RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy9406
(312 letters)
>gnl|CDD|224936 COG2025, FixB, Electron transfer flavoprotein, alpha subunit
[Energy production and conversion].
Length = 313
Score = 328 bits (842), Expect = e-112
Identities = 150/317 (47%), Positives = 195/317 (61%), Gaps = 11/317 (3%)
Query: 1 MPALVIAEHDNSYLKTSTLNTITAATLCSDEIHILIIGYNIEKVILDAKKVNNIKKILLV 60
M LV+AEHD L +L +TAA D + ++IG A K K+L+
Sbjct: 1 MKVLVVAEHDGGRLSPVSLELLTAARKLGD-VAAVVIGEGAAA----AAKAYGADKVLVA 55
Query: 61 DSLYFSNNLPENIAAQISVIASNY--SHILAPATIYGKNILPRVAALLNVMQISEIT--K 116
+ +N LPE A + +A Y +L PAT GK + PRVAA L+V I+++T
Sbjct: 56 EGPELANYLPEPYADALVDLAKKYKPDVVLLPATTNGKELAPRVAARLDVGLIADVTSLD 115
Query: 117 VCNPSTFERPIYSGRIIATVQST-DIIKVITVRATNFISAKKEGNKAIIHIISKINYFSN 175
V + TF RPIY G IATV S VITVR F +A ++ +
Sbjct: 116 VGDGLTFTRPIYGGNAIATVISPSGRPAVITVRPGVFAAAAAALGGSVETEKVVAP-ANA 174
Query: 176 TASIFISRELIKSKRPELTSAKIVVAGGRGLGSSKNFKILEGLADKLNAAIGASRAAVDA 235
A + L KS R +L AKIVV+GGRGLGS +NFK+LE LAD L AA+GASR AVDA
Sbjct: 175 IAVVSTGFSLKKSGRVDLAEAKIVVSGGRGLGSKENFKLLEELADVLGAAVGASRPAVDA 234
Query: 236 GYISNNLQIGQTGKIVAPQLYIAIGISGAIQHLSGMKDSKIIVAINQDEDAPIFDISDYG 295
G++ N+ Q+GQTGK VAP+LYIA+GISGAIQHL+GMKDSK+IVAIN+D +APIF ++DYG
Sbjct: 235 GWMPNDRQVGQTGKTVAPKLYIALGISGAIQHLAGMKDSKVIVAINKDPNAPIFQVADYG 294
Query: 296 LVGDLFEIIPKFIKYLN 312
+VGDLF+I+P I+ L
Sbjct: 295 IVGDLFKIVPALIEALK 311
>gnl|CDD|215032 PLN00022, PLN00022, electron transfer flavoprotein subunit alpha;
Provisional.
Length = 356
Score = 318 bits (816), Expect = e-108
Identities = 148/324 (45%), Positives = 215/324 (66%), Gaps = 15/324 (4%)
Query: 3 ALVIAEHDNSYLKTSTLNTITAAT---LCSDEIHILIIGYNI---EKVILDAKKVNNIKK 56
LV+AEH+ +K +L+ + AA S I +L+ G + A ++ +
Sbjct: 29 TLVVAEHEGGSVKPQSLSAVAAAKSLLGESSPISLLLAGSGPSLQQAASHAASSHPSVSE 88
Query: 57 ILLVDSLYFSNNLPENIAAQISVIAS--NYSHILAPATIYGKNILPRVAALLNVMQISEI 114
+L+ DS ++ L E A + + YSHILA +T +GKN+LPR AALL+V I+++
Sbjct: 89 VLVADSDKLTHPLAEPWAKLVVLAQQKGGYSHILAASTSFGKNVLPRAAALLDVSPITDV 148
Query: 115 TKVCNPSTFERPIYSGRIIATVQSTDI-IKVITVRATNF----ISAKKEGNKAIIHII-- 167
++ + +TF RPIY+G +ATV+ ++++R T+F A E N+A I +
Sbjct: 149 VRILDSNTFVRPIYAGNALATVRYKGSGPCMLSIRPTSFPVTPALANSESNEAPISQVDL 208
Query: 168 SKINYFSNTASIFISRELIKSKRPELTSAKIVVAGGRGLGSSKNFKILEGLADKLNAAIG 227
S ++ S S ++ + ++RP+L SAK+VV GGRGL S++NFK+LE LADKL A+G
Sbjct: 209 SLLDEDSVGKSRWVGLSVQDTERPDLGSAKVVVTGGRGLKSAENFKMLEKLADKLGGAVG 268
Query: 228 ASRAAVDAGYISNNLQIGQTGKIVAPQLYIAIGISGAIQHLSGMKDSKIIVAINQDEDAP 287
ASRAAVDAG++ N+LQ+GQTGKIVAP+LYIA+GISGAIQHL+GMKDSK+IVAIN+D DAP
Sbjct: 269 ASRAAVDAGFVPNDLQVGQTGKIVAPELYIAVGISGAIQHLAGMKDSKVIVAINKDADAP 328
Query: 288 IFDISDYGLVGDLFEIIPKFIKYL 311
IF ++DYGLV DLFE +P+ ++ L
Sbjct: 329 IFQVADYGLVADLFEAVPELLEKL 352
>gnl|CDD|238848 cd01715, ETF_alpha, The electron transfer flavoprotein (ETF) serves
as a specific electron acceptor for various
mitochondrial dehydrogenases. ETF transfers electrons to
the main respiratory chain via ETF-ubiquinone
oxidoreductase. ETF is an heterodimer that consists of
an alpha and a beta subunit which binds one molecule of
FAD per dimer . A similar system also exists in some
bacteria. The homologous pair of proteins (FixA/FixB)
are essential for nitrogen fixation. The alpha subunit
of ETF is structurally related to the bacterial nitrogen
fixation protein fixB which could play a role in a redox
process and feed electrons to ferredoxin.
Length = 168
Score = 158 bits (403), Expect = 3e-48
Identities = 66/163 (40%), Positives = 92/163 (56%), Gaps = 3/163 (1%)
Query: 4 LVIAEHDNSYLKTSTLNTITAATLCSDEIHILIIGYNIEKVILDAKKVNNIKKILLVDSL 63
LV+AEH N L+ TL +TAA E+ L+IG E V A K K+L+ +
Sbjct: 3 LVLAEHRNGELRELTLEAVTAARKLGGEVTALVIGSGAEAVA-AALKAYGADKVLVAEDP 61
Query: 64 YFSNNLPENIAAQISVIA--SNYSHILAPATIYGKNILPRVAALLNVMQISEITKVCNPS 121
++ L E A + +A SHILA AT +GK++ PRVAA L+V IS++T + +
Sbjct: 62 ALAHYLAEPYAPALVALAKKEKPSHILAGATSFGKDLAPRVAAKLDVGLISDVTALEDDL 121
Query: 122 TFERPIYSGRIIATVQSTDIIKVITVRATNFISAKKEGNKAII 164
TF RPIY+G +ATV+S D KV TVR F +A G A++
Sbjct: 122 TFTRPIYAGNALATVKSPDRPKVATVRPGAFPAAAAGGGSAVV 164
>gnl|CDD|189709 pfam00766, ETF_alpha, Electron transfer flavoprotein FAD-binding
domain. This domain found at the C-terminus of electron
transfer flavoprotein alpha chain and binds to FAD. The
fold consists of a five-stranded parallel beta sheet as
the core of the domain, flanked by alternating helices.
A small part of this domain is donated by the beta
chain.
Length = 86
Score = 155 bits (395), Expect = 3e-48
Identities = 59/86 (68%), Positives = 72/86 (83%)
Query: 190 RPELTSAKIVVAGGRGLGSSKNFKILEGLADKLNAAIGASRAAVDAGYISNNLQIGQTGK 249
R +L+ AK+VV+GGRGLGS +NFK+LE LAD L A +GASR AVDAG+I + Q+GQTGK
Sbjct: 1 RVDLSEAKVVVSGGRGLGSKENFKLLEELADVLGAEVGASRPAVDAGWIDADRQVGQTGK 60
Query: 250 IVAPQLYIAIGISGAIQHLSGMKDSK 275
V P+LYIA+GISGAIQHL+GMKDS
Sbjct: 61 TVRPKLYIAVGISGAIQHLAGMKDSD 86
>gnl|CDD|238943 cd01985, ETF, The electron transfer flavoprotein (ETF) serves as a
specific electron acceptor for various mitochondrial
dehydrogenases. ETF transfers electrons to the main
respiratory chain via ETF-ubiquinone oxidoreductase. ETF
is an heterodimer that consists of an alpha and a beta
subunit which binds one molecule of FAD per dimer . A
similar system also exists in some bacteria. The
homologous pair of proteins (FixA/FixB) are essential
for nitrogen fixation. The alpha subunit of ETF is
structurally related to the bacterial nitrogen fixation
protein fixB which could play a role in a redox process
and feed electrons to ferredoxin. The beta subunit
protein is distantly related to and forms a heterodimer
with the alpha subunit.
Length = 181
Score = 114 bits (288), Expect = 4e-31
Identities = 57/161 (35%), Positives = 77/161 (47%), Gaps = 12/161 (7%)
Query: 4 LVIAEHDNSY----LKTSTLNTITAATLCSD---EIHILIIGYNIEKVILDAKKVNNIKK 56
LV+ EH L L + AA + E+ L+IG +V L K
Sbjct: 3 LVLVEHVPDTAELVLNPLDLEAVEAALRLKEYGGEVTALVIGPPAAEVALREALAMGADK 62
Query: 57 ILLVDSLYFSNNLPENIAAQISVIAS--NYSHILAPATIYGKNILPRVAALLNVMQISEI 114
+LLV+ + PE A ++ + ILA AT GK + PRVAALL V QIS++
Sbjct: 63 VLLVEDPALAGYDPEATAKALAALIKKEKPDLILAGATSIGKQLAPRVAALLGVPQISDV 122
Query: 115 TKV---CNPSTFERPIYSGRIIATVQSTDIIKVITVRATNF 152
TK+ T RPIY+G + TV+S D+ VITVR F
Sbjct: 123 TKLEIDGGDLTVTRPIYAGNGLETVESPDLPAVITVRPGAF 163
>gnl|CDD|183380 PRK11916, PRK11916, electron transfer flavoprotein subunit YdiR;
Provisional.
Length = 312
Score = 108 bits (272), Expect = 1e-27
Identities = 75/248 (30%), Positives = 125/248 (50%), Gaps = 9/248 (3%)
Query: 71 ENIAAQISVIASNY--SHILAPATIYGKNILPRVAALLNVMQISEIT--KVCNPSTF-ER 125
EN A I+ + + + +L AT GK + R++ LN +++ T + + E
Sbjct: 65 ENYAESIAALLKDKHPAMLLLAATKRGKALAARLSVQLNAALVNDATAVDIVDGHICAEH 124
Query: 126 PIYSGRIIATVQSTDIIKVITVRATNFISAKKEGNKAIIHIISKINYFSNTASIFISREL 185
+Y G A + + +IT+ + + + Y + I
Sbjct: 125 RMYGGLAFAQEKINSPLAIITLAPGVQEPCTS--DTSHQCPTETVPYVAPRHEILCRERR 182
Query: 186 IKS-KRPELTSAKIVVAGGRGLGSSKNFKILEGLADKLNAAIGASRA-AVDAGYISNNLQ 243
K+ +L+ AK VV GRGL + + K++ LA LNA +G SR A ++
Sbjct: 183 AKAASSVDLSKAKRVVGVGRGLAAQDDLKMVHELAAVLNAEVGCSRPIAEGENWMERERY 242
Query: 244 IGQTGKIVAPQLYIAIGISGAIQHLSGMKDSKIIVAINQDEDAPIFDISDYGLVGDLFEI 303
IG +G ++ LY+ +GISG IQH+ G +K+IVAIN+D++APIF+ +DYGLVGD++++
Sbjct: 243 IGVSGVLLKSDLYLTLGISGQIQHMVGGNGAKVIVAINKDKNAPIFNYADYGLVGDIYKV 302
Query: 304 IPKFIKYL 311
+P I L
Sbjct: 303 VPALISQL 310
>gnl|CDD|216243 pfam01012, ETF, Electron transfer flavoprotein domain. This family
includes the homologous domain shared between the alpha
and beta subunits of the electron transfer flavoprotein.
Length = 160
Score = 101 bits (254), Expect = 2e-26
Identities = 50/158 (31%), Positives = 75/158 (47%), Gaps = 11/158 (6%)
Query: 4 LVIAEHDNSYLKTSTLNTITAATLCSD----EIHILIIGYNIEKVILDAKKVNNIKKILL 59
LV+AEH N L L + AA ++ E+ +++G +E K+ L
Sbjct: 3 LVVAEHGNGKLNPVDLEALEAARRLAEALGGEVTAVVVG-PVEAAAEALLAAMGADKVYL 61
Query: 60 VDSLYFSNNLPENIAAQIS--VIASNYSHILAPATIYGKNILPRVAALLNVMQISEITKV 117
V+ + PE AA ++ + +LA AT GK++ PR+AALL I+++T +
Sbjct: 62 VEDPALAGYDPEAYAAALAALIKKEGPDLVLAGATSIGKDLAPRLAALLGAPLITDVTAL 121
Query: 118 ---CNPSTFERPIYSGRIIATVQSTDIIKVITVRATNF 152
T RPIY G IATV+ D V+TVR F
Sbjct: 122 EVEGGKLTVTRPIYGGNAIATVKLPD-PAVLTVRPGAF 158
>gnl|CDD|235120 PRK03363, fixB, putative electron transfer flavoprotein FixB;
Provisional.
Length = 313
Score = 103 bits (259), Expect = 1e-25
Identities = 68/229 (29%), Positives = 120/229 (52%), Gaps = 17/229 (7%)
Query: 87 ILAPATIYGKNILPRV-----AALLNVMQISEITKVCNPSTFERPIYSGRIIATVQSTDI 141
+L P T GK + ++ AA+ N S ++ +T + +Y G I +
Sbjct: 84 VLLPNTRRGKLLAAKLGYRLKAAVSN--DASTVSVQDGKATVKHMVYGGLAIGEERIATP 141
Query: 142 IKVITVRATNFISAK----KEGNKAIIHIISKINYFSNTASIFISRELIKSKRPELTSAK 197
V+T+ + F +A+ + G + + + TA+ + +S +L A+
Sbjct: 142 YAVLTISSGTFDAAQPDASRTGETHTVEWQAPAVAITRTAT-----QARQSNSVDLDKAR 196
Query: 198 IVVAGGRGLGSSKNFKILEGLADKLNAAIGASR-AAVDAGYISNNLQIGQTGKIVAPQLY 256
+VV+ GRG+GS +N + E L + A + SR A + ++ + +G + ++ P+LY
Sbjct: 197 LVVSVGRGIGSKENIALAEQLCKAIGAELACSRPVAENEKWMEHERYVGISNLMLKPELY 256
Query: 257 IAIGISGAIQHLSGMKDSKIIVAINQDEDAPIFDISDYGLVGDLFEIIP 305
+A+GISG IQH+ G S+ I AIN+D++APIF +DYG+VGD +I+P
Sbjct: 257 LAVGISGQIQHMVGANASQTIFAINKDKNAPIFQYADYGIVGDAVKILP 305
>gnl|CDD|214890 smart00893, ETF, Electron transfer flavoprotein domain. Electron
transfer flavoproteins (ETFs) serve as specific electron
acceptors for primary dehydrogenases, transferring the
electrons to terminal respiratory systems. They can be
functionally classified into constitutive,
"housekeeping" ETFs, mainly involved in the oxidation of
fatty acids (Group I), and ETFs produced by some
prokaryotes under specific growth conditions, receiving
electrons only from the oxidation of specific substrates
(Group II). ETFs are heterodimeric proteins composed of
an alpha and beta subunit, and contain an FAD cofactor
and AMP. ETF consists of three domains: domains I and II
are formed by the N- and C-terminal portions of the
alpha subunit, respectively, while domain III is formed
by the beta subunit. Domains I and III share an almost
identical alpha-beta-alpha sandwich fold, while domain
II forms an alpha-beta-alpha sandwich similar to that of
bacterial flavodoxins. FAD is bound in a cleft between
domains II and III, while domain III binds the AMP
molecule. Interactions between domains I and III
stabilise the protein, forming a shallow bowl where
domain II resides. This entry represents the N-terminal
domain of both the alpha and beta subunits from Group I
and Group II ETFs.
Length = 185
Score = 98.5 bits (246), Expect = 7e-25
Identities = 51/169 (30%), Positives = 77/169 (45%), Gaps = 8/169 (4%)
Query: 7 AEHDNSYLKT-STLNTITAATLCSD--EIHILIIGYNIEKVILDAKKVNNIKKILLVDSL 63
AEH L L + AA + E+ +++G + L K+ LVD
Sbjct: 1 AEHGVGALINPVDLEALEAARRLKEKGEVTAVVVGPPAAEEALREALAMGADKVYLVDDD 60
Query: 64 YFSNNLPENIAAQIS---VIASNYSHILAPATIYGKNILPRVAALLNVMQISEITKV-CN 119
+ A+ + +LA AT GK + PR+AALL V QI+++TK+ +
Sbjct: 61 ALAGYDTLATLAEALAALIKEEKPDLVLAGATSDGKQLAPRLAALLGVPQITDVTKLEVD 120
Query: 120 PSTFERPIYSGRIIATVQ-STDIIKVITVRATNFISAKKEGNKAIIHII 167
TF R IY G IAT D+ VITVR F A ++G +++ I+
Sbjct: 121 GDTFVRRIYGGGAIATEVVEADLPAVITVRPGAFEPAPRDGYPSLVEIM 169
>gnl|CDD|187693 cd07180, RNase_HII_Archaea_like, Archaeal ribonuclease HII.
Ribonuclease (RNase) H is classified into two families,
type I (prokaryotic RNase HI, eukaryotic RNase H1 and
viral RNase H) and type II (prokaryotic RNase HII and
HIII, archaeal RNase HII and eukaryotic RNase H2/HII).
RNase H endonucleolytically hydrolyzes an RNA strand
when it is annealed to a complementary DNA strand in the
presence of divalent cations, in DNA replication or
repair. Some archaeal RNase HII show broad divalent
cation specificity. It is proposed that three of the
four acidic residues at the active site are involved in
metal binding and the fourth one involved in the
catalytic process in archaea. Most archaeal genomes
contain multiple RNase H genes. Despite a lack of
evidence for homology from sequence comparisons, type I
and type II RNase H share a common fold and similar
steric configurations of the four acidic active-site
residues, suggesting identical or very similar catalytic
mechanisms. It appears that type I and type II RNases H
also have overlapping functions in cells, as
over-expression of Escherichia coli RNase HII can
complement an RNase HI deletion phenotype in E. coli.
Length = 204
Score = 30.3 bits (69), Expect = 0.96
Identities = 17/75 (22%), Positives = 27/75 (36%), Gaps = 12/75 (16%)
Query: 7 AEHDNSYLKTSTLNTITAATLCSDEIHILIIGYNIEKVILDAKKVNNIKKILLVDSLYFS 66
E + + LN + E+ I + E V +DA VN + F+
Sbjct: 67 PEEIDERRERGNLNELEVEAFA--EL-INRLKLKPEIVYVDACDVNEER---------FA 114
Query: 67 NNLPENIAAQISVIA 81
L E + + VIA
Sbjct: 115 ERLRERLNTGVEVIA 129
>gnl|CDD|239783 cd04250, AAK_NAGK-C, AAK_NAGK-C: N-Acetyl-L-glutamate kinase -
cyclic (NAGK-C) catalyzes the phosphorylation of the
gamma-COOH group of N-acetyl-L-glutamate (NAG) by ATP in
the second step of arginine biosynthesis found in some
bacteria and photosynthetic organisms using the
non-acetylated, cyclic route of ornithine biosynthesis.
In this pathway, glutamate is first N-acetylated and
then phosphorylated by NAGK to give phosphoryl NAG,
which is converted to NAG-ornithine. There are two
variants of this pathway. In one, typified by the
pathway in Thermotoga maritima and Pseudomonas
aeruginosa, the acetyl group is recycled by reversible
transacetylation from acetylornithine to glutamate. The
phosphorylation of NAG by NAGK is feedback inhibited by
arginine. In photosynthetic organisms, NAGK is the
target of the nitrogen-signaling protein PII. Hexameric
formation of NAGK domains appears to be essential to
both arginine inhibition and NAGK-PII complex formation.
NAGK-C are members of the Amino Acid Kinase Superfamily
(AAK).
Length = 279
Score = 29.8 bits (68), Expect = 1.7
Identities = 17/54 (31%), Positives = 29/54 (53%), Gaps = 9/54 (16%)
Query: 258 AIGISGAIQHLSGMKDSKIIVAINQDEDAPIFDISDYGLVGDLFEIIPKFIKYL 311
A+G+SG KD +I A + + I +I D G VG++ E+ P+ ++ L
Sbjct: 110 AVGLSG--------KDGNLIKA-KKKDATVIEEIIDLGFVGEVTEVNPELLETL 154
>gnl|CDD|188553 TIGR04038, tatD_link_rSAM, radical SAM protein, TatD
family-associated. Members of this family are radical
SAM proteins found in about 5 percent of microbial
genomes. A portion occur as gene fusions with, or
adjacent to, members of the TatD family of hydrolases
(pfam01026). The TatD family may have several paralogs
per genome, including TatD itself from E. coli (a
soluble protein not actually part of the twin-arginine
translocation complex), which appears to act in quality
control for TAT, directing turnover of misfolded TAT
substrates. The functions of TatD family hydrolases in
general (other than TatD itself, which may be
exceptional within its larger family), and of this
radical SAM domain protein modeled here, are unknown.
Length = 191
Score = 29.5 bits (67), Expect = 1.7
Identities = 11/35 (31%), Positives = 19/35 (54%), Gaps = 7/35 (20%)
Query: 93 IYGKNILPRVAALLNVMQIS-------EITKVCNP 120
+G+NILP +A L++ + IS ++C P
Sbjct: 102 FHGRNILPELAGLVDALSISLNAQDAETYQRICRP 136
>gnl|CDD|236625 PRK09783, PRK09783, copper/silver efflux system membrane fusion
protein CusB; Provisional.
Length = 409
Score = 28.7 bits (64), Expect = 4.7
Identities = 23/83 (27%), Positives = 39/83 (46%), Gaps = 10/83 (12%)
Query: 50 KVNNIKKILLVDSLYFSNNLPENIAAQISVIASNYSHILAPA------TIYGKNILPRVA 103
K N + KI +D ++ + +PE+IA + AS ++ + PA TI +LP V
Sbjct: 233 KDNVVAKIQGMDPVWVTAAIPESIAWLVKD-ASQFT-LTVPARPDKTFTIRKWTLLPSVD 290
Query: 104 ALLNVMQISEITKVCNPSTFERP 126
A +Q+ +V N +P
Sbjct: 291 AATRTLQLR--LEVDNADEALKP 311
>gnl|CDD|143601 cd07577, Ph0642_like, Pyrococcus horikoshii Ph0642 and related
proteins, members of the nitrilase superfamily (putative
class 13 nitrilases). Uncharacterized subgroup of the
nitrilase superfamily. This superfamily is comprised of
nitrile- or amide-hydrolyzing enzymes and
amide-condensing enzymes, which depend on a Glu-Lys-Cys
catalytic triad. Pyrococcus horikoshii Ph0642 is a
hypothetical protein belonging to this subgroup. This
superfamily has been classified in the literature based
on global and structure based sequence analysis into
thirteen different enzyme classes (referred to as 1-13).
This subgroup was classified as belonging to class 13,
which represents proteins that at the time were
difficult to place in a distinct similarity group.
Members of this superfamily generally form homomeric
complexes, the basic building block of which is a
homodimer.
Length = 259
Score = 27.6 bits (62), Expect = 7.2
Identities = 14/57 (24%), Positives = 20/57 (35%), Gaps = 7/57 (12%)
Query: 191 PEL-------TSAKIVVAGGRGLGSSKNFKILEGLADKLNAAIGASRAAVDAGYISN 240
PEL TS + V + + + L+ LA + A I A D N
Sbjct: 36 PELFNTGYAFTSKEEVASLAESIPDGPTTRFLQELARETGAYIVAGLPERDGDKFYN 92
>gnl|CDD|239771 cd04238, AAK_NAGK-like, AAK_NAGK-like: N-Acetyl-L-glutamate kinase
(NAGK)-like . Included in this CD are the Escherichia
coli and Pseudomonas aeruginosa type NAGKs which
catalyze the phosphorylation of N-acetyl-L-glutamate
(NAG) by ATP in the second step of arginine biosynthesis
found in bacteria and photosynthetic organisms using
either the acetylated, noncyclic (NC), or
non-acetylated, cyclic (C) route of ornithine
biosynthesis. Also included in this CD is a distinct
group of uncharacterized (UC) bacterial and archeal
NAGKs. Members of this CD belong to the Amino Acid
Kinase Superfamily (AAK).
Length = 256
Score = 27.9 bits (63), Expect = 7.5
Identities = 16/54 (29%), Positives = 27/54 (50%), Gaps = 13/54 (24%)
Query: 258 AIGISGAIQHLSGMKDSKIIVAINQDEDAPIFDISDYGLVGDLFEIIPKFIKYL 311
A+G+SG KD +I A ++E D G VG++ E+ P+ ++ L
Sbjct: 94 AVGLSG--------KDGGLIKAEKKEEKDI-----DLGFVGEVTEVNPELLETL 134
>gnl|CDD|236544 PRK09506, mrcB, bifunctional glycosyl transferase/transpeptidase;
Reviewed.
Length = 830
Score = 27.8 bits (62), Expect = 8.2
Identities = 16/61 (26%), Positives = 26/61 (42%), Gaps = 20/61 (32%)
Query: 90 PATIYGK--NILPRVA-------ALLNVMQISEITKVCNPSTFERPIYSGRIIATVQSTD 140
PA +YG+ N+ P ++ LL Q +++K+ P F TVQ+
Sbjct: 101 PAAVYGRMVNLEPGMSYSKNEMVKLLEATQYRQVSKMTRPGEF-----------TVQANS 149
Query: 141 I 141
I
Sbjct: 150 I 150
>gnl|CDD|236346 PRK08898, PRK08898, coproporphyrinogen III oxidase; Provisional.
Length = 394
Score = 27.6 bits (62), Expect = 9.2
Identities = 13/27 (48%), Positives = 16/27 (59%)
Query: 98 ILPRVAALLNVMQISEITKVCNPSTFE 124
+L V ALL + +EIT NP TFE
Sbjct: 95 LLSDVRALLPLDPDAEITLEANPGTFE 121
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 0.136 0.368
Gapped
Lambda K H
0.267 0.0751 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 15,899,140
Number of extensions: 1579961
Number of successful extensions: 1472
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1453
Number of HSP's successfully gapped: 36
Length of query: 312
Length of database: 10,937,602
Length adjustment: 97
Effective length of query: 215
Effective length of database: 6,635,264
Effective search space: 1426581760
Effective search space used: 1426581760
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 (21.7 bits)
S2: 59 (26.5 bits)