++ RL + G G GKTT++RI+A
Sbjct: 2 LAERMRPKTLDEVVGQEHLLGPGKPLRRMIEAGRLSSM-ILWGPPGTGKTTLARIIAGAT 60
Query: 438 NCIGIDGNGGITSQPCGKCSVCVKIDNGCFMDYIEMDAASTRGINEMAQLLEQTIYAPIN 497
+ + + A ++ G+ ++ +++E+
Sbjct: 61 DA-----------------------------PFEALSAVTS-GVKDLREVIEEARQRRSA 90
Query: 498 ARYKIYVIDEVHMLTHHAFN-----AMLKTLEEPPKYIKFILATTE-PQKIPITV----L 547
R I IDE+ H FN A+L +E+ I I ATTE P V L
Sbjct: 91 GRRTILFIDEI-----HRFNKAQQDALLPHVED--GTITLIGATTENPS---FEVNPALL 140
Query: 548 SRCIQFNLKKMLHHDIVNNLCYILNKEN---IKFETSALNLIATGAQGSMRDALSLTDQA 604
SR F LK + DI L L + ++ + AL+ +A A G R AL+L + A
Sbjct: 141 SRAQVFELKPLSEEDIEQLLKRALEDKERGLVELDDEALDALARLANGDARRALNLLELA 200
Query: 605 INYSSEKITLNSMQEML 621
+ ITL ++E L
Sbjct: 201 AL-GVDSITLELLEEAL 216
>gnl|CDD|235898 PRK06964, PRK06964, DNA polymerase III subunit delta'; Validated.
Length = 342
Score = 74.0 bits (182), Expect = 9e-14
Identities = 51/176 (28%), Positives = 72/176 (40%), Gaps = 33/176 (18%)
Query: 409 KKRLHHAYLFTGTRGVGKTTISRILAKCLNCIGIDGNGGITSQPCGKCSVCVKIDNGCFM 468
+ RL HA L G G+GK ++ LA+ L C +G +PCG C+ C G
Sbjct: 17 RARLPHALLLHGQAGIGKLDFAQHLAQGLLCETPQPDG----EPCGTCAACNWFAQGNHP 72
Query: 469 DYI-----EMDAASTRGINEMAQLLEQTIYAPINARYKIYVIDEVHML-------THH-- 514
DY + A + +E + A K I++V L TH
Sbjct: 73 DYRIVRPEALAAEAPGAADEAKEADADEGGKKTKAPSKEIKIEQVRALLDFCGVGTHRGG 132
Query: 515 ---------------AFNAMLKTLEEPPKYIKFILATTEPQKIPITVLSRCIQFNL 555
A NA+LKTLEEPP F+L + ++ T+LSRC QF +
Sbjct: 133 ARVVVLYPAEALNVAAANALLKTLEEPPPGTVFLLVSARIDRLLPTILSRCRQFPM 188
>gnl|CDD|180738 PRK06871, PRK06871, DNA polymerase III subunit delta'; Validated.
Length = 325
Score = 73.2 bits (180), Expect = 1e-13
Identities = 49/168 (29%), Positives = 66/168 (39%), Gaps = 23/168 (13%)
Query: 398 HISKSLINALDKKRLHHAYLFTGTRGVGKTTISRILAKCLNCIGIDGNGGITSQPCGKCS 457
+ + A + HHA LF G+G + R LA+ L C G+ QPCG+C
Sbjct: 9 PTYQQITQAFQQGLGHHALLFKADSGLGTEQLIRALAQWLMCQTPQGD-----QPCGQCH 63
Query: 458 VCVKIDNGCFMDY----------IEMDAASTRGINEMAQLLEQTIYAPINARYKIYVIDE 507
C G D+ I +D R INE Q +Y I
Sbjct: 64 SCHLFQAGNHPDFHILEPIDNKDIGVD--QVREINEKVSQHAQQ-----GGNKVVY-IQG 115
Query: 508 VHMLTHHAFNAMLKTLEEPPKYIKFILATTEPQKIPITVLSRCIQFNL 555
LT A NA+LKTLEEP F+L + T+ SRC + +
Sbjct: 116 AERLTEAAANALLKTLEEPRPNTYFLLQADLSAALLPTIYSRCQTWLI 163
>gnl|CDD|169667 PRK09112, PRK09112, DNA polymerase III subunit delta'; Validated.
Length = 351
Score = 73.1 bits (180), Expect = 2e-13
Identities = 63/239 (26%), Positives = 98/239 (41%), Gaps = 32/239 (13%)
Query: 387 PSNFNTLIGQNHISKSLINALDKKRLHHAYLFTGTRGVGKTTISRILAKCL--------- 437
PS L G L A + +LHHA LF G G+GK T++ LA +
Sbjct: 19 PSENTRLFGHEEAEAFLAQAYREGKLHHALLFEGPEGIGKATLAFHLANHILSHPDPAEA 78
Query: 438 --NCIGIDGNGGITSQPCGKCSVCV-----KID--NGCFMDYIEMDAASTRGINEMAQLL 488
D + Q + D G F I +D I + L
Sbjct: 79 PETLADPDPASPVWRQIAQGAHPNLLHITRPFDEKTGKFKTAITVDE-----IRRVGHFL 133
Query: 489 EQTIYAPINARYKIYVIDEVHMLTHHAFNAMLKTLEEPPKYIKFILATTEPQKIPITVLS 548
QT + ++I +ID + +A NA+LKTLEEPP FIL + ++ T+ S
Sbjct: 134 SQT---SGDGNWRIVIIDPADDMNRNAANAILKTLEEPPARALFILISHSSGRLLPTIRS 190
Query: 549 RCIQFNLKKMLHHDIVNNLCYILNKENIKFETSALNLIATGAQGSMRDALSLTDQAINY 607
RC +LK + ++ L ++ + + E + + ++GS+R AL L +NY
Sbjct: 191 RCQPISLKPLDDDELKKALSHLGSSQGSDGEITE--ALLQRSKGSVRKALLL----LNY 243
>gnl|CDD|235416 PRK05335, PRK05335, tRNA (uracil-5-)-methyltransferase Gid; Reviewed.
Length = 436
Score = 72.1 bits (178), Expect = 8e-13
Identities = 42/105 (40%), Positives = 59/105 (56%), Gaps = 2/105 (1%)
Query: 1017 GISTSLPFEAQIELVQSIDGMKNANIIRPGYAIEYDYFN-PCNLKSSLETKQIHGLFFAG 1075
G T L + Q + + I G++NA +R G + N P L +L+ K+ LFFAG
Sbjct: 278 GFQTKLKWGEQKRVFRMIPGLENAEFVRYGVMHRNTFINSPKLLDPTLQLKKRPNLFFAG 337
Query: 1076 QINGTTGYEEAASQGLLAGLNAALFSQDRDPWIPGRDQAYLGVLV 1120
QI G GY E+A+ GLLAG+NAA + ++P IP A LG L+
Sbjct: 338 QITGVEGYVESAASGLLAGINAARLALGKEPVIPPPTTA-LGALL 381
>gnl|CDD|102059 PRK05917, PRK05917, DNA polymerase III subunit delta'; Validated.
Length = 290
Score = 69.4 bits (170), Expect = 1e-12
Identities = 27/84 (32%), Positives = 46/84 (54%), Gaps = 8/84 (9%)
Query: 495 PINARYKIYVIDEVHMLTHHAFNAMLKTLEEPPKYIKFILATTEPQKIPITVLSRCIQFN 554
P + YKIY+I E +T A +A LK LE+PP++ IL + +PQ++P T+ SR + +
Sbjct: 91 PYESPYKIYIIHEADRMTLDAISAFLKVLEDPPQHGVIILTSAKPQRLPPTIRSRSLSIH 150
Query: 555 LKKMLHHDIVNNLCYILNKENIKF 578
+ + +KE+I +
Sbjct: 151 IPMEEKTLV--------SKEDIAY 166
>gnl|CDD|181190 PRK07993, PRK07993, DNA polymerase III subunit delta'; Validated.
Length = 334
Score = 67.4 bits (165), Expect = 1e-11
Identities = 49/157 (31%), Positives = 75/157 (47%), Gaps = 21/157 (13%)
Query: 411 RLHHAYLFTGTRGVGKTTISRILAKCLNCIGIDGNGGITSQPCGKCSVCVKIDNGCFMDY 470
R HHA L G+G + L++ L C G+ + CG C C + G DY
Sbjct: 22 RGHHALLIQALPGMGDDALIYALSRWLMCQQPQGH-----KSCGHCRGCQLMQAGTHPDY 76
Query: 471 IEMD---AASTRGINEMAQLLEQTIYAPINARY---KIYVIDEVHMLTHHAFNAMLKTLE 524
+ S+ G++ + ++ E +Y +AR K+ + + +LT A NA+LKTLE
Sbjct: 77 YTLTPEKGKSSLGVDAVREVTE-KLYE--HARLGGAKVVWLPDAALLTDAAANALLKTLE 133
Query: 525 EPPKYIKFILATTEPQKIPITVLSRCIQFNLKKMLHH 561
EPP+ F LA EP ++ T+ SRC LH+
Sbjct: 134 EPPENTWFFLACREPARLLATLRSRC-------RLHY 163
>gnl|CDD|235223 PRK04132, PRK04132, replication factor C small subunit;
Provisional.
Length = 846
Score = 67.9 bits (166), Expect = 3e-11
Identities = 47/147 (31%), Positives = 74/147 (50%), Gaps = 3/147 (2%)
Query: 469 DYIEMDAASTRGINEM-AQLLEQTIYAPI-NARYKIYVIDEVHMLTHHAFNAMLKTLEEP 526
+++E++A+ RGIN + ++ E PI A +KI +DE LT A A+ +T+E
Sbjct: 598 NFLELNASDERGINVIREKVKEFARTKPIGGASFKIIFLDEADALTQDAQQALRRTMEMF 657
Query: 527 PKYIKFILATTEPQKIPITVLSRCIQFNLKKMLHHDIVNNLCYILNKENIKFETSALNLI 586
++FIL+ KI + SRC F + + DI L YI E ++ L I
Sbjct: 658 SSNVRFILSCNYSSKIIEPIQSRCAIFRFRPLRDEDIAKRLRYIAENEGLELTEEGLQAI 717
Query: 587 ATGAQGSMRDALSLTDQAINYSSEKIT 613
A+G MR A+++ QA +KIT
Sbjct: 718 LYIAEGDMRRAINIL-QAAAALDDKIT 743
Score = 39.4 bits (92), Expect = 0.013
Identities = 19/54 (35%), Positives = 30/54 (55%), Gaps = 1/54 (1%)
Query: 373 ELEIIKVVLARKYRPSNFNTLIGQNHISKSLINALDKKRLHHAYLFTGTRGVGK 426
E+++++ KYRP + ++GQ HI K L + + + H LF G GVGK
Sbjct: 1 EVKVLEKPWVEKYRPQRLDDIVGQEHIVKRLKHYVKTGSMPH-LLFAGPPGVGK 53
>gnl|CDD|180132 PRK05564, PRK05564, DNA polymerase III subunit delta'; Validated.
Length = 313
Score = 63.1 bits (154), Expect = 2e-10
Identities = 49/194 (25%), Positives = 90/194 (46%), Gaps = 28/194 (14%)
Query: 390 FNTLIGQNHISKSLINALDKKRLHHAYLFTGTRGVGKTTISRILA-KCLNCIGIDGNGGI 448
F+T+IG +I + N++ K R HA++ G G+GK+ +++ +A K L
Sbjct: 3 FHTIIGHENIKNRIKNSIIKNRFSHAHIIVGEDGIGKSLLAKEIALKILG---------- 52
Query: 449 TSQPCGKCSVCVKIDNGCFMDYIEMDAASTR--GINEMAQLLEQTIYAPINARYKIYVID 506
K ++D IE + + G++++ ++E+ P K+ +I
Sbjct: 53 ------------KSQQREYVDIIEFKPINKKSIGVDDIRNIIEEVNKKPYEGDKKVIIIY 100
Query: 507 EVHMLTHHAFNAMLKTLEEPPKYIKFILATTEPQKIPITVLSRCIQFNLKKMLHHDI--- 563
+T A NA LKT+EEPPK + IL ++I T+ SRC + L ++ +I
Sbjct: 101 NSEKMTEQAQNAFLKTIEEPPKGVFIILLCENLEQILDTIKSRCQIYKLNRLSKEEIEKF 160
Query: 564 VNNLCYILNKENIK 577
++ + +E K
Sbjct: 161 ISYKYNDIKEEEKK 174
>gnl|CDD|129243 TIGR00137, gid_trmFO, tRNA:m(5)U-54 methyltransferase. This model
represents an orthologous set of proteins present in
relatively few bacteria but very tightly conserved where
it occurs. It is closely related to gidA
(glucose-inhibited division protein A), which appears to
be present in all complete eubacterial genomes so far and
in Saccharomyces cerevisiae. It was designated gid but is
now recognized as a tRNA:m(5)U-54 methyltransferase and
is now designated trmFO [Protein synthesis, tRNA and rRNA
base modification].
Length = 433
Score = 63.4 bits (154), Expect = 4e-10
Identities = 35/111 (31%), Positives = 53/111 (47%), Gaps = 2/111 (1%)
Query: 1017 GISTSLPFEAQIELVQSIDGMKNANIIRPGYAIEYDYFN-PCNLKSSLETKQIHGLFFAG 1075
G T+L + Q + + I G++NA +R G + N P L +SL K LFFAG
Sbjct: 277 GFQTNLRWGEQKRVFRLIPGLENAEFVRMGVMHRNTFINSPQLLTASLHFKDRQTLFFAG 336
Query: 1076 QINGTTGYEEAASQGLLAGLNAALFSQDRDPWIPGRDQAYLGVLVDDLITK 1126
Q+ G GY + + G LAG+NAA + + +G L + + T
Sbjct: 337 QLTGVEGYVASTAGGWLAGINAARLALGEPLLTLPAETM-MGALFNYISTA 386
>gnl|CDD|235250 PRK04195, PRK04195, replication factor C large subunit;
Provisional.
Length = 482
Score = 60.7 bits (148), Expect = 3e-09
Identities = 62/268 (23%), Positives = 110/268 (41%), Gaps = 52/268 (19%)
Query: 384 KYRPSNFNTLIGQNHISKSL---INALDKKRLHHAYLFTGTRGVGKTTISRILAKCLNCI 440
KYRP + ++G + L I + K + A L G GVGKT+++ LA
Sbjct: 7 KYRPKTLSDVVGNEKAKEQLREWIESWLKGKPKKALLLYGPPGVGKTSLAHALANDYG-- 64
Query: 441 GIDGNGGITSQPCGKCSVCVKIDNGCFMDYIEMDAASTRGINEMAQLLEQTI-----YAP 495
+ IE++A+ R A ++E+
Sbjct: 65 ---------------------------WEVIELNASDQRT----ADVIERVAGEAATSGS 93
Query: 496 I-NARYKIYVIDEVHMLTHHA----FNAMLKTLEEPPKYIKFILATTEPQKIPI-TVLSR 549
+ AR K+ ++DEV + + A+L+ +++ + I IL +P + + +
Sbjct: 94 LFGARRKLILLDEVDGIHGNEDRGGARAILELIKKAKQPI--ILTANDPYDPSLRELRNA 151
Query: 550 CIQFNLKKMLHHDIVNNLCYILNKENIKFETSALNLIATGAQGSMRDALSLTD-QAINYS 608
C+ K++ IV L I KE I+ + AL IA + G +R A + D QAI
Sbjct: 152 CLMIEFKRLSTRSIVPVLKRICRKEGIECDDEALKEIAERSGGDLRSA--INDLQAIAEG 209
Query: 609 SEKITLNSMQEMLSIIDQKYLIQILDAL 636
K+TL ++ + ++ + LDA+
Sbjct: 210 YGKLTLEDVKTLGRRDREESIFDALDAV 237
>gnl|CDD|180916 PRK07276, PRK07276, DNA polymerase III subunit delta'; Validated.
Length = 290
Score = 57.7 bits (140), Expect = 1e-08
Identities = 47/155 (30%), Positives = 74/155 (47%), Gaps = 14/155 (9%)
Query: 407 LDKKRLHHAYLFTGTRGVGKTTISRILAKCLNCIGIDGNGGITSQPCGKCSVCVKIDNGC 466
L++ RL+HAYLF+G ++ LA+ L C +G PCG C C I+ G
Sbjct: 18 LEQDRLNHAYLFSG--DFASFEMALFLAQSLFCEQKEG-----VLPCGHCRSCRLIEQGE 70
Query: 467 FMDY--IEMDAA--STRGINEMAQLLEQTIYAPINARYKIYVIDEVHMLTHHAFNAMLKT 522
F D IE T I E+ + Q+ Y + ++++I + + +A N++LK
Sbjct: 71 FSDVTVIEPQGQVIKTDTIRELVKNFSQSGY---EGKQQVFIIKDADKMHVNAANSLLKV 127
Query: 523 LEEPPKYIKFILATTEPQKIPITVLSRCIQFNLKK 557
+EEP I L T + K+ T+ SR F+ K
Sbjct: 128 IEEPQSEIYIFLLTNDENKVLPTIKSRTQIFHFPK 162
>gnl|CDD|180394 PRK06090, PRK06090, DNA polymerase III subunit delta'; Validated.
Length = 319
Score = 57.5 bits (139), Expect = 2e-08
Identities = 44/161 (27%), Positives = 72/161 (44%), Gaps = 25/161 (15%)
Query: 406 ALDKKRLHHAYLFTGTRGVGKTTISRILAKCLNCIGIDGNGGITSQPCGKCSVCVKIDNG 465
LD R+ A L G+G ++ + ++ L C S+ CG C C + +G
Sbjct: 18 GLDAGRIPGALLLQSDEGLGVESLVELFSRALLCQNY------QSEACGFCHSCELMQSG 71
Query: 466 CFMDY-----------IEMDAASTRGINEMAQLLEQTIYAPINARYKIYVIDEVHMLTHH 514
D I ++ R N +AQ Q +N Y+++VI+ +
Sbjct: 72 NHPDLHVIKPEKEGKSITVE--QIRQCNRLAQESSQ-----LNG-YRLFVIEPADAMNES 123
Query: 515 AFNAMLKTLEEPPKYIKFILATTEPQKIPITVLSRCIQFNL 555
A NA+LKTLEEP F+L T +++ T++SRC Q+ +
Sbjct: 124 ASNALLKTLEEPAPNCLFLLVTHNQKRLLPTIVSRCQQWVV 164
>gnl|CDD|236022 PRK07471, PRK07471, DNA polymerase III subunit delta'; Validated.
Length = 365
Score = 55.4 bits (134), Expect = 9e-08
Identities = 48/189 (25%), Positives = 72/189 (38%), Gaps = 48/189 (25%)
Query: 393 LIGQNHISKSLINALDKKRLHHAYLFTGTRGVGKTTISRILAKCLNCIGIDGNGGITSQP 452
L G +L++A RLHHA+L G +G+GK T++ +A+ L G G
Sbjct: 21 LFGHAAAEAALLDAYRSGRLHHAWLIGGPQGIGKATLAYRMARFLLATPPPGGDG---AV 77
Query: 453 CGKCSVCVKIDNGCFMDYIEMDAAS-------TRGINEMAQLLEQTIYAPINARYKIYVI 505
S+ + D+ + A + R NE + L I +
Sbjct: 78 PPPTSLAIDPDHPVAR---RIAAGAHGGLLTLERSWNEKGKRLRTVI-----------TV 123
Query: 506 DEVHMLTH------------------------HAFNAMLKTLEEPPKYIKFILATTEPQK 541
DEV L +A NA+LK LEEPP F+L + P +
Sbjct: 124 DEVRELISFFGLTAAEGGWRVVIVDTADEMNANAANALLKVLEEPPARSLFLLVSHAPAR 183
Query: 542 IPITVLSRC 550
+ T+ SRC
Sbjct: 184 LLPTIRSRC 192
>gnl|CDD|178596 PLN03025, PLN03025, replication factor C subunit; Provisional.
Length = 319
Score = 54.3 bits (131), Expect = 2e-07
Identities = 56/219 (25%), Positives = 94/219 (42%), Gaps = 30/219 (13%)
Query: 384 KYRPSNFNTLIGQNHISKSLINALDKKRLHHAYLFTGTRGVGKTTISRILAKCLNCIGID 443
KYRP+ + ++G N + S + + + + +G G GKTT LA L +G
Sbjct: 6 KYRPTKLDDIVG-NEDAVSRLQVIARDGNMPNLILSGPPGTGKTTSILALAHEL--LG-- 60
Query: 444 GNGGITSQPCGKCSVCVKIDNGCFMDYIEMDAASTRGI----NEMAQLLEQTIYAPINAR 499
P K +V +E++A+ RGI N++ ++ + P R
Sbjct: 61 --------PNYKEAV------------LELNASDDRGIDVVRNKIKMFAQKKVTLPP-GR 99
Query: 500 YKIYVIDEVHMLTHHAFNAMLKTLEEPPKYIKFILATTEPQKIPITVLSRCIQFNLKKML 559
+KI ++DE +T A A+ +T+E +F LA KI + SRC ++
Sbjct: 100 HKIVILDEADSMTSGAQQALRRTMEIYSNTTRFALACNTSSKIIEPIQSRCAIVRFSRLS 159
Query: 560 HHDIVNNLCYILNKENIKFETSALNLIATGAQGSMRDAL 598
+I+ L ++ E + + L I A G MR AL
Sbjct: 160 DQEILGRLMKVVEAEKVPYVPEGLEAIIFTADGDMRQAL 198
>gnl|CDD|181551 PRK08769, PRK08769, DNA polymerase III subunit delta'; Validated.
Length = 319
Score = 53.4 bits (128), Expect = 3e-07
Identities = 43/162 (26%), Positives = 70/162 (43%), Gaps = 17/162 (10%)
Query: 404 INALDKKRLHHAYLFTGTRGVGKTTISRILAKCLNCIGIDGNGGITSQPCGKCSVCVKID 463
+ ALD RL H L G G+GK ++ LA+ + G D +Q + I
Sbjct: 17 VAALDAGRLGHGLLICGPEGLGKRAVALALAEHVLASGPDP---AAAQRTRQL-----IA 68
Query: 464 NGCFMD-----YIEM---DAASTR-GINEMAQLLEQTIYAPINARYKIYVIDEVHMLTHH 514
G D +I D T I ++ ++ ++ P ++ ++D +
Sbjct: 69 AGTHPDLQLVSFIPNRTGDKLRTEIVIEQVREISQKLALTPQYGIAQVVIVDPADAINRA 128
Query: 515 AFNAMLKTLEEPPKYIKFILATTEPQKIPITVLSRCIQFNLK 556
A NA+LKTLEEP L + +P ++P T+ SRC + K
Sbjct: 129 ACNALLKTLEEPSPGRYLWLISAQPARLPATIRSRCQRLEFK 170
>gnl|CDD|99747 cd06454, KBL_like, KBL_like; this family belongs to the pyridoxal
phosphate (PLP)-dependent aspartate aminotransferase
superfamily (fold I). The major groups in this CD
corresponds to serine palmitoyltransferase (SPT),
5-aminolevulinate synthase (ALAS),
8-amino-7-oxononanoate synthase (AONS), and
2-amino-3-ketobutyrate CoA ligase (KBL). SPT is
responsible for the condensation of L-serine with
palmitoyl-CoA to produce 3-ketodihydrospingosine, the
reaction of the first step in sphingolipid biosynthesis.
ALAS is involved in heme biosynthesis; it catalyzes the
synthesis of 5-aminolevulinic acid from glycine and
succinyl-coenzyme A. AONS catalyses the decarboxylative
condensation of l-alanine and pimeloyl-CoA in the first
committed step of biotin biosynthesis. KBL catalyzes the
second reaction step of the metabolic degradation
pathway for threonine converting 2-amino-3-ketobutyrate,
to glycine and acetyl-CoA. The members of this CD are
widely found in all three forms of life.
Length = 349
Score = 52.9 bits (128), Expect = 5e-07
Identities = 64/269 (23%), Positives = 93/269 (34%), Gaps = 63/269 (23%)
Query: 75 EKIAINRLKKIFNAEAANVQPHSGSQANQAVFFSVLNPGDTIMGMSLQEGGHLTHGMMLN 134
E++A + EAA V SG AN V ++ GD I+ H
Sbjct: 53 EELA-----EFHGKEAALVF-SSGYAANDGVLSTLAGKGDLII---SDSLNH-------- 95
Query: 135 MSGKWFNSICYG--LNKKEKIDYK--KVEYLAK-------KNKPKLIIA-------GASA 176
SI G L+ +K +K +E L K KLI+ G A
Sbjct: 96 ------ASIIDGIRLSGAKKRIFKHNDMEDLEKLLREARRPYGKKLIVTEGVYSMDGDIA 149
Query: 177 YSQYIDFERFYHIAKNINSYFMVDMAHYAGLIA--------AGEYPNPVPFADFITSTTH 228
+AK + VD AH G+ G + V D I T
Sbjct: 150 -----PLPELVDLAKKYGAILFVDEAHSVGVYGPHGRGVEEFGGLTDDV---DIIMGTLG 201
Query: 229 KSLRGPRGGFILMKKKYKKIINSAVFPGI-QGGPLMHVIAAKAVAFKEVLKPDFKIYQKQ 287
K+ G GG+I K+ + S I V AA A + + + + Q
Sbjct: 202 KAF-GAVGGYIAGSKELIDYLRSYARGFIFSTSLPPAVAAAALAALEVLQGGPERRERLQ 260
Query: 288 VVKNAKILSKILDQRGIRIVSGGTKSHII 316
+N + L + L + G + GG+ SHII
Sbjct: 261 --ENVRYLRRGLKELGFPV--GGSPSHII 285
>gnl|CDD|99707 cd00009, AAA, The AAA+ (ATPases Associated with a wide variety of
cellular Activities) superfamily represents an ancient
group of ATPases belonging to the ASCE (for additional
strand, catalytic E) division of the P-loop NTPase fold.
The ASCE division also includes ABC, RecA-like,
VirD4-like, PilT-like, and SF1/2 helicases. Members of
the AAA+ ATPases function as molecular chaperons, ATPase
subunits of proteases, helicases, or nucleic-acid
stimulated ATPases. The AAA+ proteins contain several
distinct features in addition to the conserved
alpha-beta-alpha core domain structure and the Walker A
and B motifs of the P-loop NTPases.
Length = 151
Score = 50.2 bits (120), Expect = 6e-07
Identities = 32/167 (19%), Positives = 60/167 (35%), Gaps = 30/167 (17%)
Query: 394 IGQNHISKSLINALDKKRLHHAYLFTGTRGVGKTTISRILAKCLNCIGIDGNGGITSQPC 453
+GQ ++L AL+ + L G G GKTT++R +A L G
Sbjct: 1 VGQEEAIEALREALELPPPKN-LLLYGPPGTGKTTLARAIANELFRPGAP---------- 49
Query: 454 GKCSVCVKIDNGCFMDYIEMDAASTRGINEMAQLLEQTIYAPINARYKIYVIDEVHMLTH 513
+ ++ ++ + + + + L + A+ + IDE+ L+
Sbjct: 50 -----FLYLNASDLLEGLVVAELFGHFLVRLLFELAE------KAKPGVLFIDEIDSLSR 98
Query: 514 HAFNAMLKTLEEPPKY------IKFILATT--EPQKIPITVLSRCIQ 552
A NA+L+ LE ++ I AT + + R
Sbjct: 99 GAQNALLRVLETLNDLRIDRENVRVIGATNRPLLGDLDRALYDRLDI 145
>gnl|CDD|236274 PRK08485, PRK08485, DNA polymerase III subunit delta'; Validated.
Length = 206
Score = 50.8 bits (122), Expect = 8e-07
Identities = 34/123 (27%), Positives = 52/123 (42%), Gaps = 14/123 (11%)
Query: 515 AFNAMLKTLEEPPKYIKFILATTEPQKIPITVLSRCI-------------QFNLKKMLHH 561
A NA+LK LEEPPK I FI+ + T+ SR I +LKK+
Sbjct: 70 AQNALLKILEEPPKNICFIIVAKSKNLLLPTIRSRLIIEKRKQKKPVKPLDLDLKKLDLK 129
Query: 562 DIVNNLCYILNKENIKFETSALNLIATGAQGSMRDALSLTDQAINYSSEKITLNSMQEML 621
DI L KEN + LI + + ++ + L ++ + Y + I L +
Sbjct: 130 DIY-EFLKELEKENKLSKEELKELIESLLKECVKYKIPLNEEELEYFDKAIKLADLNAKS 188
Query: 622 SII 624
S +
Sbjct: 189 SYV 191
>gnl|CDD|235618 PRK05818, PRK05818, DNA polymerase III subunit delta'; Validated.
Length = 261
Score = 51.0 bits (122), Expect = 2e-06
Identities = 32/104 (30%), Positives = 51/104 (49%), Gaps = 2/104 (1%)
Query: 452 PCGKCSVCVKIDNGCFMD-YIEMDAASTRGINEMAQLLEQTIYAPINAR-YKIYVIDEVH 509
C C C+KI NG + D Y+ D + + ++ + + + KIY+I +
Sbjct: 39 FCKTCESCLKILNGKYNDFYLIFDQKNPIKKEDALSIINKLNRPSVESNGKKIYIIYGIE 98
Query: 510 MLTHHAFNAMLKTLEEPPKYIKFILATTEPQKIPITVLSRCIQF 553
L + N++LK +EEPPK I T I T+LSRC+Q+
Sbjct: 99 KLNKQSANSLLKLIEEPPKNTYGIFTTRNENNILNTILSRCVQY 142
>gnl|CDD|215756 pfam00155, Aminotran_1_2, Aminotransferase class I and II.
Length = 357
Score = 51.2 bits (123), Expect = 2e-06
Identities = 56/336 (16%), Positives = 119/336 (35%), Gaps = 33/336 (9%)
Query: 36 ENYTSLAVMEAQGTLLTNKYAEGYPGKRYYGGCKFIDLIEKIA--INRLKKIFNAEAANV 93
++ T AV +A+ L Y +L E +A + R + A V
Sbjct: 14 DSGTLPAVAKAEKDALAGGTRNLYGPTDGL-----PELREALAKFLGRSPVLKLDREAAV 68
Query: 94 QPHSGSQANQAV--FFSVLNPGDTIMGMSLQEGGHLTHGMMLNMSG-KWFNSICYGLNKK 150
SG+ AN F LNPGD I+ + + ++ + ++G + Y N
Sbjct: 69 VFGSGAGANIEALIFLLRLNPGDAILVPAP---TYPSYIRIFRLAGGEVVRYPLYSSNDF 125
Query: 151 EKIDYKKVEYLAKKN--KPKLIIAGASAYS---QYIDFERFYHIAKNINSYF---MVDMA 202
+D+ +E K+ K+++ S ++ E + + +VD A
Sbjct: 126 -HLDFDALEAALKEATEGNKVVLH-TSPHNPTGTVATLEELEKLLDLAKEHNILLLVDEA 183
Query: 203 HYAGLIAAGEYPNPVPFAD-----FITSTTHKS--LRGPRGGFILMKKKYKKIINSAVFP 255
+ + + + + + K+ L G R G+IL + P
Sbjct: 184 YAGFVFGSLDAVATRALLAEGPNLLVVGSFSKAFGLAGWRVGYILGNAAVISQLRKLARP 243
Query: 256 GIQGGPLMHVIAAKAVAFKEVLKPDFKIYQKQVVKNAKILSKILDQRGIRIVSGGTKSHI 315
L AA A++ ++ + + ++++ + L L+ G+ ++ ++
Sbjct: 244 FYSSTHLQA-AAAAALSDPLLVASELEEMRQRIKERRDYLRDGLEAAGLSVLPS--QAGF 300
Query: 316 ILVDLRNKKITGKIAESILESANIICNKNSIPNDPE 351
L+ + + +A+ +LE + S P
Sbjct: 301 FLLTGLDPEAALALAQVLLEEVGVYVTPGSSFGGPG 336
>gnl|CDD|180855 PRK07132, PRK07132, DNA polymerase III subunit delta'; Validated.
Length = 299
Score = 50.5 bits (121), Expect = 3e-06
Identities = 64/315 (20%), Positives = 114/315 (36%), Gaps = 45/315 (14%)
Query: 396 QNHISKSLINALDKKRLHHAYLFTGTRGVGKTTISRILAKCLNCIGIDGNGGITSQPCGK 455
N+ K L N+ + ++ H++L I + LN + Q
Sbjct: 1 MNNWIKFLDNSATQNKISHSFLLKSNY---NEDIDEKILYFLNKFNNLQITNLNEQELPA 57
Query: 456 CSVCVKIDNGCFMDYIEMDAASTRGINEMAQLLEQTIYAPINARYKIYVIDEVHMLTHHA 515
N D + D + + ++ + +L + ++ KI +I + ++
Sbjct: 58 --------NIILFDIFDKDLSKSEFLSAINKLYFSSFVQ---SQKKILIIKNIEKTSNSL 106
Query: 516 FNAMLKTLEEPPKYIKFILATTEPQKIPITVLSRCIQFNLKKMLHHDIVNNLCYILNKEN 575
NA+LKT+EEPPK F+L T K+ T++SRC FN+K+ I+ L +N
Sbjct: 107 LNALLKTIEEPPKDTYFLLTTKNINKVLPTIVSRCQVFNVKEPDQQKIL----AKLLSKN 162
Query: 576 IKFETSALNLIATGAQGSMRDALSLTDQAINYSSEKITLNSMQEMLSIIDQKYLIQILDA 635
+ E + + ++ IN SE + + L+
Sbjct: 163 KEKEYNWFYA-------YIFSNFEQAEKYINKESENLLKK-------------FEEALNK 202
Query: 636 LAEQDGNLILSIANKIEIYNLSYSIVLKDLSLLLHQISLIQISPEILIKDSPNYNEIIQL 695
++ LIL + K+ N +LK L S+ + K+
Sbjct: 203 SLKEKYELILFLNKKLTKEN--ALFLLKLLKFFF--KSIFANKKKKNPKNIKVA---FSK 255
Query: 696 SKKFNIEQIQLFYQI 710
KKF IE +L I
Sbjct: 256 KKKFKIEFFELITII 270
>gnl|CDD|222866 PHA02544, 44, clamp loader, small subunit; Provisional.
Length = 316
Score = 48.1 bits (115), Expect = 2e-05
Identities = 59/301 (19%), Positives = 110/301 (36%), Gaps = 64/301 (21%)
Query: 384 KYRPSNFNTLIGQNHISKSLINALDKKRLHHAYLFTGTRGVGKTTISRILAKCLNCIGID 443
KYRPS + I ++ + + K R+ + L + + G GKTT+++ L N +G +
Sbjct: 14 KYRPSTIDECILPAADKETFKSIVKKGRIPNMLLHSPSPGTGKTTVAKALC---NEVGAE 70
Query: 444 GNGGITSQPCGKCSVCVKIDNG--CFMDYIEMDA---ASTRGINEMAQLLEQTIYAPINA 498
V NG C +D++ AST +
Sbjct: 71 ----------------VLFVNGSDCRIDFVRNRLTRFAST---------------VSLTG 99
Query: 499 RYKIYVIDEVHMLTHHAFNAMLKTL-EEPPKYIKFILATTEPQKIPITVLSRC--IQFNL 555
K+ +IDE L L++ E K FI+ I + SRC I F +
Sbjct: 100 GGKVIIIDEFDRLGLADAQRHLRSFMEAYSKNCSFIITANNKNGIIEPLRSRCRVIDFGV 159
Query: 556 KK-----MLHHDIVNNLCYILNKENIKFETSALNLIATGAQGSMRDALSLTDQAINYSSE 610
+ ++ IL E ++ + + ++A + + D ++ Y+S
Sbjct: 160 PTKEEQIEMMKQMIVRCKGILEAEGVEVD---MKVLAALVKKNFPDFRRTINELQRYAST 216
Query: 611 -KITLNSMQEMLSIIDQKYLIQILDALAEQDGNLILSIANKIE---------IYNLSYSI 660
KI +LS + + +++AL +D + ++A +Y+ Y
Sbjct: 217 GKID----AGILSEVTNSDIDDVVEALKAKDFKAVRALAPNYANDYASFVGKLYDELYPQ 272
Query: 661 V 661
V
Sbjct: 273 V 273
>gnl|CDD|235833 PRK06581, PRK06581, DNA polymerase III subunit delta'; Validated.
Length = 263
Score = 46.0 bits (109), Expect = 6e-05
Identities = 25/102 (24%), Positives = 46/102 (45%), Gaps = 7/102 (6%)
Query: 481 INEMAQLLEQTIYAPINARYKIYVIDEVHMLTHHAFNAMLKTLEEPPKYIKFILATTEPQ 540
I ++ L +T + YK+ +I ++ +A N+ LK LE+ PK L T+
Sbjct: 74 IRKLQDFLSKT---SAISGYKVAIIYSAELMNLNAANSCLKILEDAPKNSYIFLITSRAA 130
Query: 541 KIPITVLSRCIQFNLKKMLHHDI----VNNLCYILNKENIKF 578
I T+ SRC + N++ + H + I + + + F
Sbjct: 131 SIISTIRSRCFKINVRSSILHAYNELYSQFIQPIADNKTLDF 172
>gnl|CDD|131948 TIGR02902, spore_lonB, ATP-dependent protease LonB. Members of
this protein are LonB, a paralog of the ATP-dependent
protease La (LonA, TIGR00763). LonB proteins are found
strictly, and almost universally, in endospore-forming
bacteria. This protease was shown, in Bacillus subtilis,
to be expressed specifically in the forespore, during
sporulation, under control of sigma(F). The lonB gene,
despite location immediately upstream of lonA, was shown
to be monocistronic. LonB appears able to act on
sigma(H) for post-translation control, but lonB mutation
did not produce an obvious sporulation defect under the
conditions tested. Note that additional paralogs of LonA
and LonB occur in the Clostridium lineage and this model
selects only one per species as the protein that
corresponds to LonB in B. subtilis [Protein fate,
Degradation of proteins, peptides, and glycopeptides,
Cellular processes, Sporulation and germination].
Length = 531
Score = 46.3 bits (110), Expect = 9e-05
Identities = 67/271 (24%), Positives = 101/271 (37%), Gaps = 72/271 (26%)
Query: 381 LARKYRPSNFNTLIGQNHISKSLINALDKKRLHHAYLFTGTRGVGKTTISR-ILAKCLNC 439
L+ K RP +F+ +IGQ K+L AL H ++ G GVGKT +R +L +
Sbjct: 55 LSEKTRPKSFDEIIGQEEGIKALKAALCGPNPQHVIIY-GPPGVGKTAAARLVLEEAKKN 113
Query: 440 IGIDGNGGITSQPCGKCSVCVKIDNGCFMDYIEMDAASTRGINEMAQLLEQTIYAPI--- 496
+ P + + V+ID D RGI A L +++ PI
Sbjct: 114 ---------PASPFKEGAAFVEIDATT----ARFD---ERGI---ADPLIGSVHDPIYQG 154
Query: 497 ------------------NARYKIYVIDEVHMLTHHAFNAMLKTLE-------------- 524
A + IDE+ L N +LK LE
Sbjct: 155 AGPLGIAGIPQPKPGAVTRAHGGVLFIDEIGELHPVQMNKLLKVLEDRKVFLDSAYYNSE 214
Query: 525 --EPPKYIKFIL------------ATTE-PQKIPITVLSRCIQFNLKKMLHHDIVNNLCY 569
P +I I ATT P++IP + SRC++ + +L +I
Sbjct: 215 NPNIPSHIHDIFQNGLPADFRLIGATTRNPEEIPPALRSRCVEIFFRPLLDEEIKEIAKN 274
Query: 570 ILNKENIKFETSALNLIATGAQGSMRDALSL 600
K I E AL LI A + R+A+++
Sbjct: 275 AAEKIGINLEKHALELIVKYAS-NGREAVNI 304
>gnl|CDD|234361 TIGR03812, tyr_de_CO2_Arch, tyrosine decarboxylase MnfA. Members
of this protein family are the archaeal form, MnfA, of
tyrosine decarboxylase, and are involved in methanofuran
biosynthesis. Members show clear homology to the
Enterococcus form, Tdc, that is involved in tyrosine
decarboxylation for resistance to acidic conditions
[Biosynthesis of cofactors, prosthetic groups, and
carriers, Other].
Length = 373
Score = 45.8 bits (109), Expect = 1e-04
Identities = 37/118 (31%), Positives = 49/118 (41%), Gaps = 18/118 (15%)
Query: 147 LNKKEKIDYKKVEYLAKKNKPKLI-IAGASAYSQYIDFERFYHIAKNINSYFMVDMAHYA 205
L++ +D K VE L N ++ IAG + Q D E IA Y VD A +
Sbjct: 135 LDEDYTVDVKDVEDLIDDNTIGIVGIAGTTELGQIDDIEELSKIALENGIYLHVDAA-FG 193
Query: 206 GLIA--AGEYPNPVPFADF-------ITSTTHKSLRG----PRGGFILMKKKYKKIIN 250
G + + NP PF DF IT HK G P GG + K Y K ++
Sbjct: 194 GFVIPFLKKGYNPPPF-DFSLPGVQSITIDPHK--MGLSPIPAGGILFRSKSYLKYLS 248
>gnl|CDD|215649 pfam00004, AAA, ATPase family associated with various cellular
activities (AAA). AAA family proteins often perform
chaperone-like functions that assist in the assembly,
operation, or disassembly of protein complexes.
Length = 131
Score = 41.0 bits (97), Expect = 6e-04
Identities = 29/152 (19%), Positives = 46/152 (30%), Gaps = 46/152 (30%)
Query: 416 YLFTGTRGVGKTTISRILAKCLNCIGIDGNGGITSQPCGKCSVCVKIDNGCFMDYIEMDA 475
L G G GKTT+++ +AK L +IE+
Sbjct: 1 LLLYGPPGTGKTTLAKAVAKELG-----------------------------APFIEISG 31
Query: 476 ASTRG--INEMAQLLEQTIYAPINARYKIYVIDEVHMLTHH-----------AFNAMLKT 522
+ + E + L + A + IDE+ L N +L
Sbjct: 32 SELVSKYVGESEKRLRELFEAAKKLAPCVIFIDEIDALAGSRGSGGDSESRRVVNQLLTE 91
Query: 523 LEE---PPKYIKFILATTEPQKIPITVL-SRC 550
L+ + I AT P K+ +L R
Sbjct: 92 LDGFTSSLSKVIVIAATNRPDKLDPALLRGRF 123
>gnl|CDD|223546 COG0470, HolB, ATPase involved in DNA replication [DNA replication,
recombination, and repair].
Length = 230
Score = 41.6 bits (97), Expect = 0.001
Identities = 41/197 (20%), Positives = 71/197 (36%), Gaps = 21/197 (10%)
Query: 523 LEEPPKYIKFILATTEPQKIPITVLSRCIQFNLKKMLHHDIVNNLCYILNKENIKFETSA 582
PPK +FIL T +P KI T+ SRC + K + L I E+
Sbjct: 38 TTAPPKNTRFILITNDPSKILPTIRSRCQRIRFKP------PSRLEAIAWLED-----QG 86
Query: 583 LNLIATGAQGSMRDALS-LTDQAINYSSEKITLNSMQEMLSIIDQKYLIQIL-------- 633
L IA A+G R A++ L A E+ ++ L + L
Sbjct: 87 LEEIAAVAEGDARKAINPLQALAALEIGEESIYEALLLALPESLAQLAALELLKLAENKF 146
Query: 634 -DALAEQDGNLILSIANKIEIYNLSYSIVLKDLSLLLHQISLIQISPEILIKDSPNYNEI 692
+AL + L+L ++ + +LK L+ + ++ + + +
Sbjct: 147 LEALEKLWLLLLLEGLLGEDLLDQLQRELLKLDKALIQEEKAAELLDALAQARRRLLDGL 206
Query: 693 IQLSKKFNIEQIQLFYQ 709
+ L + N+ L Q
Sbjct: 207 LALIQLENLLAELLLLQ 223
Score = 31.9 bits (72), Expect = 1.7
Identities = 17/35 (48%), Positives = 21/35 (60%)
Query: 395 GQNHISKSLINALDKKRLHHAYLFTGTRGVGKTTI 429
Q + + L+ AL+ RL HA LF G GVGKTT
Sbjct: 6 WQEAVKRLLVQALESGRLPHALLFYGPPGVGKTTA 40
>gnl|CDD|223594 COG0520, csdA, Selenocysteine lyase/Cysteine desulfurase
[Posttranslational modification, protein turnover,
chaperones].
Length = 405
Score = 42.3 bits (100), Expect = 0.001
Identities = 24/90 (26%), Positives = 35/90 (38%), Gaps = 12/90 (13%)
Query: 161 LAKKNKPKLIIAGASAYS----QYIDFERFYHIAKNINSYFMVDMAHYAGLIAAGEYPNP 216
L K PK + S S + +A + +VD A AG + P
Sbjct: 155 LEKLITPKTKLVALSHVSNVTGTVNPVKEIAELAHEHGALVLVDAAQAAGHL-----PID 209
Query: 217 VP--FADFITSTTHKSLRGPRG-GFILMKK 243
V DF+ + HK L GP G G + ++K
Sbjct: 210 VQELGCDFLAFSGHKWLLGPTGIGVLYVRK 239
>gnl|CDD|223234 COG0156, BioF, 7-keto-8-aminopelargonate synthetase and related
enzymes [Coenzyme metabolism].
Length = 388
Score = 42.2 bits (100), Expect = 0.001
Identities = 63/311 (20%), Positives = 107/311 (34%), Gaps = 66/311 (21%)
Query: 81 RLKKIFNAEAANVQPHSGSQANQAVFFSVLNPGDTIMG-----MSLQEGGHLTHGMMLNM 135
L AEAA + SG AN + ++L GD I S+ +G L
Sbjct: 92 ELADFLGAEAALLFS-SGFVANLGLLSALLKKGDLIFSDELNHASIIDGIRL-------- 142
Query: 136 SGKWFNSICYGLNKKEKIDYKKVEYLAKKN----KPKLIIAGASAYSQY---IDFERFYH 188
S + N D +E L ++ + +I +S
Sbjct: 143 SRAEV--RRFKHN-----DLDHLEALLEEARENGARRKLIVTEGVFSMDGDIAPLPELVE 195
Query: 189 IAKNINSYFMVDMAHYAGLI---------AAGEYPNPVPFADFITSTTHKSLRGPRGGFI 239
+A+ + VD AH G++ G P V D I T K+L G GG+I
Sbjct: 196 LAEKYGALLYVDEAHAVGVLGPNGRGLAEHFGLEPEEV---DIIVGTLGKAL-GSSGGYI 251
Query: 240 LMKKKYK-KIINSAVFPGIQGGPLMHVI------AAKAVAFKEVLK--PDFKIYQKQVVK 290
+ N A I A A A L+ + ++++ +
Sbjct: 252 AGSAALIDYLRNRA----------RPFIFSTALPPAVAAAALAALRILEEGPERRERLQE 301
Query: 291 NAKILSKILDQRGIRIVSGGTKSHIILVDLRNKKITGKIAESILESANIICNKNSIPNDP 350
A +L G+ + ++S II V L +++ + + + L I ++I P
Sbjct: 302 LAAFFRSLLKALGLVL--LPSESPIIPVILGDEERALEASRA-LLEEGIYV--SAI-RPP 355
Query: 351 EKPYFTSGIRL 361
P T+ +R+
Sbjct: 356 TVPKGTARLRI 366
>gnl|CDD|214640 smart00382, AAA, ATPases associated with a variety of cellular
activities. AAA - ATPases associated with a variety of
cellular activities. This profile/alignment only detects
a fraction of this vast family. The poorly conserved
N-terminal helix is missing from the alignment.
Length = 148
Score = 40.0 bits (93), Expect = 0.002
Identities = 32/149 (21%), Positives = 50/149 (33%), Gaps = 27/149 (18%)
Query: 413 HHAYLFTGTRGVGKTTISRILAKCLN-----CIGIDGNGGITSQPCGKCSVCVKIDNGCF 467
L G G GKTT++R LA+ L I IDG + +
Sbjct: 2 GEVILIVGPPGSGKTTLARALARELGPPGGGVIYIDGEDILEEV-----------LDQLL 50
Query: 468 MDYIEMDAASTRGINEMAQLLEQTIYAPINARYKIYVIDEVHMLTHHAFNAMLKTLEEPP 527
+ + AS G + L + + ++DE+ L A+L LEE
Sbjct: 51 LIIVGGKKASGSGELRLRLALALARK----LKPDVLILDEITSLLDAEQEALLLLLEELR 106
Query: 528 KYIKF-------ILATTEPQKIPITVLSR 549
+ ++ TT +K L R
Sbjct: 107 LLLLLKSEKNLTVILTTNDEKDLGPALLR 135
>gnl|CDD|225164 COG2255, RuvB, Holliday junction resolvasome, helicase subunit [DNA
replication, recombination, and repair].
Length = 332
Score = 40.6 bits (96), Expect = 0.004
Identities = 29/76 (38%), Positives = 36/76 (47%), Gaps = 13/76 (17%)
Query: 383 RKYRPSNFNTLIGQNHISKSL---INALDKKR---LHHAYLFTGTRGVGKTTISRILAKC 436
R RP + IGQ + + L I A KKR L H L G G+GKTT++ I+A
Sbjct: 18 RSLRPKTLDEFIGQEKVKEQLQIFIKA-AKKRGEALDHV-LLFGPPGLGKTTLAHIIANE 75
Query: 437 LNCIGIDGNGGITSQP 452
L N ITS P
Sbjct: 76 LG-----VNLKITSGP 86
>gnl|CDD|147949 pfam06068, TIP49, TIP49 C-terminus. This family consists of the
C-terminal region of several eukaryotic and archaeal
RuvB-like 1 (Pontin or TIP49a) and RuvB-like 2 (Reptin
or TIP49b) proteins. The N-terminal domain contains the
pfam00004 domain. In zebrafish, the liebeskummer (lik)
mutation, causes development of hyperplastic embryonic
hearts. lik encodes Reptin, a component of a
DNA-stimulated ATPase complex. Beta-catenin and Pontin,
a DNA-stimulated ATPase that is often part of complexes
with Reptin, are in the same genetic pathways. The
Reptin/Pontin ratio serves to regulate heart growth
during development, at least in part via the
beta-catenin pathway. TBP-interacting protein 49 (TIP49)
was originally identified as a TBP-binding protein, and
two related proteins are encoded by individual genes,
tip49a and b. Although the function of this gene family
has not been elucidated, they are supposed to play a
critical role in nuclear events because they interact
with various kinds of nuclear factors and have DNA
helicase activities.TIP49a has been suggested to act as
an autoantigen in some patients with autoimmune
diseases.
Length = 395
Score = 40.8 bits (96), Expect = 0.004
Identities = 32/109 (29%), Positives = 48/109 (44%), Gaps = 14/109 (12%)
Query: 505 IDEVHMLTHHAFNAMLKTLEEPPKYIKFILAT------------TEPQKIPITVLSRCIQ 552
IDEVHML F+ + + LE I ILAT P IP+ +L R +
Sbjct: 281 IDEVHMLDIECFSFLNRALESELAPI-VILATNRGICTIRGTDIISPHGIPLDLLDRLLI 339
Query: 553 FNLKKMLHHDIVNNLCYILNKENIKFETSALNLIAT-GAQGSMRDALSL 600
+ +I L +E ++ AL+L+A G + S+R A+ L
Sbjct: 340 ITTEPYTREEIKQILEIRAQEEGVEISEEALDLLAKIGEETSLRYAIQL 388
>gnl|CDD|148445 pfam06838, Alum_res, Aluminium resistance protein. This family
represents the aluminium resistance protein, which
confers resistance to aluminium in bacteria. Structural
characterisation has shown proteins in this family bind
a pyridoxal-5'-phosphate cofactor, and that they belongs
to the PLP dependent aminotransferase superfamily.
Crystal packing analysis suggests that in solution, a
tetramer may be the stable oligomeric form. This is in
contrast to most other aminotransferases which form
dimers (information from TOPSAN).
Length = 405
Score = 40.8 bits (96), Expect = 0.005
Identities = 16/35 (45%), Positives = 21/35 (60%), Gaps = 2/35 (5%)
Query: 85 IFNAEAANVQPH--SGSQANQAVFFSVLNPGDTIM 117
+F AEAA V+P SG+ A F VL PGD ++
Sbjct: 67 VFGAEAALVRPQFVSGTHAIATALFGVLRPGDELL 101
>gnl|CDD|233587 TIGR01821, 5aminolev_synth, 5-aminolevulinic acid synthase. This
model represents 5-aminolevulinic acid synthase, an
enzyme for one of two routes to the heme precursor
5-aminolevulinate. The protein is a pyridoxal
phosphate-dependent enzyme related to
2-amino-3-ketobutyrate CoA tranferase and
8-amino-7-oxononanoate synthase. This enzyme appears
restricted to the alpha Proteobacteria and mitochondrial
derivatives [Biosynthesis of cofactors, prosthetic
groups, and carriers, Heme, porphyrin, and cobalamin].
Length = 402
Score = 40.1 bits (94), Expect = 0.007
Identities = 53/189 (28%), Positives = 76/189 (40%), Gaps = 19/189 (10%)
Query: 162 AKKNKPKLIIAGASAYSQYIDF---ERFYHIAKNINSYFMVDMAHYAGLIAA-----GEY 213
N+PK IIA S YS D E +A + +D H GL E
Sbjct: 173 VDPNRPK-IIAFESVYSMDGDIAPIEEICDLADKYGALTYLDEVHAVGLYGPRGGGIAER 231
Query: 214 PNPVPFADFITSTTHKSLRGPRGGFILMKKKYKKIINSAVFPG-IQGGPLMHVIAAKAVA 272
+ D I T K+ G GG+I +K I S PG I L IAA A A
Sbjct: 232 DGLMHRIDIIEGTLAKAF-GVVGGYIAASRKLIDAIRSYA-PGFIFTTSLPPAIAAGATA 289
Query: 273 FKEVLK--PDFKIYQKQVVKNAKILSKILDQRGIRIVSGGTKSHIILVDLRNKKITGKIA 330
LK D + + +N K L +L+ GI ++ SHI+ V + + + K++
Sbjct: 290 SIRHLKESQDLRRAHQ---ENVKRLKNLLEALGIPVIP--NPSHIVPVIIGDAALCKKVS 344
Query: 331 ESILESANI 339
+ +L I
Sbjct: 345 DLLLNKHGI 353
>gnl|CDD|131032 TIGR01977, am_tr_V_EF2568, cysteine desulfurase family protein.
This model describes a subfamily of probable pyridoxal
phosphate-dependent enzymes in the aminotransferase
class V family. Related families contain members active
as cysteine desulfurases, selenocysteine lyases, or
both. The members of this family form a distinct clade
and all are shorter at the N-terminus. The function of
this subfamily is unknown [Unknown function, Enzymes of
unknown specificity].
Length = 376
Score = 39.7 bits (93), Expect = 0.008
Identities = 24/93 (25%), Positives = 41/93 (44%), Gaps = 10/93 (10%)
Query: 152 KIDYKKVEYLAKKNKPKLIIAGASAYSQYI-DFERFYHIAKNINSYFMVDMAHYAGL--I 208
I ++++ K N ++++ AS + I E +A+ +F++D A AG+ I
Sbjct: 124 LISPERIKRAIKTNTKLIVVSHASNVTGTILPIEEIGELAQENGIFFILDAAQTAGVIPI 183
Query: 209 AAGEYPNPVPFADFITSTTHKSLRGPRG--GFI 239
E D + T HK L GP+G G
Sbjct: 184 DMTELA-----IDMLAFTGHKGLLGPQGTGGLY 211
>gnl|CDD|234619 PRK00080, ruvB, Holliday junction DNA helicase RuvB; Reviewed.
Length = 328
Score = 39.3 bits (93), Expect = 0.012
Identities = 22/59 (37%), Positives = 32/59 (54%), Gaps = 8/59 (13%)
Query: 386 RPSNFNTLIGQNHISKSL---INALDKKR---LHHAYLFTGTRGVGKTTISRILAKCLN 438
RP + + IGQ + ++L I A KKR L H L G G+GKTT++ I+A +
Sbjct: 20 RPKSLDEFIGQEKVKENLKIFIEA-AKKRGEALDHV-LLYGPPGLGKTTLANIIANEMG 76
>gnl|CDD|224145 COG1224, TIP49, DNA helicase TIP49, TBP-interacting protein
[Transcription].
Length = 450
Score = 39.3 bits (92), Expect = 0.012
Identities = 35/153 (22%), Positives = 65/153 (42%), Gaps = 19/153 (12%)
Query: 505 IDEVHMLTHHAFNAMLKTLEEPPKYIKFILAT---------TE---PQKIPITVLSRCIQ 552
IDEVHML F+ + + LE I ILAT T+ P IP+ +L R +
Sbjct: 297 IDEVHMLDIECFSFLNRALESELAPI-IILATNRGMTKIRGTDIESPHGIPLDLLDRLLI 355
Query: 553 FNLKKMLHHDIVNNLCYILNKENIKFETSALNLIAT-GAQGSMRDALSLTDQ----AINY 607
+ + +I + +E+I+ AL + G + S+R A+ L A
Sbjct: 356 ISTRPYSREEIREIIRIRAKEEDIELSDDALEYLTDIGEETSLRYAVQLLTPASIIAKRR 415
Query: 608 SSEKITLNSMQEMLSI-IDQKYLIQILDALAEQ 639
S+++ + ++ + +D K ++ ++
Sbjct: 416 GSKRVEVEDVERAKELFLDVKRSVEYVEKYEGL 448
>gnl|CDD|99734 cd00609, AAT_like, Aspartate aminotransferase family. This family
belongs to pyridoxal phosphate (PLP)-dependent aspartate
aminotransferase superfamily (fold I). Pyridoxal
phosphate combines with an alpha-amino acid to form a
compound called a Schiff base or aldimine intermediate,
which depending on the reaction, is the substrate in
four kinds of reactions (1) transamination (movement of
amino groups), (2) racemization (redistribution of
enantiomers), (3) decarboxylation (removing COOH
groups), and (4) various side-chain reactions depending
on the enzyme involved. Pyridoxal phosphate (PLP)
dependent enzymes were previously classified into alpha,
beta and gamma classes, based on the chemical
characteristics (carbon atom involved) of the reaction
they catalyzed. The availability of several structures
allowed a comprehensive analysis of the evolutionary
classification of PLP dependent enzymes, and it was
found that the functional classification did not always
agree with the evolutionary history of these enzymes.
The major groups in this CD corresponds to Aspartate
aminotransferase a, b and c, Tyrosine, Alanine,
Aromatic-amino-acid, Glutamine phenylpyruvate,
1-Aminocyclopropane-1-carboxylate synthase,
Histidinol-phosphate, gene products of malY and cobC,
Valine-pyruvate aminotransferase and Rhizopine
catabolism regulatory protein.
Length = 350
Score = 38.9 bits (91), Expect = 0.015
Identities = 54/319 (16%), Positives = 115/319 (36%), Gaps = 45/319 (14%)
Query: 63 RYYGGCKFIDLIEKIAINRLKKIFN--AEAANVQPHSGS-QANQAVFFSVLNPGDTIMGM 119
YY +L E IA L + + +G+ +A + ++LNPGD ++
Sbjct: 31 GYYPDPGLPELREAIA-EWLGRRGGVDVPPEEIVVTNGAQEALSLLLRALLNPGDEVL-- 87
Query: 120 SLQEGGHLTHGMMLNMSGKWFNSICYGLNKKEKIDY-KKVEYLAKKNKPKLII------- 171
+ + + + ++G + L+++ ++ AK K KL+
Sbjct: 88 -VPDPTYPGYEAAARLAG--AEVVPVPLDEEGGFLLDLELLEAAKTPKTKLLYLNNPNNP 144
Query: 172 AGASAYSQYIDFERFYHIAKNINSYFMVDMAHYAGLIAAGEYPNPVPFAD-----FITST 226
GA + + E +AK + D A YA L+ GE P + D + +
Sbjct: 145 TGAVLSEE--ELEELAELAKKHGILIISDEA-YAELVYDGEPPPALALLDAYERVIVLRS 201
Query: 227 THKSLRGP--RGGFIL-----MKKKYKKIINSAVFPGIQGGPLMHVIAAKAVAFKEVLKP 279
K+ P R G+++ + ++ KK++ ++ A A L
Sbjct: 202 FSKTFGLPGLRIGYLIAPPEELLERLKKLLPYTTSG-------PSTLSQAAAA--AALDD 252
Query: 280 DFKIYQKQV---VKNAKILSKILDQRGIRIVSGGTKSHIILVDLRNKKITGKIAESILES 336
+ ++ + L + L + G +V + + +DL + + E +L
Sbjct: 253 GEEHLEELRERYRRRRDALLEALKELGPLVVVKPSGGFFLWLDLP-EGDDEEFLERLLLE 311
Query: 337 ANIICNKNSIPNDPEKPYF 355
A ++ S + + +
Sbjct: 312 AGVVVRPGSAFGEGGEGFV 330
>gnl|CDD|226585 COG4100, COG4100, Cystathionine beta-lyase family protein involved
in aluminum resistance [Inorganic ion transport and
metabolism].
Length = 416
Score = 38.9 bits (91), Expect = 0.016
Identities = 15/35 (42%), Positives = 21/35 (60%), Gaps = 2/35 (5%)
Query: 85 IFNAEAANVQPH--SGSQANQAVFFSVLNPGDTIM 117
+F AEAA V+P SG+ A F +L PGD ++
Sbjct: 77 VFGAEAALVRPQIISGTHAIACALFGILRPGDELL 111
>gnl|CDD|222104 pfam13401, AAA_22, AAA domain.
Length = 124
Score = 36.5 bits (85), Expect = 0.019
Identities = 27/126 (21%), Positives = 46/126 (36%), Gaps = 19/126 (15%)
Query: 417 LFTGTRGVGKTTISRILAKCLNC---IGIDGNGGITSQPCGKCSVCVKIDNGCFMDYIEM 473
+ TG G GKTT+ R LA+ L + ++ T + + KI
Sbjct: 8 VLTGESGSGKTTLLRRLARQLPNRRVVYVEAPSLGTPK-----DLLRKILRAL------G 56
Query: 474 DAASTRGINEMAQLLEQTIYAPINARYKIYVIDEVHMLTHHAFNAMLKTLEEPPKY-IKF 532
S E+ + + + + +IDE L+ A L+ L + + I+
Sbjct: 57 LPLSGGTTAELLEAILDAL---KRRGRPLLIIDEAQHLSLEALE-ELRDLYDLSEKGIQV 112
Query: 533 ILATTE 538
IL T
Sbjct: 113 ILVGTP 118
>gnl|CDD|237354 PRK13341, PRK13341, recombination factor protein RarA/unknown
domain fusion protein; Reviewed.
Length = 725
Score = 38.9 bits (91), Expect = 0.019
Identities = 21/57 (36%), Positives = 31/57 (54%), Gaps = 4/57 (7%)
Query: 381 LARKYRPSNFNTLIGQNHI---SKSLINALDKKRLHHAYLFTGTRGVGKTTISRILA 434
LA + RP +GQ+HI + L A+ R+ + G GVGKTT++RI+A
Sbjct: 18 LADRLRPRTLEEFVGQDHILGEGRLLRRAIKADRVGSL-ILYGPPGVGKTTLARIIA 73
>gnl|CDD|99739 cd00615, Orn_deC_like, Ornithine decarboxylase family. This family
belongs to pyridoxal phosphate (PLP)-dependent aspartate
aminotransferase superfamily (fold I). The major groups
in this CD corresponds to ornithine decarboxylase (ODC),
arginine decarboxylase (ADC) and lysine decarboxylase
(LDC). ODC is a dodecamer composed of six homodimers and
catalyzes the decarboxylation of tryptophan. ADC
catalyzes the decarboxylation of arginine and LDC
catalyzes the decarboxylation of lysine. Members of this
family are widely found in all three forms of life.
Length = 294
Score = 38.0 bits (89), Expect = 0.028
Identities = 35/166 (21%), Positives = 61/166 (36%), Gaps = 32/166 (19%)
Query: 99 SQANQAVFFSVLNPGDTIMGMSLQEGGH--LTHGMMLNMSG-----------KWFN---S 142
S +N+AV +V PGD I+ + H + +G++ +SG ++
Sbjct: 85 SSSNKAVILAVCGPGDKIL---IDRNCHKSVINGLV--LSGAVPVYLKPERNPYYGIAGG 139
Query: 143 ICYGLNKKEKIDYKKVEYLAKKNKPKLIIAGASAYSQYIDFERFYHIAKNINSYFMVDMA 202
I KK I++ + +I + Y + + A + +VD A
Sbjct: 140 IPPETFKKALIEHPDAKAA--------VITNPTYYGICYNLRKIVEEAHHRGLPVLVDEA 191
Query: 203 HYAGLIAAGEYPNPVPF--ADFITSTTHKSLRGPR-GGFILMKKKY 245
H A P+ AD + +THK+L G I +K
Sbjct: 192 HGAHFRFHPILPSSAAMAGADIVVQSTHKTLPALTQGSMIHVKGDL 237
>gnl|CDD|203260 pfam05496, RuvB_N, Holliday junction DNA helicase ruvB N-terminus.
The RuvB protein makes up part of the RuvABC revolvasome
which catalyzes the resolution of Holliday junctions
that arise during genetic recombination and DNA repair.
Branch migration is catalyzed by the RuvB protein that
is targeted to the Holliday junction by the structure
specific RuvA protein. This family contains the
N-terminal region of the protein.
Length = 231
Score = 37.4 bits (88), Expect = 0.029
Identities = 27/73 (36%), Positives = 36/73 (49%), Gaps = 13/73 (17%)
Query: 386 RPSNFNTLIGQNHISKSL---INALDKKR---LHHAYLFTGTRGVGKTTISRILAKCLNC 439
RP + IGQ + ++L I A KKR L H L G G+GKTT++ I+A +
Sbjct: 19 RPRRLDEYIGQEKVKENLKIFIEAA-KKRGEALDHV-LLYGPPGLGKTTLANIIANEMG- 75
Query: 440 IGIDGNGGITSQP 452
N ITS P
Sbjct: 76 ----VNIRITSGP 84
>gnl|CDD|224893 COG1982, LdcC, Arginine/lysine/ornithine decarboxylases [Amino acid
transport and metabolism].
Length = 557
Score = 38.1 bits (89), Expect = 0.029
Identities = 38/162 (23%), Positives = 68/162 (41%), Gaps = 22/162 (13%)
Query: 84 KIFNAEAANVQPHSGSQANQAVFFSVLNPGDTIMGMSLQEGGH--LTHGMMLNMSG---- 137
++F A+ + S AN+AV +VL PGD ++ + H + HG++ ++G
Sbjct: 81 RVFGADHTYFVVNGTSTANKAVINAVLTPGDKVL---VDRNCHKSIHHGLI--LAGATPV 135
Query: 138 ---KWFNSICYGLNKKEKIDYKKVEYLAKKNKPKLIIAGASAYSQYI---DFERFYHIAK 191
N + YG+ ++ K LA + KL + Y + + +
Sbjct: 136 YLEPSRNPL-YGIIGGIPLETFKEALLAHPDAEKLAVITNPTY--DGVCYNLRKIVELLH 192
Query: 192 NINSYFMVDMAHYAGLIAAGEYPNPVPF--ADFITSTTHKSL 231
+ ++ + D AH A + P ADF+T +THK L
Sbjct: 193 HYGAWVLYDEAHPAHFDFSPMLPESALNGGADFVTQSTHKLL 234
>gnl|CDD|216360 pfam01202, SKI, Shikimate kinase.
Length = 158
Score = 36.0 bits (84), Expect = 0.040
Identities = 12/22 (54%), Positives = 14/22 (63%)
Query: 422 RGVGKTTISRILAKCLNCIGID 443
G GK+TI R+LAK L ID
Sbjct: 1 MGAGKSTIGRLLAKALGLPFID 22
>gnl|CDD|238979 cd02021, GntK, Gluconate kinase (GntK) catalyzes the phosphoryl
transfer from ATP to gluconate. The resulting product
gluconate-6-phoshate is an important precursor of
gluconate metabolism. GntK acts as a dimmer composed of
two identical subunits.
Length = 150
Score = 35.3 bits (82), Expect = 0.072
Identities = 11/29 (37%), Positives = 16/29 (55%)
Query: 416 YLFTGTRGVGKTTISRILAKCLNCIGIDG 444
+ G G GK+T+ + LA+ L IDG
Sbjct: 2 IVVMGVSGSGKSTVGKALAERLGAPFIDG 30
>gnl|CDD|221983 pfam13207, AAA_17, AAA domain.
Length = 114
Score = 34.6 bits (79), Expect = 0.078
Identities = 10/24 (41%), Positives = 15/24 (62%)
Query: 416 YLFTGTRGVGKTTISRILAKCLNC 439
L TG G GK+T+++ LA+ L
Sbjct: 2 ILITGPPGSGKSTLAKKLAEKLGI 25
>gnl|CDD|179660 PRK03839, PRK03839, putative kinase; Provisional.
Length = 180
Score = 35.5 bits (82), Expect = 0.087
Identities = 14/25 (56%), Positives = 19/25 (76%)
Query: 419 TGTRGVGKTTISRILAKCLNCIGID 443
TGT GVGKTT+S++LA+ L +D
Sbjct: 6 TGTPGVGKTTVSKLLAEKLGYEYVD 30
>gnl|CDD|234053 TIGR02903, spore_lon_C, ATP-dependent protease, Lon family.
Members of this protein family resemble the widely
distributed ATP-dependent protease La, also called Lon
and LonA. It resembles even more closely LonB, which is
a LonA paralog found in genomes if and only if the
species is capable of endospore formation (as in
Bacillus subtilis, Clostridium tetani, and select other
members of the Firmicutes) and expressed specifically in
the forespore compartment. Members of this family are
restricted to a subset of spore-forming species, and are
very likely to participate in the program of endospore
formation. We propose the designation LonC [Protein
fate, Degradation of proteins, peptides, and
glycopeptides, Cellular processes, Sporulation and
germination].
Length = 615
Score = 36.7 bits (85), Expect = 0.089
Identities = 63/249 (25%), Positives = 93/249 (37%), Gaps = 62/249 (24%)
Query: 386 RPSNFNTLIGQNHISKSLINALDKKRLHHAYLFTGTRGVGKTTISRI------------L 433
RP F+ ++GQ K+L+ + H L+ G GVGKTT +R+
Sbjct: 149 RPRAFSEIVGQERAIKALLAKVASPFPQHIILY-GPPGVGKTTAARLALEEAKKLKHTPF 207
Query: 434 AKCLNCIGIDGNG------GITSQPCGKCSVCVKIDNGCFMDYIEMDAASTRGINEMAQL 487
A+ + +DG +T+ G SV I G D E G+ E
Sbjct: 208 AEDAPFVEVDGTTLRWDPREVTNPLLG--SVHDPIYQGARRDLAET------GVPEPKTG 259
Query: 488 LEQTIYAPINARYKIYVIDEVHMLTHHAFNAMLKTLEEP----------------PKYIK 531
L +A + IDE+ L N +LK LE+ PKYIK
Sbjct: 260 L------VTDAHGGVLFIDEIGELDPLLQNKLLKVLEDKRVEFSSSYYDPDDPNVPKYIK 313
Query: 532 ----------FIL--ATT-EPQKIPITVLSRCIQFNLKKMLHHDIVNNLCYILNKENIKF 578
F+L ATT +P++I + SRC + + + DI + K N+
Sbjct: 314 KLFEEGAPADFVLIGATTRDPEEINPALRSRCAEVFFEPLTPEDIALIVLNAAEKINVHL 373
Query: 579 ETSALNLIA 587
LIA
Sbjct: 374 AAGVEELIA 382
>gnl|CDD|233915 TIGR02539, SepCysS, O-phospho-L-seryl-tRNA:Cys-tRNA synthase.
Aminoacylation of tRNA(Cys) with Cys, and cysteine
biosynthesis in the process, happens in
Methanocaldococcus jannaschii and several other archaea
by misacylation of tRNA(Cys) with O-phosphoserine (Sep),
followed by modification of the phosphoserine to
cysteine. In some species, direct tRNA-cys
aminoacylation also occurs but this pathway is required
for Cys biosynthesis. Members of this protein catalyze
the second step in this two step pathway, using
pyridoxal phosphate and a sulfur donor to synthesize Cys
from Sep while attached to the tRNA.
Length = 370
Score = 36.0 bits (83), Expect = 0.13
Identities = 59/295 (20%), Positives = 112/295 (37%), Gaps = 43/295 (14%)
Query: 45 EAQGTLLTNKYAEGYPGKRYYGGCKFIDLIEKIAIN----RLKKIFNAEAANVQPHSGSQ 100
A+ L+ ++ +GY + GG +D I K I+ L + + A V H +
Sbjct: 23 AARKALV--EFGDGYSVCDFCGG--RLDQITKPPIHDFLEDLAEFLGMDEARVT-HGARE 77
Query: 101 ANQAVFFSVLNPGDTIMGMSLQEGGHLTHGMMLNMSGKWFNSICYGLNKKEKID---YKK 157
AV ++ GD ++ L H T + +G + + + + K+D Y +
Sbjct: 78 GKFAVMHALCKEGDWVV---LDGLAHYTSYVAAERAGLNVKEVPHTGHPEYKVDPEGYGE 134
Query: 158 V--EYLAKKNKP---KLIIAGASAYSQYIDFERFYHIAKNINSYFMVDMAHYAGLIAAGE 212
V E + KP L+ Y D + + + +++ A+ G +
Sbjct: 135 VIEEVEDESGKPPVLALLTHVDGEYGNLPDAGKVAKVCREKGVPLLLNCAYTVGRMPVS- 193
Query: 213 YPNPVPFADFITSTTHKSL--RGPRGGFILMKKKYKKII--NSAVFP---------GIQG 259
ADFI + HKS+ GP G + M ++++ I+ S P +G
Sbjct: 194 --AKEIGADFIVGSGHKSMAASGP-CGVLGMSEEWEDIVLRKSRYSPVKEVELLGCTSRG 250
Query: 260 GPLMHVIAAKAVAFKEVLKPDFKIYQKQVVKNAKILSKILDQRGIRIVSGGTKSH 314
P++ ++A+ + V + D + VK + L+ G + K H
Sbjct: 251 APIVTMMASFPHVVERVKRWD------EEVKKTRWFVAELEDIGFIQLGQKPKEH 299
>gnl|CDD|238260 cd00464, SK, Shikimate kinase (SK) is the fifth enzyme in the
shikimate pathway, a seven-step biosynthetic pathway
which converts erythrose-4-phosphate to chorismic acid,
found in bacteria, fungi and plants. Chorismic acid is a
important intermediate in the synthesis of aromatic
compounds, such as aromatic amino acids, p-aminobenzoic
acid, folate and ubiquinone. Shikimate kinase catalyses
the phosphorylation of the 3-hydroxyl group of shikimic
acid using ATP.
Length = 154
Score = 34.5 bits (80), Expect = 0.14
Identities = 12/24 (50%), Positives = 15/24 (62%)
Query: 420 GTRGVGKTTISRILAKCLNCIGID 443
G G GKTT+ R+LAK L +D
Sbjct: 6 GMMGAGKTTVGRLLAKALGLPFVD 29
>gnl|CDD|223616 COG0542, clpA, ATP-binding subunits of Clp protease and DnaK/DnaJ
chaperones [Posttranslational modification, protein
turnover, chaperones].
Length = 786
Score = 36.1 bits (84), Expect = 0.17
Identities = 17/55 (30%), Positives = 30/55 (54%), Gaps = 8/55 (14%)
Query: 392 TLIGQNHISKSLINAL--------DKKRLHHAYLFTGTRGVGKTTISRILAKCLN 438
+IGQ+ +++ +A+ D R ++LF G GVGKT +++ LA+ L
Sbjct: 492 RVIGQDEAVEAVSDAIRRARAGLGDPNRPIGSFLFLGPTGVGKTELAKALAEALF 546
>gnl|CDD|223040 PHA03311, PHA03311, helicase-primase subunit BBLF4; Provisional.
Length = 782
Score = 35.7 bits (83), Expect = 0.20
Identities = 15/37 (40%), Positives = 22/37 (59%), Gaps = 1/37 (2%)
Query: 415 AYLFTGTRGVGKTTISRILAKCLNCIGIDGNGGITSQ 451
YL TGT G GK+T + L + L+C+ I G + +Q
Sbjct: 73 VYLITGTAGAGKSTSIQTLNENLDCV-ITGATRVAAQ 108
>gnl|CDD|222000 pfam13238, AAA_18, AAA domain.
Length = 128
Score = 32.8 bits (75), Expect = 0.35
Identities = 11/19 (57%), Positives = 15/19 (78%)
Query: 417 LFTGTRGVGKTTISRILAK 435
L TGT G GKTT+++ LA+
Sbjct: 2 LITGTPGSGKTTLAKELAE 20
>gnl|CDD|223775 COG0703, AroK, Shikimate kinase [Amino acid transport and
metabolism].
Length = 172
Score = 33.3 bits (77), Expect = 0.37
Identities = 12/19 (63%), Positives = 13/19 (68%)
Query: 420 GTRGVGKTTISRILAKCLN 438
G G GK+TI R LAK LN
Sbjct: 9 GFMGAGKSTIGRALAKALN 27
>gnl|CDD|163057 TIGR02881, spore_V_K, stage V sporulation protein K. Members of
this protein family are the stage V sporulation protein
K (SpoVK), a close homolog of the Rubisco expression
protein CbbX (TIGR02880) and a members of the ATPase
family associated with various cellular activities
(pfam00004). Members are strictly limited to bacterial
endospore-forming species, but are not universal in this
group and are missing from the Clostridium group
[Cellular processes, Sporulation and germination].
Length = 261
Score = 33.9 bits (78), Expect = 0.40
Identities = 14/37 (37%), Positives = 20/37 (54%), Gaps = 2/37 (5%)
Query: 406 ALDKKRLHHAYLFTGTRGVGKTTISRILAKCLNCIGI 442
K+ LH +F G G GKTT++RIL K + +
Sbjct: 37 KTSKQVLH--MIFKGNPGTGKTTVARILGKLFKEMNV 71
>gnl|CDD|238985 cd02027, APSK, Adenosine 5'-phosphosulfate kinase (APSK) catalyzes
the phosphorylation of adenosine 5'-phosphosulfate to
form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The
end-product PAPS is a biologically "activated" sulfate
form important for the assimilation of inorganic
sulfate.
Length = 149
Score = 32.8 bits (76), Expect = 0.51
Identities = 11/26 (42%), Positives = 14/26 (53%)
Query: 417 LFTGTRGVGKTTISRILAKCLNCIGI 442
TG G GK+TI+R L + L G
Sbjct: 3 WLTGLSGSGKSTIARALEEKLFQRGR 28
>gnl|CDD|179157 PRK00889, PRK00889, adenylylsulfate kinase; Provisional.
Length = 175
Score = 33.1 bits (76), Expect = 0.55
Identities = 14/24 (58%), Positives = 16/24 (66%)
Query: 418 FTGTRGVGKTTISRILAKCLNCIG 441
FTG G GKTTI+R LA+ L G
Sbjct: 9 FTGLSGAGKTTIARALAEKLREAG 32
>gnl|CDD|216586 pfam01583, APS_kinase, Adenylylsulphate kinase. Enzyme that
catalyzes the phosphorylation of adenylylsulphate to
3'-phosphoadenylylsulfate. This domain contains an ATP
binding P-loop motif.
Length = 157
Score = 32.6 bits (75), Expect = 0.58
Identities = 12/26 (46%), Positives = 15/26 (57%)
Query: 417 LFTGTRGVGKTTISRILAKCLNCIGI 442
FTG G GK+TI+ L + L GI
Sbjct: 6 WFTGLSGSGKSTIANALERKLFAQGI 31
>gnl|CDD|225307 COG2509, COG2509, Uncharacterized FAD-dependent dehydrogenases
[General function prediction only].
Length = 486
Score = 33.8 bits (78), Expect = 0.64
Identities = 18/51 (35%), Positives = 28/51 (54%)
Query: 811 QAIRFYLENQLNLYLFQEEVDDLIIKTNKILGVVTKIGIKFFSKTVILTTG 861
+ IR YLE+ F EV+D+ I+ N++LGV G + + V+L G
Sbjct: 177 KNIREYLESLGGEIRFNTEVEDIEIEDNEVLGVKLTKGEEIEADYVVLAPG 227
>gnl|CDD|218866 pfam06039, Mqo, Malate:quinone oxidoreductase (Mqo). This family
consists of several bacterial Malate:quinone
oxidoreductase (Mqo) proteins (EC:1.1.99.16). Mqo takes
part in the citric acid cycle. It oxidises L-malate to
oxaloacetate and donates electrons to ubiquinone-1 and
other artificial acceptors or, via the electron transfer
chain, to oxygen. NAD is not an acceptor and the natural
direct acceptor for the enzyme is most likely a quinone.
The enzyme is therefore called malate:quinone
oxidoreductase, abbreviated to Mqo. Mqo is a peripheral
membrane protein and can be released from the membrane
by addition of chelators.
Length = 489
Score = 33.8 bits (78), Expect = 0.68
Identities = 22/79 (27%), Positives = 33/79 (41%), Gaps = 9/79 (11%)
Query: 181 IDFERFYHIAKNINSYFMVDMAHYAGLIAAGEYPNPVPFADFITSTTHKSL-RGPRGGFI 239
ID + A IN F + +A L+ G NP FI H S G
Sbjct: 73 IDISK----AVKINEQFQISRQFWAYLVKEGVLSNP---KSFINPVPHMSFVWGEDNVAF 125
Query: 240 LMKKKYKKIINSAVFPGIQ 258
L KK+Y+ + + +F G++
Sbjct: 126 L-KKRYEALKQNPLFEGME 143
>gnl|CDD|217188 pfam02689, Herpes_Helicase, Helicase. This family consists of
Helicases from the Herpes viruses. Helicases are
responsible for the unwinding of DNA and are essential
for replication and completion of the viral life cycle.
Length = 801
Score = 33.8 bits (78), Expect = 0.70
Identities = 16/37 (43%), Positives = 23/37 (62%), Gaps = 1/37 (2%)
Query: 415 AYLFTGTRGVGKTTISRILAKCLNCIGIDGNGGITSQ 451
AYL TGT G GK+T + L + L+C+ I G + +Q
Sbjct: 61 AYLITGTAGAGKSTSIQTLNENLDCL-ITGATRVAAQ 96
>gnl|CDD|224847 COG1936, COG1936, Predicted nucleotide kinase (related to CMP and
AMP kinases) [Nucleotide transport and metabolism].
Length = 180
Score = 32.7 bits (75), Expect = 0.70
Identities = 11/23 (47%), Positives = 15/23 (65%), Gaps = 1/23 (4%)
Query: 419 TGTRGVGKTTISRILAKC-LNCI 440
TGT GVGKTT+ ++L + I
Sbjct: 6 TGTPGVGKTTVCKLLRELGYKVI 28
>gnl|CDD|224292 COG1373, COG1373, Predicted ATPase (AAA+ superfamily) [General
function prediction only].
Length = 398
Score = 33.5 bits (77), Expect = 0.72
Identities = 16/45 (35%), Positives = 22/45 (48%), Gaps = 2/45 (4%)
Query: 393 LIGQNHISKSLINALDKKRLHHAYLFTGTRGVGKTTISRILAKCL 437
I + + LI LD + L G R VGKTT+ ++L K L
Sbjct: 19 EIERRKLLPRLIKKLDLRP--FIILILGPRQVGKTTLLKLLIKGL 61
>gnl|CDD|238978 cd02020, CMPK, Cytidine monophosphate kinase (CMPK) catalyzes the
reversible phosphorylation of cytidine monophosphate
(CMP) to produce cytidine diphosphate (CDP), using ATP
as the preferred phosphoryl donor.
Length = 147
Score = 32.1 bits (74), Expect = 0.74
Identities = 15/36 (41%), Positives = 23/36 (63%), Gaps = 1/36 (2%)
Query: 420 GTRGVGKTTISRILAKCLNCIGIDGNGGITSQPCGK 455
G G GK+T++++LAK L +D GGI ++ GK
Sbjct: 6 GPAGSGKSTVAKLLAKKLGLPYLDT-GGIRTEEVGK 40
>gnl|CDD|233959 TIGR02639, ClpA, ATP-dependent Clp protease ATP-binding subunit
clpA. [Protein fate, Degradation of proteins, peptides,
and glycopeptides].
Length = 730
Score = 33.5 bits (77), Expect = 0.83
Identities = 11/23 (47%), Positives = 16/23 (69%)
Query: 416 YLFTGTRGVGKTTISRILAKCLN 438
+LF G GVGKT +++ LA+ L
Sbjct: 486 FLFVGPTGVGKTELAKQLAEELG 508
>gnl|CDD|234654 PRK00131, aroK, shikimate kinase; Reviewed.
Length = 175
Score = 32.5 bits (75), Expect = 0.89
Identities = 12/21 (57%), Positives = 14/21 (66%)
Query: 423 GVGKTTISRILAKCLNCIGID 443
G GK+TI R+LAK L ID
Sbjct: 14 GAGKSTIGRLLAKRLGYDFID 34
>gnl|CDD|214934 smart00954, RelA_SpoT, Region found in RelA / SpoT proteins. The
functions of Escherichia coli RelA and SpoT differ
somewhat. RelA produces pppGpp (or ppGpp) from ATP and
GTP (or GDP). SpoT degrades ppGpp, but may also act as a
secondary ppGpp synthetase. The two proteins are
strongly similar. In many species, a single homolog to
SpoT and RelA appears reponsible for both ppGpp
synthesis and ppGpp degradation. (p)ppGpp is a
regulatory metabolite of the stringent response, but
appears also to be involved in antibiotic biosynthesis
in some species.
Length = 111
Score = 31.4 bits (72), Expect = 0.90
Identities = 10/31 (32%), Positives = 16/31 (51%)
Query: 277 LKPDFKIYQKQVVKNAKILSKILDQRGIRIV 307
+K + IY+K K +I D G+RI+
Sbjct: 3 VKHLYSIYKKMRRKGEISFDEITDLAGVRII 33
>gnl|CDD|235153 PRK03731, aroL, shikimate kinase II; Reviewed.
Length = 171
Score = 32.2 bits (74), Expect = 0.92
Identities = 11/24 (45%), Positives = 14/24 (58%)
Query: 420 GTRGVGKTTISRILAKCLNCIGID 443
G RG GKTT+ LA+ L +D
Sbjct: 9 GARGCGKTTVGMALAQALGYRFVD 32
>gnl|CDD|216631 pfam01656, CbiA, CobQ/CobB/MinD/ParA nucleotide binding domain.
This family consists of various cobyrinic acid
a,c-diamide synthases. These include CbiA and CbiP from
S.typhimurium, and CobQ from R. capsulatus. These
amidases catalyze amidations to various side chains of
hydrogenobyrinic acid or cobyrinic acid a,c-diamide in
the biosynthesis of cobalamin (vitamin B12) from
uroporphyrinogen III. Vitamin B12 is an important
cofactor and an essential nutrient for many plants and
animals and is primarily produced by bacteria. The
family also contains dethiobiotin synthetases as well as
the plasmid partitioning proteins of the MinD/ParA
family.
Length = 217
Score = 32.4 bits (74), Expect = 1.0
Identities = 38/214 (17%), Positives = 67/214 (31%), Gaps = 52/214 (24%)
Query: 423 GVGKTTISRILAKCLNCIG-----ID-GNGGITSQPCGK--------------------- 455
GVGKTT++ LA+ L G ID S GK
Sbjct: 9 GVGKTTLAANLARALAKRGYRVLLIDLDPQANNSSYLGKVEEVLPEGLEIVDAQALQAIA 68
Query: 456 -CSVCVKIDNGCFMDYIEMDAASTRGINEMA----QLLEQTIYAPINARYKIYVID---E 507
V + + + + + + L + + I Y +ID
Sbjct: 69 AAIVPSRNLDPLLLIPSNLSLENFESELIVEGKRESRLRAALESLIKLAYDYVIIDGPPG 128
Query: 508 VHMLTHHAFNAMLKTLEEPPKYIKFILATTEPQKIPITVLSRCIQFNLKKML-HHDIVNN 566
+ LT +A A ++ EP+ + + R L +++ +++
Sbjct: 129 LGELTANALVA--------ADI---LVVPIEPEGVAVEGAQR-----LLELIEDLGVLDI 172
Query: 567 LCYILNKENIKFETSALNLIATGAQGSMRDALSL 600
L +LNK + E N I + + L L
Sbjct: 173 LGVVLNKVDRGDERHLKNEIEALERKTGIPVLVL 206
>gnl|CDD|180743 PRK06912, acoL, dihydrolipoamide dehydrogenase; Validated.
Length = 458
Score = 32.8 bits (75), Expect = 1.3
Identities = 23/66 (34%), Positives = 34/66 (51%), Gaps = 10/66 (15%)
Query: 158 VEYLAKKNKPKLIIAGASAYSQYIDFERFYHIA-KNINSYFMVDMAHYAGLIAAGEYPNP 216
++YL KKNK K+I AS FE + + + + +VD + +IAAG P
Sbjct: 96 IQYLMKKNKIKVIQGKAS-------FETDHRVRVEYGDKEEVVDAEQF--IIAAGSEPTE 146
Query: 217 VPFADF 222
+PFA F
Sbjct: 147 LPFAPF 152
>gnl|CDD|130881 TIGR01822, 2am3keto_CoA, 2-amino-3-ketobutyrate coenzyme A ligase.
This model represents a narrowly defined clade of animal
and bacterial (almost exclusively Proteobacterial)
2-amino-3-ketobutyrate--CoA ligase. This enzyme can act
in threonine catabolism. The closest homolog from
Bacillus subtilis, and sequences like it, may be
functionally equivalent but were not included in the
model because of difficulty in finding reports of
function [Energy metabolism, Amino acids and amines].
Length = 393
Score = 32.9 bits (75), Expect = 1.3
Identities = 32/152 (21%), Positives = 61/152 (40%), Gaps = 8/152 (5%)
Query: 189 IAKNINSYFMVDMAHYAGLIAA-----GEYPNPVPFADFITSTTHKSLRGPRGGFILMKK 243
+A ++ MVD H G + E + D IT T K+L G GGF +K
Sbjct: 195 LADKYDALVMVDECHATGFLGPTGRGSHELCGVMGRVDIITGTLGKALGGASGGFTTARK 254
Query: 244 KYKKIINSAVFPGIQGGPLMHVIAAKAVAFKEVLKPDFKIYQKQVVKNAKILSKILDQRG 303
+ +++ P + L + ++ E+L+ ++ ++ N + + ++ G
Sbjct: 255 EVVELLRQRSRPYLFSNSLPPAVVGASIKVLEMLEASNELRD-RLWANTRYFRERMEAAG 313
Query: 304 IRIVSGGTKSHIILVDLRNKKITGKIAESILE 335
I II V L + + + A +LE
Sbjct: 314 FDI--KPADHPIIPVMLYDAVLAQRFARRLLE 343
>gnl|CDD|221839 pfam12898, Stc1, Stc1 domain. The domain contains 8 conserved
cysteines that may bind to zinc. In S. pombe this
protein acts as a protein linker which links the
chromatin modifying CLRC complex to RNAi by tethering it
to the RITS complex. The region is reported as a LIM
domain here, but has a slightly different arrangement of
its CxxC pairs from the Pfam LIM domain pfam00412, hence
why it is not part of that family. The tandem
zinc-finger structure could mediate protein-protein
interactions.
Length = 84
Score = 30.4 bits (69), Expect = 1.3
Identities = 15/54 (27%), Positives = 21/54 (38%), Gaps = 6/54 (11%)
Query: 404 INALDKKRLHHAYLFTGTRGVGKTTISRILAKCLNCIGIDGNGGITSQPCGKCS 457
+A K++L L RG G + + AKC C G G + C C
Sbjct: 11 RSAFSKRQL--EKLRKALRGNGINALGQSAAKCRECTG----GQVVELECSPCD 58
>gnl|CDD|221955 pfam13173, AAA_14, AAA domain. This family of domains contain a
P-loop motif that is characteristic of the AAA
superfamily.
Length = 127
Score = 31.0 bits (71), Expect = 1.3
Identities = 23/121 (19%), Positives = 37/121 (30%), Gaps = 30/121 (24%)
Query: 415 AYLFTGTRGVGKTTISRILAKCLNCIGIDGNGGITSQPCGKCSVCVKIDNGCFMDYIEMD 474
+ TG R VGKTT+ K L I YI +D
Sbjct: 4 IIVITGPRQVGKTTLLLQFLKELLSENI--------------------------LYINLD 37
Query: 475 AASTRGINEMAQLLEQTIYAPINARYKIYVIDEVHMLTHHAFNAMLKTLEEPPKYIKFIL 534
+ L + + K +DE+ + + LK L + + ++ IL
Sbjct: 38 DPRFLRLAL--LDLLEEFLKLLLPGKKYLFLDEIQKVPD--WEDALKRLYDDGRNLRIIL 93
Query: 535 A 535
Sbjct: 94 T 94
>gnl|CDD|188437 TIGR03922, T7SS_EccA, type VII secretion AAA-ATPase EccA. This
model represents the AAA family ATPase, EccA, of the
actinobacterial flavor of type VII secretion systems.
Species such as Mycobacterium tuberculosis have several
instances of this system per genome, designated EccA1,
EccA2, etc [Protein fate, Protein and peptide secretion
and trafficking].
Length = 557
Score = 32.5 bits (74), Expect = 1.6
Identities = 14/32 (43%), Positives = 20/32 (62%), Gaps = 1/32 (3%)
Query: 411 RLHHAYLFTGTRGVGKTTISRILAKCLNCIGI 442
+H LF G G GKTTI+R++AK +G+
Sbjct: 311 TSNHM-LFAGPPGTGKTTIARVVAKIYCGLGV 341
>gnl|CDD|100122 cd06225, HAMP, Histidine kinase, Adenylyl cyclase, Methyl-accepting
protein, and Phosphatase (HAMP) domain. HAMP is a
signaling domain which occurs in a wide variety of
signaling proteins, many of which are bacterial. The
HAMP domain consists of two alpha helices connected by
an extended linker. The structure of the HAMP dimer from
Archaeoglobus fulgidus has been solved using nuclear
magnetic resonance, revealing a parallel four-helix
bundle; this structure has been confirmed by
cross-linking analysis of HAMP domains from the
Escherichia coli aerotaxis receptor Aer. It has been
suggested that the four-helix arrangement can rotate
between the unusually packed conformation observed in
the NMR structure and a canonical coiled-coil
arrangement. Such rotation may coincide with signal
transduction, but a common mechanism by which HAMP
domains relay a variety of input signals has yet to be
established.
Length = 48
Score = 28.8 bits (65), Expect = 1.7
Identities = 12/48 (25%), Positives = 22/48 (45%), Gaps = 1/48 (2%)
Query: 478 TRGINEMAQLLEQTIYAPINARYKIYVIDEVHMLTHHAFNAMLKTLEE 525
R + +A+ ++ ++ R + DE+ L AFN M + L E
Sbjct: 2 LRPLRRLAEAAQRIAAGDLDVRLPVTGRDEIGELAR-AFNQMAERLRE 48
>gnl|CDD|221970 pfam13191, AAA_16, AAA ATPase domain. This family of domains
contain a P-loop motif that is characteristic of the AAA
superfamily.
Length = 154
Score = 31.4 bits (71), Expect = 1.7
Identities = 16/47 (34%), Positives = 26/47 (55%), Gaps = 2/47 (4%)
Query: 393 LIGQNHISKSLINALDKKRLHH--AYLFTGTRGVGKTTISRILAKCL 437
L+G+ + L++AL + R + L TG G GKT++ R L + L
Sbjct: 2 LVGREEELERLLDALRRARSGGPPSVLLTGPSGTGKTSLLRELLEGL 48
>gnl|CDD|235500 PRK05557, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Validated.
Length = 248
Score = 31.7 bits (73), Expect = 2.2
Identities = 25/100 (25%), Positives = 42/100 (42%), Gaps = 28/100 (28%)
Query: 240 LMKKKYKKIINSAVFPGIQGGP-LMHVIAAKA--VAFKEVLKPDFKIYQKQVVKNAKILS 296
+MK++ +IIN + G+ G P + A+KA + F K L+
Sbjct: 129 MMKQRSGRIINISSVVGLMGNPGQANYAASKAGVIGF------------------TKSLA 170
Query: 297 KILDQRGIRI--VSGGTKSHIILVDLRNKKITGKIAESIL 334
+ L RGI + V+ G I D+ + + E+IL
Sbjct: 171 RELASRGITVNAVAPG----FIETDM-TDALPEDVKEAIL 205
>gnl|CDD|238941 cd01983, Fer4_NifH, The Fer4_NifH superfamily contains a variety of
proteins which share a common ATP-binding domain.
Functionally, proteins in this superfamily use the
energy from hydrolysis of NTP to transfer electron or
ion.
Length = 99
Score = 29.7 bits (67), Expect = 2.6
Identities = 11/21 (52%), Positives = 14/21 (66%)
Query: 417 LFTGTRGVGKTTISRILAKCL 437
+ TG GVGKTT++ LA L
Sbjct: 3 VVTGKGGVGKTTLAANLAAAL 23
>gnl|CDD|232905 TIGR00284, TIGR00284, dihydropteroate synthase-related protein. This
protein has been found so far only in the Archaea, and in
particular in those archaea that lack a bacterial-type
dihydropteroate synthase. The central region of this
protein shows considerable homology to the amino-terminal
half of dihydropteroate synthases, while the
carboxyl-terminal region shows homology to the small,
uncharacterized protein slr0651 of Synechocystis PCC6803
[Unknown function, General].
Length = 499
Score = 31.8 bits (72), Expect = 2.7
Identities = 23/97 (23%), Positives = 43/97 (44%), Gaps = 10/97 (10%)
Query: 1176 REIITKELQRLKDTWINPSILNTGESERVLGKRIKHEYSLSNLLTWPNVNYNTLTSLKGI 1235
E + +R+ +I PS+ TG ++ ++ HE + L +P +T I
Sbjct: 398 PEPVEPPGERINVDYIEPSMDRTGYAK----IQVDHERGVIMLTFYPAGGEPVVT----I 449
Query: 1236 NGKNLYNTEIYQEDIKKQLKIQLQYEGYILRQINEVE 1272
GK T I + I++ L++ GYI ++ + E
Sbjct: 450 EGKK--PTSILRALIRRFPVSSLEHAGYIGYELAKAE 484
>gnl|CDD|129721 TIGR00635, ruvB, Holliday junction DNA helicase, RuvB subunit. All
proteins in this family for which functions are known
are 5'-3' DNA helicases that, as part of a complex with
RuvA homologs serve as a 5'-3' Holliday junction
helicase. RuvA specifically binds Holliday junctions as
a sandwich of two tetramers and maintains the
configuration of the junction. It forms a complex with
two hexameric rings of RuvB, the subunit that contains
helicase activity. The complex drives ATP-dependent
branch migration of the Holliday junction recombination
intermediate. The endonuclease RuvC resolves junctions
[DNA metabolism, DNA replication, recombination, and
repair].
Length = 305
Score = 31.5 bits (72), Expect = 3.2
Identities = 17/56 (30%), Positives = 28/56 (50%), Gaps = 6/56 (10%)
Query: 388 SNFNTLIGQNHISKSL---INA--LDKKRLHHAYLFTGTRGVGKTTISRILAKCLN 438
IGQ + + L I A + ++ L H L+ G G+GKTT++ I+A +
Sbjct: 1 KLLAEFIGQEKVKEQLQLFIEAAKMRQEALDHLLLY-GPPGLGKTTLAHIIANEMG 55
>gnl|CDD|223210 COG0132, BioD, Dethiobiotin synthetase [Coenzyme metabolism].
Length = 223
Score = 31.1 bits (71), Expect = 3.3
Identities = 13/26 (50%), Positives = 15/26 (57%), Gaps = 1/26 (3%)
Query: 419 TGT-RGVGKTTISRILAKCLNCIGID 443
TGT GVGKT +S LA+ L G
Sbjct: 8 TGTDTGVGKTVVSAALAQALKQQGYS 33
>gnl|CDD|132313 TIGR03269, met_CoM_red_A2, methyl coenzyme M reductase system,
component A2. The enzyme that catalyzes the final step
in methanogenesis, methyl coenzyme M reductase, contains
alpha, beta, and gamma chains. In older literature, the
complex of alpha, beta, and gamma chains was termed
component C, while this single chain protein was termed
methyl coenzyme M reductase system component A2 [Energy
metabolism, Methanogenesis].
Length = 520
Score = 31.7 bits (72), Expect = 3.4
Identities = 25/103 (24%), Positives = 43/103 (41%), Gaps = 32/103 (31%)
Query: 375 EIIKVVLARKYRPSNFNTLIGQNHISKSLINALDKKRL--HHAYLF--TGTRGVGKTTIS 430
IIKV K S + + ++ A+D L +F GT G GKTT+S
Sbjct: 278 PIIKVRNVSKRYIS----------VDRGVVKAVDNVSLEVKEGEIFGIVGTSGAGKTTLS 327
Query: 431 RILAKCLNCIGIDGNGGITSQPCGKCSVCVKIDNGCFMDYIEM 473
+I+A G+ G+ V V++ + ++++M
Sbjct: 328 KIIA------------GVLEPTSGE--VNVRVGD----EWVDM 352
>gnl|CDD|215633 PLN03210, PLN03210, Resistant to P. syringae 6; Provisional.
Length = 1153
Score = 31.4 bits (71), Expect = 3.9
Identities = 20/56 (35%), Positives = 34/56 (60%), Gaps = 4/56 (7%)
Query: 387 PSN-FNTLIG-QNHISK-SLINALDKKRLHHAYLFTGTRGVGKTTISRILAKCLNC 439
PSN F +G ++HI+K S + L+ + + ++ G+ G+GKTTI+R L L+
Sbjct: 179 PSNDFEDFVGIEDHIAKMSSLLHLESEEVRMVGIW-GSSGIGKTTIARALFSRLSR 233
>gnl|CDD|234173 TIGR03346, chaperone_ClpB, ATP-dependent chaperone ClpB. Members
of this protein family are the bacterial ATP-dependent
chaperone ClpB. This protein belongs to the AAA family,
ATPases associated with various cellular activities
(pfam00004). This molecular chaperone does not act as a
protease, but rather serves to disaggregate misfolded
and aggregated proteins [Protein fate, Protein folding
and stabilization].
Length = 852
Score = 31.5 bits (72), Expect = 4.0
Identities = 16/52 (30%), Positives = 29/52 (55%), Gaps = 8/52 (15%)
Query: 394 IGQNHISKSLINAL--------DKKRLHHAYLFTGTRGVGKTTISRILAKCL 437
+GQ+ +++ +A+ D R ++LF G GVGKT +++ LA+ L
Sbjct: 568 VGQDEAVEAVSDAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTELAKALAEFL 619
>gnl|CDD|182791 PRK10865, PRK10865, protein disaggregation chaperone; Provisional.
Length = 857
Score = 31.4 bits (71), Expect = 4.4
Identities = 39/149 (26%), Positives = 60/149 (40%), Gaps = 38/149 (25%)
Query: 393 LIGQNHISKSLINAL--------DKKRLHHAYLFTGTRGVGKTTISRILAKCLNCIGIDG 444
+IGQN +++ NA+ D R ++LF G GVGKT + + LA + D
Sbjct: 570 VIGQNEAVEAVSNAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTELCKALANFM----FDS 625
Query: 445 NGGITSQPCGKCSVCVKIDNGCFMDYIEMDAASTR--------GINEMAQLLEQTIYAPI 496
+ + V+ID FM E + S G E L E P
Sbjct: 626 DDAM-----------VRIDMSEFM---EKHSVSRLVGAPPGYVGYEEGGYLTEAVRRRP- 670
Query: 497 NARYKIYVIDEVHMLTHHAFNAMLKTLEE 525
Y + ++DEV FN +L+ L++
Sbjct: 671 ---YSVILLDEVEKAHPDVFNILLQVLDD 696
>gnl|CDD|129349 TIGR00246, tRNA_RlmH_YbeA, rRNA large subunit m3Psi
methyltransferase RlmH. This protein, in the SPOUT
methyltransferase family, previously designated YbeA in
E. coli, was shown to be responsible for a further
modification, a methylation, to a pseudouridine base in
ribosomal large subunit RNA [Protein synthesis, tRNA and
rRNA base modification].
Length = 153
Score = 29.9 bits (67), Expect = 5.1
Identities = 17/73 (23%), Positives = 37/73 (50%), Gaps = 16/73 (21%)
Query: 277 LKPDFKIYQKQVVKNAKI---------------LSKILDQRGIRIVSGGTKSHIILVDLR 321
+K F+ Y ++ K+A + +ILD+ G RI++ K+H++ +D+
Sbjct: 15 VKTGFEEYTRRFPKDAPFELIEIPAGKRGKNADIKRILDKEGDRILAAIGKAHVVTLDIP 74
Query: 322 NK-KITGKIAESI 333
K T ++A+++
Sbjct: 75 GKPWTTPQLADTL 87
>gnl|CDD|173960 cd08550, GlyDH-like, Glycerol_dehydrogenase-like. Families of
proteins related to glycerol dehydrogenases. Glycerol
dehydrogenases (GlyDH) is a key enzyme in the glycerol
dissimilation pathway. In anaerobic conditions, many
microorganisms utilize glycerol as a source of carbon
through coupled oxidative and reductive pathways. One of
the pathways involves the oxidation of glycerol to
dihydroxyacetone with the reduction of NAD+ to NADH
catalyzed by glycerol dehydrogenases. Dihydroxyacetone is
then phosphorylated by dihydroxyacetone kinase and enters
the glycolytic pathway for further degradation. The
activity of GlyDH is zinc-dependent. The zinc ion plays a
role in stabilizing an alkoxide intermediate at the
active site. Some subfamilies have not been characterized
till now.
Length = 349
Score = 30.9 bits (70), Expect = 5.1
Identities = 14/52 (26%), Positives = 23/52 (44%), Gaps = 2/52 (3%)
Query: 982 YCPSIEDKVYRFPKKKSHHIFLEPEGIVIN--EYYPNGISTSLPFEAQIELV 1031
Y E Y F K+ + ++ E I + EY +GI+ +L + E V
Sbjct: 124 YSDDGEFARYDFQKRNPDLVLVDTEVIAQSPAEYLWSGIADALAKWYEAEAV 175
>gnl|CDD|234625 PRK00090, bioD, dithiobiotin synthetase; Reviewed.
Length = 222
Score = 30.2 bits (69), Expect = 5.5
Identities = 11/30 (36%), Positives = 14/30 (46%), Gaps = 1/30 (3%)
Query: 415 AYLFTGT-RGVGKTTISRILAKCLNCIGID 443
TGT VGKT ++ LA+ L G
Sbjct: 1 RLFVTGTDTDVGKTVVTAALAQALREAGYS 30
>gnl|CDD|222194 pfam13521, AAA_28, AAA domain.
Length = 162
Score = 29.8 bits (68), Expect = 6.0
Identities = 8/20 (40%), Positives = 10/20 (50%)
Query: 416 YLFTGTRGVGKTTISRILAK 435
+ TG GKTT+ LA
Sbjct: 2 IVITGGPSTGKTTLLEALAA 21
>gnl|CDD|139425 PRK13248, PRK13248, phycoerythrobilin:ferredoxin oxidoreductase;
Provisional.
Length = 253
Score = 30.3 bits (68), Expect = 6.1
Identities = 19/62 (30%), Positives = 33/62 (53%), Gaps = 2/62 (3%)
Query: 1213 YSLSNLLTWPNVNYNTLTSLKGINGKNLYNTEIYQEDIKKQLKIQLQYEGYILRQINEVE 1272
YS+ N L PN YN G++ +L N+ + D + LKIQ QY +L ++ +++
Sbjct: 82 YSVLNFLIIPNTIYNV--PFFGVDFVSLPNSHLLVLDFQPSLKIQNQYNNELLEKLIKLK 139
Query: 1273 KN 1274
+
Sbjct: 140 NH 141
>gnl|CDD|197399 cd10163, ClassIIa_HDAC9_Gln-rich-N, Glutamine-rich N-terminal helical
domain of HDAC9, a Class IIa histone deacetylase. This
family consists of the glutamine-rich domain of histone
deacetylase 9 (HDAC9). It belongs to a superfamily that
consists of the glutamine-rich N-terminal helical
extension to certain Class IIa histone deacetylases
(HDACs), including HDAC4, HDAC5 and HDCA9; it is missing
from HDAC7. This domain confers responsiveness to calcium
signals and mediates interactions with transcription
factors and cofactors, and it is able to repress
transcription independently of the HDAC C-terminal,
zinc-dependent catalytic domain. It has many intra- and
inter-helical interactions which are possibly involved in
reversible assembly and disassembly of proteins. HDACs
regulate diverse cellular processes through enzymatic
deacetylation of histone as well as non-histone proteins,
in particular deacetylating N(6)-acetyl-lysine residues.
Length = 90
Score = 28.6 bits (63), Expect = 6.3
Identities = 24/65 (36%), Positives = 35/65 (53%), Gaps = 8/65 (12%)
Query: 1247 QEDIKKQLKI---QLQYEGYILRQINEVEKNKINENLKLPHNLDYMKIQSLSIEARQKLN 1303
Q+ I+KQL I Q Q+E + RQ + ++ E+LKL L MK Q +E QKL
Sbjct: 19 QQQIQKQLLIAEFQKQHEN-LTRQ----HQAQLQEHLKLQQELLAMKQQQELLEKEQKLE 73
Query: 1304 KYKPE 1308
+ + E
Sbjct: 74 QQRQE 78
>gnl|CDD|225804 COG3265, GntK, Gluconate kinase [Carbohydrate transport and
metabolism].
Length = 161
Score = 29.6 bits (67), Expect = 6.4
Identities = 11/25 (44%), Positives = 14/25 (56%)
Query: 420 GTRGVGKTTISRILAKCLNCIGIDG 444
G G GK+T+ LA+ L IDG
Sbjct: 2 GVSGSGKSTVGSALAERLGAKFIDG 26
>gnl|CDD|145062 pfam01710, HTH_Tnp_IS630, Transposase. Transposase proteins are
necessary for efficient DNA transposition. This family
includes insertion sequences from Synechocystis PCC 6803
three of which are characterized as homologous to
bacterial IS5- and IS4- and to several members of the
IS630-Tc1-mariner superfamily.
Length = 120
Score = 29.0 bits (65), Expect = 6.4
Identities = 13/45 (28%), Positives = 18/45 (40%), Gaps = 6/45 (13%)
Query: 1147 EDNADLRLTEIGWKLGCVSY------KQWKIFEKKREIITKELQR 1185
+DN D L E K G K+ KI KK + ++ R
Sbjct: 67 KDNPDAYLKERAKKFGVTPSSIHYALKKMKITRKKNDYFIEKEMR 111
>gnl|CDD|214330 CHL00001, rpoB, RNA polymerase beta subunit.
Length = 1070
Score = 30.6 bits (70), Expect = 6.5
Identities = 12/30 (40%), Positives = 18/30 (60%), Gaps = 5/30 (16%)
Query: 540 QKIPITVLSRCIQFNLKKMLHHDIVNNLCY 569
QKI I VL + NL+ +I++N+CY
Sbjct: 176 QKISILVLLSAMGLNLR-----EILDNVCY 200
>gnl|CDD|184411 PRK13946, PRK13946, shikimate kinase; Provisional.
Length = 184
Score = 29.9 bits (68), Expect = 6.5
Identities = 9/28 (32%), Positives = 12/28 (42%)
Query: 411 RLHHAYLFTGTRGVGKTTISRILAKCLN 438
+ G G GK+T+ R LA L
Sbjct: 8 LGKRTVVLVGLMGAGKSTVGRRLATMLG 35
>gnl|CDD|224832 COG1921, SelA, Selenocysteine synthase [seryl-tRNASer selenium
transferase] [Amino acid transport and metabolism].
Length = 395
Score = 30.4 bits (69), Expect = 6.7
Identities = 25/103 (24%), Positives = 46/103 (44%), Gaps = 10/103 (9%)
Query: 183 FERFYHIAKNINSYFMVDMAHYAGLIAAGEYPNPVPF----ADFITSTTHKSLRGPRGGF 238
E IA +VD+A +G + E P+ AD ++ + K L GP+ G
Sbjct: 176 EEELVEIAHEKGLPVIVDLA--SGALVDKE-PDLREALALGADLVSFSGDKLLGGPQAGI 232
Query: 239 ILMKKKY-KKIINSAVFPGIQGGPLMHVIAAKAVAFKEVLKPD 280
I+ KK+ +K+ + + ++ +AA A + L+P+
Sbjct: 233 IVGKKELIEKLQSHPLKRALRVDKE--TLAALEAALELYLQPE 273
>gnl|CDD|238992 cd02035, ArsA, ArsA ATPase functionas as an efflux pump located on
the inner membrane of the cell. This ATP-driven oxyanion
pump catalyzes the extrusion of arsenite, antimonite and
arsenate. Maintenance of a low intracellular
concentration of oxyanion produces resistance to the
toxic agents. The pump is composed of two subunits, the
catalytic ArsA subunit and the membrane subunit ArsB,
which are encoded by arsA and arsB genes respectively.
Arsenic efflux in bacteria is catalyzed by either ArsB
alone or by ArsAB complex. The ATP-coupled pump,
however, is more efficient. ArsA is composed of two
homologous halves, A1 and A2, connected by a short
linker sequence.
Length = 217
Score = 29.9 bits (68), Expect = 7.0
Identities = 11/18 (61%), Positives = 12/18 (66%)
Query: 417 LFTGTRGVGKTTISRILA 434
FTG GVGKTTI+ A
Sbjct: 3 FFTGKGGVGKTTIAAATA 20
>gnl|CDD|236620 PRK09739, PRK09739, hypothetical protein; Provisional.
Length = 199
Score = 29.7 bits (67), Expect = 7.1
Identities = 20/68 (29%), Positives = 28/68 (41%), Gaps = 15/68 (22%)
Query: 139 WFNSICYGLNKKEKIDYKKVEYLAKKNKPKLIIAGASAYSQYIDFERFYHIAKNINSYFM 198
W N + YG K + KV ++A + G S S F + KN++ Y
Sbjct: 106 WNNGLAYGDGHKLP--FNKVRWVA--------LVGGSKES----FVK-RGWEKNMSDYLN 150
Query: 199 VDMAHYAG 206
V MA Y G
Sbjct: 151 VGMASYLG 158
>gnl|CDD|234170 TIGR03336, IOR_alpha, indolepyruvate ferredoxin oxidoreductase,
alpha subunit. Indolepyruvate ferredoxin oxidoreductase
(IOR) is an alpha 2/beta 2 tetramer related to ketoacid
oxidoreductases for pyruvate (1.2.7.1, POR),
2-ketoglutarate (1.2.7.3, KOR), and 2-oxoisovalerate
(1.2.7.7, VOR). These multi-subunit enzymes typically
are found in anaerobes and are inactiviated by oxygen.
IOR in Pyrococcus acts in fermentation of all three
aromatic amino acids, following removal of the amino
group by transamination. In Methanococcus maripaludis,
by contrast, IOR acts in the opposite direction, in
pathways of amino acid biosynthesis from phenylacetate,
indoleacetate, and p-hydroxyphenylacetate. In M.
maripaludis and many other species, iorA and iorB are
found next to an apparent phenylacetate-CoA ligase.
Length = 595
Score = 30.5 bits (69), Expect = 7.4
Identities = 11/42 (26%), Positives = 15/42 (35%), Gaps = 8/42 (19%)
Query: 435 KCLN-----CIGIDGNGGITSQPCGKCSVCVKIDNGCFMDYI 471
KC+ I + + C C VC +I C D I
Sbjct: 557 KCIKELGCPAIEPEDKEAVIDPLCTGCGVCAQI---CPFDAI 595
>gnl|CDD|227881 COG5594, COG5594, Uncharacterized integral membrane protein [Function
unknown].
Length = 827
Score = 30.5 bits (69), Expect = 7.6
Identities = 14/77 (18%), Positives = 28/77 (36%), Gaps = 1/77 (1%)
Query: 1237 GKNLYNTEIYQEDIKKQLKIQLQYEGYILRQINEVEKNKINENLKLPHNLDYMKIQSLSI 1296
+ QE K++ KI + E + +N++ K + K L + + I
Sbjct: 241 DVLCRDLGTLQELYKERDKILKKLEKALNELLNKLLKKSHLKTNKKSGKLTPSRKKEFEI 300
Query: 1297 EARQKLNKYKP-ETIGQ 1312
+K +P I +
Sbjct: 301 LPEYVPDKKRPKHRIKK 317
>gnl|CDD|213830 TIGR03576, pyridox_MJ0158, pyridoxal phosphate enzyme, MJ0158
family. Members of this archaeal protein family are
pyridoxal phosphate enzymes of unknown function.
Sequence similarity to SelA, a bacterial enzyme of
selenocysteine biosynthesis, has led to some members
being misannotated as functionally equivalent, but
selenocysteine is made on tRNA in Archaea by a two-step
process that does not involve a SelA homolog [Unknown
function, Enzymes of unknown specificity].
Length = 346
Score = 30.1 bits (68), Expect = 7.9
Identities = 20/63 (31%), Positives = 32/63 (50%), Gaps = 1/63 (1%)
Query: 182 DFERFYHIAKNINSYFMVDMAHYAGL-IAAGEYPNPVPFADFITSTTHKSLRGPRGGFIL 240
D +R AK+ + +VD A A + G+ P AD + ++T K + GPRGG +
Sbjct: 156 DLKRVIKQAKSKEAIVLVDDASGARVRRLYGQPPALDLGADLVVTSTDKLMDGPRGGLLA 215
Query: 241 MKK 243
+K
Sbjct: 216 GRK 218
>gnl|CDD|183983 PRK13339, PRK13339, malate:quinone oxidoreductase; Reviewed.
Length = 497
Score = 30.0 bits (68), Expect = 8.7
Identities = 24/80 (30%), Positives = 37/80 (46%), Gaps = 11/80 (13%)
Query: 181 IDFERFYHIAKNINSYFMVDMAHYAGLIAAGEYPNPVPFADFITSTTHKS-LRGPRG-GF 238
ID E+ AK IN F + + L+ +G NP +FI H S +RG F
Sbjct: 75 IDIEK----AKEINEQFEISKQFWGHLVKSGTIGNP---REFINPLPHISFVRGKNNVKF 127
Query: 239 ILMKKKYKKIINSAVFPGIQ 258
+KK+Y+ + +F I+
Sbjct: 128 --LKKRYEALKQHPMFDNIE 145
>gnl|CDD|233355 TIGR01313, therm_gnt_kin, carbohydrate kinase, thermoresistant
glucokinase family. This model represents a subfamily
of proteins that includes thermoresistant and
thermosensitve isozymes of gluconate kinase
(gluconokinase) in E. coli and other related proteins;
members of this family are often named by similarity to
the thermostable isozyme. These proteins show homology
to shikimate kinases and adenylate kinases but not to
gluconate kinases from the FGGY family of carbohydrate
kinases.
Length = 163
Score = 29.3 bits (66), Expect = 9.2
Identities = 11/30 (36%), Positives = 17/30 (56%)
Query: 416 YLFTGTRGVGKTTISRILAKCLNCIGIDGN 445
++ G G GK+TI+ LA L I+G+
Sbjct: 1 FVLMGVAGSGKSTIASALAHRLGAKFIEGD 30
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
0.319 0.137 0.391
Gapped
Lambda K H
0.267 0.0796 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 68,871,764
Number of extensions: 7050696
Number of successful extensions: 7372
Number of sequences better than 10.0: 1
Number of HSP's gapped: 7214
Number of HSP's successfully gapped: 218
Length of query: 1342
Length of database: 10,937,602
Length adjustment: 109
Effective length of query: 1233
Effective length of database: 6,103,016
Effective search space: 7525018728
Effective search space used: 7525018728
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 65 (28.7 bits)