RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy16906
(120 letters)
>gnl|CDD|215689 pfam00067, p450, Cytochrome P450. Cytochrome P450s are
haem-thiolate proteins involved in the oxidative
degradation of various compounds. They are particularly
well known for their role in the degradation of
environmental toxins and mutagens. They can be divided
into 4 classes, according to the method by which
electrons from NAD(P)H are delivered to the catalytic
site. Sequence conservation is relatively low within the
family - there are only 3 absolutely conserved residues
- but their general topography and structural fold are
highly conserved. The conserved core is composed of a
coil termed the 'meander', a four-helix bundle, helices
J and K, and two sets of beta-sheets. These constitute
the haem-binding loop (with an absolutely conserved
cysteine that serves as the 5th ligand for the haem
iron), the proton-transfer groove and the absolutely
conserved EXXR motif in helix K. While prokaryotic P450s
are soluble proteins, most eukaryotic P450s are
associated with microsomal membranes. their general
enzymatic function is to catalyze regiospecific and
stereospecific oxidation of non-activated hydrocarbons
at physiological temperatures.
Length = 461
Score = 65.8 bits (161), Expect = 9e-14
Identities = 26/101 (25%), Positives = 43/101 (42%), Gaps = 2/101 (1%)
Query: 1 MITPTFHFKILDVFVDVFVEKCQILVDKLGDKCD-GKAFDVYPFITRCAMDIICETAMGI 59
+TPTF F E+ + LV+KL D+ + R A+++IC G
Sbjct: 101 FLTPTFTSFGKLSFEPRVEEEARDLVEKLRKTAGEPGVIDITDLLFRAALNVICSILFGE 160
Query: 60 EINAQRDSK-SDYVRAVYEISELTIVRSLRPWLWHPLVFKW 99
+ D K + V+AV E+S L S + P++ +
Sbjct: 161 RFGSLEDPKFLELVKAVQELSSLLSSPSPQLLDLFPILKYF 201
>gnl|CDD|225035 COG2124, CypX, Cytochrome P450 [Secondary metabolites biosynthesis,
transport, and catabolism].
Length = 411
Score = 29.7 bits (67), Expect = 0.32
Identities = 14/60 (23%), Positives = 24/60 (40%), Gaps = 4/60 (6%)
Query: 2 ITPTFHFKILDVFVDVFVEKCQILVDKLGDKCDGKAFDVYPFITRCAMDIICETAMGIEI 61
+ P F + L + + E L+D L G A V F + +I E +G+ +
Sbjct: 106 LAPAFTPRALRGYRPLIREIADRLLDDLWQ---GGADLVLDFAAELTLRVIAE-LLGVPL 161
>gnl|CDD|215393 PLN02738, PLN02738, carotene beta-ring hydroxylase.
Length = 633
Score = 28.3 bits (63), Expect = 1.1
Identities = 31/118 (26%), Positives = 48/118 (40%), Gaps = 16/118 (13%)
Query: 2 ITPTFHFKILDVFVDVFVEKCQILVDKLGDKC--DGKAFDVYPFITRCAMDIICETAMGI 59
I P H K + + +F + L KL D DG+ ++ +R +DII +
Sbjct: 229 IVPALHQKYVAAMISLFGQASDRLCQKL-DAAASDGEDVEMESLFSRLTLDIIGKAVF-- 285
Query: 60 EINAQRDSKSD---YVRAVYEISELTIVRSLRP---W---LWHPLVFKWTKYASTIHL 108
N DS S+ V AVY + RS+ P W +W + + K A + L
Sbjct: 286 --NYDFDSLSNDTGIVEAVYTVLREAEDRSVSPIPVWEIPIWKDISPRQRKVAEALKL 341
>gnl|CDD|237416 PRK13532, PRK13532, nitrate reductase catalytic subunit;
Provisional.
Length = 830
Score = 27.6 bits (62), Expect = 1.9
Identities = 16/50 (32%), Positives = 23/50 (46%), Gaps = 18/50 (36%)
Query: 39 DVYPFITRCAMDIICETAMGIEI-----NAQR-------------DSKSD 70
D YP ++ A D+I TAM +E NA+R ++KSD
Sbjct: 511 DPYPTVSALAADLILPTAMWVEKEGAYGNAERRTQFWRQQVKAPGEAKSD 560
>gnl|CDD|197766 smart00509, TFS2N, Domain in the N-terminus of transcription
elongation factor S-II (and elsewhere).
Length = 75
Score = 25.3 bits (56), Expect = 3.4
Identities = 8/24 (33%), Positives = 16/24 (66%)
Query: 50 DIICETAMGIEINAQRDSKSDYVR 73
D++ ET +G ++N R K++ +R
Sbjct: 36 DLLEETRIGKKVNGLRKHKNEEIR 59
>gnl|CDD|130767 TIGR01706, NAPA, periplasmic nitrate reductase, large subunit.
This model represents the large subunit of a family of
nitrate reductases found in proteobacteria which are
localized to the periplasm. This subunit binds
molybdopterin and contains a twin-arginine motif at the
N-terminus. The protein associates with NapB, a soluble
heme-containing protein and NapC, a membrane-bound
cytochrome c. The periplasmic nitrate reductases are not
involved in the assimilation of nitrogen, and are not
directly involved in the formation of electrochemical
gradients (i.e. respiration) either. Rather, the purpose
of this enzyme is either dissimilatory (i.e. to dispose
of excess reductive equivalents) or indirectly
respiratory by virtue of the consumption of electrons
derived from NADH via the proton translocating NADH
dehydrogenase. The enzymes from Alicagenes eutrophus and
Paracoccus pantotrophus have been characterized. In E.
coli (as well as other organisms) this gene is part of a
large nitrate reduction operon (napFDAGHBC) [Energy
metabolism, Aerobic, Energy metabolism, Electron
transport, Central intermediary metabolism, Nitrogen
metabolism].
Length = 830
Score = 26.0 bits (57), Expect = 6.2
Identities = 13/32 (40%), Positives = 18/32 (56%), Gaps = 5/32 (15%)
Query: 39 DVYPFITRCAMDIICETAMGIEI-----NAQR 65
D YP +T A D+I +AM +E NA+R
Sbjct: 511 DAYPTVTALAADLILPSAMWVEKEGAYGNAER 542
>gnl|CDD|205122 pfam12875, DUF3826, Protein of unknown function (DUF3826). This
is a putative sugar-binding family.
Length = 187
Score = 25.5 bits (56), Expect = 6.2
Identities = 17/62 (27%), Positives = 28/62 (45%), Gaps = 7/62 (11%)
Query: 14 FVDVFVEKCQILVDKLGDKCDGKAFDVYPFITRCAMDIICETAMGIEINAQRDSKSDYVR 73
+V V++ Q +VDKLG D KA +V I + +I +RD+K ++
Sbjct: 2 YVKSIVKRAQKIVDKLGLTDDAKAENVSTIIANRYRKL-------NDIYNERDAKVKTIK 54
Query: 74 AV 75
Sbjct: 55 EG 56
>gnl|CDD|181826 PRK09406, gabD1, succinic semialdehyde dehydrogenase; Reviewed.
Length = 457
Score = 25.9 bits (57), Expect = 7.5
Identities = 13/40 (32%), Positives = 18/40 (45%), Gaps = 3/40 (7%)
Query: 7 HFKILDVFVDVFVEKCQILVDKLGDKCDGKAFDVYPFITR 46
H + D F + FV + L ++GD D DV P T
Sbjct: 274 HADVYDAFAEKFVARMAAL--RVGDPTD-PDTDVGPLATE 310
>gnl|CDD|238107 cd00183, TFIIS_I, N-terminal domain (domain I) of transcription
elongation factor S-II (TFIIS); similar to a domain
found in elongin A and CRSP70; likely to be involved in
transcription; domain I from TFIIS interacts with RNA
polymerase II holoenzyme.
Length = 76
Score = 24.6 bits (54), Expect = 8.0
Identities = 7/24 (29%), Positives = 16/24 (66%)
Query: 50 DIICETAMGIEINAQRDSKSDYVR 73
+I+ ET +G ++N+ R ++ +R
Sbjct: 38 EILKETRIGKKVNSLRKHSNEKIR 61
>gnl|CDD|239287 cd02989, Phd_like_TxnDC9, Phosducin (Phd)-like family,
Thioredoxin (TRX) domain containing protein 9 (TxnDC9)
subfamily; composed of predominantly uncharacterized
eukaryotic proteins, containing a TRX-like domain
without the redox active CXXC motif. The gene name for
the human protein is TxnDC9. The two characterized
members are described as Phd-like proteins, PLP1 of
Saccharomyces cerevisiae and PhLP3 of Dictyostelium
discoideum. Gene disruption experiments show that both
PLP1 and PhLP3 are non-essential proteins. Unlike Phd
and most Phd-like proteins, members of this group do
not contain the Phd N-terminal helical domain which is
implicated in binding to the G protein betagamma
subunit.
Length = 113
Score = 24.8 bits (55), Expect = 9.9
Identities = 12/34 (35%), Positives = 15/34 (44%), Gaps = 8/34 (23%)
Query: 14 FVDVFVEKCQILVDKLGDKC--------DGKAFD 39
F+ V EK LV+KL K +GK D
Sbjct: 56 FIKVNAEKAPFLVEKLNIKVLPTVILFKNGKTVD 89
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
0.328 0.141 0.457
Gapped
Lambda K H
0.267 0.0729 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 6,009,319
Number of extensions: 499118
Number of successful extensions: 417
Number of sequences better than 10.0: 1
Number of HSP's gapped: 416
Number of HSP's successfully gapped: 15
Length of query: 120
Length of database: 10,937,602
Length adjustment: 83
Effective length of query: 37
Effective length of database: 7,256,220
Effective search space: 268480140
Effective search space used: 268480140
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.8 bits)
S2: 53 (24.2 bits)