RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 009747
(527 letters)
>gnl|CDD|240299 PTZ00164, PTZ00164, bifunctional dihydrofolate
reductase-thymidylate synthase; Provisional.
Length = 514
Score = 728 bits (1881), Expect = 0.0
Identities = 273/515 (53%), Positives = 349/515 (67%), Gaps = 13/515 (2%)
Query: 20 PKRSYQVVVAATRDMGIGKDGKLPWKLPSDLKFFKEITQIT------SDAGKRNAVIMGR 73
+ + +VVA T GIG LPW +P D+KFF +IT K+NAVIMGR
Sbjct: 6 SLKDFSIVVAVTLKRGIGIGNSLPWHIPEDMKFFSKITTYVREEKYEKSPKKQNAVIMGR 65
Query: 74 KTWESIPLEHRPLPGRLNVVLTRSGSFDIATVENVVICGSIGSALELLAASPYCLSIEKV 133
KTWESIP + RPL R+NVVL+R+ + + A V++ GS+ AL LLA LSIEK+
Sbjct: 66 KTWESIPKKFRPLKNRINVVLSRTLTEEEA-DPGVLVFGSLEDALRLLAED---LSIEKI 121
Query: 134 FVIGGGQILSEALNAPECDAIHITEIETRIECDTFIPSIDSSVFQPWYSSFPIVENNIRY 193
F+IGG + EAL+A D I++T + + ECD F P I S F S N Y
Sbjct: 122 FIIGGASVYREALSANLLDKIYLTRVNSEYECDVFFPKIPESFFIVAIVSQTFSTNGTSY 181
Query: 194 CLSTYVRVRSAAVESLSQNNDIVLDSKTNSDKFEVKQ-FSFLPKMVFEKHEEYLYLRLVQ 252
Y + + L + + T K +Q + P + +HEE+ YL L+
Sbjct: 182 DFVIYEKKNDDEEDLLGKIFGQMK--MTGRKKSPKEQLYKACPSLKIREHEEFQYLDLIA 239
Query: 253 DIISDGNLKDDRTGTGTLSKFGCQMRYNLRTTFPLLTTKKVFWRGVVEELLWFISGSTNA 312
DII +GN+K+DRTG GT+SKFG QMR++LR +FPLLTTKKVF RG++EELLWFI G TN
Sbjct: 240 DIIKNGNVKEDRTGVGTISKFGYQMRFDLRESFPLLTTKKVFLRGIIEELLWFIRGETNG 299
Query: 313 KVLQEKDIHIWDGNASREYLDSVGLTDREEGDLGPVYGFQWRHFGARYTNMHADYSGQGF 372
+L +K + IW+GN SRE+LDS GLT REE DLGPVYGFQWRHFGA Y +MH DY+GQG
Sbjct: 300 NLLLDKGVRIWEGNGSREFLDSRGLTHREENDLGPVYGFQWRHFGAEYKDMHDDYTGQGV 359
Query: 373 DQLLDVINKIKNNPNDRRIVLSAWNPSDLKLMALPPCHMFAQFYMANGELSCQMYQRSAD 432
DQL ++I IKNNP+DRR++L+AWNPS L MALPPCH+ +QFY+ +G+LSC MYQRS D
Sbjct: 360 DQLKNIIETIKNNPDDRRLILTAWNPSALDQMALPPCHLLSQFYVNDGKLSCMMYQRSCD 419
Query: 433 MGLGVPFNIASYALLTCMIAHVCDLAPGDFIHVIGDAHVYRNHVRPLEEQLQKLPKPFPI 492
MGLGVPFNIASYALLT MIA VC L PG+F+H +GDAHVY NHV L+EQL+++P PFP
Sbjct: 420 MGLGVPFNIASYALLTHMIAQVCGLRPGEFVHFLGDAHVYSNHVDALKEQLERVPYPFPT 479
Query: 493 LKINPEKKDIDSFVAEDFKLIGYDPHQKIEMKMAV 527
LK+ E ++I+ F ED ++IGY PH KI+M+MAV
Sbjct: 480 LKLKREVENIEDFTIEDIEVIGYVPHPKIKMEMAV 514
>gnl|CDD|215846 pfam00303, Thymidylat_synt, Thymidylate synthase.
Length = 262
Score = 465 bits (1199), Expect = e-164
Identities = 179/284 (63%), Positives = 209/284 (73%), Gaps = 22/284 (7%)
Query: 244 EYLYLRLVQDIISDGNLKDDRTGTGTLSKFGCQMRYNLRTTFPLLTTKKVFWRGVVEELL 303
E YL L++DI+ +G K+DRTGTGT S FG Q+R++LR FPLLTTKKVFW+ VVEELL
Sbjct: 1 EEQYLDLLRDILENGEFKEDRTGTGTKSLFGVQLRFDLRKGFPLLTTKKVFWKSVVEELL 60
Query: 304 WFISGSTNAKVLQEKDIHIWDGNASREYLDSVGLTDREEGDLGPVYGFQWRHFGARYTNM 363
WF+SGSTN K L E +HIWD AS E GDLGPVYGFQWRH+GA
Sbjct: 61 WFLSGSTNVKFLSEYGVHIWDEWASEE------------GDLGPVYGFQWRHWGAE---- 104
Query: 364 HADYSGQGFDQLLDVINKIKNNPNDRRIVLSAWNPSDLKLMALPPCHMFAQFYMANGELS 423
QG DQL VI K+KNNP+ RRI++SAWNP+DL MALPPCH QFY+ +G+LS
Sbjct: 105 ------QGVDQLARVIEKLKNNPDSRRIIISAWNPADLPKMALPPCHTLFQFYVRDGKLS 158
Query: 424 CQMYQRSADMGLGVPFNIASYALLTCMIAHVCDLAPGDFIHVIGDAHVYRNHVRPLEEQL 483
CQ+YQRS DM LGVPFNIASYALLT MIA V L PG+FIH IGDAH+Y NHV ++EQL
Sbjct: 159 CQLYQRSNDMFLGVPFNIASYALLTEMIAQVTGLEPGEFIHTIGDAHIYENHVDQVKEQL 218
Query: 484 QKLPKPFPILKINPEKKDIDSFVAEDFKLIGYDPHQKIEMKMAV 527
+ P+PFP LKINPE K ID F AEDF+L GYDPH KI+M +AV
Sbjct: 219 SREPRPFPKLKINPEVKSIDDFTAEDFELEGYDPHPKIKMPVAV 262
>gnl|CDD|234984 PRK01827, thyA, thymidylate synthase; Reviewed.
Length = 264
Score = 423 bits (1089), Expect = e-147
Identities = 151/281 (53%), Positives = 190/281 (67%), Gaps = 20/281 (7%)
Query: 247 YLRLVQDIISDGNLKDDRTGTGTLSKFGCQMRYNLRTTFPLLTTKKVFWRGVVEELLWFI 306
YL L++ I+ +G K+DRTGTGTLS FG QMR++L FPLLTTKKV ++ ++ ELLWF+
Sbjct: 4 YLDLLRKILDEGTKKNDRTGTGTLSVFGAQMRFDLSKGFPLLTTKKVHFKSIIHELLWFL 63
Query: 307 SGSTNAKVLQEKDIHIWDGNASREYLDSVGLTDREEGDLGPVYGFQWRHFGARYTNMHAD 366
G TN LQE +HIWD E+ D E GDLGPVYG QWR +
Sbjct: 64 RGDTNIAYLQENGVHIWD-----EWAD-------ENGDLGPVYGKQWRSWPT-------- 103
Query: 367 YSGQGFDQLLDVINKIKNNPNDRRIVLSAWNPSDLKLMALPPCHMFAQFYMANGELSCQM 426
G+ DQ+ VI ++K NP+ RR+++SAWNP +L MALPPCH QFY+A+G+LSCQ+
Sbjct: 104 PDGRHIDQISKVIEQLKTNPDSRRLIVSAWNPGELDKMALPPCHALFQFYVADGKLSCQL 163
Query: 427 YQRSADMGLGVPFNIASYALLTCMIAHVCDLAPGDFIHVIGDAHVYRNHVRPLEEQLQKL 486
YQRSAD+ LGVPFNIASYALLT MIA L G+F+H IGDAH+Y NH+ EQL +
Sbjct: 164 YQRSADVFLGVPFNIASYALLTHMIAQQTGLKVGEFVHTIGDAHIYSNHLEQAREQLSRE 223
Query: 487 PKPFPILKINPEKKDIDSFVAEDFKLIGYDPHQKIEMKMAV 527
P+P P L INP+ K I F EDF+L GYDPH I+ +AV
Sbjct: 224 PRPLPKLVINPDIKSIFDFEFEDFELEGYDPHPAIKAPVAV 264
>gnl|CDD|213790 TIGR03284, thym_sym, thymidylate synthase. Members of this protein
family are thymidylate synthase, an enzyme that produces
dTMP from dUMP. In prokaryotes, its gene usually is
found close to that for dihydrofolate reductase, and in
some systems the two enzymes are found as a fusion
protein. This model excludes a set of related proteins
(TIGR03283) that appears to replace this family in
archaeal methanogens, where tetrahydrofolate is replaced
by tetrahydromethanopterin [Purines, pyrimidines,
nucleosides, and nucleotides, 2'-Deoxyribonucleotide
metabolism].
Length = 295
Score = 383 bits (985), Expect = e-131
Identities = 149/302 (49%), Positives = 196/302 (64%), Gaps = 29/302 (9%)
Query: 247 YLRLVQDIISDGNLKDDRTGTGTLSKFGCQMRYNLRTTFPLLTTKKVFWRGVVEELLWFI 306
YL L++DI+ +G+ K DRTGTGT+S FG QMR++L FPLLTTKKV +R + ELLWF+
Sbjct: 2 YLDLLRDILENGHQKGDRTGTGTISVFGYQMRFDLSKGFPLLTTKKVPFRLIASELLWFL 61
Query: 307 SGSTNAKVLQEKDIHIWDGNASREYLDSV-------------GLTDREE--------GDL 345
G TN + L + +++IWD A ++ S D EE GDL
Sbjct: 62 KGDTNIRYLLDHNVNIWDEWAFERWVKSDDYNGPDMTDFGHRAQDDPEEDDEFADKYGDL 121
Query: 346 GPVYGFQWRHFGARYTNMHADYSGQGFDQLLDVINKIKNNPNDRRIVLSAWNPSDLKLMA 405
GPVYG QWR + G+ DQ+ +VI IK NP+ RR+++SAWNP D+ MA
Sbjct: 122 GPVYGKQWRSWATPD--------GETIDQIKNVIEMIKTNPDSRRLIVSAWNPEDVPTMA 173
Query: 406 LPPCHMFAQFYMANGELSCQMYQRSADMGLGVPFNIASYALLTCMIAHVCDLAPGDFIHV 465
LPPCH QFY+A+G+LSCQ+YQRSAD+ LGVPFNIASYALLT +IA L G+F+H
Sbjct: 174 LPPCHTLFQFYVADGKLSCQLYQRSADVFLGVPFNIASYALLTHLIAQETGLEVGEFVHT 233
Query: 466 IGDAHVYRNHVRPLEEQLQKLPKPFPILKINPEKKDIDSFVAEDFKLIGYDPHQKIEMKM 525
+GDAH+Y NH+ + QL + P+P P LK+NP+KKDI F ED ++ GYDPH I+ +
Sbjct: 234 LGDAHLYSNHLEQAKLQLTREPRPLPTLKLNPDKKDIFDFEYEDIEIEGYDPHPAIKAPV 293
Query: 526 AV 527
AV
Sbjct: 294 AV 295
>gnl|CDD|223285 COG0207, ThyA, Thymidylate synthase [Nucleotide transport and
metabolism].
Length = 268
Score = 373 bits (959), Expect = e-127
Identities = 145/282 (51%), Positives = 189/282 (67%), Gaps = 20/282 (7%)
Query: 247 YLRLVQDIISDGNLKDDRTGTGTLSKFGCQMRYNLR-TTFPLLTTKKVFWRGVVEELLWF 305
YL L++ I+ +G + DRTGTGTLS FG QMR++L + FPLLTTKKV + ++ ELLWF
Sbjct: 6 YLDLIEHILENGTSRSDRTGTGTLSVFGYQMRFDLSKSEFPLLTTKKVHLKSIIHELLWF 65
Query: 306 ISGSTNAKVLQEKDIHIWDGNASREYLDSVGLTDREEGDLGPVYGFQWRHFGARYTNMHA 365
+ G TN L+E + IWD A Y GDLGPVYG+QWR +
Sbjct: 66 LRGDTNIAYLKENGVKIWDEWADENY-----------GDLGPVYGYQWRKWLRP------ 108
Query: 366 DYSGQGFDQLLDVINKIKNNPNDRRIVLSAWNPSDLKLMALPPCHMFAQFYMANGELSCQ 425
G+ DQ+ VI ++K NP+ RR ++SAWNP +L MALPPCH+ QFY+ +G+LSC
Sbjct: 109 --DGEKIDQIDKVIEQLKENPDSRRAIVSAWNPGELDEMALPPCHILFQFYVRDGKLSCT 166
Query: 426 MYQRSADMGLGVPFNIASYALLTCMIAHVCDLAPGDFIHVIGDAHVYRNHVRPLEEQLQK 485
+YQRS D+ LGVPFNIASYALLT M+A V L PG+F+H IGDAH+Y NH +EQL++
Sbjct: 167 LYQRSNDVFLGVPFNIASYALLTHMVAQVTGLEPGEFVHTIGDAHIYDNHFDQAKEQLKR 226
Query: 486 LPKPFPILKINPEKKDIDSFVAEDFKLIGYDPHQKIEMKMAV 527
P+P P L INP+ KD+ F EDF+L+GYDPH I+ +AV
Sbjct: 227 EPRPLPKLVINPKDKDLFDFTFEDFELVGYDPHPAIKAPVAV 268
>gnl|CDD|238211 cd00351, TS_Pyrimidine_HMase, Thymidylate synthase and pyrimidine
hydroxymethylase: Thymidylate synthase (TS) and
deoxycytidylate hydroxymethylase (dCMP-HMase) are
homologs that catalyze analogous alkylation of C5 of
pyrimidine nucleotides. Both enzymes are involved in the
biosynthesis of DNA precursors and are active as
homodimers. However, they exhibit distinct pyrimidine
base specificities and differ in the details of their
catalyzed reactions. TS is biologically ubiquitous and
catalyzes the conversion of dUMP and
methylene-tetrahydrofolate (CH2THF) to dTMP and
dihydrofolate (DHF). It also acts as a regulator of its
own expression by binding and inactivating its own RNA.
Due to its key role in the de novo pathway for
thymidylate synthesis and, hence, DNA synthesis, it is
one of the most conserved enzymes across species and
phyla. TS is a well-recognized target for anticancer
chemotherapy, as well as a valuable new target against
infectious diseases. Interestingly, in several protozoa,
a single polypeptide chain codes for both, dihydrofolate
reductase (DHFR) and thymidylate synthase (TS), forming
a bifunctional enzyme (DHFR-TS), possibly through gene
fusion at a single evolutionary point. DHFR-TS is also
active as a dimer. Virus encoded dCMP-HMase catalyzes
the reversible conversion of dCMP and CH2THF to
hydroxymethyl-dCMP and THF. This family also includes
dUMP hydroxymethylase, which is encoded by several
bacteriophages that infect Bacillus subtilis, for their
own protection against the host restriction system, and
contain hydroxymethyl-dUMP instead of dTMP in their DNA.
Length = 215
Score = 345 bits (888), Expect = e-118
Identities = 134/235 (57%), Positives = 162/235 (68%), Gaps = 22/235 (9%)
Query: 247 YLRLVQDIISDGNLK-DDRTGTGTLSKFGCQMRYNLRTTFPLLTTKKVFWRGVVEELLWF 305
YL L + I+ +G K DDRTGTGT S FG Q+R++L FPLLTTKKV W+ +EELLWF
Sbjct: 2 YLDLWRKILEEGYRKTDDRTGTGTRSLFGAQLRFDLSEGFPLLTTKKVPWKSAIEELLWF 61
Query: 306 ISGSTNAKVLQEKDIHIWDGNASREYLDSVGLTDREEGDLGPVYGFQWRHFGARYTNMHA 365
+ G TNA+ L+E + IWD AS +EGDLG YGFQWRH+GA
Sbjct: 62 LRGDTNAERLKEYGVSIWDEWAS------------KEGDLGYTYGFQWRHWGAP------ 103
Query: 366 DYSGQGFDQLLDVINKIKNNPNDRRIVLSAWNPSDLKLMALPPCHMFAQFYMANGELSCQ 425
GQG DQ+ VI K+KNNP+ RR ++SAWNP+DL LMALPPCH QFY+ NG+LS
Sbjct: 104 ---GQGVDQIEKVIEKLKNNPDSRRAIISAWNPADLDLMALPPCHTLIQFYVRNGKLSLT 160
Query: 426 MYQRSADMGLGVPFNIASYALLTCMIAHVCDLAPGDFIHVIGDAHVYRNHVRPLE 480
+YQRS D LGVPFNIASYALLT MIA V L PG+FIH IGDAH+Y NH+ ++
Sbjct: 161 LYQRSNDAFLGVPFNIASYALLTEMIARVTGLEPGEFIHTIGDAHIYENHLEQVK 215
>gnl|CDD|184347 PRK13821, thyA, thymidylate synthase; Provisional.
Length = 323
Score = 208 bits (532), Expect = 4e-63
Identities = 109/322 (33%), Positives = 158/322 (49%), Gaps = 43/322 (13%)
Query: 247 YLRLVQDIISDGNLKDDRTGTGTLSKFGCQMRYNLRTTFPLLTTKKVFWRGVVEELLWFI 306
YL LV+ I+ G +++RTG T+S G +R++L+ FP +TTKK+ ++ + EL+ F+
Sbjct: 4 YLDLVRTILDTGTWQENRTGIRTISIPGAMLRFDLQQGFPAVTTKKLAFKSAIGELVGFL 63
Query: 307 SGSTNAKVLQEKDIHIWDGNASREYLDSVGLTDRE-EGDLGPVYGFQWRHFGARYTNMHA 365
S +A + +WD NA+ E + R+ DLG VYG QWR + Y + A
Sbjct: 64 RASRSAADFRALGCKVWDQNAN-ENAQWLANPYRQGVDDLGDVYGVQWRQWPG-YKVLDA 121
Query: 366 DYSGQ-------GF--------------------DQLLDVINKIKNNPNDRRIVLSAWNP 398
Q GF DQL ++ I NNP RRI+ WNP
Sbjct: 122 SADAQIADATSRGFRIVARFDEDGAPKVLLYKAIDQLRQCLDTIMNNPGSRRILFHGWNP 181
Query: 399 SDLKLMALPPCHMFAQFY--MANGELSCQMYQRSADMGLGVPFNIASYALLTCMIAHVCD 456
+ L +ALP CH+ QF + E+S +Y RS D+GLG PFN+ A L ++ +
Sbjct: 182 AVLDEIALPACHLLYQFLPNVETREISLCLYIRSNDVGLGTPFNLTEGAALLSLVGRLTG 241
Query: 457 LAPGDFIHVIGDAHVYRNHVRPLEEQLQKLPKPFPILKIN---PEKKDIDSFVAE----- 508
P F + IGDAH+Y N + L+EQL + P P L I+ PE + E
Sbjct: 242 YTPRWFTYFIGDAHIYENQLDMLQEQLTREPYESPRLVISDRVPEYAKTGVYEPEWLEKI 301
Query: 509 ---DFKLIGYDPHQKIEMKMAV 527
DF L+GY H+ + MAV
Sbjct: 302 EPSDFSLVGYRHHEPLTAPMAV 323
>gnl|CDD|238127 cd00209, DHFR, Dihydrofolate reductase (DHFR). Reduces
7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH
as a cofactor. This is an essential step in the
biosynthesis of deoxythymidine phosphate since
5,6,7,8-tetrahydrofolate is required to regenerate
5,10-methylenetetrahydrofolate which is then utilized by
thymidylate synthase. Inhibition of DHFR interrupts
thymidilate synthesis and DNA replication, inhibitors of
DHFR (such as Methotrexate) are used in cancer
chemotherapy. 5,6,7,8-tetrahydrofolate also is involved
in glycine, serine, and threonine metabolism and
aminoacyl-tRNA biosynthesis.
Length = 158
Score = 196 bits (500), Expect = 1e-60
Identities = 73/173 (42%), Positives = 94/173 (54%), Gaps = 18/173 (10%)
Query: 27 VVAATRDMGIGKDGKLPWKLPSDLKFFKEITQITSDAGKRNAVIMGRKTWESIPLEHRPL 86
+VA + IGKD KLPW LP DLK FK+ T N VIMGRKT+ESIP RPL
Sbjct: 4 IVAVDENGVIGKDNKLPWHLPEDLKHFKKTT-------TGNPVIMGRKTFESIP--RRPL 54
Query: 87 PGRLNVVLTRSGSFDIATVENVVICGSIGSALELLAASPYCLSIEKVFVIGGGQILSEAL 146
PGR N+VL+R + A E V + S+ ALEL ++E++FVIGG +I +AL
Sbjct: 55 PGRTNIVLSRQLDYQDA--EGVEVVHSLEEALELAE-----NTVEEIFVIGGAEIYKQAL 107
Query: 147 NAPECDAIHITEIETRIECDTFIPSIDSSVFQPWYSSFPIVENNIRYCLSTYV 199
P D +++T I E DTF P ID S ++ E+ Y TY
Sbjct: 108 --PYADRLYLTRIHAEFEGDTFFPEIDESEWELVSEEEVFEEDGYSYTFETYE 158
>gnl|CDD|215777 pfam00186, DHFR_1, Dihydrofolate reductase.
Length = 159
Score = 176 bits (449), Expect = 5e-53
Identities = 71/176 (40%), Positives = 93/176 (52%), Gaps = 23/176 (13%)
Query: 27 VVAATRDMGIGKDGKLPWKLPSDLKFFKEITQITSDAGKRNAVIMGRKTWESIPLEHRPL 86
+VA ++ IGKD LPW LP DLK FK +T GK +IMGRKT+ESI RPL
Sbjct: 5 IVAMDKNGVIGKDNDLPWHLPEDLKHFKALTM-----GK--PIIMGRKTFESIG---RPL 54
Query: 87 PGRLNVVLTRSGSFDIATVENVVICGSIGSALELLAASPYCLSIEKVFVIGGGQILSEAL 146
PGR N+VLTR+ F E V + S+ AL E++F+IGG +I +AL
Sbjct: 55 PGRTNIVLTRNPDFK---AEGVEVVHSLEEALA------LAAGEEEIFIIGGAEIYKQAL 105
Query: 147 NAPECDAIHITEIETRIECDTFIPSIDSSVFQPWYSSFPIV--ENNIRYCLSTYVR 200
P D +++TEI+ E DTF P ID S ++ +N Y TY R
Sbjct: 106 --PYADRLYLTEIDAEFEGDTFFPEIDLSEWELVSREEHPKDEKNPYDYTFVTYER 159
>gnl|CDD|223340 COG0262, FolA, Dihydrofolate reductase [Coenzyme metabolism].
Length = 167
Score = 143 bits (363), Expect = 2e-40
Identities = 64/176 (36%), Positives = 86/176 (48%), Gaps = 14/176 (7%)
Query: 27 VVAATRDMGIGKDGKLPWKLPSDLKFFKEITQITSDAGKRNAVIMGRKTWESIPLEHRPL 86
+VA + D IG+D LPW LP DL FK T VIMGRKT+ES+P E RPL
Sbjct: 5 IVAVSLDGVIGRDNSLPWHLPEDLAHFKATTL-------GKPVIMGRKTYESLPGEWRPL 57
Query: 87 PGRLNVVLTRSGSFDIATVENVVICGSIGSALELLAASPYCLSIEKVFVIGGGQILSEAL 146
PGR N+VL+R+ V + SI AL LL E +F+IGGG++ + L
Sbjct: 58 PGRKNIVLSRNPDLKTE--GGVEVVDSIEEALLLLLKEEG----EDIFIIGGGELYRQFL 111
Query: 147 NAPECDAIHITEIETRI-ECDTFIPSIDSSVFQPWYSSFPIVENNIRYCLSTYVRV 201
A D + +T I + E DT P D + ++ S + Y +Y R
Sbjct: 112 PAGLADELILTIIPVLLGEGDTLFPEGDPADWELVSSEDADEKGGYFYTFESYERR 167
>gnl|CDD|182714 PRK10769, folA, dihydrofolate reductase; Provisional.
Length = 159
Score = 95.6 bits (238), Expect = 4e-23
Identities = 51/159 (32%), Positives = 78/159 (49%), Gaps = 22/159 (13%)
Query: 26 VVVAATRDMGIGKDGKLPWKLPSDLKFFKEITQITSDAGKRNAVIMGRKTWESIPLEHRP 85
++ A D IG + +PW LP+DL +FK T VIMGR TWESI RP
Sbjct: 4 LIAALAVDRVIGMENAMPWNLPADLAWFKRNTL-------NKPVIMGRHTWESI---GRP 53
Query: 86 LPGRLNVVLTRSGSFDIATVENVVICGSIGSALELLAASPYCLSIEKVFVIGGGQILSEA 145
LPGR N+V++ D + V S+ AL + ++ VIGGG++ +
Sbjct: 54 LPGRKNIVISSQPGTD----DRVTWVKSVDEALAA------AGDVPEIMVIGGGRVYEQF 103
Query: 146 LNAPECDAIHITEIETRIECDTFIPSIDSSVFQPWYSSF 184
L P+ +++T I+ +E DT P + ++ +S F
Sbjct: 104 L--PKAQRLYLTHIDAEVEGDTHFPDYEPDEWESVFSEF 140
>gnl|CDD|132326 TIGR03283, thy_syn_methano, thymidylate synthase, methanogen type.
Thymidylate synthase makes dTMP for DNA synthesis, and
is among the most widely distributed of all enzymes.
Members of this protein family are encoded within a
completed genome sequence if and only if that species is
one of the methanogenenic archaea. In these species,
tetrahydromethanopterin replaces tetrahydrofolate, The
member from Methanobacterium thermoautotrophicum was
shown to behave as a thymidylate synthase based on
similar side reactions (the exchange of a characteristic
proton with water), although the full reaction was not
reconstituted. Partial sequence data showed no
similarity to known thymidylate synthases simply because
the region sequenced was from a distinctive N-terminal
region not found in other thymidylate synthases. Members
of this protein family appear, therefore, to a novel,
tetrahydromethanopterin-dependent thymidylate synthase
[Purines, pyrimidines, nucleosides, and nucleotides,
2'-Deoxyribonucleotide metabolism].
Length = 199
Score = 63.2 bits (154), Expect = 1e-11
Identities = 38/151 (25%), Positives = 57/151 (37%), Gaps = 17/151 (11%)
Query: 323 WDGNASREYLDSVGLTDREEGDLGPVYGFQWRHFGARYTNMHADYSGQGFDQLLDVINKI 382
D EY L D E YG + R + G DQ+ +I ++
Sbjct: 58 LDEEKLEEYEKQ--LLDPERQGFVYTYGNRLRRYF-------------GIDQIDYIIERL 102
Query: 383 KNNPNDRRIVLSAWNP-SDLKLMALPPCHMFAQFYMANGELSCQMYQRSADMGLGVPFNI 441
+PN RR + W+P D+K+ PC QF + + +L + RS D+G N
Sbjct: 103 NQSPNSRRAIAITWDPPQDIKVDE-VPCLQLVQFLIRDNKLYLTAFFRSNDVGGAWVANA 161
Query: 442 ASYALLTCMIAHVCDLAPGDFIHVIGDAHVY 472
L +A + PG AH+Y
Sbjct: 162 IGLRRLQEYVAEKVGVEPGTLTTHAISAHIY 192
>gnl|CDD|179181 PRK00956, thyA, thymidylate synthase; Provisional.
Length = 208
Score = 59.2 bits (144), Expect = 5e-10
Identities = 35/120 (29%), Positives = 48/120 (40%), Gaps = 9/120 (7%)
Query: 373 DQLLDVINKIKNNPNDRRIVLSAWNPS-DLKLMALPPCHMFAQFYMANGELSCQMYQRSA 431
DQ+ +I K+K N N RR WNP D K+ + PC F + +G+L + RS
Sbjct: 96 DQIDYIIEKLKENKNSRRATAVTWNPYIDTKVDEV-PCLQLVDFLIRDGKLYLTVLFRSN 154
Query: 432 DMGLGVPFNIASYALLTCMIAHVCDLAPGDFIHVIGDAHVYRNHVRPLEEQLQKLPKPFP 491
D G N L +A + G + H AH+Y E L K F
Sbjct: 155 DAGGAFHANAIGLIKLGEYVAEKVGVELGTYTHHSVSAHIY-------ERDWDYLEKIFK 207
>gnl|CDD|234776 PRK00478, scpA, segregation and condensation protein A/unknown
domain fusion protein; Provisional.
Length = 505
Score = 36.4 bits (84), Expect = 0.032
Identities = 26/135 (19%), Positives = 63/135 (46%), Gaps = 19/135 (14%)
Query: 35 GIGKDGKLPWKLPSDLKFFKEITQITSDAGKRNAVIMGRKTWESIPLEHRPLPGRLNVVL 94
GI K+ ++PWK+ +L F + T + ++MG T++++ ++ L + N+V+
Sbjct: 13 GIAKNNQIPWKIDEELNHFHQTT-------TNHTIVMGYNTFQAM---NKILANQANIVI 62
Query: 95 TRSGSFDIATVENVVICGSIGSALELLAASPYCLSIEKVFVIGGGQILSEALNAPECDAI 154
++ ++ + + + L S +F+IGG + + + + D +
Sbjct: 63 SKKHQRELKNNNELFVFNDLKKLLI-------DFSNVDLFIIGGKKTIEQFIK--YADQL 113
Query: 155 HITEIETRIECDTFI 169
I+++ +CD F+
Sbjct: 114 IISKLNADYKCDLFV 128
>gnl|CDD|144565 pfam01024, Colicin, Colicin pore forming domain.
Length = 187
Score = 33.1 bits (76), Expect = 0.22
Identities = 14/64 (21%), Positives = 25/64 (39%), Gaps = 13/64 (20%)
Query: 355 HFGARYTNMHADYSGQ-------GFDQLLDVINKIKNNPN------DRRIVLSAWNPSDL 401
++G +Y + + + D+ L K K NPN DR + +A +
Sbjct: 29 YYGEKYKKLARELADDAKGKKIRSVDEALASFEKYKANPNKKINKADRDAIANALKSVNA 88
Query: 402 KLMA 405
+ MA
Sbjct: 89 QDMA 92
>gnl|CDD|215208 PLN02366, PLN02366, spermidine synthase.
Length = 308
Score = 31.2 bits (71), Expect = 1.2
Identities = 17/47 (36%), Positives = 23/47 (48%), Gaps = 6/47 (12%)
Query: 119 ELLAASPYCLSIE---KVFVIGGGQ--ILSEALNAPECDAIHITEIE 160
E++ P C SI KV V+GGG +L E + I I EI+
Sbjct: 79 EMITHLPLC-SIPNPKKVLVVGGGDGGVLREIARHSSVEQIDICEID 124
>gnl|CDD|239938 cd04492, YhaM_OBF_like, YhaM_OBF_like: A subfamily of OB folds
similar to that found in Bacillus subtilis YhaM and
Staphylococcus aureus cmp-binding factor-1 (SaCBF1).
Both these proteins are 3'-to-5'exoribonucleases. YhaM
requires Mn2+ or Co2+ for activity and is inactive in
the presence of Mg2+. YhaM also has a Mn2+ dependent
3'-to-5'single-stranded DNA exonuclease activity. SaCBF
is also a double-stranded DNA binding protein, binding
specifically to cmp, the replication enhancer found in
S. aureus plasmid pT181. Proteins in this group combine
an N-terminal OB fold with a C-terminal HD domain. The
HD domain is found in metal-dependent phosphohydrolases.
Length = 83
Score = 28.7 bits (65), Expect = 1.6
Identities = 10/34 (29%), Positives = 14/34 (41%), Gaps = 7/34 (20%)
Query: 456 DLAPGDFIHVIGDAHVYRN-------HVRPLEEQ 482
PGD +HV G YR +R + E+
Sbjct: 46 KFKPGDIVHVKGRVEEYRGRLQLKIQRIRLVTEE 79
>gnl|CDD|225028 COG2117, COG2117, Predicted subunit of
tRNA(5-methylaminomethyl-2-thiouridylate)
methyltransferase, contains the PP-loop ATPase domain
[Translation, ribosomal structure and biogenesis].
Length = 198
Score = 30.5 bits (69), Expect = 1.6
Identities = 19/68 (27%), Positives = 29/68 (42%), Gaps = 6/68 (8%)
Query: 236 KMVFEKHEEYLYLRLVQDIISDGNLKDDRTGTGTLSKF-GCQMRYNLRTTFPLLTTKKVF 294
+ + E E L R V D I+DG +DDR + S+ + R N++ PLL
Sbjct: 82 QYIHEMALEALASREV-DRIADGTRRDDRVPKLSRSEAQSLEDRLNVQYIRPLLG----L 136
Query: 295 WRGVVEEL 302
+ L
Sbjct: 137 GYKTIRRL 144
>gnl|CDD|236483 PRK09364, moaC, molybdenum cofactor biosynthesis protein MoaC;
Provisional.
Length = 159
Score = 29.0 bits (66), Expect = 3.3
Identities = 26/89 (29%), Positives = 37/89 (41%), Gaps = 12/89 (13%)
Query: 66 RNAVIMG-RKTWESIPLEHRPLP-GRLNVVLTRSGSFDIATVENVVIC-GSIGSALE-LL 121
R A IM ++T + IPL H PL ++V + V G G +E L
Sbjct: 59 RIAGIMAAKRTSDLIPLCH-PLMLTGVDVDFEWDPELPGVRITATVKTTGKTGVEMEALT 117
Query: 122 AASPYCLSI-------EKVFVIGGGQILS 143
A S L+I +K VIG ++L
Sbjct: 118 AVSVAALTIYDMCKAVDKGMVIGDVRLLE 146
>gnl|CDD|234872 PRK00950, PRK00950, histidinol-phosphate aminotransferase;
Validated.
Length = 361
Score = 29.1 bits (66), Expect = 5.3
Identities = 9/38 (23%), Positives = 20/38 (52%), Gaps = 3/38 (7%)
Query: 358 ARYTNMHADY---SGQGFDQLLDVINKIKNNPNDRRIV 392
++YT + + G G D+++D + + +P D I+
Sbjct: 79 SKYTGVPVENIIVGGDGMDEVIDTLMRTFIDPGDEVII 116
>gnl|CDD|237524 PRK13826, PRK13826, Dtr system oriT relaxase; Provisional.
Length = 1102
Score = 29.7 bits (67), Expect = 5.3
Identities = 9/27 (33%), Positives = 13/27 (48%), Gaps = 1/27 (3%)
Query: 450 MIAHVCDLAPGDFIHVIGDAHVYRNHV 476
MI V + AP + IG+ +R V
Sbjct: 655 MIGKVVEAAPNRIVAEIGEG-EHRRQV 680
>gnl|CDD|239155 cd02754, MopB_Nitrate-R-NapA-like, Nitrate reductases, NapA
(Nitrate-R-NapA), NasA, and NarB catalyze the reduction
of nitrate to nitrite. Monomeric Nas is located in the
cytoplasm and participates in nitrogen assimilation.
Dimeric Nap is located in the periplasm and is coupled
to quinol oxidation via a membrane-anchored tetraheme
cytochrome. Members of the MopB_Nitrate-R-NapA CD belong
to the molybdopterin_binding (MopB) superfamily of
proteins.
Length = 565
Score = 29.1 bits (66), Expect = 7.5
Identities = 11/42 (26%), Positives = 16/42 (38%), Gaps = 1/42 (2%)
Query: 384 NNPNDRRIVLSAWNPSDLKLMALPPCHMFAQF-YMANGELSC 424
NNP R V W + + P H F + +GE+
Sbjct: 351 NNPEHRAEVAKFWGVPEGTIPPKPGLHAVEMFEAIEDGEIKA 392
>gnl|CDD|215585 PLN03115, PLN03115, ferredoxin--NADP(+) reductase; Provisional.
Length = 367
Score = 28.4 bits (63), Expect = 9.1
Identities = 10/16 (62%), Positives = 13/16 (81%)
Query: 232 SFLPKMVFEKHEEYLY 247
SFL KM FEKH++Y +
Sbjct: 232 SFLWKMFFEKHDDYKF 247
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
0.320 0.137 0.414
Gapped
Lambda K H
0.267 0.0818 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 27,130,376
Number of extensions: 2677587
Number of successful extensions: 2176
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2139
Number of HSP's successfully gapped: 32
Length of query: 527
Length of database: 10,937,602
Length adjustment: 101
Effective length of query: 426
Effective length of database: 6,457,848
Effective search space: 2751043248
Effective search space used: 2751043248
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: 61 (27.1 bits)