RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy15887
(104 letters)
>gnl|CDD|200956 pfam00046, Homeobox, Homeobox domain.
Length = 57
Score = 61.0 bits (149), Expect = 4e-14
Identities = 23/42 (54%), Positives = 28/42 (66%)
Query: 50 RRQRTHFTSQQLQELEATFARNRYPDMSTREEIAMWTNLTEA 91
RR+RT FT +QL+ELE F +NRYP REE+A LTE
Sbjct: 1 RRKRTTFTPEQLEELEKEFEKNRYPSAEEREELAKKLGLTER 42
>gnl|CDD|197696 smart00389, HOX, Homeodomain. DNA-binding factors that are
involved in the transcriptional regulation of key
developmental processes.
Length = 57
Score = 53.8 bits (130), Expect = 2e-11
Identities = 21/42 (50%), Positives = 28/42 (66%)
Query: 49 QRRQRTHFTSQQLQELEATFARNRYPDMSTREEIAMWTNLTE 90
+RR+RT FT +QL+ELE F +N YP REE+A L+E
Sbjct: 1 KRRKRTSFTPEQLEELEKEFQKNPYPSREEREELAKKLGLSE 42
>gnl|CDD|238039 cd00086, homeodomain, Homeodomain; DNA binding domains involved
in the transcriptional regulation of key eukaryotic
developmental processes; may bind to DNA as monomers or
as homo- and/or heterodimers, in a sequence-specific
manner.
Length = 59
Score = 52.6 bits (127), Expect = 6e-11
Identities = 22/41 (53%), Positives = 27/41 (65%)
Query: 50 RRQRTHFTSQQLQELEATFARNRYPDMSTREEIAMWTNLTE 90
RR+RT FT +QL+ELE F +N YP REE+A LTE
Sbjct: 1 RRKRTRFTPEQLEELEKEFEKNPYPSREEREELAKELGLTE 41
>gnl|CDD|227863 COG5576, COG5576, Homeodomain-containing transcription factor
[Transcription].
Length = 156
Score = 30.1 bits (68), Expect = 0.12
Identities = 14/46 (30%), Positives = 22/46 (47%)
Query: 45 NSKRQRRQRTHFTSQQLQELEATFARNRYPDMSTREEIAMWTNLTE 90
S + +R T +QL LE F N YP TR ++++ N+
Sbjct: 47 GSSPPKSKRRRTTDEQLMVLEREFEINPYPSSITRIKLSLLLNMPP 92
>gnl|CDD|219238 pfam06953, ArsD, Arsenical resistance operon trans-acting repressor
ArsD. This family consists of several bacterial
arsenical resistance operon trans-acting repressor ArsD
proteins. ArsD is a trans-acting repressor of the
arsRDABC operon that confers resistance to arsenicals
and antimonials in Escherichia coli. It possesses
two-pairs of vicinal cysteine residues, Cys(12)-Cys(13)
and Cys(112)-Cys(113), that potentially form separate
binding sites for the metalloids that trigger
dissociation of ArsD from the operon. However, as a
homodimer it has four vicinal cysteine pairs.
Length = 120
Score = 28.3 bits (64), Expect = 0.42
Identities = 10/19 (52%), Positives = 12/19 (63%), Gaps = 3/19 (15%)
Query: 72 RYPDMSTREEIAMWTNLTE 90
RYP TREE+A W +T
Sbjct: 87 RYP---TREELARWAGITL 102
>gnl|CDD|226292 COG3769, COG3769, Predicted hydrolase (HAD superfamily) [General
function prediction only].
Length = 274
Score = 27.5 bits (61), Expect = 1.1
Identities = 16/52 (30%), Positives = 21/52 (40%), Gaps = 4/52 (7%)
Query: 51 RQRTHFTSQQLQELEATFARNRYPDMSTREEIAMWTNLTE---ALRETHAYS 99
+ ++L +LE F + D EEIA WT L AL YS
Sbjct: 100 GKVLEKIREKLDKLEEHFGFTTFDD-VDDEEIAEWTGLPREQAALAMLREYS 150
>gnl|CDD|179559 PRK03321, PRK03321, putative aminotransferase; Provisional.
Length = 352
Score = 27.6 bits (62), Expect = 1.2
Identities = 9/30 (30%), Positives = 11/30 (36%), Gaps = 3/30 (10%)
Query: 65 EATFARNRYPDMST---REEIAMWTNLTEA 91
A NRYPDM R +A +
Sbjct: 46 RAAAGVNRYPDMGAVELRAALAEHLGVPPE 75
>gnl|CDD|151547 pfam11103, DUF2887, Protein of unknown function (DUF2887). This
bacterial family of proteins has no known function.
These proteins may be distantly related to the PD(D/E)XK
superfamily.
Length = 200
Score = 27.2 bits (61), Expect = 1.3
Identities = 14/39 (35%), Positives = 20/39 (51%), Gaps = 1/39 (2%)
Query: 47 KRQRRQRTHFTSQ-QLQELEATFARNRYPDMSTREEIAM 84
+R R+Q T Q QL +L T ++P +S E AM
Sbjct: 161 ERARQQLTDEQQQRQLLDLIETILVYKFPQLSREEVEAM 199
>gnl|CDD|222911 PHA02616, PHA02616, VP2/VP3; Provisional.
Length = 259
Score = 26.9 bits (59), Expect = 1.7
Identities = 14/61 (22%), Positives = 23/61 (37%), Gaps = 5/61 (8%)
Query: 12 PLIGNIKTELSNHNDSIEDSSAKDSSSNSKNTKNSKRQRRQRTHFTSQQLQELEATFARN 71
P + + H S +A S TK+S+ +++R T + T RN
Sbjct: 203 PTQAVKRKQDELHPVSPTKKAALSKKSKWTGTKSSQSSKKRRGRSTGRS-----TTVRRN 257
Query: 72 R 72
R
Sbjct: 258 R 258
>gnl|CDD|219791 pfam08317, Spc7, Spc7 kinetochore protein. This domain is found in
cell division proteins which are required for
kinetochore-spindle association.
Length = 321
Score = 26.9 bits (60), Expect = 1.9
Identities = 9/56 (16%), Positives = 27/56 (48%), Gaps = 1/56 (1%)
Query: 13 LIGNIKTELSNHNDSIEDSSAKDSSSNSKNTKNSKRQRRQRTHFTSQQLQELEATF 68
+ ++ EL +IE + K S + +++ R + ++++++ +L+A
Sbjct: 229 QLEELQQELQELTIAIEALTNKKSELLEE-IAEAEKIREECRGWSAKEISKLKAKV 283
>gnl|CDD|203549 pfam06945, DUF1289, Protein of unknown function (DUF1289). This
family consists of a number of hypothetical bacterial
proteins. The aligned region spans around 56 residues
and contains 4 highly conserved cysteine residues
towards the N-terminus. The function of this family is
unknown. Structural modelling suggests this domain may
bind nucleic acids.
Length = 51
Score = 25.3 bits (56), Expect = 2.0
Identities = 7/17 (41%), Positives = 13/17 (76%)
Query: 78 TREEIAMWTNLTEALRE 94
T +EIA W+++++A R
Sbjct: 23 TLDEIAAWSSMSDAERR 39
>gnl|CDD|216190 pfam00918, Gastrin, Gastrin/cholecystokinin family.
Length = 111
Score = 25.9 bits (57), Expect = 3.0
Identities = 12/51 (23%), Positives = 23/51 (45%)
Query: 30 DSSAKDSSSNSKNTKNSKRQRRQRTHFTSQQLQELEATFARNRYPDMSTRE 80
DS +D S+ + T++ +R R R S + L+ + +S R+
Sbjct: 26 DSELQDVPSSPRQTRSLQRTRLDRLGLASLLQKYLQQKRKPHISARLSARQ 76
>gnl|CDD|204086 pfam08880, QLQ, QLQ. The QLQ domain is named after the conserved
Gln, Leu, Gln motif. The QLQ domain is found at the
N-terminus of SWI2/SNF2 protein, which has been shown
to be involved in protein-protein interactions. This
domain has thus been postulated to be involved in
mediating protein interactions.
Length = 37
Score = 24.3 bits (54), Expect = 4.2
Identities = 8/12 (66%), Positives = 9/12 (75%)
Query: 55 HFTSQQLQELEA 66
FT QLQEL+A
Sbjct: 2 PFTPAQLQELKA 13
>gnl|CDD|218402 pfam05050, Methyltransf_21, Methyltransferase FkbM domain. This
family has members from bacteria to human, and appears
to be a methyltransferase.
Length = 174
Score = 25.6 bits (55), Expect = 4.7
Identities = 7/41 (17%), Positives = 17/41 (41%)
Query: 4 RGRILPIEPLIGNIKTELSNHNDSIEDSSAKDSSSNSKNTK 44
+L IEP + +T ++ + ++S ++ K
Sbjct: 31 LKEVLAIEPFPNSDETYHILPKFAVGGENGLSTASVLEDIK 71
>gnl|CDD|117583 pfam09017, Transglut_prok, Microbial transglutaminase. Microbial
transglutaminase (MTG) catalyzes an acyl transfer
reaction by means of a Cys-Asp diad mechanism, in which
the gamma-carboxyamide groups of peptide-bound glutamine
residues act as the acyl donors. The MTG molecule forms
a single, compact domain belonging to the alpha+beta
folding class, containing 11 alpha-helices and 8
beta-strands. The alpha-helices and the beta-strands are
concentrated mainly at the amino and carboxyl ends of
the polypeptide, respectively. These secondary
structures are arranged so that a beta-sheet is
surrounded by alpha-helices, which are clustered into
three regions.
Length = 414
Score = 25.8 bits (56), Expect = 6.0
Identities = 13/37 (35%), Positives = 23/37 (62%), Gaps = 1/37 (2%)
Query: 14 IGNIKTELSNHNDSIEDSSAKDS-SSNSKNTKNSKRQ 49
I N+KTEL+N ND++ + ++ S +NT + K +
Sbjct: 230 IDNLKTELANGNDALLNEDSRSPFYSALRNTPSFKER 266
>gnl|CDD|238988 cd02030, NDUO42, NADH:Ubiquinone oxioreductase, 42 kDa (NDUO42) is
a family of proteins that are highly similar to
deoxyribonucleoside kinases (dNK). Members of this
family have been identified as one of the subunits of
NADH:Ubiquinone oxioreductase (complex I), a
multi-protein complex located in the inner mitochondrial
membrane. The main function of the complex is to
transport electrons from NADH to ubiquinone, which is
accompanied by the translocation of protons from the
mitochondrial matrix to the inter membrane space.
Length = 219
Score = 25.4 bits (56), Expect = 6.5
Identities = 12/47 (25%), Positives = 22/47 (46%), Gaps = 5/47 (10%)
Query: 46 SKRQRRQRTH---FTSQQLQELEATFARNRYPDMSTREEIAM--WTN 87
+ ++R H TS LQ++E + + P++S E+ WT
Sbjct: 158 KRIKKRGDPHEMKVTSAYLQDIENAYKKTFLPEISEHSEVLQYDWTE 204
>gnl|CDD|227226 COG4889, COG4889, Predicted helicase [General function prediction
only].
Length = 1518
Score = 25.6 bits (56), Expect = 7.6
Identities = 14/56 (25%), Positives = 26/56 (46%), Gaps = 14/56 (25%)
Query: 2 LERGRILPIEPLIGN--IKTELSNHND------------SIEDSSAKDSSSNSKNT 43
L+R + +PI +IGN + ND + +S K+S++ +KN+
Sbjct: 941 LKRQKEIPIRVIIGNPPYSAGQKSENDNNQNLSYPKLDKRVYESYGKNSTATNKNS 996
>gnl|CDD|143451 cd07133, ALDH_CALDH_CalB, Coniferyl aldehyde dehydrogenase-like.
Coniferyl aldehyde dehydrogenase (CALDH, EC=1.2.1.68)
of Pseudomonas sp. strain HR199 (CalB) which catalyzes
the NAD+-dependent oxidation of coniferyl aldehyde to
ferulic acid, and similar sequences, are present in
this CD.
Length = 434
Score = 25.1 bits (56), Expect = 7.9
Identities = 6/22 (27%), Positives = 9/22 (40%)
Query: 58 SQQLQELEATFARNRYPDMSTR 79
L+ +A F N P + R
Sbjct: 1 QALLERQKAAFLANPPPSLEER 22
>gnl|CDD|112890 pfam04094, DUF390, Protein of unknown function (DUF390). This is a
family of long proteins currently only found in the rice
genome. They have no known function. However they may be
some kind of transposable element.
Length = 843
Score = 25.2 bits (54), Expect = 8.2
Identities = 19/86 (22%), Positives = 36/86 (41%), Gaps = 4/86 (4%)
Query: 12 PLIGNIKTELSNHNDSIEDSSAKDSSSNSKNTKNSKRQRRQRTHFTSQQLQELEATFARN 71
+ I + S H+ S + + +++ ++ + +R+ R + Q+ AR
Sbjct: 207 FCLSEIPSRPSRHSKSGQSEAEDPAAAEARRREADRREAADRLREAEEAAQDA----ARA 262
Query: 72 RYPDMSTREEIAMWTNLTEALRETHA 97
R + + REE A EA RE A
Sbjct: 263 RQAEEAAREEAARARQAEEAAREAEA 288
>gnl|CDD|215456 PLN02850, PLN02850, aspartate-tRNA ligase.
Length = 530
Score = 25.1 bits (55), Expect = 8.9
Identities = 18/79 (22%), Positives = 31/79 (39%), Gaps = 9/79 (11%)
Query: 25 NDSIEDSSAKDSSSNSKNT-KNSKRQRRQRTHFTSQQLQELEATFARNRYPDMSTRE--- 80
+++E+S K S +K +++ RR+ T + E E + Y D+ E
Sbjct: 3 QEAVEESGEKISKKAAKKAAAKAEKLRREATAKAAAASLEDEDDPLASNYGDVPLEELQS 62
Query: 81 --EIAMWT---NLTEALRE 94
WT +L E L
Sbjct: 63 KVTGREWTDVSDLGEELAG 81
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
0.311 0.124 0.338
Gapped
Lambda K H
0.267 0.0760 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 4,984,382
Number of extensions: 371472
Number of successful extensions: 391
Number of sequences better than 10.0: 1
Number of HSP's gapped: 390
Number of HSP's successfully gapped: 36
Length of query: 104
Length of database: 10,937,602
Length adjustment: 69
Effective length of query: 35
Effective length of database: 7,877,176
Effective search space: 275701160
Effective search space used: 275701160
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 53 (24.1 bits)