RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy4672
(78 letters)
>gnl|CDD|216250 pfam01026, TatD_DNase, TatD related DNase. This family of proteins
are related to a large superfamily of metalloenzymes.
TatD, a member of this family has been shown
experimentally to be a DNase enzyme.
Length = 255
Score = 40.3 bits (95), Expect = 1e-05
Identities = 18/55 (32%), Positives = 33/55 (60%), Gaps = 5/55 (9%)
Query: 24 SGYICKDSSEAGLQGMLESGELPMDRILVESDAPFLYPNARAAKL--PIHVRHLV 76
SG + +++ L+ ++ E+P+DR+LVE+DAP+L P K P +V ++
Sbjct: 177 SGIVTFKNAK-KLREVVA--EIPLDRLLVETDAPYLAPVPYRGKRNEPAYVPYVA 228
>gnl|CDD|223162 COG0084, TatD, Mg-dependent DNase [DNA replication, recombination,
and repair].
Length = 256
Score = 38.7 bits (91), Expect = 6e-05
Identities = 17/35 (48%), Positives = 24/35 (68%), Gaps = 2/35 (5%)
Query: 44 ELPMDRILVESDAPFLYPNARAAK--LPIHVRHLV 76
ELP+DR+L+E+DAP+L P K P +VRH+
Sbjct: 194 ELPLDRLLLETDAPYLAPVPYRGKRNEPAYVRHVA 228
>gnl|CDD|238635 cd01310, TatD_DNAse, TatD like proteins; E.coli TatD is a
cytoplasmic protein, shown to have magnesium dependent
DNase activity.
Length = 251
Score = 37.6 bits (88), Expect = 1e-04
Identities = 16/53 (30%), Positives = 33/53 (62%), Gaps = 5/53 (9%)
Query: 24 SGYICKDSSEAGLQGMLESGELPMDRILVESDAPFLYPNARAAKL--PIHVRH 74
SG + ++ L+ +++ E+P++R+L+E+D+P+L P K P +V+H
Sbjct: 173 SGIVTFKNANE-LREVVK--EIPLERLLLETDSPYLAPVPFRGKRNEPAYVKH 222
>gnl|CDD|232780 TIGR00010, TIGR00010, hydrolase, TatD family. PSI-BLAST, starting
with a urease alpha subunit, finds a large superfamily
of proteins, including a number of different enzymes
that act as hydrolases at C-N bonds other than peptide
bonds (EC 3.5.-.-), many uncharacterized proteins, and
the members of this family. Several genomes have
multiple paralogs related to this family. However, a set
of 17 proteins can be found, one each from 17 of the
first 20 genomes, such that each member forms a
bidirectional best hit across genomes with all other
members of the set. This core set (and one other
near-perfect member), but not the other paralogs, form
the seed for this model. Additionally, members of the
seed alignment and all trusted hits, but not all
paralogs, have a conserved motif DxHxH near the amino
end. The member from E. coli was recently shown to have
DNase activity [Unknown function, Enzymes of unknown
specificity].
Length = 252
Score = 37.2 bits (87), Expect = 2e-04
Identities = 14/35 (40%), Positives = 24/35 (68%), Gaps = 2/35 (5%)
Query: 44 ELPMDRILVESDAPFLYP-NARAAKL-PIHVRHLV 76
++P++R+LVE+D+P+L P R + P VR+ V
Sbjct: 190 KIPLERLLVETDSPYLAPVPYRGKRNEPAFVRYTV 224
>gnl|CDD|236767 PRK10812, PRK10812, putative DNAse; Provisional.
Length = 265
Score = 32.4 bits (74), Expect = 0.012
Identities = 10/17 (58%), Positives = 16/17 (94%)
Query: 45 LPMDRILVESDAPFLYP 61
+P+DR+LVE+D+P+L P
Sbjct: 195 VPLDRLLVETDSPYLAP 211
>gnl|CDD|182449 PRK10425, PRK10425, DNase TatD; Provisional.
Length = 258
Score = 31.6 bits (72), Expect = 0.018
Identities = 18/54 (33%), Positives = 31/54 (57%), Gaps = 5/54 (9%)
Query: 8 MLEPLNKALLILILCWSGYICKDSSEAGLQGMLESGELPMDRILVESDAPFLYP 61
M L + L I I +G++C + L+ +L +P +R+L+E+DAP+L P
Sbjct: 161 MQACLARGLYIGI---TGWVCDERRGLELRELLP--LIPAERLLLETDAPYLLP 209
>gnl|CDD|236005 PRK07376, PRK07376, NAD(P)H-quinone oxidoreductase subunit F;
Validated.
Length = 673
Score = 28.5 bits (64), Expect = 0.26
Identities = 12/38 (31%), Positives = 20/38 (52%)
Query: 35 GLQGMLESGELPMDRILVESDAPFLYPNARAAKLPIHV 72
L ++ SG + L+ FL P A++A+ P+HV
Sbjct: 211 RLSELVSSGAVSGWLALLLCILVFLGPMAKSAQFPLHV 248
>gnl|CDD|107327 cd06332, PBP1_aromatic_compounds_like, Type I periplasmic binding
proteins of active transport systems that are predicted
to be involved in transport of aromatic compounds such
as 2-nitrobenzoic acid and alkylbenzenes. This group
includes the type I periplasmic binding proteins of
active transport systems that are predicted to be
involved in transport of aromatic compounds such as
2-nitrobenzoic acid and alkylbenzenes; their substrate
specificities are not well characterized, however.
Members also exhibit close similarity to active
transport systems for short chain amides and/or urea
found in bacteria and archaea.
Length = 333
Score = 27.6 bits (62), Expect = 0.64
Identities = 10/32 (31%), Positives = 14/32 (43%), Gaps = 1/32 (3%)
Query: 38 GMLESGE-LPMDRILVESDAPFLYPNARAAKL 68
G + S L + L ES + PNA + L
Sbjct: 71 GPVFSNVALAVVPSLTESGTFLISPNAGPSDL 102
>gnl|CDD|237266 PRK13011, PRK13011, formyltetrahydrofolate deformylase; Reviewed.
Length = 286
Score = 27.3 bits (61), Expect = 0.79
Identities = 14/30 (46%), Positives = 17/30 (56%)
Query: 42 SGELPMDRILVESDAPFLYPNARAAKLPIH 71
GELPMD + V S+ P L P A +P H
Sbjct: 112 IGELPMDIVGVVSNHPDLEPLAAWHGIPFH 141
>gnl|CDD|180962 PRK07403, PRK07403, glyceraldehyde-3-phosphate dehydrogenase;
Reviewed.
Length = 337
Score = 25.6 bits (56), Expect = 3.0
Identities = 14/27 (51%), Positives = 18/27 (66%), Gaps = 4/27 (14%)
Query: 29 KDSSEAGLQGMLESGELPMDRILVESD 55
KD+SE L+G+LE +LP LV SD
Sbjct: 264 KDASEGPLKGILEYSDLP----LVSSD 286
>gnl|CDD|139334 PRK13010, purU, formyltetrahydrofolate deformylase; Reviewed.
Length = 289
Score = 24.4 bits (53), Expect = 7.4
Identities = 12/29 (41%), Positives = 16/29 (55%)
Query: 43 GELPMDRILVESDAPFLYPNARAAKLPIH 71
GEL MD + + S+ P L P A +P H
Sbjct: 117 GELDMDIVGIISNHPDLQPLAVQHDIPFH 145
>gnl|CDD|176494 cd08764, Cyt_b561_CG1275_like, Non-vertebrate eumetazoan cytochrome
b(561). Cytochrome b(561), as found in non-vertebrate
eumetazoans, similar to the Drosophila melanogaster
CG1275 gene product. This protein might act as a
ferric-chelate reductase, catalyzing the reduction of
Fe(3+) to Fe(2+), such as associated with the transport
of iron from the endosome to the cytoplasm. It is
assumed that this protein uses ascorbate as the electron
donor. Belongs to the cytochrome b(561) family, which
are secretory vesicle-specific electron transport
proteins. Cytochromes b(561) are integral membrane
proteins that bind two heme groups non-covalently, and
may have six alpha-helical trans-membrane segments.
Length = 214
Score = 24.2 bits (53), Expect = 8.5
Identities = 10/19 (52%), Positives = 12/19 (63%), Gaps = 4/19 (21%)
Query: 58 FLYP----NARAAKLPIHV 72
FL+P RAA LP+HV
Sbjct: 119 FLFPGLPETLRAAYLPLHV 137
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
0.324 0.139 0.425
Gapped
Lambda K H
0.267 0.0744 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 3,850,343
Number of extensions: 288580
Number of successful extensions: 332
Number of sequences better than 10.0: 1
Number of HSP's gapped: 332
Number of HSP's successfully gapped: 13
Length of query: 78
Length of database: 10,937,602
Length adjustment: 47
Effective length of query: 31
Effective length of database: 8,852,964
Effective search space: 274441884
Effective search space used: 274441884
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.5 bits)
S2: 53 (24.2 bits)