RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy17487
(199 letters)
>gnl|CDD|238117 cd00195, UBCc, Ubiquitin-conjugating enzyme E2, catalytic (UBCc)
domain. This is part of the ubiquitin-mediated protein
degradation pathway in which a thiol-ester linkage forms
between a conserved cysteine and the C-terminus of
ubiquitin and complexes with ubiquitin protein ligase
enzymes, E3. This pathway regulates many fundamental
cellular processes. There are also other E2s which form
thiol-ester linkages without the use of E3s as well as
several UBC homologs (TSG101, Mms2, Croc-1 and similar
proteins) which lack the active site cysteine essential
for ubiquitination and appear to function in DNA repair
pathways which were omitted from the scope of this CD.
Length = 141
Score = 184 bits (469), Expect = 3e-60
Identities = 75/144 (52%), Positives = 94/144 (65%), Gaps = 5/144 (3%)
Query: 7 QRIKREFKEVIKSEEVAKCAIKLELIDDNYTELKGEIAGPPDTPYEGGNFVLEIKVPETY 66
+R+++E K++ K I E +++N E G I GPPDTPYEGG F L+I+ PE Y
Sbjct: 2 KRLQKELKDLKKDPPSG---ISAEPVEENLLEWHGTIRGPPDTPYEGGIFKLDIEFPEDY 58
Query: 67 PFNPPKVKFLTKIWHPNISSVTGAICLDILKDQ-WAAAMTLRTVLLSLQALMAAAEPDDP 125
PF PPKV+F+TKI+HPN+ G ICL ILK W+ A TLRTVLLSLQ+L+ P DP
Sbjct: 59 PFKPPKVRFVTKIYHPNV-DENGKICLSILKTHGWSPAYTLRTVLLSLQSLLNEPNPSDP 117
Query: 126 QDAVVAKQYKENPEMFTLTARHWT 149
+A AK YKEN E F AR WT
Sbjct: 118 LNAEAAKLYKENREEFKKKAREWT 141
>gnl|CDD|215772 pfam00179, UQ_con, Ubiquitin-conjugating enzyme. Proteins destined
for proteasome-mediated degradation may be
ubiquitinated. Ubiquitination follows conjugation of
ubiquitin to a conserved cysteine residue of UBC
homologues. TSG101 is one of several UBC homologues that
lacks this active site cysteine.
Length = 139
Score = 182 bits (464), Expect = 1e-59
Identities = 68/143 (47%), Positives = 93/143 (65%), Gaps = 5/143 (3%)
Query: 8 RIKREFKEVIKSEEVAKCAIKLELIDDNYTELKGEIAGPPDTPYEGGNFVLEIKVPETYP 67
R+++E KE++K I +DDN E + I GP TPYEGG F L+I+ PE YP
Sbjct: 1 RLQKELKELLKD---PPPGISAFPVDDNLFEWEVTIIGPEGTPYEGGVFKLDIEFPEDYP 57
Query: 68 FNPPKVKFLTKIWHPNISSVTGAICLDILKDQ-WAAAMTLRTVLLSLQALMAAAEPDDPQ 126
F PPKVKF TKI+HPN+ +G ICLDILKD+ W+ A+T+ VLLS+Q+L++ P+DP
Sbjct: 58 FKPPKVKFTTKIYHPNVDP-SGEICLDILKDENWSPALTIEQVLLSIQSLLSEPNPEDPL 116
Query: 127 DAVVAKQYKENPEMFTLTARHWT 149
+A AK Y++N E F R +
Sbjct: 117 NAEAAKLYRKNREEFEKKVREYV 139
>gnl|CDD|214562 smart00212, UBCc, Ubiquitin-conjugating enzyme E2, catalytic domain
homologues. Proteins destined for proteasome-mediated
degradation may be ubiquitinated. Ubiquitination follows
conjugation of ubiquitin to a conserved cysteine residue
of UBC homologues. This pathway functions in regulating
many fundamental processes required for cell
viability.TSG101 is one of several UBC homologues that
lacks this active site cysteine.
Length = 145
Score = 172 bits (438), Expect = 2e-55
Identities = 77/148 (52%), Positives = 97/148 (65%), Gaps = 4/148 (2%)
Query: 8 RIKREFKEVIKSEEVAKCAIKLELIDDNYTELKGEIAGPPDTPYEGGNFVLEIKVPETYP 67
R+ +E KE+ K A + D+N E G I GPP TPYEGG F L I+ PE YP
Sbjct: 1 RLLKELKELRKDPPPGFTAY--PVDDENLLEWTGTIVGPPGTPYEGGVFKLTIEFPEDYP 58
Query: 68 FNPPKVKFLTKIWHPNISSVTGAICLDILK-DQWAAAMTLRTVLLSLQALMAAAEPDDPQ 126
F PPKVKF+TKI+HPN+ S +G ICLDILK ++W+ A+TL TVLLSLQ+L++ PD P
Sbjct: 59 FKPPKVKFITKIYHPNVDS-SGEICLDILKQEKWSPALTLETVLLSLQSLLSEPNPDSPL 117
Query: 127 DAVVAKQYKENPEMFTLTARHWTNVYAG 154
+A A+ YK+N E F AR WT YA
Sbjct: 118 NADAAELYKKNREEFKKKAREWTKKYAE 145
>gnl|CDD|227410 COG5078, COG5078, Ubiquitin-protein ligase [Posttranslational
modification, protein turnover, chaperones].
Length = 153
Score = 168 bits (427), Expect = 1e-53
Identities = 66/153 (43%), Positives = 92/153 (60%), Gaps = 3/153 (1%)
Query: 1 MANIAAQRIKREFKEVIKSEEVAKCAIKLELIDDNYTELKGEIAGPPDTPYEGGNFVLEI 60
+ A +R+ +E K++ K + + DDN + I GPPDTPYEGG F L +
Sbjct: 2 SSPSALKRLLKELKKLQKDP-PPGISAGP-VDDDNLFHWEATITGPPDTPYEGGIFKLTL 59
Query: 61 KVPETYPFNPPKVKFLTKIWHPNISSVTGAICLDILKDQWAAAMTLRTVLLSLQALMAAA 120
+ PE YPF PPKV+F TKI+HPN+ +G +CLDILKD+W+ TL T+LLSLQ+L+ +
Sbjct: 60 EFPEDYPFKPPKVRFTTKIFHPNVDP-SGNVCLDILKDRWSPVYTLETILLSLQSLLLSP 118
Query: 121 EPDDPQDAVVAKQYKENPEMFTLTARHWTNVYA 153
PD P + A Y+E+ E + R W YA
Sbjct: 119 NPDSPLNTEAATLYREDKEEYEKKVREWVKKYA 151
>gnl|CDD|240397 PTZ00390, PTZ00390, ubiquitin-conjugating enzyme; Provisional.
Length = 152
Score = 158 bits (400), Expect = 1e-49
Identities = 73/146 (50%), Positives = 88/146 (60%), Gaps = 1/146 (0%)
Query: 10 KREFKEVIKSEEVAKCAIKLELIDDNYTELKGEIAGPPDTPYEGGNFVLEIKVPETYPFN 69
KR KE IK E NY K + GP TPYEGG + LE+ +PE YP
Sbjct: 5 KRIEKETQNLANDPPPGIKAEPDPGNYRHFKILMEGPDGTPYEGGYYKLELFLPEQYPME 64
Query: 70 PPKVKFLTKIWHPNISSVTGAICLDILKDQWAAAMTLRTVLLSLQALMAAAEPDDPQDAV 129
PPKV+FLTKI+HPNI + G ICLDILKD+W+ A+ +RTVLLS+QAL++A EPDDP D
Sbjct: 65 PPKVRFLTKIYHPNIDKL-GRICLDILKDKWSPALQIRTVLLSIQALLSAPEPDDPLDTS 123
Query: 130 VAKQYKENPEMFTLTARHWTNVYAGG 155
VA +K N AR W YA
Sbjct: 124 VADHFKNNRADAEKVAREWNQKYAKH 149
>gnl|CDD|177768 PLN00172, PLN00172, ubiquitin conjugating enzyme; Provisional.
Length = 147
Score = 132 bits (332), Expect = 1e-39
Identities = 69/150 (46%), Positives = 96/150 (64%), Gaps = 4/150 (2%)
Query: 4 IAAQRIKREFKEVIKSEEVAKCAIKLELIDDNYTELKGEIAGPPDTPYEGGNFVLEIKVP 63
+A +RI++E K+++K + + C+ D+N I GP D+PY GG F L I P
Sbjct: 1 MATKRIQKEHKDLLK-DPPSNCSAGP--SDENLFRWTASIIGPSDSPYAGGVFFLSILFP 57
Query: 64 ETYPFNPPKVKFLTKIWHPNISSVTGAICLDILKDQWAAAMTLRTVLLSLQALMAAAEPD 123
YPF PPKV+F TKI+HPNI+S G+ICLDIL+DQW+ A+T+ VLLS+ +L+ PD
Sbjct: 58 PDYPFKPPKVQFTTKIYHPNINS-NGSICLDILRDQWSPALTVSKVLLSISSLLTDPNPD 116
Query: 124 DPQDAVVAKQYKENPEMFTLTARHWTNVYA 153
DP +A+ +KEN + TAR WT YA
Sbjct: 117 DPLVPEIARVFKENRSRYEATAREWTQRYA 146
>gnl|CDD|238116 cd00194, UBA, Ubiquitin Associated domain. The UBA domain is a
commonly occurring sequence motif in some members of the
ubiquitination pathway, UV excision repair proteins, and
certain protein kinases. Although its specific role is
so far unknown, it has been suggested that UBA domains
are involved in conferring protein target specificity.
The domain, a compact three helix bundle, has a
conserved GFP-loop and the proline is thought to be
critical for binding. The UBA domain is distinct from
the conserved three helical domain seen in the
N-terminus of EF-TS and eukaryotic NAC proteins.
Length = 38
Score = 35.9 bits (84), Expect = 5e-04
Identities = 13/36 (36%), Positives = 21/36 (58%)
Query: 163 DSKIQRLTDMGVMSHDARVALSTYNWELERATEAIF 198
+ K+++L +MG +AR AL N +ERA E +
Sbjct: 2 EEKLEQLLEMGFSREEARKALRATNNNVERAVEWLL 37
>gnl|CDD|197551 smart00165, UBA, Ubiquitin associated domain. Present in Rad23,
SNF1-like kinases. The newly-found UBA in p62 is known
to bind ubiquitin.
Length = 37
Score = 34.8 bits (81), Expect = 0.001
Identities = 13/36 (36%), Positives = 19/36 (52%)
Query: 163 DSKIQRLTDMGVMSHDARVALSTYNWELERATEAIF 198
+ KI +L +MG +A AL N +ERA E +
Sbjct: 2 EEKIDQLLEMGFSREEALKALRAANGNVERAAEYLL 37
>gnl|CDD|218742 pfam05773, RWD, RWD domain. This domain was identified in WD40
repeat proteins and Ring finger domain proteins. The
function of this domain is unknown. GCN2 is the
alpha-subunit of the only translation initiation factor
(eIF2 alpha) kinase that appears in all eukaryotes. Its
function requires an interaction with GCN1 via the
domain at its N-terminus, which is termed the RWD domain
after three major RWD-containing proteins: RING
finger-containing proteins, WD-repeat-containing
proteins, and yeast DEAD (DEXD)-like helicases. The
structure forms an alpha + beta sandwich fold consisting
of two layers: a four-stranded antiparallel beta-sheet,
and three side-by-side alpha-helices.
Length = 113
Score = 34.6 bits (80), Expect = 0.007
Identities = 19/89 (21%), Positives = 30/89 (33%), Gaps = 15/89 (16%)
Query: 12 EFKEVIKSEEVAKCAIKLELIDDNYTELKGEIAGPPDTPYEGGNFVLEIKVPETYPFNPP 71
EF++ +K IKL+L+ P VL +PE YP PP
Sbjct: 20 EFEDEVKESSPPTFTIKLKLLTSEAES-------SPLVS-----LVLTFTLPEDYPDEPP 67
Query: 72 KVKFLTKIWHPNISSVTGAICLDILKDQW 100
K+ + + L L++
Sbjct: 68 KISLSSP---WLLRDQDKLQLLKELEELA 93
>gnl|CDD|201355 pfam00627, UBA, UBA/TS-N domain. This small domain is composed of
three alpha helices. This family includes the previously
defined UBA and TS-N domains. The UBA-domain (ubiquitin
associated domain) is a novel sequence motif found in
several proteins having connections to ubiquitin and the
ubiquitination pathway. The structure of the UBA domain
consists of a compact three helix bundle. This domain is
found at the N terminus of EF-TS hence the name TS-N.
The structure of EF-TS is known and this domain is
implicated in its interaction with EF-TU. The domain has
been found in non EF-TS proteins such as alpha-NAC and
MJ0280.
Length = 37
Score = 31.7 bits (73), Expect = 0.021
Identities = 12/33 (36%), Positives = 19/33 (57%)
Query: 163 DSKIQRLTDMGVMSHDARVALSTYNWELERATE 195
+ I++L +MG +A+ AL N +ERA E
Sbjct: 3 EELIKQLREMGFSREEAKKALRATNGNVERAVE 35
>gnl|CDD|214735 smart00591, RWD, domain in RING finger and WD repeat containing
proteins and DEXDc-like helicases subfamily related to
the UBCc domain.
Length = 107
Score = 29.6 bits (67), Expect = 0.41
Identities = 15/92 (16%), Positives = 30/92 (32%), Gaps = 17/92 (18%)
Query: 16 VIKSEEVAKCAIKLELIDDNYTELKGEIAGPPDTPYEGGNFVLEIKVPETYPFNPPKVKF 75
+ E+ I ++L + ++ L++K+PE YP P +
Sbjct: 14 EVIDEDARIPEITIKLSPSSDEGEDQYVS-----------LTLQVKLPENYPDEAPPISL 62
Query: 76 LTKIWHPNISSVTGAICLDILKDQWAAAMTLR 107
L N ++ ++LK A
Sbjct: 63 L------NSEGLSDEQLAELLKKLEEIAEENL 88
>gnl|CDD|149675 pfam08694, UFC1, Ubiquitin-fold modifier-conjugating enzyme 1.
Ubiquitin-like (UBL) post-translational modifiers are
covalently linked to most, if not all, target protein(s)
through an enzymatic cascade analogous to
ubiquitylation, consisting of E1 (activating), E2
(conjugating), and E3 (ligating) enzymes. Ubiquitin-fold
modifier 1 (Ufm1) a ubiquitin-like protein is activated
by a novel E1-like enzyme, Uba5, by forming a
high-energy thioester bond. Activated Ufm1 is then
transferred to its cognate E2-like enzyme, Ufc1, in a
similar thioester linkage. This family represents the
E2-like enzyme.
Length = 161
Score = 29.7 bits (67), Expect = 0.63
Identities = 34/107 (31%), Positives = 46/107 (42%), Gaps = 22/107 (20%)
Query: 7 QRIKREFKEVIKSEEVAKCA----IKLELIDDNYTELKGEIAGPPD-TPYEGGNFVLEIK 61
QR+K E++ +IK E K A +LE + T G+ + YE F LE
Sbjct: 27 QRLKEEYQALIKYVENNKSADNDWFRLE-SNKEGTRWFGKCWYVHNLKKYE---FDLEFD 82
Query: 62 VPETYPFNPPKVKFLTKIWHPNISSVT------GAICLDI-LKDQWA 101
+P TYP PP++ P + T G ICL I K WA
Sbjct: 83 IPVTYPATPPEIAL------PELDGKTAKMYRGGKICLTIHFKPLWA 123
>gnl|CDD|225760 COG3219, COG3219, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 237
Score = 29.0 bits (65), Expect = 1.4
Identities = 17/44 (38%), Positives = 23/44 (52%), Gaps = 1/44 (2%)
Query: 7 QRIKREFKEVIKSEEVAKCAIKLELIDDNYTELKGEIAGPPDTP 50
Q I EF + +S + AI L L+D YT+L E+A PD
Sbjct: 81 QDIAGEFLQYCQSLPLFDGAI-LALMDFEYTQLLAEVAEAPDID 123
>gnl|CDD|203324 pfam05743, UEV, UEV domain. This family includes the eukaryotic
tumour susceptibility gene 101 protein (TSG101).
Altered transcripts of this gene have been detected in
sporadic breast cancers and many other human
malignancies. However, the involvement of this gene in
neoplastic transformation and tumorigenesis is still
elusive. TSG101 is required for normal cell function of
embryonic and adult tissues but that this gene is not a
tumour suppressor for sporadic forms of breast cancer.
This family is related to the ubiquitin conjugating
enzymes.
Length = 119
Score = 28.0 bits (63), Expect = 1.5
Identities = 11/23 (47%), Positives = 15/23 (65%), Gaps = 2/23 (8%)
Query: 51 YEG--GNFVLEIKVPETYPFNPP 71
Y G N + I +P+TYPF+PP
Sbjct: 43 YRGNTYNIPILIWLPDTYPFSPP 65
>gnl|CDD|222765 pfam14461, Prok-E2_B, Prokaryotic E2 family B. A member of the
E2/UBC superfamily of proteins found in several
bacteria. The active site residues are similar to the
eukaryotic E2 proteins but lack the conserved
asparagine. Members of this family are usually fused to
an E1 domain at the C-terminus. The protein is usually
in the gene neighborhood of a gene encoding a member of
the pol-beta nucleotidyltransferase superfamily. Many of
the operons in this family are in ICE-like mobile
elements and plasmids.
Length = 131
Score = 27.8 bits (62), Expect = 2.5
Identities = 22/85 (25%), Positives = 34/85 (40%), Gaps = 11/85 (12%)
Query: 53 GGNFVLEIKVPETYPFNPPKVKFLTK---IWHPNISSVTGAICL-DILKDQW-----AAA 103
GG + + +P+ +P PKV FL P++ S G +CL D W AA
Sbjct: 35 GGVPPIRLVIPDDFPLVLPKV-FLADREERLLPHVES-DGTLCLLDRPSANWDFNGSAAE 92
Query: 104 MTLRTVLLSLQALMAAAEPDDPQDA 128
R + L L+ E + +
Sbjct: 93 SLDRQIQLLLKGSSDGDENQEEFEG 117
>gnl|CDD|107219 cd00298, ACD_sHsps_p23-like, This domain family includes the
alpha-crystallin domain (ACD) of alpha-crystallin-type
small heat shock proteins (sHsps) and a similar domain
found in p23-like proteins. sHsps are small stress
induced proteins with monomeric masses between 12 -43
kDa, whose common feature is this ACD. sHsps are
generally active as large oligomers consisting of
multiple subunits, and are believed to be
ATP-independent chaperones that prevent aggregation and
are important in refolding in combination with other
Hsps. p23 is a cochaperone of the Hsp90 chaperoning
pathway. It binds Hsp90 and participates in the folding
of a number of Hsp90 clients including the progesterone
receptor. p23 also has a passive chaperoning activity.
p23 in addition may act as the cytosolic prostaglandin
E2 synthase. Included in this family is the p23-like
C-terminal CHORD-SGT1 (CS) domain of suppressor of G2
allele of Skp1 (Sgt1) and the p23-like domains of
human butyrate-induced transcript 1 (hB-ind1), NUD
(nuclear distribution) C, Melusin, and NAD(P)H
cytochrome b5 (NCB5) oxidoreductase (OR).
Length = 80
Score = 26.4 bits (59), Expect = 3.8
Identities = 15/53 (28%), Positives = 24/53 (45%), Gaps = 3/53 (5%)
Query: 22 VAKCAIKLELIDDNYTELKGEIAGPPDTPYEGGNFVLEIKVPETYPFNPPKVK 74
V K IK+E ++DN + G+ + G F ++PE +P K K
Sbjct: 17 VKKEDIKVE-VEDNVLTISGKREEEEERERSYGEFERSFELPE--DVDPEKSK 66
>gnl|CDD|181927 PRK09522, PRK09522, bifunctional glutamine
amidotransferase/anthranilate phosphoribosyltransferase;
Provisional.
Length = 531
Score = 28.1 bits (62), Expect = 4.1
Identities = 23/72 (31%), Positives = 33/72 (45%), Gaps = 6/72 (8%)
Query: 111 LSLQALMAAAEPDDPQDAVVAKQYKENPEMFTLTARHWTNVYAGGPSKNPDFDSKIQRLT 170
+SL A AE D + K Y+ E F LT H + G P +N D +++ L
Sbjct: 424 VSLHAPTIVAELHDGE----IKSYQLTAEDFGLTPYHQEQLAGGTPEENRDILTRL--LQ 477
Query: 171 DMGVMSHDARVA 182
G +H+A VA
Sbjct: 478 GKGDAAHEAAVA 489
>gnl|CDD|221051 pfam11265, Med25_VWA, Mediator complex subunit 25 von Willebrand
factor type A. The overall function of the full-length
Med25 is efficiently to coordinate the transcriptional
activation of RAR/RXR (retinoic acid receptor/retinoic X
receptor) in higher eukaryotic cells. Human Med25
consists of several domains with different binding
properties, the N-terminal, VWA domain which is this
one, an SD2 domain from residues 229-381, a PTOV(B) or
ACID domain from 395-545, an SD2 domain from residues
564-645 and a C-terminal NR box-containing domain
(646-650) from 646-747. This VWA or von Willebrand
factor type A domain when bound to RAR and the histone
acetyltransferase CBP is responsible for recruiting Med1
to the rest of the Mediator complex.
Length = 226
Score = 27.5 bits (61), Expect = 4.1
Identities = 15/50 (30%), Positives = 21/50 (42%), Gaps = 9/50 (18%)
Query: 98 DQWAAAMTLRTVLLS---------LQALMAAAEPDDPQDAVVAKQYKENP 138
DQ AA + R + LS L+ L A+PD + Y +NP
Sbjct: 167 DQLAAIIYERGIHLSIIAPRKLPALRLLFEKAKPDQQLPMKSSIDYAKNP 216
>gnl|CDD|226039 COG3508, HmgA, Homogentisate 1,2-dioxygenase [Secondary metabolites
biosynthesis, transport, and catabolism].
Length = 427
Score = 27.5 bits (61), Expect = 5.4
Identities = 16/68 (23%), Positives = 24/68 (35%), Gaps = 19/68 (27%)
Query: 115 ALMAAAEPDDPQDAVVAKQYKENPEMFTLTARHWTNVYAGGPSKNPDFD-------SKIQ 167
L+A D QD V YK N M R N D + +++
Sbjct: 111 LLIANNGDADTQDGVAIHVYKVNESMTKRFFR------------NADGELLIVPQQGELR 158
Query: 168 RLTDMGVM 175
T++GV+
Sbjct: 159 LKTELGVL 166
>gnl|CDD|202976 pfam04340, DUF484, Protein of unknown function, DUF484. This
family consists of several proteins of uncharacterized
function.
Length = 219
Score = 27.0 bits (60), Expect = 5.6
Identities = 9/41 (21%), Positives = 17/41 (41%)
Query: 157 SKNPDFDSKIQRLTDMGVMSHDARVALSTYNWELERATEAI 197
++P+F + L + + H +S +L R E I
Sbjct: 16 RQHPEFFVQHPELLEELRLPHQPANTVSLVERQLARLRERI 56
>gnl|CDD|215216 PLN02385, PLN02385, hydrolase; alpha/beta fold family protein.
Length = 349
Score = 27.0 bits (60), Expect = 6.2
Identities = 15/45 (33%), Positives = 19/45 (42%), Gaps = 6/45 (13%)
Query: 49 TPYEGGNFVLEIKVPETYPFNPPKVKFLTKIWHPNISSVTGAICL 93
TP G IK E+Y N V+ +K W P S A+C
Sbjct: 54 TPPSG------IKTEESYEVNSRGVEIFSKSWLPENSRPKAAVCF 92
>gnl|CDD|211835 TIGR03548, mutarot_permut, cyclically-permuted mutarotase family
protein. Members of this protein family show
essentially full-length homology, cyclically permuted,
to YjhT from Escherichia coli. YjhT was shown to act as
a mutarotase for sialic acid, and by this ability to be
able to act as a virulence factor. Members of the YjhT
family (TIGR03547) and this cyclically-permuted family
have multiple repeats of the beta-propeller-forming
Kelch repeat.
Length = 323
Score = 27.0 bits (60), Expect = 7.4
Identities = 11/34 (32%), Positives = 17/34 (50%)
Query: 10 KREFKEVIKSEEVAKCAIKLELIDDNYTELKGEI 43
++K + S VA+C L L +N + GEI
Sbjct: 280 SGKWKSIGNSPFVARCGAALLLTGNNLFVINGEI 313
>gnl|CDD|218099 pfam04465, DUF499, Protein of unknown function (DUF499). Family of
uncharacterized hypothetical prokaryotic proteins.
Length = 1025
Score = 27.1 bits (60), Expect = 8.1
Identities = 24/70 (34%), Positives = 32/70 (45%), Gaps = 14/70 (20%)
Query: 10 KREFKEVIKSEEVAKCAIKLELIDDNYTELKGEIAGPPDTPYEGGNFVLEIKVPETYPFN 69
KR FK V ++E K + EL Y + EI G + F EI ETYPF+
Sbjct: 204 KRIFKHVDENE---KKKVLNELR--EYYSNR-EIFG------DRSKFWEEI--EETYPFH 249
Query: 70 PPKVKFLTKI 79
P ++ L I
Sbjct: 250 PEYIEVLRTI 259
>gnl|CDD|177665 PLN00028, PLN00028, nitrate transmembrane transporter;
Provisional.
Length = 476
Score = 26.8 bits (60), Expect = 8.6
Identities = 9/19 (47%), Positives = 13/19 (68%), Gaps = 2/19 (10%)
Query: 75 FLTK--IWHPNISSVTGAI 91
LTK I + I+SV+G+I
Sbjct: 67 NLTKSDIGNAGIASVSGSI 85
>gnl|CDD|151921 pfam11483, DUF3209, Protein of unknown function (DUF3209). This
family of proteins has no known function.
Length = 122
Score = 25.9 bits (57), Expect = 9.7
Identities = 9/21 (42%), Positives = 14/21 (66%)
Query: 106 LRTVLLSLQALMAAAEPDDPQ 126
L L+ L+ +AA EP+DP+
Sbjct: 55 LDAALVDLEEEIAATEPEDPE 75
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 0.132 0.393
Gapped
Lambda K H
0.267 0.0706 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 10,436,818
Number of extensions: 981614
Number of successful extensions: 883
Number of sequences better than 10.0: 1
Number of HSP's gapped: 873
Number of HSP's successfully gapped: 31
Length of query: 199
Length of database: 10,937,602
Length adjustment: 92
Effective length of query: 107
Effective length of database: 6,857,034
Effective search space: 733702638
Effective search space used: 733702638
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: 56 (25.4 bits)