RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy17242
(172 letters)
>gnl|CDD|239952 cd04516, TBP_eukaryotes, eukaryotic TATA box binding protein (TBP):
Present in archaea and eukaryotes, TBPs are
transcription factors that recognize promoters and
initiate transcription. TBP has been shown to be an
essential component of three different transcription
initiation complexes: SL1, TFIID and TFIIIB, directing
transcription by RNA polymerases I, II and III,
respectively. TBP binds directly to the TATA box
promoter element, where it nucleates polymerase
assembly, thus defining the transcription start site.
TBP's binding in the minor groove induces a dramatic DNA
bending while its own structure barely changes. The
conserved core domain of TBP, which binds to the TATA
box, has a bipartite structure, with intramolecular
symmetry generating a saddle-shaped structure that sits
astride the DNA.
Length = 174
Score = 331 bits (851), Expect = e-118
Identities = 137/152 (90%), Positives = 146/152 (96%)
Query: 19 VPQLQNIVSTVNLGCKLDLKKIALHARNAEYNPKRFAAVIMRIREPRTTALIFSSGKMVC 78
VP++QNIV+TVNLGCKLDLKKIAL ARNAEYNPKRFAAVIMRIREP+TTALIFSSGKMVC
Sbjct: 1 VPKIQNIVATVNLGCKLDLKKIALRARNAEYNPKRFAAVIMRIREPKTTALIFSSGKMVC 60
Query: 79 TGAKSEEDSRLAARKYARIIQKLGFPAKFLDFKIQNMVGSCDVKFPIRLEGLVLTHGQFS 138
TGAKSE+DS+LAARKYARIIQKLGFPAKF DFKIQN+VGSCDVKFPIRLEGL H QFS
Sbjct: 61 TGAKSEDDSKLAARKYARIIQKLGFPAKFTDFKIQNIVGSCDVKFPIRLEGLAHAHKQFS 120
Query: 139 SYEPELFPGLIYRMVKPRIVLLIFVSGKVVLT 170
SYEPELFPGLIYRMVKP+IVLLIFVSGK+VLT
Sbjct: 121 SYEPELFPGLIYRMVKPKIVLLIFVSGKIVLT 152
Score = 63.0 bits (154), Expect = 5e-13
Identities = 26/67 (38%), Positives = 43/67 (64%), Gaps = 1/67 (1%)
Query: 21 QLQNIVSTVNLGCKLDLKKIAL-HARNAEYNPKRFAAVIMRIREPRTTALIFSSGKMVCT 79
++QNIV + ++ + L+ +A H + + Y P+ F +I R+ +P+ LIF SGK+V T
Sbjct: 93 KIQNIVGSCDVKFPIRLEGLAHAHKQFSSYEPELFPGLIYRMVKPKIVLLIFVSGKIVLT 152
Query: 80 GAKSEED 86
GAKS E+
Sbjct: 153 GAKSREE 159
>gnl|CDD|177693 PLN00062, PLN00062, TATA-box-binding protein; Provisional.
Length = 179
Score = 323 bits (831), Expect = e-115
Identities = 134/152 (88%), Positives = 142/152 (93%)
Query: 19 VPQLQNIVSTVNLGCKLDLKKIALHARNAEYNPKRFAAVIMRIREPRTTALIFSSGKMVC 78
VP LQNIVSTVNL CKLDLKKIAL ARNAEYNPKRFAAVIMRIREP+TTALIF+SGKMVC
Sbjct: 1 VPTLQNIVSTVNLDCKLDLKKIALQARNAEYNPKRFAAVIMRIREPKTTALIFASGKMVC 60
Query: 79 TGAKSEEDSRLAARKYARIIQKLGFPAKFLDFKIQNMVGSCDVKFPIRLEGLVLTHGQFS 138
TGAKSE DS+LAARKYARIIQKLGFPAKF DFKIQN+VGSCDVKFPIRLEGL HG FS
Sbjct: 61 TGAKSEHDSKLAARKYARIIQKLGFPAKFKDFKIQNIVGSCDVKFPIRLEGLAYAHGAFS 120
Query: 139 SYEPELFPGLIYRMVKPRIVLLIFVSGKVVLT 170
SYEPELFPGLIYRM +P+IVLLIFVSGK+V+T
Sbjct: 121 SYEPELFPGLIYRMKQPKIVLLIFVSGKIVIT 152
Score = 58.2 bits (141), Expect = 5e-11
Identities = 25/67 (37%), Positives = 42/67 (62%), Gaps = 1/67 (1%)
Query: 21 QLQNIVSTVNLGCKLDLKKIAL-HARNAEYNPKRFAAVIMRIREPRTTALIFSSGKMVCT 79
++QNIV + ++ + L+ +A H + Y P+ F +I R+++P+ LIF SGK+V T
Sbjct: 93 KIQNIVGSCDVKFPIRLEGLAYAHGAFSSYEPELFPGLIYRMKQPKIVLLIFVSGKIVIT 152
Query: 80 GAKSEED 86
GAK E+
Sbjct: 153 GAKVREE 159
>gnl|CDD|238352 cd00652, TBP_TLF, TATA box binding protein (TBP): Present in
archaea and eukaryotes, TBPs are transcription factors
that recognize promoters and initiate transcription. TBP
has been shown to be an essential component of three
different transcription initiation complexes: SL1, TFIID
and TFIIIB, directing transcription by RNA polymerases
I, II and III, respectively. TBP binds directly to the
TATA box promoter element, where it nucleates polymerase
assembly, thus defining the transcription start site.
TBP's binding in the minor groove induces a dramatic DNA
bending while its own structure barely changes. The
conserved core domain of TBP, which binds to the TATA
box, has a bipartite structure, with intramolecular
symmetry generating a saddle-shaped structure that sits
astride the DNA. New members of the TBP family, called
TBP-like proteins (TBLP, TLF, TLP) or TBP-related
factors (TRF1, TRF2,TRP), are similar to the core domain
of TBPs, with identical or chemically similar amino
acids at many equivalent positions, suggesting similar
structure. However, TLFs contain distinct, conserved
amino acids at several positions that distinguish them
from TBP.
Length = 174
Score = 291 bits (747), Expect = e-102
Identities = 116/153 (75%), Positives = 137/153 (89%), Gaps = 1/153 (0%)
Query: 19 VPQLQNIVSTVNLGCKLDLKKIALHARNAEYNPKRFAAVIMRIREPRTTALIFSSGKMVC 78
P++QNIV+TVNLGC+LDL+KIAL ARNAEYNPKRF VIMR+REP+TTALIFSSGKMV
Sbjct: 1 SPKIQNIVATVNLGCELDLRKIALAARNAEYNPKRFPGVIMRLREPKTTALIFSSGKMVI 60
Query: 79 TGAKSEEDSRLAARKYARIIQKLGFPA-KFLDFKIQNMVGSCDVKFPIRLEGLVLTHGQF 137
TGAKSEED++LAARKYARI+QKLGFP KF +FK+QN+V SCD+ FPIRLE L L H +
Sbjct: 61 TGAKSEEDAKLAARKYARILQKLGFPVEKFPEFKVQNIVASCDLGFPIRLEELALKHPEN 120
Query: 138 SSYEPELFPGLIYRMVKPRIVLLIFVSGKVVLT 170
+SYEPELFPGLIYRM +P++VLLIFVSGK+V+T
Sbjct: 121 ASYEPELFPGLIYRMDEPKVVLLIFVSGKIVIT 153
Score = 84.9 bits (211), Expect = 2e-21
Identities = 36/82 (43%), Positives = 53/82 (64%), Gaps = 1/82 (1%)
Query: 20 PQLQNIVSTVNLGCKLDLKKIAL-HARNAEYNPKRFAAVIMRIREPRTTALIFSSGKMVC 78
++QNIV++ +LG + L+++AL H NA Y P+ F +I R+ EP+ LIF SGK+V
Sbjct: 93 FKVQNIVASCDLGFPIRLEELALKHPENASYEPELFPGLIYRMDEPKVVLLIFVSGKIVI 152
Query: 79 TGAKSEEDSRLAARKYARIIQK 100
TGAKS ED A K I+++
Sbjct: 153 TGAKSREDIYEAVEKIYPILKE 174
>gnl|CDD|225012 COG2101, SPT15, TATA-box binding protein (TBP), component of TFIID
and TFIIIB [Transcription].
Length = 185
Score = 228 bits (582), Expect = 2e-77
Identities = 71/160 (44%), Positives = 106/160 (66%), Gaps = 2/160 (1%)
Query: 13 VDMGGSVPQLQNIVSTVNLGCKLDLKKIALHARNAEYNPKRFAAVIMRIREPRTTALIFS 72
+ ++NIV++V+LG +LDL+++AL AEYNP++F ++ R+ EP+T ALIF
Sbjct: 1 MSTSEPTITIENIVASVDLGQELDLEEVALDLPGAEYNPEQFPGLVYRLEEPKTAALIFR 60
Query: 73 SGKMVCTGAKSEEDSRLAARKYARIIQKLGFPAKF-LDFKIQNMVGSCDVKFPIRLEGLV 131
SGK+VCTGAKS ED A +K A+ ++ G F + K+QN+V S D+ + L +
Sbjct: 61 SGKVVCTGAKSVEDVHRAVKKLAKKLKDGGIDIDFEPEIKVQNIVASADLGVELNLNAIA 120
Query: 132 LTHGQF-SSYEPELFPGLIYRMVKPRIVLLIFVSGKVVLT 170
+ G YEPE FPGL+YR+ +PR+VLL+F SGK+V+T
Sbjct: 121 IGLGLENIEYEPEQFPGLVYRLDEPRVVLLLFGSGKLVIT 160
Score = 88.6 bits (220), Expect = 1e-22
Identities = 38/84 (45%), Positives = 56/84 (66%), Gaps = 2/84 (2%)
Query: 21 QLQNIVSTVNLGCKLDLKKIA--LHARNAEYNPKRFAAVIMRIREPRTTALIFSSGKMVC 78
++QNIV++ +LG +L+L IA L N EY P++F ++ R+ EPR L+F SGK+V
Sbjct: 100 KVQNIVASADLGVELNLNAIAIGLGLENIEYEPEQFPGLVYRLDEPRVVLLLFGSGKLVI 159
Query: 79 TGAKSEEDSRLAARKYARIIQKLG 102
TGAKSEED+ A K +++LG
Sbjct: 160 TGAKSEEDAEQAVEKIQSRLEELG 183
>gnl|CDD|239953 cd04517, TLF, TBP-like factors (TLF; also called TLP, TRF, TRP),
which are found in most metazoans. TLFs and TBPs have
well-conserved core domains; however, they only share
about 60% similarity. TLFs, like TBPs, interact with
TFIIA and TFIIB, which are part of the basal
transcription machinery. Yet, in contrast to TBPs, TLFs
seem not to interact with the TATA-box and even have a
negative effect on the transcription of TATA-containing
promoters. Recent results indicate that TLFs are
involved in the transcription via TATA-less promoters.
Length = 174
Score = 171 bits (436), Expect = 3e-55
Identities = 73/153 (47%), Positives = 106/153 (69%), Gaps = 2/153 (1%)
Query: 19 VPQLQNIVSTVNLGCKLDLKKIALHARNAEYNPKRFAAVIMRIREPRTTALIFSSGKMVC 78
+ N+V +L C +DL+K+AL RN EYNP R+ V MR+REPR TA ++SSGK+
Sbjct: 2 DILIVNVVCQFSLRCHIDLRKLALAGRNVEYNP-RYPKVTMRLREPRATASVWSSGKITI 60
Query: 79 TGAKSEEDSRLAARKYARIIQKLGFP-AKFLDFKIQNMVGSCDVKFPIRLEGLVLTHGQF 137
TGA SEE+++ AAR+ AR++QKLGF +F +F++ N++ +C + FPIRL+ L +
Sbjct: 61 TGATSEEEAKQAARRAARLLQKLGFKVVRFSNFRVVNVLATCSMPFPIRLDELAAKNRSS 120
Query: 138 SSYEPELFPGLIYRMVKPRIVLLIFVSGKVVLT 170
+SYEPEL PG++YR+ PR L IF +G V +T
Sbjct: 121 ASYEPELHPGVVYRITGPRATLSIFSTGSVTVT 153
Score = 52.0 bits (125), Expect = 7e-09
Identities = 26/68 (38%), Positives = 40/68 (58%), Gaps = 1/68 (1%)
Query: 24 NIVSTVNLGCKLDLKKIALHAR-NAEYNPKRFAAVIMRIREPRTTALIFSSGKMVCTGAK 82
N+++T ++ + L ++A R +A Y P+ V+ RI PR T IFS+G + TGA+
Sbjct: 97 NVLATCSMPFPIRLDELAAKNRSSASYEPELHPGVVYRITGPRATLSIFSTGSVTVTGAR 156
Query: 83 SEEDSRLA 90
S ED R A
Sbjct: 157 SMEDVREA 164
>gnl|CDD|234746 PRK00394, PRK00394, transcription factor; Reviewed.
Length = 179
Score = 165 bits (420), Expect = 1e-52
Identities = 65/152 (42%), Positives = 103/152 (67%), Gaps = 2/152 (1%)
Query: 21 QLQNIVSTVNLGCKLDLKKIALHARNAEYNPKRFAAVIMRIREPRTTALIFSSGKMVCTG 80
+++NIV++ +LG +LDL+K+A NAEYNP++F ++ R+ +P+ ALIF SGK+VCTG
Sbjct: 2 KIENIVASTDLGQELDLEKVAEDLPNAEYNPEQFPGLVYRLEDPKIAALIFRSGKVVCTG 61
Query: 81 AKSEEDSRLAARKYARIIQKLGFPAKF-LDFKIQNMVGSCDVKFPIRLEGLVLTHG-QFS 138
AKS ED A + + +++LG + K+QN+V S D+ + L + + G +
Sbjct: 62 AKSVEDLHEAVKIIIKKLKELGIKVIDEPEIKVQNIVASADLGVELNLNAIAIGLGLENI 121
Query: 139 SYEPELFPGLIYRMVKPRIVLLIFVSGKVVLT 170
YEPE FPGL+YR+ P++V+L+F SGK+V+T
Sbjct: 122 EYEPEQFPGLVYRLDDPKVVVLLFGSGKLVIT 153
Score = 97.2 bits (243), Expect = 5e-26
Identities = 36/84 (42%), Positives = 56/84 (66%), Gaps = 2/84 (2%)
Query: 21 QLQNIVSTVNLGCKLDLKKIA--LHARNAEYNPKRFAAVIMRIREPRTTALIFSSGKMVC 78
++QNIV++ +LG +L+L IA L N EY P++F ++ R+ +P+ L+F SGK+V
Sbjct: 93 KVQNIVASADLGVELNLNAIAIGLGLENIEYEPEQFPGLVYRLDDPKVVVLLFGSGKLVI 152
Query: 79 TGAKSEEDSRLAARKYARIIQKLG 102
TGAKSEED+ A K +++LG
Sbjct: 153 TGAKSEEDAEKAVEKILEKLEELG 176
>gnl|CDD|239954 cd04518, TBP_archaea, archaeal TATA box binding protein (TBP): TBPs
are transcription factors present in archaea and
eukaryotes, that recognize promoters and initiate
transcription. TBP has been shown to be an essential
component of three different transcription initiation
complexes: SL1, TFIID and TFIIIB, directing
transcription by RNA polymerases I, II and III,
respectively. TBP binds directly to the TATA box
promoter element, where it nucleates polymerase
assembly, thus defining the transcription start site.
TBP's binding in the minor groove induces a dramatic DNA
bending while its own structure barely changes. The
conserved core domain of TBP, which binds to the TATA
box, has a bipartite structure, with intramolecular
symmetry generating a saddle-shaped structure that sits
astride the DNA.
Length = 174
Score = 159 bits (404), Expect = 2e-50
Identities = 67/154 (43%), Positives = 105/154 (68%), Gaps = 6/154 (3%)
Query: 20 PQLQNIVSTVNLGCKLDLKKIALHARNAEYNPKRFAAVIMRIREPRTTALIFSSGKMVCT 79
+++NIV++V+LG +LDL+K+A NAEYNP +F ++ R+ +P+ ALIF SGKMVCT
Sbjct: 2 LKIENIVASVDLGQELDLEKVAAELPNAEYNPDQFPGLVYRLEDPKIAALIFRSGKMVCT 61
Query: 80 GAKSEEDSRLAARKYARIIQKLGFPAKFLD---FKIQNMVGSCDVKFPIRLEGLVLTHGQ 136
GAKS ED A ++ + ++ G K ++ K+QN+V S D+ + L+ + +
Sbjct: 62 GAKSVEDLHRAVKEIIKKLKDYG--IKVIEKPEIKVQNIVASADLGREVNLDAIAIGLPN 119
Query: 137 FSSYEPELFPGLIYRMVKPRIVLLIFVSGKVVLT 170
+ YEPE FPGL+YR+ +P++VLL+F SGK+V+T
Sbjct: 120 -AEYEPEQFPGLVYRLDEPKVVLLLFSSGKMVIT 152
Score = 96.9 bits (242), Expect = 5e-26
Identities = 40/94 (42%), Positives = 61/94 (64%), Gaps = 5/94 (5%)
Query: 13 VDMGGSVP-----QLQNIVSTVNLGCKLDLKKIALHARNAEYNPKRFAAVIMRIREPRTT 67
D G V ++QNIV++ +LG +++L IA+ NAEY P++F ++ R+ EP+
Sbjct: 81 KDYGIKVIEKPEIKVQNIVASADLGREVNLDAIAIGLPNAEYEPEQFPGLVYRLDEPKVV 140
Query: 68 ALIFSSGKMVCTGAKSEEDSRLAARKYARIIQKL 101
L+FSSGKMV TGAKSEED++ A K +++L
Sbjct: 141 LLLFSSGKMVITGAKSEEDAKRAVEKLLSRLKEL 174
>gnl|CDD|201174 pfam00352, TBP, Transcription factor TFIID (or TATA-binding
protein, TBP).
Length = 86
Score = 141 bits (357), Expect = 2e-44
Identities = 49/83 (59%), Positives = 67/83 (80%)
Query: 20 PQLQNIVSTVNLGCKLDLKKIALHARNAEYNPKRFAAVIMRIREPRTTALIFSSGKMVCT 79
++QNIV++ +LG +DL+KIAL RNAEY P++F ++ R+REP+ TALIFSSGK+V T
Sbjct: 4 IKIQNIVASADLGFPIDLEKIALKLRNAEYEPEQFPGLVYRLREPKATALIFSSGKVVIT 63
Query: 80 GAKSEEDSRLAARKYARIIQKLG 102
GAKSEED++ A RK A I++KLG
Sbjct: 64 GAKSEEDAKKAVRKIAPILKKLG 86
Score = 105 bits (265), Expect = 2e-30
Identities = 35/64 (54%), Positives = 45/64 (70%), Gaps = 1/64 (1%)
Query: 107 FLDFKIQNMVGSCDVKFPIRLEGLVLTHGQFSSYEPELFPGLIYRMVKPRIVLLIFVSGK 166
F D KIQN+V S D+ FPI LE + L + + YEPE FPGL+YR+ +P+ LIF SGK
Sbjct: 1 FPDIKIQNIVASADLGFPIDLEKIALKL-RNAEYEPEQFPGLVYRLREPKATALIFSSGK 59
Query: 167 VVLT 170
VV+T
Sbjct: 60 VVIT 63
>gnl|CDD|235379 PRK05261, PRK05261, putative phosphoketolase; Provisional.
Length = 785
Score = 29.4 bits (67), Expect = 0.97
Identities = 12/17 (70%), Positives = 13/17 (76%), Gaps = 2/17 (11%)
Query: 127 LEGLVLT--HGQFSSYE 141
LEG +LT HG FSSYE
Sbjct: 465 LEGYLLTGRHGFFSSYE 481
>gnl|CDD|131691 TIGR02643, T_phosphoryl, thymidine phosphorylase. Thymidine
phosphorylase (alternate name: pyrimidine
phosphorylase), EC 2.4.2.4, is the designation for the
enzyme of E. coli and other Proteobacteria involved in
(deoxy)nucleotide degradation. It often occurs in an
operon with a deoxyribose-phosphate aldolase,
phosphopentomutase and a purine nucleoside
phosphorylase. In many other lineages, the corresponding
enzyme is designated pyrimidine-nucleoside phosphorylase
(EC 2.4.2.2); the naming convention imposed by this
model represents standard literature practice [Purines,
pyrimidines, nucleosides, and nucleotides, Other].
Length = 437
Score = 28.6 bits (64), Expect = 1.6
Identities = 23/81 (28%), Positives = 35/81 (43%), Gaps = 17/81 (20%)
Query: 41 ALHARNA------EYNPKRFAAVIMRIREPRTTALIFSSGKMVCTGAKSEE------DSR 88
A+ RNA E R V M + A + SG + A++ DS
Sbjct: 252 AVEVRNAVDFLTGEKRNPRLEDVTMAL-----AAEMLVSGGLAADEAEARAKLQAVLDSG 306
Query: 89 LAARKYARIIQKLGFPAKFLD 109
AA ++AR++ LG PA F++
Sbjct: 307 RAAERFARMVAALGGPADFVE 327
>gnl|CDD|218779 pfam05853, DUF849, Prokaryotic protein of unknown function
(DUF849). This family consists of several hypothetical
prokaryotic proteins with no known function.
Length = 273
Score = 28.6 bits (65), Expect = 1.6
Identities = 13/41 (31%), Positives = 21/41 (51%), Gaps = 6/41 (14%)
Query: 40 IALHARNAE-----YNPKRFAAVIMRIREPRTTALI-FSSG 74
+ LH R+ E +P+ F V+ RIRE +I ++G
Sbjct: 43 VHLHVRDPEDGRPSQDPELFREVLERIREAVPDVIINLTTG 83
>gnl|CDD|239206 cd02812, PcrB_like, PcrB_like proteins. One member of this family,
a protein from Archaeoglobus fulgidus, has been
characterized as a (S)-3-O-geranylgeranylglyceryl
phosphate synthase (AfGGGPS). AfGGGPS catalyzes the
formation of an ether linkage between
sn-glycerol-1-phosphate (G1P) and geranylgeranyl
diphosphate (GGPP), the committed step in archaeal lipid
biosynthesis. Therefore, it has been proposed that
PcrB-like proteins are either prenyltransferases or are
involved in lipoteichoic acid biosynthesis although the
exact function is still unknown.
Length = 219
Score = 27.6 bits (62), Expect = 3.5
Identities = 16/94 (17%), Positives = 31/94 (32%), Gaps = 11/94 (11%)
Query: 7 GPPMTPVDMGGSVPQLQN--IVSTVNLGCKLDLKKIALHARNAEYNPKRFAAVIMRIREP 64
P T + G+ L+ + L + + L A P+ V+ +++
Sbjct: 117 NPDSTVARVTGAKTDLKPEDAAAYALAAEYLGMPIVYLEYSGAYGPPE----VVRAVKKV 172
Query: 65 RTTALIFSSGKMVCTGAKSEEDSRLAARKYARII 98
+ G G +S E ++ A A I
Sbjct: 173 LGDTPLIVGG-----GIRSGEQAKEMAEAGADTI 201
Score = 27.2 bits (61), Expect = 4.5
Identities = 15/60 (25%), Positives = 24/60 (40%), Gaps = 3/60 (5%)
Query: 52 KRFAAVIMRIREPRTTALIFSSGKMV--CTGAKSEEDSRLAARKYARIIQKLGFPAKFLD 109
+I + L+ + V TGAK++ AA YA + LG P +L+
Sbjct: 97 PEVGKIIPWLELIPEGYLVLNPDSTVARVTGAKTDLKPEDAAA-YALAAEYLGMPIVYLE 155
>gnl|CDD|224283 COG1364, ArgJ, N-acetylglutamate synthase (N-acetylornithine
aminotransferase) [Amino acid transport and metabolism].
Length = 404
Score = 27.6 bits (62), Expect = 3.8
Identities = 11/18 (61%), Positives = 13/18 (72%)
Query: 79 TGAKSEEDSRLAARKYAR 96
TGA SEED+R+ AR A
Sbjct: 288 TGAASEEDARVIARAIAN 305
>gnl|CDD|236702 PRK10494, PRK10494, hypothetical protein; Provisional.
Length = 259
Score = 27.3 bits (61), Expect = 3.9
Identities = 10/31 (32%), Positives = 17/31 (54%)
Query: 75 KMVCTGAKSEEDSRLAARKYARIIQKLGFPA 105
K++ TG ++ ++ A AR+ Q LG P
Sbjct: 123 KLIFTGGAAKTNTVSTAEVGARVAQSLGVPR 153
>gnl|CDD|143427 cd07109, ALDH_AAS00426, Uncharacterized Saccharopolyspora spinosa
aldehyde dehydrogenase (AAS00426)-like. Uncharacterized
aldehyde dehydrogenase of Saccharopolyspora spinosa
(AAS00426) and other similar sequences, are present in
this CD.
Length = 454
Score = 27.2 bits (61), Expect = 5.1
Identities = 9/28 (32%), Positives = 14/28 (50%)
Query: 78 CTGAKSEEDSRLAARKYARIIQKLGFPA 105
K ED+ L A + A + ++ G PA
Sbjct: 147 AVVVKPAEDAPLTALRLAELAEEAGLPA 174
>gnl|CDD|132234 TIGR03190, benz_CoA_bzdN, benzoyl-CoA reductase, bzd-type, N
subunit. Members of this family are the N subunit of
one of two related types of four-subunit ATP-dependent
benzoyl-CoA reductase. This enzyme system catalyzes the
dearomatization of benzoyl-CoA, a common intermediate in
pathways for the degradation for a number of different
aromatic compounds, such as phenol and toluene.
Length = 377
Score = 26.9 bits (59), Expect = 5.4
Identities = 18/50 (36%), Positives = 24/50 (48%), Gaps = 9/50 (18%)
Query: 96 RIIQKLGFPAKFLDFKIQNMVGSCDVKFPIRLEGLVLTHGQFSSYEPELF 145
R ++ G P FL+F I N +G F IR+E + T E ELF
Sbjct: 337 RHLEANGIPTLFLEFDITNPIGP----FRIRIEAFLETLS-----EEELF 377
>gnl|CDD|235441 PRK05388, argJ, bifunctional ornithine
acetyltransferase/N-acetylglutamate synthase protein;
Validated.
Length = 395
Score = 26.6 bits (60), Expect = 7.3
Identities = 10/18 (55%), Positives = 12/18 (66%)
Query: 79 TGAKSEEDSRLAARKYAR 96
TGA SEED+R A+ A
Sbjct: 277 TGAASEEDARKIAKAIAN 294
>gnl|CDD|234745 PRK00393, ribA, GTP cyclohydrolase II; Reviewed.
Length = 197
Score = 26.3 bits (59), Expect = 8.0
Identities = 11/49 (22%), Positives = 17/49 (34%), Gaps = 5/49 (10%)
Query: 96 RIIQKLGFPAKFLDFKIQNMVGSCDVKFPIRLEGLVLTHGQFSSYEPEL 144
+ + + P + DF + K E + L G S EP L
Sbjct: 4 KRVAEAKLPTPWGDFLMVGFEELATGK-----EHVALVFGDISGTEPVL 47
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
0.323 0.139 0.406
Gapped
Lambda K H
0.267 0.0846 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 8,845,521
Number of extensions: 802125
Number of successful extensions: 662
Number of sequences better than 10.0: 1
Number of HSP's gapped: 638
Number of HSP's successfully gapped: 32
Length of query: 172
Length of database: 10,937,602
Length adjustment: 90
Effective length of query: 82
Effective length of database: 6,945,742
Effective search space: 569550844
Effective search space used: 569550844
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 55 (24.7 bits)