RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 023450
(282 letters)
>gnl|CDD|107221 cd06464, ACD_sHsps-like, Alpha-crystallin domain (ACD) of
alpha-crystallin-type small(s) heat shock proteins
(Hsps). sHsps are small stress induced proteins with
monomeric masses between 12 -43 kDa, whose common
feature is the Alpha-crystallin domain (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.
Length = 88
Score = 37.9 bits (89), Expect = 5e-04
Identities = 13/28 (46%), Positives = 17/28 (60%)
Query: 180 RFRLPESTRPELASAVFEDGELIVTVPK 207
FRLPE P+ A E+G L +T+PK
Sbjct: 61 SFRLPEDVDPDKIKASLENGVLTITLPK 88
>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 = 35.6 bits (83), Expect = 0.003
Identities = 21/89 (23%), Positives = 36/89 (40%), Gaps = 15/89 (16%)
Query: 125 VEESPDYFKFVAETDGMG--EVRAHMVEIHPGVTKIVIRPNGCVELSSLDELELD----M 178
++ D + G+ +++ VE+ V + I + +E E
Sbjct: 1 WYQTDDEVVVTVDLPGVKKEDIK---VEVEDNV--LTIS----GKREEEEERERSYGEFE 51
Query: 179 WRFRLPESTRPELASAVFEDGELIVTVPK 207
F LPE PE + A E+G L +T+PK
Sbjct: 52 RSFELPEDVDPEKSKASLENGVLEITLPK 80
>gnl|CDD|180777 PRK06958, PRK06958, single-stranded DNA-binding protein;
Provisional.
Length = 182
Score = 37.1 bits (86), Expect = 0.004
Identities = 14/39 (35%), Positives = 15/39 (38%)
Query: 208 GGGLEGLEERDGGGGGDGSENGEFRGGGQEFMPSAPGNG 246
GGG G GGGG G GGG + G G
Sbjct: 134 GGGYGGESRSGGGGGRASGGGGGGAGGGASRPSAPAGGG 172
Score = 33.6 bits (77), Expect = 0.056
Identities = 21/42 (50%), Positives = 21/42 (50%)
Query: 206 PKGGGLEGLEERDGGGGGDGSENGEFRGGGQEFMPSAPGNGG 247
GGG G E R GGGGG S G GG PSAP GG
Sbjct: 131 GGGGGGYGGESRSGGGGGRASGGGGGGAGGGASRPSAPAGGG 172
Score = 28.2 bits (63), Expect = 3.4
Identities = 20/40 (50%), Positives = 20/40 (50%), Gaps = 1/40 (2%)
Query: 208 GGGLEGLEERDGGGGGDGSENGEFRGGGQEFMPSAPGNGG 247
GGG EG GGGGG G GE R GG S G GG
Sbjct: 119 GGGDEGGYGGGGGGGGGGY-GGESRSGGGGGRASGGGGGG 157
>gnl|CDD|223149 COG0071, IbpA, Molecular chaperone (small heat shock protein)
[Posttranslational modification, protein turnover,
chaperones].
Length = 146
Score = 34.7 bits (80), Expect = 0.017
Identities = 14/28 (50%), Positives = 19/28 (67%)
Query: 180 RFRLPESTRPELASAVFEDGELIVTVPK 207
FRLPE PE+ A +++G L VT+PK
Sbjct: 105 TFRLPEKVDPEVIKAKYKNGLLTVTLPK 132
>gnl|CDD|107229 cd06472, ACD_ScHsp26_like, Alpha crystallin domain (ACD) found in
Saccharomyces cerevisiae (Sc) small heat shock protein
(Hsp)26 and similar proteins. sHsps are molecular
chaperones that suppress protein aggregation and protect
against cell stress, and are generally active as large
oligomers consisting of multiple subunits. ScHsp26 is
temperature-regulated, it switches from an inactive to a
chaperone-active form upon elevation in temperature. It
associates into large 24-mers storage forms which upon
heat shock disassociate into dimers. These dimers
initiate the interaction with non-native substrate
proteins and re-assemble into large globular assemblies
having one monomer of substrate bound per dimer. This
group also contains Arabidopsis thaliana (Ath) Hsp15.7,
a peroxisomal matrix protein which can complement the
morphological phenotype of S. cerevisiae mutants
deficient in Hsps26. AthHsp15.7 is minimally expressed
under normal conditions and is strongly induced by heat
and oxidative stress. Also belonging to this group is
wheat HSP16.9 which differs in quaternary structure from
the shell-type particles of ScHsp26, it assembles as a
dodecameric double disc, with each disc organized as a
trimer of dimers.
Length = 92
Score = 33.0 bits (76), Expect = 0.033
Identities = 28/95 (29%), Positives = 43/95 (45%), Gaps = 22/95 (23%)
Query: 127 ESPDYFKFVAETDGMG--EVRAHMVEIHPGVTKIVIRPNGCVELSSLDELELDMW----- 179
E+P+ F A+ G+ +V+ + + V+R +G E +E + D W
Sbjct: 6 ETPEAHVFKADVPGVKKEDVKVEVEDGR------VLRISG--ERKKEEEKKGDDWHRVER 57
Query: 180 -------RFRLPESTRPELASAVFEDGELIVTVPK 207
RFRLPE+ + A E+G L VTVPK
Sbjct: 58 SSGRFVRRFRLPENADADEVKAFLENGVLTVTVPK 92
>gnl|CDD|215655 pfam00011, HSP20, Hsp20/alpha crystallin family.
Length = 101
Score = 32.6 bits (75), Expect = 0.055
Identities = 14/28 (50%), Positives = 18/28 (64%)
Query: 180 RFRLPESTRPELASAVFEDGELIVTVPK 207
+F LPE+ P+ A +DG L VTVPK
Sbjct: 60 KFVLPENADPDKVKASLKDGVLTVTVPK 87
>gnl|CDD|225903 COG3368, COG3368, Predicted permease [General function prediction
only].
Length = 465
Score = 32.8 bits (75), Expect = 0.18
Identities = 22/93 (23%), Positives = 36/93 (38%), Gaps = 4/93 (4%)
Query: 1 MILPFCSNKILIPIPNSSPFFSRRASLVTLLYLFVISSFLFSFSLLKESKKLEEETTMKV 60
+ F + PI N S +F + +++LLY +S+FLF + K L K+
Sbjct: 196 LTPIFEPYDYVFPIFNISIYFPAKGFILSLLY-AALSAFLFLYGNRKLWSSLLNP---KI 251
Query: 61 HPVPTKKRNNIAIQYFDMNLNNFNSNLRNPQNL 93
V + + +F R PQ L
Sbjct: 252 GEVKGEYSIKSRSPLLSFLIKDFKLIFRKPQLL 284
>gnl|CDD|221518 pfam12301, CD99L2, CD99 antigen like protein 2. This family of
proteins is found in eukaryotes. Proteins in this family
are typically between 165 and 237 amino acids in length.
CD99L2 and CD99 are involved in trans-endothelial
migration of neutrophils in vitro and in the recruitment
of neutrophils into inflamed peritoneum.
Length = 154
Score = 28.6 bits (64), Expect = 2.3
Identities = 15/58 (25%), Positives = 20/58 (34%), Gaps = 3/58 (5%)
Query: 184 PESTRPELASAVFEDGELIVTVPKGGGLEGLEERDGGGGGDGSENGEFRGGGQEFMPS 241
P+ P F D +L GG + GGGG G G GG + +
Sbjct: 56 PDPGNPGGDGGGFSDSDLADVAGDGGYKPD---KGKGGGGGGGGGGGTDGGPEGGAET 110
>gnl|CDD|212546 cd11683, HDAC10, Histone deacetylase 10. Histone deacetylases 10
are class IIb Zn-dependent enzymes that catalyze
hydrolysis of N(6)-acetyl-lysine of a histone to yield a
deacetylated histone (EC 3.5.1.98). Histone
acetylation/deacetylation process is important for
mediation of transcriptional regulation of many genes.
HDACs usually act via association with DNA binding
proteins to target specific chromatin regions. HDAC10
has an N-terminal deacetylase domain and a C-terminal
pseudo-repeat that shares significant similarity with
its catalytic domain. It is located in the nucleus and
cytoplasm, and is involved in regulation of
melanogenesis. It transcriptionally down-regulates
thioredoxin-interacting protein (TXNIP), leading to
altered reactive oxygen species (ROS) signaling in human
gastric cancer cells. Known interaction partners of
HDAC10 are Pax3, KAP1, hsc70 and HDAC3 proteins.
Length = 337
Score = 29.1 bits (65), Expect = 2.4
Identities = 24/91 (26%), Positives = 43/91 (47%), Gaps = 9/91 (9%)
Query: 90 PQNLSTGFHNKKLRRLPHIFTRVLELPFR--SDADVAVEESPDYFKFVAETDGMGEVRAH 147
P+ L+ + ++LR+ + R L LP R S+ ++ + SP+Y V ET M +
Sbjct: 11 PERLTASY--ERLRQY-GLVQRCLRLPAREASEEEILLVHSPEYLSLVRETQVMNK--EE 65
Query: 148 MVEIHPGVTKIVIRPNG--CVELSSLDELEL 176
++ I + PN C L++ L+L
Sbjct: 66 LMAISGKYDAVYFHPNTFHCARLAAGATLQL 96
>gnl|CDD|216868 pfam02084, Bindin, Bindin.
Length = 239
Score = 29.1 bits (65), Expect = 2.4
Identities = 17/42 (40%), Positives = 18/42 (42%), Gaps = 2/42 (4%)
Query: 206 PKGGGLEGLEERDGGGGGDGSENGEFRGGGQEFMPSAPGNGG 247
P GGG G GGGGG G GE G G + G G
Sbjct: 185 PGGGGYGGGGGGMGGGGGGG--MGEMGGMGPQGGGGGYGGMG 224
>gnl|CDD|130403 TIGR01336, psaB, photosystem I core protein PsaB. The core
proteins of photosystem I are PsaA and PsaB, homologous
integral membrane proteins that form a heterodimer. The
heterodimer binds the electron-donating chlorophyll
dimer P700, as well as chlorophyll, phylloquinone, and
4FE-4S electron acceptors. This model describes PsaB
only [Energy metabolism, Photosynthesis].
Length = 734
Score = 29.2 bits (65), Expect = 2.7
Identities = 13/31 (41%), Positives = 16/31 (51%)
Query: 235 GQEFMPSAPGNGGTCTISSTELFSIASLAAL 265
G F PG GGTC IS+ + F +A L
Sbjct: 554 GYSFPCDGPGRGGTCDISAWDAFYLAVFWML 584
>gnl|CDD|181448 PRK08489, PRK08489, NADH dehydrogenase subunit A; Validated.
Length = 129
Score = 28.1 bits (63), Expect = 2.9
Identities = 20/71 (28%), Positives = 32/71 (45%), Gaps = 11/71 (15%)
Query: 17 SSPFFSRRASLVTLLYLFVISSFLFSFSLLKESKKLEEETTMKVH-------PVPTKKRN 69
S P+F LV F +++ L F S+KL ++ T K+ P P K+ N
Sbjct: 7 SHPYFGVFVLLVLTFVAFFLTTRLARFI----SRKLAQKNTEKLKLAIYECGPEPVKQPN 62
Query: 70 NIAIQYFDMNL 80
I+ ++ M L
Sbjct: 63 RISSHFYIMAL 73
>gnl|CDD|235258 PRK04217, PRK04217, hypothetical protein; Provisional.
Length = 110
Score = 27.5 bits (61), Expect = 3.0
Identities = 12/36 (33%), Positives = 20/36 (55%), Gaps = 1/36 (2%)
Query: 181 FRLPESTRPELASAVFEDGELIVTVPKGGGLEGLEE 216
+R S R ++A + E ELI+ +P+G + EE
Sbjct: 76 WRALTSARKKVAQMLVEGRELII-LPQGNEVPRDEE 110
>gnl|CDD|130569 TIGR01505, tartro_sem_red, 2-hydroxy-3-oxopropionate reductase.
This model represents 2-hydroxy-3-oxopropionate
reductase (EC 1.1.1.60), also called tartronate
semialdehyde reductase. It follows glyoxylate
carboligase and precedes glycerate kinase in D-glycerate
pathway of glyoxylate degradation. The eventual product,
3-phosphoglycerate, is an intermediate of glycolysis and
is readily metabolized. Tartronic semialdehyde, the
substrate of this enzyme, may also come from other
pathways, such as D-glucarate catabolism.
Length = 291
Score = 28.7 bits (64), Expect = 3.1
Identities = 20/69 (28%), Positives = 29/69 (42%), Gaps = 2/69 (2%)
Query: 148 MVEIHPGVTKIVIRPNGCVELSSLDELELDMWRFRLPESTRPELASAVFEDGELIVTVPK 207
MV P V ++ NG +E + + +DM P ++ A AV E G + P
Sbjct: 62 MVPDSPQVEEVAFGENGIIEGAKPGKTLVDMSSIS-PIESK-RFAKAVKEKGIDYLDAPV 119
Query: 208 GGGLEGLEE 216
GG G E
Sbjct: 120 SGGEIGAIE 128
>gnl|CDD|235729 PRK06185, PRK06185, hypothetical protein; Provisional.
Length = 407
Score = 28.7 bits (65), Expect = 3.4
Identities = 22/75 (29%), Positives = 32/75 (42%), Gaps = 7/75 (9%)
Query: 138 TDGMGEVRAHMVEIHPGVTKIVIRPNGC--VELSSLDELELDMWRFRLP-ESTRPELASA 194
DG GE+RA +V G V G E + +D+ FRLP E PE
Sbjct: 150 PDGPGEIRADLVVGADGRHSRVRALAGLEVREFGA----PMDVLWFRLPREPDDPESLMG 205
Query: 195 VFEDGELIVTVPKGG 209
F G+ ++ + +G
Sbjct: 206 RFGPGQGLIMIDRGD 220
>gnl|CDD|237300 PRK13199, psaB, photosystem I P700 chlorophyll a apoprotein A2;
Provisional.
Length = 742
Score = 29.0 bits (65), Expect = 3.7
Identities = 13/31 (41%), Positives = 16/31 (51%)
Query: 235 GQEFMPSAPGNGGTCTISSTELFSIASLAAL 265
G F PG GGTC IS+ + F +A L
Sbjct: 562 GYAFPCDGPGRGGTCDISAWDAFYLAMFWML 592
>gnl|CDD|221517 pfam12300, DUF3628, Protein of unknown function (DUF3628). This
domain family is found in bacteria, and is typically
between 153 and 183 amino acids in length. The family is
found in association with pfam00270, pfam00271.
Length = 180
Score = 28.1 bits (62), Expect = 4.3
Identities = 15/37 (40%), Positives = 19/37 (51%), Gaps = 1/37 (2%)
Query: 207 KGGGLEGLEERDGGGGGDGSENGEFRGGGQEFMPSAP 243
+GGG G ER G G G +G+ GGG+ P P
Sbjct: 56 RGGGRSGPGERSGRPVGKGPRDGD-GGGGRRRGPRKP 91
>gnl|CDD|211326 cd02552, PseudoU_synth_TruD_like, Pseudouridine synthase, TruD
family. This group consists of eukaryotic, bacterial
and archeal pseudouridine synthases similar to
Escherichia coli TruD and Saccharomyces cerevisiae Pus7.
Pseudouridine synthases catalyze the isomerization of
specific uridines in an RNA molecule to pseudouridines
(5-ribosyluracil, psi). E. coli TruD and S. cerevisiae
Pus7 make psi13 in cytoplasmic tRNAs. In addition S.
cerevisiae Pus7 makes psi35 in U2 small nuclear RNA (U2
snRNA) and psi35 in pre-tRNATyr. Psi35 in U2 snRNA and
psi13 in tRNAs are highly phylogenetically conserved.
Psi34 is the mammalian U2 snRNA counterpart of yeast U2
snRNA psi35.
Length = 232
Score = 28.3 bits (64), Expect = 4.4
Identities = 13/46 (28%), Positives = 18/46 (39%), Gaps = 6/46 (13%)
Query: 65 TKKRNNIAIQYF------DMNLNNFNSNLRNPQNLSTGFHNKKLRR 104
TK + + Q L N L+ + L G H+KKLR
Sbjct: 67 TKDKRAVTTQRVSVHKPGKERLALLNLELKGIRILEFGRHDKKLRL 112
>gnl|CDD|219320 pfam07172, GRP, Glycine rich protein family. This family of
proteins includes several glycine rich proteins as well
as two nodulins 16 and 24. The family also contains
proteins that are induced in response to various
stresses.
Length = 91
Score = 26.6 bits (59), Expect = 5.1
Identities = 18/51 (35%), Positives = 23/51 (45%), Gaps = 3/51 (5%)
Query: 185 ESTRPELASAVFEDGELIVTVPKGGGLEGLEERDGGGGGDGSENGEFRGGG 235
E +L++ + E V K GG G GGGGG G G + GGG
Sbjct: 22 EVAAADLSNTEKSESENEVQDDKYGGGGG---GYGGGGGGGYGGGGYYGGG 69
>gnl|CDD|237653 PRK14276, PRK14276, chaperone protein DnaJ; Provisional.
Length = 380
Score = 28.1 bits (63), Expect = 5.3
Identities = 18/42 (42%), Positives = 20/42 (47%), Gaps = 3/42 (7%)
Query: 208 GGGLEGLEERDGGGGGDGSE---NGEFRGGGQEFMPSAPGNG 246
GGG G DG GG G E + F GGG P+AP G
Sbjct: 78 GGGAGGFGGFDGSGGFGGFEDIFSSFFGGGGARRNPNAPRQG 119
>gnl|CDD|219521 pfam07695, 7TMR-DISM_7TM, 7TM diverse intracellular signalling.
This entry represents the transmembrane region of the
7TM-DISM (7TM Receptors with Diverse Intracellular
Signalling Modules).
Length = 207
Score = 28.0 bits (63), Expect = 5.4
Identities = 11/38 (28%), Positives = 20/38 (52%)
Query: 15 PNSSPFFSRRASLVTLLYLFVISSFLFSFSLLKESKKL 52
PN+ P+ + + + L L + + LF+ S L+ K L
Sbjct: 58 PNAPPWLNNKLLYLFLALLVIFFALLFARSFLELKKYL 95
>gnl|CDD|234346 TIGR03756, conj_TIGR03756, integrating conjugative element protein,
PFL_4710 family. Members of this protein family are
found in genomic regions associated with conjugative
transfer and integrated TOL-like plasmids. The specific
function is unknown [Mobile and extrachromosomal element
functions, Plasmid functions].
Length = 297
Score = 28.1 bits (63), Expect = 5.7
Identities = 11/23 (47%), Positives = 13/23 (56%), Gaps = 3/23 (13%)
Query: 168 LSSLDELELDMWRFRLPESTRPE 190
LS+LD L WR +PE PE
Sbjct: 143 LSTLDAL---AWRTGIPELLYPE 162
>gnl|CDD|202370 pfam02745, MCR_alpha_N, Methyl-coenzyme M reductase alpha subunit,
N-terminal domain. Methyl-coenzyme M reductase (MCR) is
the enzyme responsible for microbial formation of
methane. It is a hexamer composed of 2 alpha (this
family), 2 beta (pfam02241), and 2 gamma (pfam02240)
subunits with two identical nickel porphinoid active
sites. The N-terminal domain has a ferredoxin-like fold.
Length = 267
Score = 27.9 bits (62), Expect = 6.1
Identities = 9/17 (52%), Positives = 11/17 (64%)
Query: 140 GMGEVRAHMVEIHPGVT 156
G V+ HMVE HPG+
Sbjct: 141 GGAVVQEHMVETHPGLV 157
>gnl|CDD|214338 CHL00025, ndhF, NADH dehydrogenase subunit 5.
Length = 741
Score = 28.3 bits (64), Expect = 6.2
Identities = 21/72 (29%), Positives = 32/72 (44%), Gaps = 5/72 (6%)
Query: 37 SSFLFSFSLLKESKKLEEETTMKVHPVPTKKRNNIAIQYFDMNLNNFNSNLRNP-QNLST 95
+S +S SL K E + K+ + T NN + +F + N+RN ++ T
Sbjct: 470 NSSFYSISLWG---KEESKKINKLLLLLTMN-NNERVSFFSKKTYKIDGNVRNMIRSFIT 525
Query: 96 GFHNKKLRRLPH 107
F NKK PH
Sbjct: 526 IFGNKKTFSYPH 537
>gnl|CDD|107228 cd06471, ACD_LpsHSP_like, Group of bacterial proteins containing an
alpha crystallin domain (ACD) similar to Lactobacillus
plantarum (Lp) small heat shock proteins (sHsp) HSP
18.5, HSP 18.55 and HSP 19.3. sHsps are molecular
chaperones that suppress protein aggregation and protect
against cell stress, and are generally active as large
oligomers consisting of multiple subunits. Transcription
of the genes encoding Lp HSP 18.5, 18.55 and 19.3 is
regulated by a variety of stresses including heat, cold
and ethanol. Early growing L. plantarum cells contain
elevated levels of these mRNAs which rapidly fall of as
the cells enter stationary phase. Also belonging to this
group is Bifidobacterium breve (Bb) HSP20 and Oenococcus
oenis (syn. Leuconostoc oenos) (Oo) HSP18.
Transcription of the gene encoding BbHSP20 is strongly
induced following heat or osmotic shock, and that of the
gene encoding OoHSP18 following heat, ethanol or acid
shock. OoHSP18 is peripherally associated with the
cytoplasmic membrane.
Length = 93
Score = 26.3 bits (59), Expect = 6.4
Identities = 11/27 (40%), Positives = 16/27 (59%), Gaps = 1/27 (3%)
Query: 181 FRLPESTRPELASAVFEDGELIVTVPK 207
F LP E+ A +E+G L +T+PK
Sbjct: 68 FYLPNVDEEEI-KAKYENGVLKITLPK 93
>gnl|CDD|176995 CHL00054, psaB, photosystem I P700 chlorophyll a apoprotein A2.
Length = 734
Score = 28.1 bits (63), Expect = 6.9
Identities = 12/26 (46%), Positives = 15/26 (57%)
Query: 235 GQEFMPSAPGNGGTCTISSTELFSIA 260
G F PG GGTC IS+ + F +A
Sbjct: 554 GYSFPCDGPGRGGTCDISAWDAFYLA 579
>gnl|CDD|213370 cd12836, HpCorA-like, Mg2+ transporter Helicobacter pylori
CorA-like subgroup. A bacterial subgroup of the
Escherichia coli CorA-Salmonella typhimurium ZntB_like
(EcCorA_ZntB-like) family of the MIT superfamily of
essential membrane proteins involved in transporting
divalent cations (uptake or efflux) across membranes.
This subgroup includes the Mg2+ transporter Helicobacter
pylori CorAs (which can also transport Co2+, and Ni2+);
CorA plays an important role in the viability of this
pathogen. Structures of the intracellular domain of
Vibrio parahaemolyticus and Salmonella typhimurium ZntB
(members of the EcCorA_ZntB-like family) 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, such as
occur in some ZntB family proteins, 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 = 288
Score = 27.6 bits (62), Expect = 7.7
Identities = 15/60 (25%), Positives = 25/60 (41%), Gaps = 13/60 (21%)
Query: 68 RNNIAIQYFDMNLNNFNSNLR----NPQNLSTGFHNKKLRRLPHIFTRVLELPFRSDADV 123
++NI L F+ + NP+ TG+ IF+ +LE+ DAD+
Sbjct: 71 KDNILFTIRYGELRTFSETSKKLRANPKKFQTGYD---------IFSSILEIRIDYDADL 121
>gnl|CDD|223003 PHA03169, PHA03169, hypothetical protein; Provisional.
Length = 413
Score = 27.6 bits (61), Expect = 8.1
Identities = 6/41 (14%), Positives = 9/41 (21%)
Query: 207 KGGGLEGLEERDGGGGGDGSENGEFRGGGQEFMPSAPGNGG 247
+G G + G S +G P
Sbjct: 87 RGQGGPSGSGSESVGSPTPSPSGSAEELASGLSPENTSGSS 127
>gnl|CDD|235782 PRK06341, PRK06341, single-stranded DNA-binding protein;
Provisional.
Length = 166
Score = 27.1 bits (60), Expect = 8.2
Identities = 16/37 (43%), Positives = 17/37 (45%)
Query: 218 DGGGGGDGSENGEFRGGGQEFMPSAPGNGGTCTISST 254
DG G G G G GGG +F S P GG SS
Sbjct: 115 DGRGEGGGGGGGGDDGGGGDFGSSGPSRGGPRPASSG 151
>gnl|CDD|132300 TIGR03256, met_CoM_red_alp, methyl-coenzyme M reductase, alpha
subunit. Members of this protein family are the alpha
subunit of methyl coenzyme M reductase, also called
coenzyme-B sulfoethylthiotransferase (EC 2.8.4.1). This
enzyme, with alpha, beta, and gamma subunits, catalyzes
the last step in methanogenesis. Several methanogens
have encode two such enzymes, designated I and II; this
model does not separate the isozymes [Energy metabolism,
Methanogenesis].
Length = 548
Score = 27.6 bits (61), Expect = 8.8
Identities = 8/17 (47%), Positives = 10/17 (58%)
Query: 140 GMGEVRAHMVEIHPGVT 156
G V+ HMVE HP +
Sbjct: 140 GAAVVQEHMVETHPALV 156
>gnl|CDD|235170 PRK03881, PRK03881, hypothetical protein; Provisional.
Length = 467
Score = 27.5 bits (62), Expect = 9.8
Identities = 22/75 (29%), Positives = 32/75 (42%), Gaps = 11/75 (14%)
Query: 133 KFVAETDGMGEVRAHMVEIHPGVTKIVIRPNG-----CVELSSLDELELDMWRFRLPEST 187
K A D + E+ + E P T I+I P+G V +S L+ D+ RF PE +
Sbjct: 26 KIQATIDALRELARRIAEKKPD-TIIIISPHGPVFRDAVAISDGPRLKGDLGRFGAPEVS 84
Query: 188 -----RPELASAVFE 197
EL + E
Sbjct: 85 FSFKNDLELVEEIAE 99
>gnl|CDD|236092 PRK07772, PRK07772, single-stranded DNA-binding protein;
Provisional.
Length = 186
Score = 26.9 bits (60), Expect = 9.8
Identities = 13/43 (30%), Positives = 14/43 (32%)
Query: 205 VPKGGGLEGLEERDGGGGGDGSENGEFRGGGQEFMPSAPGNGG 247
+GGG G GGGGG G GGG
Sbjct: 120 ASRGGGGGGGGGGFGGGGGGSGGGGGGGGGGGAPGGGGAQASA 162
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
0.319 0.137 0.400
Gapped
Lambda K H
0.267 0.0797 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 14,673,002
Number of extensions: 1443350
Number of successful extensions: 1606
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1580
Number of HSP's successfully gapped: 54
Length of query: 282
Length of database: 10,937,602
Length adjustment: 96
Effective length of query: 186
Effective length of database: 6,679,618
Effective search space: 1242408948
Effective search space used: 1242408948
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 58 (26.0 bits)