RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 025041
(259 letters)
>gnl|CDD|178512 PLN02924, PLN02924, thymidylate kinase.
Length = 220
Score = 407 bits (1047), Expect = e-146
Identities = 160/219 (73%), Positives = 189/219 (86%)
Query: 40 MESSSSLRIGNIDSRGALVVLEGLDRCGKTSQCSRLLSYLEGLGHSVELWRFPDRTTSVG 99
S +++SRGAL+VLEGLDR GK++QC++L+S+L+GLG + ELWRFPDRTTSVG
Sbjct: 1 FFSMGMETESSVESRGALIVLEGLDRSGKSTQCAKLVSFLKGLGVAAELWRFPDRTTSVG 60
Query: 100 QMISAYLSNQSHLDDHTIHLLFSANRWEKRSMMEAKLKAGTTLIVDRYSYSGVAFSSAKG 159
QMISAYLSN+S LDD IHLLFSANRWEKRS+ME KLK+GTTL+VDRYSYSGVAFS+AKG
Sbjct: 61 QMISAYLSNKSQLDDRAIHLLFSANRWEKRSLMERKLKSGTTLVVDRYSYSGVAFSAAKG 120
Query: 160 IDIEWCKAPEIGLLAPDSVLYLDIPPEKAAERGGYGGERYEHLEFQRKVAQCYQMLRDSS 219
+D+EWCKAPE+GL APD VLYLDI PE+AAERGGYGGERYE LEFQ+KVA+ +Q LRDSS
Sbjct: 121 LDLEWCKAPEVGLPAPDLVLYLDISPEEAAERGGYGGERYEKLEFQKKVAKRFQTLRDSS 180
Query: 220 WKIIDACQSIEDVEKQLKEIVLDQVTACKKGKPFSLLWS 258
WKIIDA QSIE+VEK+++E+VLD V C GKP S LWS
Sbjct: 181 WKIIDASQSIEEVEKKIREVVLDTVQRCLAGKPLSRLWS 219
>gnl|CDD|216936 pfam02223, Thymidylate_kin, Thymidylate kinase.
Length = 186
Score = 159 bits (405), Expect = 5e-49
Identities = 65/186 (34%), Positives = 89/186 (47%), Gaps = 11/186 (5%)
Query: 60 LEGLDRCGKTSQCSRLLSYLEGLGHSVELWRFPDRTTSVGQMISAYLSNQSHLDDHTIHL 119
+EGLD GKT+Q L L+ G V L T +G+ I L L T L
Sbjct: 1 IEGLDGAGKTTQAELLKERLKEQGIKVVL-TREPGGTPIGEKIRELLLRNEELSPLTEAL 59
Query: 120 LFSANR-WEKRSMMEAKLKAGTTLIVDRYSYSGVAFSSAK---GIDIEWCKAPEIGLLAP 175
LF+A+R ++ LK G T+I DRY +S +A+ A G+D+ P++ P
Sbjct: 60 LFAADRIEHLEEKIKPALKQGKTVICDRYLFSSIAYQGAAGGLGLDLVLSLNPDVPGPKP 119
Query: 176 DSVLYLDIPPEKAAERGGYGGERY----EHLEFQRKVAQCYQML--RDSSWKIIDACQSI 229
D LD+ PE A +R GE E L+F RKV + Y L D IIDA SI
Sbjct: 120 DLTFLLDVDPEVALKRLRRRGELDEFEFEQLDFLRKVRERYLELAKDDERILIIDASNSI 179
Query: 230 EDVEKQ 235
E+V ++
Sbjct: 180 EEVHEE 185
>gnl|CDD|223203 COG0125, Tmk, Thymidylate kinase [Nucleotide transport and
metabolism].
Length = 208
Score = 153 bits (389), Expect = 2e-46
Identities = 70/202 (34%), Positives = 101/202 (50%), Gaps = 17/202 (8%)
Query: 54 RGALVVLEGLDRCGKTSQCSRLLSYLEGLGHSVELWRFPDRTTSVGQMISAYLSNQSH-L 112
+G +V+EG+D GKT+Q L LE G V L R P T +G+ I L N L
Sbjct: 2 KGMFIVIEGIDGAGKTTQAELLKERLEERGIKVVLTREPGG-TPIGEKIRELLLNGEEKL 60
Query: 113 DDHTIHLLFSANRWE--KRSMMEAKLKAGTTLIVDRYSYSGVAFSS-AKGIDIEWCKAPE 169
LLF+A+R + + + A LK G +I DRY S +A+ +G+D++W A
Sbjct: 61 SPKAEALLFAADRAQHLEEVIKPA-LKEGKVVICDRYVDSSLAYQGGGRGLDLDWVLALN 119
Query: 170 ---IGLLAPDSVLYLDIPPEKAAERGGYGGERYEHLE-----FQRKVAQCYQMLRD---S 218
G L PD LYLD+PPE A ER GE + E F KV + Y L
Sbjct: 120 EFAPGGLKPDLTLYLDVPPEVALERIRKRGELRDRFEKEDDEFLEKVREGYLELAAKFPE 179
Query: 219 SWKIIDACQSIEDVEKQLKEIV 240
+IDA + +E+V +++ +I+
Sbjct: 180 RIIVIDASRPLEEVHEEILKIL 201
>gnl|CDD|161676 TIGR00041, DTMP_kinase, thymidylate kinase. Function:
phosphorylation of DTMP to form DTDP in both de novo and
salvage pathways of DTTP synthesis. Catalytic activity:
ATP + thymidine 5'-phosphate = ADP + thymidine
5'-diphosphate [Purines, pyrimidines, nucleosides, and
nucleotides, Nucleotide and nucleoside
interconversions].
Length = 195
Score = 132 bits (335), Expect = 1e-38
Identities = 69/193 (35%), Positives = 97/193 (50%), Gaps = 13/193 (6%)
Query: 54 RGALVVLEGLDRCGKTSQCSRLLSYLEGLGHSVELWRFPDRTTSVGQMISAYLSNQ--SH 111
RG +V+EG+D GKT+Q + L L+ G+ V L+ T +G+ I L N+
Sbjct: 2 RGMFIVIEGIDGAGKTTQANLLKKLLQENGYDV-LFTREPGGTPIGEKIRELLLNENDEP 60
Query: 112 LDDHTIHLLFSANR-WEKRSMMEAKLKAGTTLIVDRYSYSGVAFSS-AKGIDIEWCKA-- 167
L D LLF+A+R ++ L G +I DRY +S +A+ A+GID +
Sbjct: 61 LTDKAEALLFAADRHEHLEDKIKPALAEGKLVISDRYVFSSIAYQGGARGIDEDLVLELN 120
Query: 168 PEIGLLAPDSVLYLDIPPEKAAERGGYGGE----RYEHLEFQRKVAQCYQMLRDSSWKI- 222
+ PD +YLDI PE A ER GE +E L+F KV Q Y L D I
Sbjct: 121 EDALGDMPDLTIYLDIDPEVALERLRKRGELDREEFEKLDFFEKVRQRYLELADKEKSIH 180
Query: 223 -IDACQSIEDVEK 234
IDA S+E+VE+
Sbjct: 181 VIDATNSVEEVEQ 193
>gnl|CDD|238835 cd01672, TMPK, Thymidine monophosphate kinase (TMPK), also known as
thymidylate kinase, catalyzes the phosphorylation of
thymidine monophosphate (TMP) to thymidine diphosphate
(TDP) utilizing ATP as its preferred phophoryl donor.
TMPK represents the rate-limiting step in either de novo
or salvage biosynthesis of thymidine triphosphate (TTP).
Length = 200
Score = 110 bits (278), Expect = 6e-30
Identities = 59/200 (29%), Positives = 90/200 (45%), Gaps = 15/200 (7%)
Query: 57 LVVLEGLDRCGKTSQCSRLLSYLEGLGHSVELWRFPDRTTSVGQMISAYLSNQSH--LDD 114
+V EG+D GKT+ L LE G+ V L R P T +G+ I L + +D
Sbjct: 2 FIVFEGIDGAGKTTLIELLAERLEARGYEVVLTREPG-GTPIGEAIRELLLDPEDEKMDP 60
Query: 115 HTIHLLFSANRWEK-RSMMEAKLKAGTTLIVDRYSYSGVAFSSA----KGIDIEWCKAPE 169
LLF+A+R + +++ L G ++ DR+ S +A+ A IE
Sbjct: 61 RAELLLFAADRAQHVEEVIKPALARGKIVLSDRFVDSSLAYQGAGRGLGEALIEALNDLA 120
Query: 170 IGLLAPDSVLYLDIPPEKAAER--GGYGGERY--EHLEFQRKVAQCYQML---RDSSWKI 222
G L PD + LDI PE R +R E LEF +V + Y L +
Sbjct: 121 TGGLKPDLTILLDIDPEVGLARIEARGRDDRDEQEGLEFHERVREGYLELAAQEPERIIV 180
Query: 223 IDACQSIEDVEKQLKEIVLD 242
IDA Q +E+V ++ + +L+
Sbjct: 181 IDASQPLEEVLAEILKAILE 200
>gnl|CDD|234814 PRK00698, tmk, thymidylate kinase; Validated.
Length = 205
Score = 108 bits (272), Expect = 6e-29
Identities = 64/204 (31%), Positives = 97/204 (47%), Gaps = 14/204 (6%)
Query: 54 RGALVVLEGLDRCGKTSQCSRLLSYLEGLGHSVELWRFPDRTTSVGQMI-SAYLSNQSHL 112
RG + +EG+D GK++Q L LE G V R P T +G+ + L +
Sbjct: 2 RGMFITIEGIDGAGKSTQIELLKELLEQQGRDVVFTREPG-GTPLGEKLRELLLDPNEEM 60
Query: 113 DDHTIHLLFSANRWEK-RSMMEAKLKAGTTLIVDRYSYSGVAFSSA-KGIDIEWCKAPE- 169
DD T LLF A R + +++ L G +I DR+ S +A+ +G+DI+ A
Sbjct: 61 DDKTELLLFYAARAQHLEEVIKPALARGKWVISDRFIDSSLAYQGGGRGLDIDLLLALND 120
Query: 170 --IGLLAPDSVLYLDIPPEKAAERGGYGGE--RYEH--LEFQRKVAQCYQML---RDSSW 220
+G PD LYLD+PPE R GE R E L+F +V + Y L
Sbjct: 121 FALGGFRPDLTLYLDVPPEVGLARIRARGELDRIEQEGLDFFERVREGYLELAEKEPERI 180
Query: 221 KIIDACQSIEDVEKQLKEIVLDQV 244
+IDA QS+E+V + + ++ +
Sbjct: 181 VVIDASQSLEEVHEDILAVIKAWL 204
>gnl|CDD|184430 PRK13975, PRK13975, thymidylate kinase; Provisional.
Length = 196
Score = 96.7 bits (241), Expect = 1e-24
Identities = 60/194 (30%), Positives = 92/194 (47%), Gaps = 17/194 (8%)
Query: 58 VVLEGLDRCGKTSQCSRLLSYLEGLGHSVELWRFPDRTTSVGQMISAYLSNQSHLDDHTI 117
+V EG+D GKT+Q L L W +G++I LS S D T+
Sbjct: 5 IVFEGIDGSGKTTQAKLLAEKLNAF------WTCEPTDGKIGKLIREILSG-SKCDKETL 57
Query: 118 HLLFSANRWEKRSMMEAKLKAGTTLIVDRYSYSGVAFSSAKGIDIEWCKAPEIGLLAPDS 177
LLF+A+R E +E LK ++ DRY YS +A+ S +GID ++ + PD
Sbjct: 58 ALLFAADRVEHVKEIEEDLKK-RDVVCDRYVYSSIAYQSVQGIDEDFIYSINRYAKKPDL 116
Query: 178 VLYLDIPPEKAAER-GGYGGERYEHLEFQRKVAQCYQMLRDSSWK-------IIDAC-QS 228
V LD+ E+A +R E +E EF +KV + Y L ++ +ID +S
Sbjct: 117 VFLLDVDIEEALKRMETRDKEIFEKKEFLKKVQEKYLELANNEKFMPKYGFIVIDTTNKS 176
Query: 229 IEDVEKQLKEIVLD 242
IE+V ++ + D
Sbjct: 177 IEEVFNEILNKIKD 190
>gnl|CDD|172477 PRK13974, PRK13974, thymidylate kinase; Provisional.
Length = 212
Score = 75.5 bits (186), Expect = 2e-16
Identities = 66/211 (31%), Positives = 111/211 (52%), Gaps = 28/211 (13%)
Query: 54 RGALVVLEGLDRCGKTSQCSRLLSYL--EGL---GHSVELWRFPDRTTSVGQMISAYLSN 108
+G +VLEG+D CGKT+Q L +L GL G + + R P T +G+ + L
Sbjct: 2 KGKFIVLEGIDGCGKTTQIDHLSKWLPSSGLMPKGAKLIITREPGGTL-LGKSLRELL-- 58
Query: 109 QSHLDDHTIH--------LLFSANRWEKRS-MMEAKLKAGTTLIVDRYSYSGVAFSS-AK 158
LD + LL++A+R + S ++ L+ G +I DR+S S +A+ +
Sbjct: 59 ---LDTSKDNSPSPLAELLLYAADRAQHVSKIIRPALENGDWVISDRFSGSTLAYQGYGR 115
Query: 159 GIDIEWCKAPE-IGL--LAPDSVLYLDIPPEKA-AERGGYGGERYEH--LEFQRKVAQCY 212
G+D+E K E I L+PD +L+I E++ R +R E +EF +VA+ +
Sbjct: 116 GLDLELIKNLESIATQGLSPDLTFFLEISVEESIRRRKNRKPDRIEAEGIEFLERVAEGF 175
Query: 213 QML-RDSSWKIIDACQSIEDVEKQLKEIVLD 242
++ + +WK+I A QSIE + ++KE +L+
Sbjct: 176 ALIAEERNWKVISADQSIETISNEIKETLLN 206
>gnl|CDD|236133 PRK07933, PRK07933, thymidylate kinase; Validated.
Length = 213
Score = 64.6 bits (158), Expect = 1e-12
Identities = 54/186 (29%), Positives = 78/186 (41%), Gaps = 22/186 (11%)
Query: 57 LVVLEGLDRCGKTSQCSRLLSYLEGLGHSVELWRFPDRTTSVGQMISAYLSNQSHLD-DH 115
L+ +EG+D GK + L + LE G SV FP SV ++A + H D
Sbjct: 2 LIAIEGVDGAGKRTLTEALRAALEARGRSVATLAFPRYGRSVHADLAAEALHGRHGDLAD 61
Query: 116 TIH---LLFSANRWEKRSMMEAKLKAGTTLIVDRYSYSGVAFSSAK------GIDIEWCK 166
+++ LF+ +R R + L A +I+DRY S A+S+A+ G + W
Sbjct: 62 SVYAMATLFALDRAGARDELAGLLAAHDVVILDRYVASNAAYSAARLHQDADGEAVAWVA 121
Query: 167 APEIGLL---APDSVLYLDIPPEKAAERGGYGGE--------RYEH-LEFQRKVAQCYQM 214
E G L PD + LD+P E AAER YE Q++ Y
Sbjct: 122 ELEFGRLGLPVPDLQVLLDVPVELAAERARRRAAQDADRARDAYERDDGLQQRTGAVYAE 181
Query: 215 LRDSSW 220
L W
Sbjct: 182 LAAQGW 187
>gnl|CDD|237574 PRK13976, PRK13976, thymidylate kinase; Provisional.
Length = 209
Score = 59.7 bits (145), Expect = 7e-11
Identities = 62/213 (29%), Positives = 91/213 (42%), Gaps = 28/213 (13%)
Query: 58 VVLEGLDRCGKTSQCSRLLSYLEGL--GHSVELWRFPDRTTSVGQMISAYLSNQSHLDDH 115
+ EG+D GKT+Q L YL + ++V L R P TS +++ L + +LD
Sbjct: 3 ITFEGIDGSGKTTQSRLLAEYLSDIYGENNVVLTREPG-GTSFNELVRGLLLSLKNLDKI 61
Query: 116 TIHLLFSANRWEKRSMME---AKLKAGTTLIVDRYSYSGVAFSS-AKGIDIEWCKAPEIG 171
+ LLF A R E ++ L G +I DR+ S +A+ G+D+ I
Sbjct: 62 SELLLFIAMRRE--HFVKVILPALLQGKIVICDRFIDSTIAYQGYGCGVDLSL-----IR 114
Query: 172 LL-------APDSVLYLDIPPEKAAERGGYGGERYEHLEFQRKVAQCYQML------RDS 218
L PD LDI E + R G + LEF KV + ++ + R
Sbjct: 115 DLNDLVVDKYPDITFVLDIDIELSLSRADKNGYEFMDLEFYDKVRKGFREIVIKNPHRCH 174
Query: 219 SWKIIDACQSIEDVEKQLKEIVLDQVTACKKGK 251
IDA +IED+ EIV + A K K
Sbjct: 175 VITCIDAKDNIEDINSVHLEIV-KLLHAVTKDK 206
>gnl|CDD|184429 PRK13973, PRK13973, thymidylate kinase; Provisional.
Length = 213
Score = 59.2 bits (144), Expect = 1e-10
Identities = 56/203 (27%), Positives = 86/203 (42%), Gaps = 16/203 (7%)
Query: 54 RGALVVLEGLDRCGKTSQCSRLLSYLEGLGHSVELWRFPDRTTSVGQMISAYLSNQSHLD 113
RG + EG + GK++Q L L G+ V + R P + + LS + L
Sbjct: 2 RGRFITFEGGEGAGKSTQIRLLAERLRAAGYDVLVTREPGGSPGAEAIRHVLLSGAAELY 61
Query: 114 DHTIH-LLFSANRWEK-RSMMEAKLKAGTTLIVDRYSYSGVAFSSAKG-IDIEWCKAPE- 169
+ LLF+A R + ++ L G ++ DR+ S A+ G +D A E
Sbjct: 62 GPRMEALLFAAARDDHVEEVIRPALARGKIVLCDRFIDSTRAYQGVTGNVDPALLAALER 121
Query: 170 --IGLLAPDSVLYLDIPPE----KAAERGGYGG-ERYE--HLEFQRKVAQCYQMLRDSS- 219
I + PD L LDIP E +AA+R G +R+E L F K + + +
Sbjct: 122 VAINGVMPDLTLILDIPAEVGLERAAKRRGSDTPDRFEKEDLAFHEKRREAFLQIAAQEP 181
Query: 220 --WKIIDACQSIEDVEKQLKEIV 240
+IDA S E V ++ V
Sbjct: 182 ERCVVIDATASPEAVAAEIWAAV 204
>gnl|CDD|237215 PRK12815, carB, carbamoyl phosphate synthase large subunit;
Reviewed.
Length = 1068
Score = 29.6 bits (67), Expect = 2.1
Identities = 10/14 (71%), Positives = 11/14 (78%)
Query: 212 YQMLRDSSWKIIDA 225
YQMLR +S KII A
Sbjct: 261 YQMLRSASLKIISA 274
>gnl|CDD|235393 PRK05294, carB, carbamoyl phosphate synthase large subunit;
Reviewed.
Length = 1066
Score = 28.9 bits (66), Expect = 3.2
Identities = 9/14 (64%), Positives = 10/14 (71%)
Query: 212 YQMLRDSSWKIIDA 225
YQMLRD+S II
Sbjct: 261 YQMLRDASIAIIRE 274
>gnl|CDD|227910 COG5623, CLP1, Predicted GTPase subunit of the pre-mRNA cleavage
complex [Translation, ribosomal structure and
biogenesis].
Length = 424
Score = 28.8 bits (64), Expect = 3.5
Identities = 15/43 (34%), Positives = 21/43 (48%), Gaps = 1/43 (2%)
Query: 44 SSLRIGNIDSRGALVVLEGLDRCGKTSQCSRLLSYLEGLGHSV 86
R+ N +G V++ G + GKTS C L+SY LG
Sbjct: 89 EKRRMFN-YEKGPTVMVVGGSQNGKTSFCFTLISYALKLGKKP 130
>gnl|CDD|238836 cd01673, dNK, Deoxyribonucleoside kinase (dNK) catalyzes the
phosphorylation of deoxyribonucleosides to yield
corresponding monophosphates (dNMPs). This family
consists of various deoxynucleoside kinases including
deoxyribo- cytidine (EC 2.7.1.74), guanosine (EC
2.7.1.113), adenosine (EC 2.7.1.76), and thymidine (EC
2.7.1.21) kinases. They are key enzymes in the salvage
of deoxyribonucleosides originating from extra- or
intracellular breakdown of DNA.
Length = 193
Score = 28.0 bits (63), Expect = 4.5
Identities = 11/20 (55%), Positives = 13/20 (65%)
Query: 172 LLAPDSVLYLDIPPEKAAER 191
LL PD V+YLD PE +R
Sbjct: 122 LLPPDLVIYLDASPETCLKR 141
>gnl|CDD|180682 PRK06761, PRK06761, hypothetical protein; Provisional.
Length = 282
Score = 27.8 bits (62), Expect = 5.6
Identities = 13/52 (25%), Positives = 21/52 (40%)
Query: 57 LVVLEGLDRCGKTSQCSRLLSYLEGLGHSVELWRFPDRTTSVGQMISAYLSN 108
L+++EGL GK++ L L G VEL+ + A +
Sbjct: 5 LIIIEGLPGFGKSTTAKMLNDILSQNGIEVELYLEGNLDHPADYDGVACFTK 56
>gnl|CDD|217893 pfam04101, Glyco_tran_28_C, Glycosyltransferase family 28
C-terminal domain. The glycosyltransferase family 28
includes monogalactosyldiacylglycerol synthase (EC
2.4.1.46) and UDP-N-acetylglucosamine transferase (EC
2.4.1.-). Structural analysis suggests the C-terminal
domain contains the UDP-GlcNAc binding site.
Length = 167
Score = 27.3 bits (61), Expect = 6.7
Identities = 7/51 (13%), Positives = 18/51 (35%), Gaps = 10/51 (19%)
Query: 193 GYGGERYEH-LEFQRKVAQCYQMLRDSSWKIIDACQSIEDVEKQLKEIVLD 242
G + + LE + A ++ + E + + L +++L
Sbjct: 103 AAGEHQDNNALELVKAGAALV---------LLQKELTPEKLVEALLKLLLK 144
>gnl|CDD|184957 PRK14995, PRK14995, methyl viologen resistance protein SmvA;
Provisional.
Length = 495
Score = 27.8 bits (62), Expect = 7.1
Identities = 13/32 (40%), Positives = 14/32 (43%)
Query: 169 EIGLLAPDSVLYLDIPPEKAAERGGYGGERYE 200
LLA S + PPEKAA G YE
Sbjct: 366 ASALLASTSAIMAAAPPEKAAAAGAIETMAYE 397
>gnl|CDD|133455 cd05313, NAD_bind_2_Glu_DH, NAD(P) binding domain of glutamate
dehydrogenase, subgroup 2. Amino acid dehydrogenase
(DH) is a widely distributed family of enzymes that
catalyzes the oxidative deamination of an amino acid to
its keto acid and ammonia with concomitant reduction of
NADP+. Glutamate DH is a multidomain enzyme that
catalyzes the reaction from glutamate to 2-oxyoglutarate
and ammonia in the presence of NAD or NADP. It is
present in all organisms. Enzymes involved in ammonia
asimilation are typically NADP+-dependent, while those
involved in glutamate catabolism are generally
NAD+-dependent. Amino acid DH-like NAD(P)-binding
domains are members of the Rossmann fold superfamily and
include glutamate, leucine, and phenylalanine DHs,
methylene tetrahydrofolate DH,
methylene-tetrahydromethanopterin DH,
methylene-tetrahydropholate DH/cyclohydrolase, Shikimate
DH-like proteins, malate oxidoreductases, and glutamyl
tRNA reductase. Amino acid DHs catalyze the deamination
of amino acids to keto acids with NAD(P)+ as a cofactor.
The NAD(P)-binding Rossmann fold superfamily includes a
wide variety of protein families including NAD(P)-
binding domains of alcohol DHs, tyrosine-dependent
oxidoreductases, glyceraldehyde-3-phosphate DH,
lactate/malate DHs, formate/glycerate DHs, siroheme
synthases, 6-phosphogluconate DH, amino acid DHs,
repressor rex, NAD-binding potassium channel domain,
CoA-binding, and ornithine cyclodeaminase-like domains.
These domains have an alpha -beta-alpha configuration.
NAD binding involves numerous hydrogen and van der Waals
contacts.
Length = 254
Score = 27.6 bits (62), Expect = 7.2
Identities = 24/79 (30%), Positives = 35/79 (44%), Gaps = 26/79 (32%)
Query: 185 PEKAAERGGY--GGERYEHLEFQRKVAQCYQMLRDSSWKIIDACQSIEDVEKQLKEIVLD 242
P KAA GG G LE ++Q Q L SW + E+V+ +LK+I+ +
Sbjct: 175 PGKAANAGGVAVSG-----LE----MSQNSQRL---SW-------TAEEVDAKLKDIMKN 215
Query: 243 QVTACKK-----GKPFSLL 256
AC + G P L+
Sbjct: 216 IHDACAETAKKYGDPPDLV 234
>gnl|CDD|233379 TIGR01369, CPSaseII_lrg, carbamoyl-phosphate synthase, large
subunit. Carbamoyl-phosphate synthase (CPSase)
catalyzes the first committed step in pyrimidine,
arginine, and urea biosynthesis. In general, it is a
glutamine-dependent enzyme, EC 6.3.5.5, termed CPSase II
in eukaryotes. An exception is the mammalian
mitochondrial urea-cycle form, CPSase I, in which the
glutamine amidotransferase domain active site Cys on the
small subunit has been lost, and the enzyme is
ammonia-dependent. In both CPSase I and the closely
related, glutamine-dependent CPSase III (allosterically
activated by acetyl-glutamate) demonstrated in some
other vertebrates, the small and large chain regions are
fused in a single polypeptide chain. This model
represents the large chain of glutamine-hydrolysing
carbamoyl-phosphate synthases, or the corresponding
regions of larger, multifunctional proteins, as found in
all domains of life, and CPSase I forms are considered
exceptions within the family. In several thermophilic
species (Methanobacterium thermoautotrophicum,
Methanococcus jannaschii, Aquifex aeolicus), the large
subunit appears split, at different points, into two
separate genes [Purines, pyrimidines, nucleosides, and
nucleotides, Pyrimidine ribonucleotide biosynthesis].
Length = 1050
Score = 27.7 bits (62), Expect = 8.7
Identities = 10/12 (83%), Positives = 11/12 (91%)
Query: 212 YQMLRDSSWKII 223
YQMLRD+S KII
Sbjct: 260 YQMLRDASIKII 271
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
0.321 0.135 0.416
Gapped
Lambda K H
0.267 0.0719 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 12,867,816
Number of extensions: 1178600
Number of successful extensions: 1085
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1051
Number of HSP's successfully gapped: 21
Length of query: 259
Length of database: 10,937,602
Length adjustment: 95
Effective length of query: 164
Effective length of database: 6,723,972
Effective search space: 1102731408
Effective search space used: 1102731408
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 (21.9 bits)
S2: 58 (26.1 bits)