RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy12745
(175 letters)
>gnl|CDD|130366 TIGR01299, synapt_SV2, synaptic vesicle protein SV2. This model
describes a tightly conserved subfamily of the larger
family of sugar (and other) transporters described by
PFAM model pfam00083. Members of this subfamily include
closely related forms SV2A and SV2B of synaptic vesicle
protein from vertebrates and a more distantly related
homolog (below trusted cutoff) from Drosophila
melanogaster. Members are predicted to have two sets of
six transmembrane helices.
Length = 742
Score = 54.6 bits (131), Expect = 4e-09
Identities = 26/85 (30%), Positives = 48/85 (56%), Gaps = 4/85 (4%)
Query: 39 IAYFIIP-IKWTYPVFDFFLMCSWRIFLIVSTFPSLAGALLVFFIPESPKFLMTHGRSDD 97
+A+ IIP W++ + + SWR+F+IV FP + + F+PESP+F + +G+ D+
Sbjct: 310 MAWAIIPHYGWSFQMGSAYQFHSWRVFVIVCAFPCVFAIGALTFMPESPRFFLENGKHDE 369
Query: 98 ALDVFQSMYARNT---GKPKDSYPV 119
A + + ++ N G P+ + V
Sbjct: 370 AWMILKLIHDTNMRAKGHPEKVFSV 394
>gnl|CDD|233176 TIGR00898, 2A0119, cation transport protein. [Transport and
binding proteins, Cations and iron carrying compounds].
Length = 505
Score = 52.3 bits (126), Expect = 2e-08
Identities = 21/63 (33%), Positives = 38/63 (60%), Gaps = 2/63 (3%)
Query: 51 PVFDFFLMCSWRIFLIVSTFPSLAGALLVFFIPESPKFLMTHGRSDDALDVFQSMYARNT 110
P+ +F+ WR + + P+ LL +F+PESP++L++ GR ++AL + Q + A+
Sbjct: 233 PLVAYFIP-DWRWLQLAVSLPTFLFFLLSWFVPESPRWLISQGRIEEALKILQRI-AKIN 290
Query: 111 GKP 113
GK
Sbjct: 291 GKK 293
>gnl|CDD|215702 pfam00083, Sugar_tr, Sugar (and other) transporter.
Length = 449
Score = 43.4 bits (103), Expect = 2e-05
Identities = 14/43 (32%), Positives = 26/43 (60%)
Query: 61 WRIFLIVSTFPSLAGALLVFFIPESPKFLMTHGRSDDALDVFQ 103
WRI L + P++ + + F+PESP++L+ G+ ++A V
Sbjct: 169 WRIPLGLQFVPAILLLIGLLFLPESPRWLVLKGKLEEARAVLA 211
>gnl|CDD|182225 PRK10077, xylE, D-xylose transporter XylE; Provisional.
Length = 479
Score = 38.5 bits (90), Expect = 0.001
Identities = 13/41 (31%), Positives = 25/41 (60%)
Query: 61 WRIFLIVSTFPSLAGALLVFFIPESPKFLMTHGRSDDALDV 101
WR P+L +L++F+PE+P++LM+ G+ + A +
Sbjct: 193 WRYMFASEAIPALLFLMLLYFVPETPRYLMSRGKQEQAEGI 233
>gnl|CDD|233165 TIGR00879, SP, MFS transporter, sugar porter (SP) family. This
model represent the sugar porter subfamily of the major
facilitator superfamily (pfam00083) [Transport and
binding proteins, Carbohydrates, organic alcohols, and
acids].
Length = 481
Score = 38.1 bits (89), Expect = 0.001
Identities = 16/38 (42%), Positives = 25/38 (65%)
Query: 61 WRIFLIVSTFPSLAGALLVFFIPESPKFLMTHGRSDDA 98
WRI L + P+ L +FF+PESP++L+ GR ++A
Sbjct: 195 WRIPLGLQLIPAGLLFLGLFFLPESPRWLVGKGRVEEA 232
>gnl|CDD|223937 COG1005, NuoH, NADH:ubiquinone oxidoreductase subunit 1 (chain H)
[Energy production and conversion].
Length = 332
Score = 33.4 bits (77), Expect = 0.048
Identities = 10/53 (18%), Positives = 24/53 (45%), Gaps = 2/53 (3%)
Query: 33 FVKGLVIAYFIIPIKWTYPVF--DFFLMCSWRIFLIVSTFPSLAGALLVFFIP 83
+K + +F + ++ T P + D + W+I L ++ + A L+ +
Sbjct: 279 VLKTAFLFFFFLWLRATLPRYRYDQLMRLGWKILLPLTLVNLVLTAALLLLVW 331
>gnl|CDD|177201 MTH00143, ND1, NADH dehydrogenase subunit 1; Provisional.
Length = 307
Score = 31.8 bits (73), Expect = 0.15
Identities = 15/52 (28%), Positives = 24/52 (46%), Gaps = 7/52 (13%)
Query: 33 FVKGLVIAYFIIPIKWTYPVF--DFFLMCSWRIFLIVSTFPSLAGALLVFFI 82
K L A+ I ++ +YP F D +M W+ FL P L++F +
Sbjct: 259 MFKVLFFAFLFIWVRASYPRFRYDLLMMLCWKSFL-----PFSLSILVLFVV 305
>gnl|CDD|233175 TIGR00895, 2A0115, benzoate transport. [Transport and binding
proteins, Carbohydrates, organic alcohols, and acids].
Length = 398
Score = 30.8 bits (70), Expect = 0.30
Identities = 19/58 (32%), Positives = 25/58 (43%), Gaps = 9/58 (15%)
Query: 33 FVKGLVIAYFIIPIKWTYPVFDFFLMCSWRI-FLIVSTFPSLAGALLVFFIPESPKFL 89
+ G + F+ W PVF WR F + P L LL+ F+PES FL
Sbjct: 150 YPIGAAVGGFLAG--WLIPVFG------WRSLFYVGGIAPLLLLLLLMRFLPESIDFL 199
>gnl|CDD|177241 MTH00193, ND1, NADH dehydrogenase subunit 1; Provisional.
Length = 306
Score = 29.4 bits (67), Expect = 0.84
Identities = 15/52 (28%), Positives = 26/52 (50%), Gaps = 8/52 (15%)
Query: 33 FVKGLVIAYFIIPIKWTYPVF--DFFLMCSWRIFLIVSTFPSLAGALLVFFI 82
++K L I++ I ++ T P F D + +W+ FL +S L+FF
Sbjct: 255 YLKLLFISFLFIWVRGTLPRFRYDKLMYLAWKSFLPLSLN------YLLFFF 300
>gnl|CDD|236927 PRK11551, PRK11551, putative 3-hydroxyphenylpropionic transporter
MhpT; Provisional.
Length = 406
Score = 29.2 bits (66), Expect = 1.3
Identities = 14/48 (29%), Positives = 22/48 (45%), Gaps = 1/48 (2%)
Query: 61 WR-IFLIVSTFPSLAGALLVFFIPESPKFLMTHGRSDDALDVFQSMYA 107
WR IF + P L LL+ ++PES F G V ++++
Sbjct: 168 WRHIFYVGGVGPLLLVPLLMRWLPESRAFAQAAGAGKQRAPVLRALFG 215
>gnl|CDD|129965 TIGR00887, 2A0109, phosphate:H+ symporter. This model represents
the phosphate uptake symporter subfamily of the major
facilitator superfamily (pfam00083) [Transport and
binding proteins, Anions].
Length = 502
Score = 28.5 bits (64), Expect = 2.2
Identities = 13/55 (23%), Positives = 20/55 (36%), Gaps = 2/55 (3%)
Query: 61 WRIFLIVSTFPSLAGALLVFFIPESPKFLMTHGRSDDALDVFQSMYARNTGKPKD 115
WRI + P+L IPE+P++ + D M A K +
Sbjct: 203 WRILIGFGAVPALLALYFRLTIPETPRYTADVAK--DVEQAASDMSAVLQVKIEA 255
>gnl|CDD|233166 TIGR00880, 2_A_01_02, Multidrug resistance protein.
Length = 141
Score = 27.6 bits (62), Expect = 2.4
Identities = 15/66 (22%), Positives = 23/66 (34%), Gaps = 7/66 (10%)
Query: 21 DWNRSHAFSHTPFVKGLVIAYFIIPIKWTYPVFDFFLMCSWR-IFLIVSTFPSLAGALLV 79
R A G+ + + P + F WR FL ++ A LL
Sbjct: 82 PEERGVALGL--MSAGIALGPLLGPPLGGV-LAQFL---GWRAPFLFLAILALAAFILLA 135
Query: 80 FFIPES 85
F +PE+
Sbjct: 136 FLLPET 141
>gnl|CDD|235692 PRK06076, PRK06076, NADH:ubiquinone oxidoreductase subunit H;
Provisional.
Length = 322
Score = 27.8 bits (63), Expect = 2.5
Identities = 8/38 (21%), Positives = 17/38 (44%), Gaps = 2/38 (5%)
Query: 33 FVKGLVIAYFIIPIKWTYPVF--DFFLMCSWRIFLIVS 68
+K + I ++ T P + D + W++ L +S
Sbjct: 275 VLKVAFFVFLFIWLRATLPRYRYDQLMRLGWKVLLPLS 312
>gnl|CDD|224208 COG1289, COG1289, Predicted membrane protein [Function unknown].
Length = 674
Score = 28.1 bits (63), Expect = 2.7
Identities = 14/67 (20%), Positives = 24/67 (35%), Gaps = 11/67 (16%)
Query: 36 GLVIAYFIIPIKWTYPVFDFFLMCSWRIFL-----IVSTFPS----LAG--ALLVFFIPE 84
G +A ++ + P L+ W + T S LAG AL++ P
Sbjct: 68 GFAVALLLVALLAQEPWLFLLLLTLWLGLCTAIGSLYRTIASYAFVLAGYTALIIGPAPA 127
Query: 85 SPKFLMT 91
P+ +
Sbjct: 128 IPEPELL 134
>gnl|CDD|219257 pfam06993, DUF1304, Protein of unknown function (DUF1304). This
family consists of several hypothetical bacterial
proteins of around 120 residues in length. The function
of this family is unknown.
Length = 113
Score = 27.1 bits (61), Expect = 3.1
Identities = 14/57 (24%), Positives = 20/57 (35%), Gaps = 12/57 (21%)
Query: 36 GLVIAYFIIPIKWTYPVFDFFLMC------------SWRIFLIVSTFPSLAGALLVF 80
GL+ F+ + FFL C S +I L+ LA LL+
Sbjct: 57 GLIWGLFLGNAGVGLALVLFFLGCVIVAAIYGALTASKKILLVQGLPALLALILLLL 113
>gnl|CDD|223940 COG1008, NuoM, NADH:ubiquinone oxidoreductase subunit 4 (chain M)
[Energy production and conversion].
Length = 497
Score = 27.9 bits (63), Expect = 3.2
Identities = 14/33 (42%), Positives = 18/33 (54%), Gaps = 6/33 (18%)
Query: 56 FLMCSWRIFLIVSTFPSLAGALLVFFIPESPKF 88
F + S IFL L GALL+ IP++ KF
Sbjct: 3 FPLLSLLIFLP------LIGALLILLIPDNGKF 29
>gnl|CDD|227055 COG4711, COG4711, Predicted membrane protein [Function unknown].
Length = 217
Score = 27.4 bits (61), Expect = 3.5
Identities = 8/52 (15%), Positives = 15/52 (28%), Gaps = 4/52 (7%)
Query: 32 PFVKGLVIAYFIIPIK----WTYPVFDFFLMCSWRIFLIVSTFPSLAGALLV 79
+VI + + FDF + +V ++ GA
Sbjct: 162 RLRTTMVIYFVSSLASIYMLGIFTRFDFTTVTQAIKATLVLGLFAVIGAAAA 213
>gnl|CDD|143461 cd07143, ALDH_AldA_AN0554, Aspergillus nidulans aldehyde
dehydrogenase, AldA (AN0554)-like. NAD(P)+-dependent
aldehyde dehydrogenase (AldA) of Aspergillus nidulans
(locus AN0554), and other similar sequences, are present
in this CD.
Length = 481
Score = 27.5 bits (61), Expect = 3.9
Identities = 10/21 (47%), Positives = 13/21 (61%), Gaps = 6/21 (28%)
Query: 43 IIPIKWTYPVFDFFLMCSWRI 63
IIP W +P LMC+W+I
Sbjct: 151 IIP--WNFP----LLMCAWKI 165
>gnl|CDD|150752 pfam10112, Halogen_Hydrol, 5-bromo-4-chloroindolyl phosphate
hydrolysis protein. Members of this family of
prokaryotic proteins mediate the hydrolysis of
5-bromo-4-chloroindolyl phosphate bonds.
Length = 199
Score = 26.9 bits (60), Expect = 5.3
Identities = 19/80 (23%), Positives = 27/80 (33%), Gaps = 11/80 (13%)
Query: 29 SHTPFVKGLVIAYFIIPIKWTYPVFDFFLMCSWRIFLIVSTFPSLAGALLVFFIPE---- 84
F+ G ++ I I W F + FL+ + AGA V +
Sbjct: 3 RIISFLLGTLVGIPIAAIAWLVSFFGL-----DQSFLL--SLLIGAGAGWVVYAAGKRRA 55
Query: 85 SPKFLMTHGRSDDALDVFQS 104
KFL HG S +S
Sbjct: 56 RRKFLKEHGLSRREYKYIRS 75
>gnl|CDD|225733 COG3192, EutH, Ethanolamine utilization protein [Amino acid
transport and metabolism].
Length = 389
Score = 27.1 bits (60), Expect = 5.7
Identities = 18/52 (34%), Positives = 22/52 (42%), Gaps = 3/52 (5%)
Query: 33 FVKGLVIAYFIIPIKWTYPVFDFFLMCSWRIFLIVSTFPSLAGALLVFFIPE 84
GLV Y + I FDF L+ R + V L AL + FIPE
Sbjct: 155 LAGGLVAGYSGVQINGQPVEFDFALI--LRNLIPVIIVAVLI-ALGLKFIPE 203
>gnl|CDD|233172 TIGR00891, 2A0112, putative sialic acid transporter. [Transport
and binding proteins, Carbohydrates, organic alcohols,
and acids].
Length = 405
Score = 27.2 bits (60), Expect = 5.8
Identities = 10/45 (22%), Positives = 15/45 (33%)
Query: 50 YPVFDFFLMCSWRIFLIVSTFPSLAGALLVFFIPESPKFLMTHGR 94
Y + WR +S P + L IPE+ + H
Sbjct: 156 YSLVVPVWGDGWRALFFISILPIIFALWLRKNIPEAEDWKEKHAG 200
>gnl|CDD|187737 cd09616, Peptidase_C12_UCH_L1_L3, Cysteine peptidase C12 containing
ubiquitin carboxyl-terminal hydrolase (UCH) families L1
and L3. This ubiquitin C-terminal hydrolase (UCH)
family includes UCH-L1 and UCH-L3, the two members
sharing around 53% sequence identity as well as
conserved catalytic residues. Both enzymes hydrolyze
carboxyl terminal esters and amides of ubiquitin (Ub).
UCH-L1, in dimeric form, has additional enzymatic
activity as a ubiquitin ligase. It is highly abundant in
the brain, constituting up to 2% of total protein, and
is expressed exclusively in neurons and testes. Abnormal
expression of UCH-L1 has been shown to correlate with
several forms of cancer, including several primary lung
tumors, lung tumor cell lines, and colorectal cancers.
Mutations in the UCH-L1 gene have been linked to
susceptibility to and protection from Parkinson's
disease (PD); dysfunction of the hydrolase activity can
lead to an accumulation of alpha-synuclein, which is
linked to Parkinson's disease (PD), while accumulation
of neurofibrillary tangles is linked to Alzheimer's
disease (AD). UCH-L3 hydrolyzes isopeptide bonds at the
C-terminal glycine of either Ub or Nedd8, a
ubiquitin-like protein. It can also interact with
Lys48-linked Ub dimers to protect them from degradation
while inhibiting its hydrolase activity at the same
time. Unlike UCH-L1, neither dimerization nor ligase
activity have been observed for UCH-L3. It has been
shown that levels of Nedd8 and the apoptotic protein p53
and Bax are elevated in UCH-L3 knockout mice upon
cryptorchid injury, possibly contributing to profound
germ cell loss via apoptosis.
Length = 222
Score = 26.8 bits (60), Expect = 6.2
Identities = 12/38 (31%), Positives = 21/38 (55%), Gaps = 4/38 (10%)
Query: 127 PTSICALLMLFGLKELTVEERVITRPTSIQEIEEEGDD 164
P + A+L+LF + + EE R +EI+E+G +
Sbjct: 41 PRPVLAVLLLFPITK-AYEE---FRKEEEEEIKEKGQE 74
>gnl|CDD|182964 PRK11102, PRK11102, bicyclomycin/multidrug efflux system;
Provisional.
Length = 377
Score = 26.4 bits (59), Expect = 8.4
Identities = 13/27 (48%), Positives = 18/27 (66%), Gaps = 1/27 (3%)
Query: 60 SWR-IFLIVSTFPSLAGALLVFFIPES 85
SW IF +++ LA AL+ FFIPE+
Sbjct: 143 SWHAIFWVLALAAILAAALVFFFIPET 169
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
0.325 0.139 0.437
Gapped
Lambda K H
0.267 0.0750 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 9,209,687
Number of extensions: 860917
Number of successful extensions: 1197
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1194
Number of HSP's successfully gapped: 55
Length of query: 175
Length of database: 10,937,602
Length adjustment: 90
Effective length of query: 85
Effective length of database: 6,945,742
Effective search space: 590388070
Effective search space used: 590388070
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 (21.6 bits)
S2: 56 (25.3 bits)