RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy10473
(124 letters)
>gnl|CDD|217545 pfam03416, Peptidase_C54, Peptidase family C54.
Length = 277
Score = 66.6 bits (163), Expect = 2e-14
Identities = 20/50 (40%), Positives = 28/50 (56%)
Query: 10 DKEQDSEKKLDSTYHCPQASRLHILHMDPSIAVCFLCKTENDFASLCSQI 59
Q D TYHC +LH MDPS+A+ FLC+ E+DF + C ++
Sbjct: 227 TVNQKGFPVDDETYHCRSLRKLHFSDMDPSLAIGFLCRDEDDFDNWCERL 276
>gnl|CDD|152115 pfam11679, DUF3275, Protein of unknown function (DUF3275). This
family of proteins with unknown function appear to be
restricted to Proteobacteria.
Length = 211
Score = 30.2 bits (68), Expect = 0.19
Identities = 14/65 (21%), Positives = 20/65 (30%), Gaps = 3/65 (4%)
Query: 50 NDFASLCSQIRAELRP-EQQPLFELIEDPIEDWTPTQPRPSNLGGTSSPSCSSMRRQPRR 108
+ L P E PL E + P PS + P+ R RR
Sbjct: 80 DGIDKLSRDEPRRTEPQEPDPLDESPASAAPVASAPAPAPSP--QSPKPASRRASRDMRR 137
Query: 109 VSGVG 113
++ G
Sbjct: 138 IAPFG 142
>gnl|CDD|239138 cd02673, Peptidase_C19Q, A subfamily of Peptidase C19. Peptidase
C19 contains ubiquitinyl hydrolases. They are
intracellular peptidases that remove ubiquitin molecules
from polyubiquinated peptides by cleavage of isopeptide
bonds. They hydrolyze bonds involving the carboxyl group
of the C-terminal Gly residue of ubiquitin. The purpose
of the de-ubiquitination is thought to be editing of the
ubiquitin conjugates, which could rescue them from
degradation, as well as recycling of the ubiquitin. The
ubiquitin/proteasome system is responsible for most
protein turnover in the mammalian cell, and with over 50
members, family C19 is one of the largest families of
peptidases in the human genome.
Length = 245
Score = 29.4 bits (66), Expect = 0.38
Identities = 21/129 (16%), Positives = 45/129 (34%), Gaps = 20/129 (15%)
Query: 9 YDKEQDSEKKLDSTYHC-----------PQASRLHILHMDP---------SIAVCFLCKT 48
D +QD+ + L + S + I ++P S VC C
Sbjct: 30 NDDQQDAHEFLLTLLEAIDDIMQVNRTNVPPSNIEIKRLNPLEAFKYTIESSYVCIGCSF 89
Query: 49 ENDFASLCSQIRAELRPEQQPLFELIEDPIEDWTPTQPRPSNLGGTSSPSCSSMRRQPRR 108
E + + + + + + + + EL+ + W+P + S+ S+ S + P
Sbjct: 90 EENVSDVGNFLDVSMIDNKLDIDELLISNFKTWSPIEKDCSSCKCESAISSERIMTFPEC 149
Query: 109 VSGVGEGSD 117
+S +
Sbjct: 150 LSINLKRYK 158
>gnl|CDD|226316 COG3793, TerB, Tellurite resistance protein [Inorganic ion
transport and metabolism].
Length = 144
Score = 28.9 bits (65), Expect = 0.45
Identities = 14/72 (19%), Positives = 25/72 (34%), Gaps = 9/72 (12%)
Query: 5 HIGVYDKEQDSEKKLDSTYHCPQASRLHILHMDPSIAVCFLCKTENDFASLCSQIRAELR 64
I D E DSE+K + L +++V + F +L +
Sbjct: 33 LIARADGEVDSEEKQKM---------VQFLRSSAALSVFDSNEINEIFETLVGSFDTDFE 83
Query: 65 PEQQPLFELIED 76
++ + IED
Sbjct: 84 IGKREAMKEIED 95
>gnl|CDD|213358 cd12824, ZntB-like, Salmonella typhimurium Zn2+ transporter
ZntB-like subfamily. A bacterial subfamily belonging to
the Escherichia coli CorA-Salmonella typhimurium
ZntB_like family (EcCorA_ZntB-like) family of the MIT
superfamily of essential membrane proteins involved in
transporting divalent cations (uptake or efflux) across
membranes. This subfamily includes the Zn2+ transporter
Salmonella typhimurium ZntB which mediates the efflux of
Zn2+ (and Cd2+). Structures of the intracellular domain
of Vibrio parahaemolyticus and Salmonella typhimurium
ZntB form funnel-shaped homopentamers, the tip of the
funnel is formed from two C-terminal transmembrane (TM)
helices from each monomer, and the large opening of the
funnel from the N-terminal cytoplasmic domains. The GMN
signature motif of the MIT superfamily occurs just after
TM1, mutation within this motif is known to abolish Mg2+
transport through Salmonella typhimurium CorA, and
Mrs2p. Natural variants such as GVN and GIN, which occur
in proteins belonging to this subfamily, may be
associated with the transport of different divalent
cations, such as zinc and cadmium. The functional
diversity of MIT transporters may also be due to minor
structural differences regulating gating, substrate
selection, and transport.
Length = 290
Score = 28.3 bits (63), Expect = 1.0
Identities = 12/29 (41%), Positives = 17/29 (58%)
Query: 58 QIRAELRPEQQPLFELIEDPIEDWTPTQP 86
+IR ++RP+QQ L LI DP E +
Sbjct: 159 RIRRQIRPQQQALRPLITDPAELLVTSDR 187
>gnl|CDD|112335 pfam03512, Glyco_hydro_52, Glycosyl hydrolase family 52.
Length = 428
Score = 27.5 bits (61), Expect = 1.8
Identities = 14/47 (29%), Positives = 21/47 (44%), Gaps = 4/47 (8%)
Query: 73 LIEDPIEDWTPTQPRPSNLGGTSSPSCSSMRR----QPRRVSGVGEG 115
L E I++ T R + G + S+MRR + GVG+G
Sbjct: 130 LAEMTIDNTRGTSTRKAFFGYQGNDPYSAMRRIDDTTGGSICGVGQG 176
>gnl|CDD|213537 TIGR00525, folB, dihydroneopterin aldolase. This model describes
a bacterial dihydroneopterin aldolase, shown to form
homo-octamers in E. coli. The equivalent activity is
catalyzed by domains of larger folate biosynthesis
proteins in other systems. The closely related
parologous enzyme in E. coli, dihydroneopterin
triphosphate epimerase, which is also homo-octameric,
and dihydroneopterin aldolase domains of larger
proteins, score below the trusted cutoff but may score
well above the noise cutoff [Biosynthesis of cofactors,
prosthetic groups, and carriers, Folic acid].
Length = 116
Score = 26.1 bits (58), Expect = 3.3
Identities = 13/76 (17%), Positives = 28/76 (36%), Gaps = 19/76 (25%)
Query: 4 GHIGVYDKEQDSEKKL--DST--YHCPQASRLHILHMDPSIAVCFLCKTENDFASLCSQI 59
+ GV+D E+ ++ D +A+ + ++ ++A L S I
Sbjct: 12 AYHGVFDHERVLGQRFVVDLELSVDETKAA--ESDDLGDTV----------NYAELYSAI 59
Query: 60 RAELRPEQQPLFELIE 75
+ + +LIE
Sbjct: 60 EEIV---AEKPRDLIE 72
>gnl|CDD|237825 PRK14828, PRK14828, undecaprenyl pyrophosphate synthase;
Provisional.
Length = 256
Score = 26.6 bits (59), Expect = 3.7
Identities = 9/33 (27%), Positives = 14/33 (42%), Gaps = 2/33 (6%)
Query: 64 RPEQ--QPLFELIEDPIEDWTPTQPRPSNLGGT 94
RP + PL ++IED + P G+
Sbjct: 87 RPSEELNPLLDIIEDVVRQLAPDGRWRVRHVGS 119
>gnl|CDD|218431 pfam05099, TerB, Tellurite resistance protein TerB. This family
contains the TerB tellurite resistance proteins from a a
number of bacteria.
Length = 140
Score = 26.0 bits (58), Expect = 4.0
Identities = 6/32 (18%), Positives = 9/32 (28%), Gaps = 2/32 (6%)
Query: 45 LCKTENDFASLCSQIRAELRPEQQPLFELIED 76
+ D I+ EQ L+E
Sbjct: 73 AEQEAPDLYEFTRAIKDHFDYEQ--RLALLEA 102
>gnl|CDD|130727 TIGR01666, YCCS, TIGR01666 family membrane protein. This model
represents a clade of sequences from gamma and beta
proteobacteria. These proteins are >700 amino acids long
and many have been annotated as putative membrane
proteins. The gene from Salmonella has been annotated as
a putative efflux transporter. The gene from E. coli has
the name yccS [Cell envelope, Other].
Length = 704
Score = 26.0 bits (57), Expect = 6.2
Identities = 10/66 (15%), Positives = 22/66 (33%), Gaps = 4/66 (6%)
Query: 10 DKEQDSEKKLDSTYHCPQASRLHILHMDPSIAVCFLCKTE-NDFASLCSQIRAELRPEQQ 68
Q + + LD P A +L + + + + E+ E++
Sbjct: 621 KNLQQTAQFLDG--FYPVAKKLIYTLEHIE-EIPEAIFNQQQESIETLELRKQEMTAEER 677
Query: 69 PLFELI 74
+F L+
Sbjct: 678 AVFSLV 683
>gnl|CDD|177717 PLN00099, PLN00099, light-harvesting complex IChlorophyll A-B
binding protein Lhca1; Provisional.
Length = 243
Score = 25.8 bits (56), Expect = 6.5
Identities = 9/16 (56%), Positives = 11/16 (68%)
Query: 80 DWTPTQPRPSNLGGTS 95
DW P QPRP L G++
Sbjct: 46 DWMPGQPRPPYLDGSA 61
>gnl|CDD|183219 PRK11593, folB, bifunctional dihydroneopterin
aldolase/dihydroneopterin triphosphate 2'-epimerase;
Provisional.
Length = 119
Score = 25.1 bits (55), Expect = 7.0
Identities = 10/14 (71%), Positives = 11/14 (78%)
Query: 6 IGVYDKEQDSEKKL 19
IGVYD EQ E+KL
Sbjct: 15 IGVYDWEQTIEQKL 28
>gnl|CDD|221190 pfam11727, ISG65-75, Invariant surface glycoprotein. This family
is found in Trypanosome species, and appears to be one
of two invariant surface glycoproteins, ISG65 and ISG75.
that are found in the mammalian stage of the parasitic
protozoan. the sequence suggests the two families are
polypeptides with N-terminal signal sequences,
hydrophilic extracellular domains, single trans-membrane
alpha-helices and short cytoplasmic domains. they are
both expressed in the bloodstream form but not in the
midgut stage. Both polypeptides are distributed over the
entire surface of the parasite.
Length = 286
Score = 25.6 bits (56), Expect = 7.3
Identities = 8/48 (16%), Positives = 16/48 (33%)
Query: 55 LCSQIRAELRPEQQPLFELIEDPIEDWTPTQPRPSNLGGTSSPSCSSM 102
CS + E ++ +E W +P+ S + +C
Sbjct: 198 DCSDTGVDRVFYTDVTSEAMKSALEKWEKVKPKASASSECGNDACKDD 245
>gnl|CDD|183049 PRK11240, PRK11240, penicillin-binding protein 1C; Provisional.
Length = 772
Score = 25.8 bits (57), Expect = 8.5
Identities = 11/42 (26%), Positives = 19/42 (45%), Gaps = 3/42 (7%)
Query: 77 PIEDWTPTQPRPSNLGGTSSPSCSSMRRQ---PRRVSGVGEG 115
P+E W P R + +S C + P +++GV +G
Sbjct: 661 PLEPWLPASERRAARLPPASTICPPLGHDAALPLQLTGVRDG 702
>gnl|CDD|235315 PRK04841, PRK04841, transcriptional regulator MalT; Provisional.
Length = 903
Score = 25.7 bits (57), Expect = 9.4
Identities = 14/53 (26%), Positives = 23/53 (43%), Gaps = 12/53 (22%)
Query: 24 HCPQASRLHILHMDPSIAVCFLCKTENDFASLCSQIRAELRPEQQPLFELIED 76
HC ++ L S++ SL +Q+ EL QPL+ +I+D
Sbjct: 89 HCSKSEALAQKRQYASLS------------SLFAQLFIELADWHQPLYLVIDD 129
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
0.316 0.135 0.417
Gapped
Lambda K H
0.267 0.0635 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 6,240,956
Number of extensions: 512341
Number of successful extensions: 479
Number of sequences better than 10.0: 1
Number of HSP's gapped: 477
Number of HSP's successfully gapped: 24
Length of query: 124
Length of database: 10,937,602
Length adjustment: 85
Effective length of query: 39
Effective length of database: 7,167,512
Effective search space: 279532968
Effective search space used: 279532968
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: 41 (21.6 bits)
S2: 53 (24.4 bits)