RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy4836
(69 letters)
>gnl|CDD|183106 PRK11375, PRK11375, allantoin permease; Provisional.
Length = 484
Score = 28.6 bits (64), Expect = 0.18
Identities = 15/53 (28%), Positives = 25/53 (47%), Gaps = 2/53 (3%)
Query: 6 VADYFVVCGLPDDQAEWEEETSEHSHYKSNHNDAP--ITDLAVIFPTLGEFVP 56
+A YFVV + E ++ +Y + N +T +AVI G+F+P
Sbjct: 392 MAHYFVVMRGQINLDELYTAPGDYKYYDNGFNLTAFSVTLVAVILSLGGKFIP 444
>gnl|CDD|223956 COG1025, Ptr, Secreted/periplasmic Zn-dependent peptidases,
insulinase-like [Posttranslational modification, protein
turnover, chaperones].
Length = 937
Score = 26.6 bits (59), Expect = 0.99
Identities = 8/22 (36%), Positives = 10/22 (45%)
Query: 48 FPTLGEFVPDGYDVIKSTPTGT 69
P F+PD +IKS T
Sbjct: 479 LPEPNPFIPDDVSLIKSEKKFT 500
>gnl|CDD|221711 pfam12686, DUF3800, Protein of unknown function (DUF3800). This
family of proteins is functionally uncharacterized.
This family of proteins is found in bacteria, archaea,
eukaryotes and viruses. Proteins in this family are
typically between 215 and 302 amino acids in length.
There is a DE motif at the N-terminus and a QXXD motif
at the C-terminus that may be functionally important.
Length = 223
Score = 26.3 bits (58), Expect = 1.00
Identities = 9/30 (30%), Positives = 13/30 (43%)
Query: 8 DYFVVCGLPDDQAEWEEETSEHSHYKSNHN 37
YFV+ G+ + E E +E K H
Sbjct: 19 PYFVLGGVIIPEEEAIEFKNELKALKRKHF 48
>gnl|CDD|240283 PTZ00127, PTZ00127, cytochrome c oxidase assembly protein;
Provisional.
Length = 403
Score = 26.6 bits (59), Expect = 1.0
Identities = 8/19 (42%), Positives = 9/19 (47%), Gaps = 3/19 (15%)
Query: 15 LPDDQAEWEEETSEHSHYK 33
P Q EWE+ E YK
Sbjct: 105 PPITQEEWEK---EFDKYK 120
>gnl|CDD|218986 pfam06317, Arena_RNA_pol, Arenavirus RNA polymerase. This family
consists of several Arenavirus RNA polymerase proteins
(EC:2.7.7.48).
Length = 2206
Score = 26.5 bits (59), Expect = 1.2
Identities = 10/23 (43%), Positives = 15/23 (65%)
Query: 43 DLAVIFPTLGEFVPDGYDVIKST 65
D ++ PTL + VPDGY + +T
Sbjct: 75 DNGILCPTLPKVVPDGYKLTGNT 97
>gnl|CDD|131493 TIGR02440, FadJ, fatty oxidation complex, alpha subunit FadJ.
Members represent alpha subunit of multifunctional
enzyme complex of the fatty acid degradation cycle.
Plays a minor role in aerobic beta-oxidation of fatty
acids. FadJI complex is necessary for anaerobic growth
on short-chain acids with nitrate as an electron
acceptor. Activities include: enoyl-CoA hydratase (EC
4.2.1.17),3-hydroxyacyl-CoA dehydrogenase (EC 1.1.1.35),
3-hydroxybutyryl-CoA epimerase (EC 5.1.2.3). A
representative is E. coli FadJ (aka YfcX). This model
excludes the FadB of TIGR02437 equivalog model [Fatty
acid and phospholipid metabolism, Degradation].
Length = 699
Score = 26.3 bits (58), Expect = 1.3
Identities = 8/26 (30%), Positives = 15/26 (57%)
Query: 20 AEWEEETSEHSHYKSNHNDAPITDLA 45
+ E+E + H+ + SN + PI +A
Sbjct: 404 KDIEQECAAHTIFASNTSSLPIGQIA 429
>gnl|CDD|214824 smart00800, uDENN, Domain always found upstream of DENN domain,
found in a variety of signalling proteins. The uDENN
domain is part of the tripartite DENN domain. It is
always found upstream of the DENN domain itself, which
is found in a variety of signalling proteins involved
in Rab-mediated processes or regulation of MAPKs
signalling pathways. The DENN domain is always
encircled on both sides by more divergent domains,
called uDENN (for upstream DENN) and dDENN (for
downstream DENN). The function of the DENN domain
remains to date unclear, although it appears to
represent a good candidate for a GTP/GDP exchange
activity.
Length = 89
Score = 24.6 bits (54), Expect = 3.1
Identities = 9/15 (60%), Positives = 10/15 (66%)
Query: 4 RRVADYFVVCGLPDD 18
R+ DYFVV GL D
Sbjct: 2 SRLFDYFVVVGLDSD 16
>gnl|CDD|236864 PRK11154, fadJ, multifunctional fatty acid oxidation complex
subunit alpha; Reviewed.
Length = 708
Score = 24.9 bits (55), Expect = 3.3
Identities = 9/26 (34%), Positives = 15/26 (57%)
Query: 20 AEWEEETSEHSHYKSNHNDAPITDLA 45
AE E+ + H+ + SN + PI +A
Sbjct: 409 AEVEQNCAPHTIFASNTSSLPIGQIA 434
>gnl|CDD|177649 PLN00009, PLN00009, cyclin-dependent kinase A; Provisional.
Length = 294
Score = 24.4 bits (53), Expect = 4.8
Identities = 19/53 (35%), Positives = 26/53 (49%), Gaps = 5/53 (9%)
Query: 10 FVVCGLPDDQAEWEEETSEHSHYKSNHNDAPITDLAVIFPTLGEFVPDGYDVI 62
F + G P+++ W TS YKS P DLA + PTL P G D++
Sbjct: 217 FRILGTPNEET-WPGVTS-LPDYKSAFPKWPPKDLATVVPTLE---PAGVDLL 264
>gnl|CDD|181843 PRK09423, gldA, glycerol dehydrogenase; Provisional.
Length = 366
Score = 24.4 bits (54), Expect = 5.0
Identities = 11/30 (36%), Positives = 16/30 (53%), Gaps = 2/30 (6%)
Query: 37 NDAPITDLAVIFPTLGEFVPDGYDVIKSTP 66
DAP + L+VI+ GEF + Y + P
Sbjct: 120 TDAPTSALSVIYTEEGEF--ERYLFLPKNP 147
>gnl|CDD|221310 pfam11913, DUF3431, Protein of unknown function (DUF3431). This
family of proteins are functionally uncharacterized.
This protein is found in eukaryotes. Proteins in this
family are typically between 291 to 390 amino acids in
length. This protein has a conserved NLRC sequence
motif.
Length = 220
Score = 24.5 bits (54), Expect = 5.1
Identities = 13/33 (39%), Positives = 17/33 (51%), Gaps = 2/33 (6%)
Query: 29 HSHYKSNHNDAPITDLAVIFPTLG-EFV-PDGY 59
HSH + HND P D + L +FV +GY
Sbjct: 70 HSHRFAWHNDDPDYDNVALLRRLRLDFVQRNGY 102
>gnl|CDD|215889 pfam00385, Chromo, Chromo (CHRromatin Organisation MOdifier)
domain.
Length = 52
Score = 23.3 bits (51), Expect = 6.1
Identities = 9/26 (34%), Positives = 12/26 (46%), Gaps = 1/26 (3%)
Query: 1 MDDRRVADYFVV-CGLPDDQAEWEEE 25
+ +Y V G P D+A WE E
Sbjct: 10 LRKGGNKEYLVKWKGYPYDEATWEPE 35
>gnl|CDD|215467 PLN02866, PLN02866, phospholipase D.
Length = 1068
Score = 24.3 bits (53), Expect = 6.6
Identities = 10/36 (27%), Positives = 13/36 (36%)
Query: 17 DDQAEWEEETSEHSHYKSNHNDAPITDLAVIFPTLG 52
DD+ + H N + L VI P LG
Sbjct: 97 DDEPDDGTVPLHHDESAKNRDVPSSAALPVIRPALG 132
>gnl|CDD|185735 cd08994, GH43_like_2, Glycosyl hydrolase 43-like family consists
of hypothetical proteins. This subfamily mostly
contains uncharacterized proteins similar to glycosyl
hydrolase family 43 (GH43) which includes enzymes with
beta-xylosidase (EC 3.2.1.37) and
alpha-L-arabinofuranosidase (EC 3.2.1.55) and possibly
bifunctional xylosidase/arabinofuranosidase activities.
GH43 are inverting enzymes (i.e. they invert the
stereochemistry of the anomeric carbon atom of the
substrate) that have an aspartate as the catalytic
general base, a glutamate as the catalytic general acid
and another aspartate that is responsible for pKa
modulation and orienting the catalytic acid. Many of
the enzymes in this family display both
alpha-L-arabinofuranosidase and beta-D-xylosidase
activity using aryl-glycosides as substrates. A common
structural feature of GH43 enzymes is a 5-bladed
beta-propeller domain that contains the catalytic acid
and catalytic base. A long V-shaped groove, partially
enclosed at one end, forms a single extended
substrate-binding surface across the face of the
propeller.
Length = 291
Score = 23.8 bits (52), Expect = 7.9
Identities = 18/73 (24%), Positives = 23/73 (31%), Gaps = 17/73 (23%)
Query: 4 RRVADYFVVCGL----PDDQ-----AEWEEET--------SEHSHYKSNHNDAPITDLAV 46
DY V G PD + + W E SE H S+ + P T V
Sbjct: 6 LEDEDYSVWGGSIIKGPDGKYHLFASRWPEGLGFHGWLPYSEIVHAVSDTPEGPYTFQEV 65
Query: 47 IFPTLGEFVPDGY 59
+ P G D
Sbjct: 66 VLPGRGGGYWDAR 78
>gnl|CDD|149199 pfam07984, DUF1693, Domain of unknown function (DUF1693). This
family contains many hypothetical proteins. It also
includes four nematode prion-like proteins. This domain
has been identified as part of the
nucleotidyltransferase superfamily.
Length = 320
Score = 23.9 bits (52), Expect = 8.1
Identities = 14/55 (25%), Positives = 20/55 (36%), Gaps = 18/55 (32%)
Query: 30 SHYKSNHNDAPITDLAVIFP------------------TLGEFVPDGYDVIKSTP 66
SH S+ + DL +IF L +F+P+G K TP
Sbjct: 61 SHVLSSDSGLGYKDLDLIFGVELPSETEFQLVKDVVLDCLLDFLPEGVSKEKITP 115
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
0.315 0.135 0.419
Gapped
Lambda K H
0.267 0.0717 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 3,627,403
Number of extensions: 257829
Number of successful extensions: 176
Number of sequences better than 10.0: 1
Number of HSP's gapped: 176
Number of HSP's successfully gapped: 15
Length of query: 69
Length of database: 10,937,602
Length adjustment: 39
Effective length of query: 30
Effective length of database: 9,207,796
Effective search space: 276233880
Effective search space used: 276233880
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 53 (24.2 bits)