RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy4110
(169 letters)
>gnl|CDD|218493 pfam05199, GMC_oxred_C, GMC oxidoreductase. This domain found
associated with pfam00732.
Length = 139
Score = 139 bits (351), Expect = 7e-43
Identities = 44/124 (35%), Positives = 60/124 (48%), Gaps = 6/124 (4%)
Query: 25 PNYFQHRRDIETLIEGIRIAFNVSASAAFKKYNSRPLLTPMPGCAMFELFSDEYWECSLR 84
PNY D+ L +R+A + A+A + P P+ SD+ +R
Sbjct: 22 PNYLSDPADLAALRAALRLARRILAAALVELT---PG--PVEVVPGAAEASDDEILEYIR 76
Query: 85 HFTFTIYHPTSTCKMGPPTDPEAVVDPRLRVYGVDGLRVIDASIMPIIVSGNPNAPTIMI 144
T +HP TC+MG D VVDP LRV+GVD LRV+DAS+ P SGNP +
Sbjct: 77 AAAVTSWHPMGTCRMGADPDD-GVVDPDLRVHGVDNLRVVDASVFPSSPSGNPTLTIYAL 135
Query: 145 GEKG 148
E+
Sbjct: 136 AERA 139
>gnl|CDD|235000 PRK02106, PRK02106, choline dehydrogenase; Validated.
Length = 560
Score = 142 bits (361), Expect = 2e-40
Identities = 60/130 (46%), Positives = 77/130 (59%), Gaps = 8/130 (6%)
Query: 24 QPNYFQHRRDIETLIEGIRIAFNVSASAAFKKYNSRPLLTPMPGCAMFELFSDEYWECSL 83
NY +D + IR+ + A A Y R + PG ++ +DE + +
Sbjct: 411 LFNYMSTEQDWREFRDAIRLTREIMAQPALDPYRGREIS---PGA---DVQTDEEIDAFV 464
Query: 84 RHFTFTIYHPTSTCKMGPPTDPEAVVDPRLRVYGVDGLRVIDASIMPIIVSGNPNAPTIM 143
R T YHP+ TCKMG TDP AVVDP RV+GV+GLRV+DASIMP I +GN NAPTIM
Sbjct: 465 REHAETAYHPSCTCKMG--TDPMAVVDPEGRVHGVEGLRVVDASIMPTITNGNLNAPTIM 522
Query: 144 IGEKGADMIK 153
I EK AD+I+
Sbjct: 523 IAEKAADLIR 532
>gnl|CDD|233581 TIGR01810, betA, choline dehydrogenase. Choline dehydrogenase
catalyzes the conversion of exogenously supplied choline
into the intermediate glycine betaine aldehyde, as part
of a two-step oxidative reaction leading to the
formation of osmoprotectant betaine. This enzymatic
system can be found in both gram-positive and
gram-negative bacteria. As in Escherichia coli ,
Staphylococcus xylosus , and Sinorhizobium meliloti,
this enzyme is found associated in a transciptionally
co-induced gene cluster with betaine aldehyde
dehydrogenase, the second catalytic enzyme in this
reaction. Other gram-positive organisms have been shown
to employ a different enzymatic system, utlizing a
soluable choline oxidase or type III alcohol
dehydrogenase instead of choline dehydrogenase. This
enzyme is a member of the GMC oxidoreductase family
(pfam00732 and pfam05199), sharing a common
evoluntionary origin and enzymatic reaction with alcohol
dehydrogenase. Outgrouping from this model, Caulobacter
crescentus shares sequence homology with choline
dehydrogenase, yet other genes participating in this
enzymatic reaction have not currently been identified
[Cellular processes, Adaptations to atypical
conditions].
Length = 532
Score = 122 bits (307), Expect = 4e-33
Identities = 55/128 (42%), Positives = 72/128 (56%), Gaps = 6/128 (4%)
Query: 26 NYFQHRRDIETLIEGIRIAFNVSASAAFKKYNSRPLLTPMPGCAMFELFSDEYWECSLRH 85
NY H D E IR+ + A Y + +P P +DE + +R
Sbjct: 406 NYMSHEEDWREFREAIRVTREILKQKALDPYRGGEI-SPGPEVQ-----TDEEIDEFVRR 459
Query: 86 FTFTIYHPTSTCKMGPPTDPEAVVDPRLRVYGVDGLRVIDASIMPIIVSGNPNAPTIMIG 145
T HP TCKMGP +D +VVDP RV+G++GLRV+DASIMP I +GN NAP IM+G
Sbjct: 460 HGETALHPCGTCKMGPASDEMSVVDPETRVHGMEGLRVVDASIMPRITNGNLNAPVIMMG 519
Query: 146 EKGADMIK 153
EK AD+I+
Sbjct: 520 EKAADIIR 527
>gnl|CDD|225186 COG2303, BetA, Choline dehydrogenase and related flavoproteins
[Amino acid transport and metabolism].
Length = 542
Score = 119 bits (299), Expect = 6e-32
Identities = 50/132 (37%), Positives = 61/132 (46%), Gaps = 9/132 (6%)
Query: 25 PNYFQHRRDIETLIEGIRIAFNVSASAAFKKYNSRPLLTPMPGCAMFELFSDEYWECSLR 84
PNY D GIR+ + A L P P E S L
Sbjct: 413 PNYLSAEGDRAIFRAGIRLTREIIGQPALDARRKA-ELAPGPRVTTDEDISA--AIRFLA 469
Query: 85 HFTFTIYHPTSTCKMGPPTDPEAVVD-PRLRVYGVDGLRVIDASIMPIIVSGNPNAPTIM 143
T YHP TC+MG +DP AVVD P LRV+G++ LRV+DAS+MP NPN I
Sbjct: 470 R---TAYHPMGTCRMG--SDPAAVVDDPYLRVHGLENLRVVDASVMPTSTGVNPNLTIIA 524
Query: 144 IGEKGADMIKED 155
+ E+ AD I D
Sbjct: 525 LAERAADHILGD 536
>gnl|CDD|234421 TIGR03970, Rv0697, dehydrogenase, Rv0697 family. This model
describes a set of dehydrogenases belonging to the
glucose-methanol-choline oxidoreductase (GMC
oxidoreductase) family. Members of the present family
are restricted to Actinobacterial genome contexts
containing also members of families TIGR03962 and
TIGR03969 (the mycofactocin system), and are proposed to
be uniform in function.
Length = 487
Score = 79.9 bits (197), Expect = 5e-18
Identities = 39/127 (30%), Positives = 54/127 (42%), Gaps = 14/127 (11%)
Query: 26 NYFQHRRDIETLIEGIRIAFNVSASAAFKKYNSRPLLTPMPGCAMFELFSDEYWECSLRH 85
Y D L G +A LL + E E +
Sbjct: 374 RYDSSAADRAALRAGAALAHE--------------LLGSPELGPLLEPAVREGEASWVLA 419
Query: 86 FTFTIYHPTSTCKMGPPTDPEAVVDPRLRVYGVDGLRVIDASIMPIIVSGNPNAPTIMIG 145
T H +C+MG DP AVVD R RV GV+GL V+D SI+P+I S P+A +M+
Sbjct: 420 RLATSQHLCGSCRMGGRDDPGAVVDARCRVRGVEGLWVVDGSILPVIPSRGPHATAVMVA 479
Query: 146 EKGADMI 152
E+ A+ +
Sbjct: 480 ERAAEFL 486
>gnl|CDD|215420 PLN02785, PLN02785, Protein HOTHEAD.
Length = 587
Score = 54.8 bits (132), Expect = 2e-09
Identities = 39/131 (29%), Positives = 53/131 (40%), Gaps = 18/131 (13%)
Query: 26 NYFQHRRDIETLIEGIRIAFNVSASAAFK------KYNSRPLLTPMPGCAMFELFSDEYW 79
NYF+H +D++ + GIR + + F K +L M A L
Sbjct: 446 NYFKHPQDLQRCVYGIRTIEKIVKTNHFTNFTQCDKQTMEKVLN-MSVKANINLIPKHTN 504
Query: 80 EC-SLRHF----TFTIYHPTSTCKMGPPTDPEAVVDPRLRVYGVDGLRVIDASIMPIIVS 134
+ SL F TI+H C +G VVD +V GV LRVID S
Sbjct: 505 DTKSLEQFCKDTVITIWHYHGGCHVG------KVVDQNYKVLGVSRLRVIDGSTFDESPG 558
Query: 135 GNPNAPTIMIG 145
NP A +M+G
Sbjct: 559 TNPQATVMMMG 569
>gnl|CDD|236706 PRK10518, PRK10518, alkaline phosphatase; Provisional.
Length = 476
Score = 28.5 bits (64), Expect = 1.8
Identities = 23/86 (26%), Positives = 34/86 (39%), Gaps = 22/86 (25%)
Query: 4 NSGKSSISHTWLKTR--ITLVGQPNYFQHRRDI-----ETLIE-----GIRIAFNVSASA 51
N G+ SI+ L TR +TL G F +TL E G ++ + +
Sbjct: 212 NGGRGSITEQLLNTRADVTLGGGAKTFAETATAGEWKGKTLREQAKARGYQLVEDADSLN 271
Query: 52 AFKKYN-SRPLLTPMPGCAMFELFSD 76
A + N +PLL LF+D
Sbjct: 272 AVTEANQDKPLLG---------LFAD 288
>gnl|CDD|131515 TIGR02462, pyranose_ox, pyranose oxidase. Pyranose oxidase (also
called glucose 2-oxidase) converts D-glucose and
molecular oxygen to 2-dehydro-D-glucose and hydrogen
peroxide. Peroxide production is believed to be
important to the wood rot fungi in which this enzyme is
found for lignin degradation.
Length = 544
Score = 27.1 bits (60), Expect = 5.5
Identities = 14/66 (21%), Positives = 26/66 (39%), Gaps = 1/66 (1%)
Query: 92 HPTSTCKMGPPTDPEAVVDPRLRVYGVDGLRVIDASIMPIIVSGNPNAPTIMIGEKGADM 151
H T ++G + V + +V+ L V +P NP ++ K A+
Sbjct: 480 HLAGTTRIGF-DEQTTVANTDSKVHNFKNLYVGGNGNIPTAFGANPTLTSMCYAIKSAEY 538
Query: 152 IKEDWG 157
I ++G
Sbjct: 539 IINNFG 544
>gnl|CDD|235595 PRK05762, PRK05762, DNA polymerase II; Reviewed.
Length = 786
Score = 27.1 bits (61), Expect = 5.9
Identities = 14/59 (23%), Positives = 23/59 (38%), Gaps = 9/59 (15%)
Query: 105 PEAVVDPRLRVYGVDGLRVIDAS----IMPIIVSGNPNAPTIMIGEK-GADMIKEDWGY 158
P P L+V +D I+ S + I + G P IM+G G + ++
Sbjct: 147 PAPDYRPPLKVVSLD----IETSNKGELYSIGLEGCGQRPVIMLGPPNGEALDFLEYVA 201
>gnl|CDD|234869 PRK00942, PRK00942, acetylglutamate kinase; Provisional.
Length = 283
Score = 26.6 bits (60), Expect = 6.6
Identities = 8/16 (50%), Positives = 11/16 (68%)
Query: 118 VDGLRVIDASIMPIIV 133
V+GLRV DA M ++
Sbjct: 82 VNGLRVTDAETMEVVE 97
>gnl|CDD|215977 pfam00532, Peripla_BP_1, Periplasmic binding proteins and sugar
binding domain of LacI family. This family includes the
periplasmic binding proteins, and the LacI family
transcriptional regulators. The periplasmic binding
proteins are the primary receptors for chemotaxis and
transport of many sugar based solutes. The LacI family
of proteins consist of transcriptional regulators
related to the lac repressor. In this case, generally
the sugar binding domain binds a sugar which changes the
DNA binding activity of the repressor domain
(pfam00356).
Length = 281
Score = 26.7 bits (59), Expect = 6.8
Identities = 12/48 (25%), Positives = 20/48 (41%)
Query: 105 PEAVVDPRLRVYGVDGLRVIDASIMPIIVSGNPNAPTIMIGEKGADMI 152
P+ V V G DGL + + + P ++G K +DM+
Sbjct: 210 PDIVGIGINSVVGFDGLSKAQDTGLYLSPLTVIQLPRQLLGIKASDMV 257
>gnl|CDD|133342 cd04142, RRP22, Ras-related protein on chromosome 22 (RRP22)
family. RRP22 (Ras-related protein on chromosome 22)
subfamily consists of proteins that inhibit cell growth
and promote caspase-independent cell death. Unlike most
Ras proteins, RRP22 is down-regulated in many human
tumor cells due to promoter methylation. RRP22 localizes
to the nucleolus in a GTP-dependent manner, suggesting a
novel function in modulating transport of nucleolar
components. Most Ras proteins contain a lipid
modification site at the C-terminus, with a typical
sequence motif CaaX, where a = an aliphatic amino acid
and X = any amino acid. Lipid binding is essential for
membrane attachment, a key feature of most Ras proteins.
Like most Ras family proteins, RRP22 is farnesylated.
Length = 198
Score = 26.4 bits (58), Expect = 6.9
Identities = 14/64 (21%), Positives = 26/64 (40%), Gaps = 16/64 (25%)
Query: 100 GPPTDPEAVVDPRLR----------VYGV------DGLRVIDASIMPIIVSGNPNAPTIM 143
P T + +DPR R VY + ++++ I+ +GN P ++
Sbjct: 62 YPGTAGQEWMDPRFRGLRNSRAFILVYDICSPDSFHYVKLLRQQILETRPAGNKEPPIVV 121
Query: 144 IGEK 147
+G K
Sbjct: 122 VGNK 125
>gnl|CDD|169151 PRK07912, PRK07912, salicylate synthase MbtI; Reviewed.
Length = 449
Score = 26.3 bits (58), Expect = 9.4
Identities = 16/62 (25%), Positives = 24/62 (38%), Gaps = 7/62 (11%)
Query: 86 FTFTIYHPTSTCKMGPPTDPEAVVDPRLR-VYGVDGLRVIDAS------IMPIIVSGNPN 138
F F +Y ++ P T V PR R V G+R+ A I ++ +G
Sbjct: 111 FEFGVYRYGLQQRLAPGTPLARVFSPRTRIVVTEKGIRLFGAGIRHREAIDRLLATGVRE 170
Query: 139 AP 140
P
Sbjct: 171 VP 172
>gnl|CDD|176254 cd08294, leukotriene_B4_DH_like, 13-PGR is a bifunctional enzyme
with delta-13 15-prostaglandin reductase and leukotriene
B4 12 hydroxydehydrogenase activity. Prostaglandins and
related eicosanoids are metabolized by the oxidation of
the 15(S)-hydroxyl group of the NAD+-dependent (type I
15-PGDH) 15-prostaglandin dehydrogenase (15-PGDH)
followed by reduction by NADPH/NADH-dependent (type II
15-PGDH) delta-13 15-prostaglandin reductase (13-PGR) to
15-keto- 13,14,-dihydroprostaglandins. 13-PGR is a
bifunctional enzyme, since it also has leukotriene B(4)
12-hydroxydehydrogenase activity. These 15-PGDH and
related enzymes are members of the medium chain
dehydrogenase/reductase family. The medium chain
dehydrogenases/reductase (MDR)/zinc-dependent alcohol
dehydrogenase-like family, which contains the
zinc-dependent alcohol dehydrogenase (ADH-Zn) and
related proteins, is a diverse group of proteins related
to the first identified member, class I mammalian ADH.
MDRs display a broad range of activities and are
distinguished from the smaller short chain
dehydrogenases (~ 250 amino acids vs. the ~ 350 amino
acids of the MDR). The MDR proteins have 2 domains: a
C-terminal NAD(P) binding-Rossmann fold domain of a
beta-alpha form and an N-terminal catalytic domain with
distant homology to GroES.
Length = 329
Score = 26.1 bits (58), Expect = 9.9
Identities = 14/45 (31%), Positives = 21/45 (46%), Gaps = 5/45 (11%)
Query: 109 VDPRLRVYGV---DGLRVIDASIMPIIVSGNPNAP--TIMIGEKG 148
VDP +R Y +G +I + +I S N P TI++ G
Sbjct: 45 VDPYMRPYSKRLNEGDTMIGTQVAKVIESKNSKFPVGTIVVASFG 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
0.321 0.138 0.434
Gapped
Lambda K H
0.267 0.0841 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 8,891,990
Number of extensions: 816967
Number of successful extensions: 789
Number of sequences better than 10.0: 1
Number of HSP's gapped: 781
Number of HSP's successfully gapped: 23
Length of query: 169
Length of database: 10,937,602
Length adjustment: 90
Effective length of query: 79
Effective length of database: 6,945,742
Effective search space: 548713618
Effective search space used: 548713618
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: 55 (24.8 bits)