RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy5837
(181 letters)
>gnl|CDD|233509 TIGR01652, ATPase-Plipid, phospholipid-translocating P-type ATPase,
flippase. This model describes the P-type ATPase
responsible for transporting phospholipids from one
leaflet of bilayer membranes to the other. These ATPases
are found only in eukaryotes.
Length = 1057
Score = 178 bits (454), Expect = 2e-52
Identities = 65/127 (51%), Positives = 94/127 (74%), Gaps = 1/127 (0%)
Query: 56 FVGNKISTAKYSLVTFFPCFLFEQFRRYSNIFFLFIALLQQIPDVSPTGRYTTLIPLILI 115
F NKIST KY+++TF P LFEQF+R++N++FL +ALLQQ+P +SPT R T+++PL +
Sbjct: 1 FCSNKISTTKYTVLTFLPKNLFEQFKRFANLYFLVVALLQQVPILSPTYRGTSIVPLAFV 60
Query: 116 MVVSGIKEIIEDIKRHLADGEINHRSVDVIRNGMIYVE-QWKDLKVGDIVKVYNNSFFPG 174
++V+ IKE IEDI+R D E+N+R +V+ +VE WKDL+VGDIVKV + P
Sbjct: 61 LIVTAIKEAIEDIRRRRRDKEVNNRLTEVLEGHGQFVEIPWKDLRVGDIVKVKKDERIPA 120
Query: 175 DLMVLST 181
DL++LS+
Sbjct: 121 DLLLLSS 127
>gnl|CDD|215623 PLN03190, PLN03190, aminophospholipid translocase; Provisional.
Length = 1178
Score = 125 bits (315), Expect = 1e-33
Identities = 56/144 (38%), Positives = 93/144 (64%), Gaps = 4/144 (2%)
Query: 42 DHRVININAPQSC----KFVGNKISTAKYSLVTFFPCFLFEQFRRYSNIFFLFIALLQQI 97
D R++ +N P+ +F GN I TAKYS+ +F P LFEQF R + I+FL IA+L Q+
Sbjct: 69 DARLVYLNDPEKSNERFEFAGNSIRTAKYSVFSFLPRNLFEQFHRVAYIYFLVIAVLNQL 128
Query: 98 PDVSPTGRYTTLIPLILIMVVSGIKEIIEDIKRHLADGEINHRSVDVIRNGMIYVEQWKD 157
P ++ GR +++PL +++V+ +K+ ED +RH +D N+R V+ + ++WKD
Sbjct: 129 PQLAVFGRGASILPLAFVLLVTAVKDAYEDWRRHRSDRIENNRLAWVLVDDQFQEKKWKD 188
Query: 158 LKVGDIVKVYNNSFFPGDLMVLST 181
++VG+I+K+ N P D+++LST
Sbjct: 189 IRVGEIIKIQANDTLPCDMVLLST 212
>gnl|CDD|223550 COG0474, MgtA, Cation transport ATPase [Inorganic ion transport and
metabolism].
Length = 917
Score = 69.3 bits (170), Expect = 4e-14
Identities = 22/124 (17%), Positives = 45/124 (36%), Gaps = 1/124 (0%)
Query: 59 NKISTAKYSLVTFFPCFLFEQFRRYSNIFFLFIALLQQIPDVSPTGRYTTLIPLILIM-V 117
+ + FL + + + + L + D G +I L++++
Sbjct: 58 GPNELPEEKKRSLLKKFLRQFKDPFIILLLVAALLSAFVGDWVDAGVDAIVILLVVVINA 117
Query: 118 VSGIKEIIEDIKRHLADGEINHRSVDVIRNGMIYVEQWKDLKVGDIVKVYNNSFFPGDLM 177
+ G + K A +++ V+R+G +L GDIV + P DL
Sbjct: 118 LLGFVQEYRAEKALEALKKMSSPKAKVLRDGKFVEIPASELVPGDIVLLEAGDVVPADLR 177
Query: 178 VLST 181
+L +
Sbjct: 178 LLES 181
>gnl|CDD|233438 TIGR01494, ATPase_P-type, ATPase, P-type (transporting), HAD
superfamily, subfamily IC. The P-type ATPases are a
large family of trans-membrane transporters acting on
charged substances. The distinguishing feature of the
family is the formation of a phosphorylated intermediate
(aspartyl-phosphate) during the course of the reaction.
Another common name for these enzymes is the E1-E2
ATPases based on the two isolable conformations: E1
(unphosphorylated) and E2 (phosphorylated). Generally,
P-type ATPases consist of only a single subunit
encompassing the ATPase and ion translocation pathway,
however, in the case of the potassium (TIGR01497) and
sodium/potassium (TIGR01106) varieties, these functions
are split between two subunits. Additional small
regulatory or stabilizing subunits may also exist in
some forms. P-type ATPases are nearly ubiquitous in life
and are found in numerous copies in higher organisms (at
least 45 in Arabidopsis thaliana, for instance ).
Phylogenetic analyses have revealed that the P-type
ATPase subfamily is divided up into groups based on
substrate specificities and this is represented in the
various subfamily and equivalog models that have been
made: IA (K+) TIGR01497, IB (heavy metals) TIGR01525,
IIA1 (SERCA-type Ca++) TIGR01116, IIA2 (PMR1-type Ca++)
TIGR01522, IIB (PMCA-type Ca++) TIGR01517, IIC (Na+/K+,
H+/K+ antiporters) TIGR01106, IID (fungal-type Na+ and
K+) TIGR01523, IIIA (H+) TIGR01647, IIIB (Mg++)
TIGR01524, IV (phospholipid, flippase) TIGR01652 and V
(unknown specificity) TIGR01657. The crystal structure
of one calcium-pumping ATPase and an analysis of the
fold of the catalytic domain of the P-type ATPases have
been published. These reveal that the catalytic core of
these enzymes is a haloacid dehalogenase(HAD)-type
aspartate-nucleophile hydrolase. The location of the
ATP-binding loop in between the first and second HAD
conserved catalytic motifs defines these enzymes as
members of subfamily I of the HAD superfamily (see also
TIGR01493, TIGR01509, TIGR01549, TIGR01544 and
TIGR01545). Based on these classifications, the P-type
ATPase _superfamily_ corresponds to the IC subfamily of
the HAD superfamily.
Length = 543
Score = 62.0 bits (151), Expect = 1e-11
Identities = 26/76 (34%), Positives = 40/76 (52%), Gaps = 1/76 (1%)
Query: 106 YTTLIPLILIMVVSGIKEIIEDIKRHLADGEINHRSVDVIRNGMIYVEQWKDLKVGDIVK 165
+ + L+ +++V K EDI R L+D +N R V+RNG + KDL GD+V
Sbjct: 1 FILFLVLVFVLLVVKQKLKAEDILRSLSDRLVNTRPATVLRNGWKEIPA-KDLVPGDVVL 59
Query: 166 VYNNSFFPGDLMVLST 181
V + P D ++LS
Sbjct: 60 VKSGETVPADGVLLSG 75
>gnl|CDD|215733 pfam00122, E1-E2_ATPase, E1-E2 ATPase.
Length = 222
Score = 37.5 bits (88), Expect = 0.001
Identities = 15/73 (20%), Positives = 33/73 (45%), Gaps = 4/73 (5%)
Query: 112 LILIMVVSGIKEIIEDIKRHLADGEIN----HRSVDVIRNGMIYVEQWKDLKVGDIVKVY 167
++L+++++ + E ++ + A + + VIR+G +L VGDIV +
Sbjct: 2 ILLLVLINALLEAYQEYRARKALKALKKLLPPTAATVIRDGKEEEIPADELVVGDIVLLK 61
Query: 168 NNSFFPGDLMVLS 180
P D ++
Sbjct: 62 PGDRVPADGRIIE 74
>gnl|CDD|212665 cd07793, FGGY_GK5_metazoa, metazoan glycerol kinase 5-like
proteins; belongs to the FGGY family of carbohydrate
kinases. This subgroup corresponds to a group of
metazoan putative glycerol kinases (GK), which may be
coded by the GK-like gene, GK5. Sequence comparison
shows members of this group are homologs of bacterial
GKs, and they retain all functionally important
residues. However, GK-like proteins in this family do
not have detectable GK activity. The reason remains
unclear. It has been suggested tha the conserved
catalytic residues might facilitate them performing a
distinct function. GKs belong to the FGGY family of
carbohydrate kinases, the monomers of which contain two
large domains, which are separated by a deep cleft that
forms the active site. This model includes both the
N-terminal domain, which adopts a ribonuclease H-like
fold, and the structurally related C-terminal domain.
Length = 504
Score = 30.7 bits (70), Expect = 0.36
Identities = 23/87 (26%), Positives = 34/87 (39%), Gaps = 10/87 (11%)
Query: 95 QQIPDVSPTGRYTTLIPLIL-IMVVSGIKEIIEDIKRHLAD----GEINHRSVDVI---R 146
+I + P Y + P L +V IKE ++D G R +
Sbjct: 29 DKIELLYPEPGYVEIDPDKLWTQIVGVIKEAVKDANLTAKQIAGLGISTQRGSFLTWNKS 88
Query: 147 NGMIYVE--QWKDLKVGDIVKVYNNSF 171
G Y WKDL+ ++VK +NNS
Sbjct: 89 TGKPYHNFITWKDLRADELVKEWNNSL 115
>gnl|CDD|188151 TIGR01517, ATPase-IIB_Ca, plasma-membrane calcium-translocating
P-type ATPase. This model describes the P-type ATPase
responsible for translocating calcium ions across the
plasma membrane of eukaryotes , out of the cell. In some
organisms, this type of pump may also be found in
vacuolar membranes. In humans and mice, at least, there
are multiple isoforms of the PMCA pump with overlapping
but not redundant functions. Accordingly, there are no
human diseases linked to PMCA defects, although
alterations of PMCA function do elicit physiological
effects. The calcium P-type ATPases have been
characterized as Type IIB based on a phylogenetic
analysis which distinguishes this group from the Type
IIA SERCA calcium pump. A separate analysis divides Type
IIA into sub-types (SERCA and PMR1) which are modelled
by TIGR01116 and TIGR01522. This model is well separated
from those.
Length = 944
Score = 30.5 bits (69), Expect = 0.45
Identities = 20/88 (22%), Positives = 40/88 (45%), Gaps = 6/88 (6%)
Query: 94 LQQIP---DVSPTGRY---TTLIPLILIMVVSGIKEIIEDIKRHLADGEINHRSVDVIRN 147
L + + TG L+ +IL+++V+ + + ++++ + E + + + VIR
Sbjct: 115 LPEPGEGKADTETGWIEGVAILVSVILVVLVTAVNDYKKELQFRQLNREKSAQKIAVIRG 174
Query: 148 GMIYVEQWKDLKVGDIVKVYNNSFFPGD 175
G D+ VGDIV + P D
Sbjct: 175 GQEQQISIHDIVVGDIVSLSTGDVVPAD 202
>gnl|CDD|187657 cd08954, KR_1_FAS_SDR_x, beta-ketoacyl reductase (KR) domain of
fatty acid synthase (FAS), subgroup 1, complex (x) SDRs.
NADP-dependent KR domain of the multidomain type I FAS,
a complex SDR family. This subfamily also includes
proteins identified as polyketide synthase (PKS), a
protein with related modular protein architecture and
similar function. It includes the KR domains of
mammalian and chicken FAS, and Dictyostelium discoideum
putative polyketide synthases (PKSs). These KR domains
contain two subdomains, each of which is related to SDR
Rossmann fold domains. However, while the C-terminal
subdomain has an active site similar to the other SDRs
and a NADP-binding capability, the N-terminal SDR-like
subdomain is truncated and lacks these functions,
serving a supportive structural role. In some instances,
such as porcine FAS, an enoyl reductase (a Rossman fold
NAD-binding domain of the medium-chain
dehydrogenase/reductase, MDR family) module is inserted
between the sub-domains. Fatty acid synthesis occurs via
the stepwise elongation of a chain (which is attached to
acyl carrier protein, ACP) with 2-carbon units.
Eukaryotic systems consists of large, multifunctional
synthases (type I) while bacterial, type II systems, use
single function proteins. Fungal fatty acid synthesis
uses a dodecamer of 6 alpha and 6 beta subunits. In
mammalian type FAS cycles, ketoacyl synthase forms
acetoacetyl-ACP which is reduced by the NADP-dependent
beta-ketoacyl reductase (KR), forming
beta-hydroxyacyl-ACP, which is in turn dehydrated by
dehydratase to a beta-enoyl intermediate, which is
reduced by NADP-dependent beta-enoyl reductase (ER);
this KR and ER are members of the SDR family. This KR
subfamily has an active site tetrad with a similar 3D
orientation compared to archetypical SDRs, but the
active site Lys and Asn residue positions are swapped.
The characteristic NADP-binding is typical of the
multidomain complex SDRs, with a GGXGXXG NADP binding
motif. SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta folding
pattern with a central beta-sheet), an NAD(P)(H)-binding
region, and a structurally diverse C-terminal region.
Classical SDRs are typically about 250 residues long,
while extended SDRs are approximately 350 residues.
Sequence identity between different SDR enzymes are
typically in the 15-30% range, but the enzymes share the
Rossmann fold NAD-binding motif and characteristic
NAD-binding and catalytic sequence patterns. These
enzymes catalyze a wide range of activities including
the metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
prostaglandin dehydrogenase (PGDH) numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser (Ser-138, PGDH numbering) and/or an Asn (Asn-107,
PGDH numbering) contributing to the active site; while
substrate binding is in the C-terminal region, which
determines specificity. The standard reaction mechanism
is a 4-pro-S hydride transfer and proton relay involving
the conserved Tyr and Lys, a water molecule stabilized
by Asn, and nicotinamide. Extended SDRs have additional
elements in the C-terminal region, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type KRs have
a TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 452
Score = 30.5 bits (69), Expect = 0.52
Identities = 24/133 (18%), Positives = 46/133 (34%), Gaps = 8/133 (6%)
Query: 43 HRVININAPQSCKFVGNKISTAKYSLVTFFPCFLFEQFRRYSNIFFLFIALLQQI-PDVS 101
++++ S K G K S L +F F ++ +L+ + S
Sbjct: 64 NQLLKSTQEVSIKLSGVKKSFYGSVLCRIQSPTDKSEFLPVEEQTFEYVEILKSLLATAS 123
Query: 102 PTGRYTTLIPLILIMVVSGIKEIIEDIKRHLA----DGEINHRSVDVIRNGMIYVEQWKD 157
T V+ ++ E+ + L +N + +IRNG +Y E+
Sbjct: 124 CKPVLLTADGCESSGVIGAVRYFREEPQLKLIRCLFVSNLNSQKEPIIRNGKVYYER--- 180
Query: 158 LKVGDIVKVYNNS 170
+K +K S
Sbjct: 181 VKKNSNIKNVYKS 193
>gnl|CDD|233513 TIGR01657, P-ATPase-V, P-type ATPase of unknown pump specificity
(type V). These P-type ATPases form a distinct clade
but the substrate of their pumping activity has yet to
be determined. This clade has been designated type V in.
Length = 1054
Score = 28.9 bits (65), Expect = 1.7
Identities = 18/76 (23%), Positives = 34/76 (44%), Gaps = 15/76 (19%)
Query: 106 YTTLIPLILI-MVVSGIKEIIEDIKRHLADGEINHRSVDVIRNGMIYVEQWKDLKVGDIV 164
Y+ I + + + +I + ++R L D +SV VIRNG +W + ++V
Sbjct: 195 YSLCIVFMSSTSISLSVYQIRKQMQR-LRDMVHKPQSVIVIRNG-----KWVTIASDELV 248
Query: 165 KVYNNSFFPGDLMVLS 180
PGD++ +
Sbjct: 249 --------PGDIVSIP 256
>gnl|CDD|235401 PRK05306, infB, translation initiation factor IF-2; Validated.
Length = 746
Score = 28.3 bits (64), Expect = 2.5
Identities = 20/73 (27%), Positives = 30/73 (41%), Gaps = 29/73 (39%)
Query: 116 MVVSGIKEIIEDIKRH-----------LADGEINHRS-------VDVIRNGM---IYVEQ 154
MV G IKR+ + +GE+ S V +R G I +E
Sbjct: 674 MVTEGK------IKRNAKVRVLRDGVVIYEGELE--SLKRFKDDVKEVRAGYECGIGLEN 725
Query: 155 WKDLKVGDIVKVY 167
+ D+K GDI++ Y
Sbjct: 726 YNDIKEGDIIEAY 738
>gnl|CDD|234905 PRK01122, PRK01122, potassium-transporting ATPase subunit B;
Provisional.
Length = 679
Score = 28.2 bits (64), Expect = 3.1
Identities = 8/19 (42%), Positives = 10/19 (52%)
Query: 157 DLKVGDIVKVYNNSFFPGD 175
+L+ GDIV V P D
Sbjct: 122 ELRKGDIVLVEAGEIIPAD 140
>gnl|CDD|237838 PRK14862, rimO, ribosomal protein S12 methylthiotransferase;
Provisional.
Length = 440
Score = 27.5 bits (62), Expect = 3.8
Identities = 19/49 (38%), Positives = 26/49 (53%), Gaps = 12/49 (24%)
Query: 121 IKEIIED--IKRHLADG-EINHRSVDVIRNGMIYVEQWKDLKVGDIVKV 166
I E+ E+ I R AD EI+ G++Y+ LKVGDIV+V
Sbjct: 386 IDEVDEEGAIGRSKADAPEID---------GVVYLNGETGLKVGDIVRV 425
>gnl|CDD|223606 COG0532, InfB, Translation initiation factor 2 (IF-2; GTPase)
[Translation, ribosomal structure and biogenesis].
Length = 509
Score = 27.5 bits (62), Expect = 4.0
Identities = 19/67 (28%), Positives = 32/67 (47%), Gaps = 15/67 (22%)
Query: 115 IMVVSG-IKE-----IIEDIKRHLADGEI-----NHRSVDVIRNGM---IYVEQWKDLKV 160
MV G IK ++ D + +GE+ V +R G I +E ++D+K
Sbjct: 433 CMVTEGVIKRGAPVRVVRDGVV-IYEGEVESLKRFKDDVKEVRKGQECGIAIENYRDIKE 491
Query: 161 GDIVKVY 167
GDI++V+
Sbjct: 492 GDILEVF 498
>gnl|CDD|236467 PRK09328, PRK09328, N5-glutamine S-adenosyl-L-methionine-dependent
methyltransferase; Provisional.
Length = 275
Score = 27.4 bits (62), Expect = 4.1
Identities = 15/48 (31%), Positives = 20/48 (41%), Gaps = 10/48 (20%)
Query: 121 IKEIIEDIKRHLADG-----EINHRSVDVIR-----NGMIYVEQWKDL 158
+ IIE R+L G EI + + +R G VE KDL
Sbjct: 217 YRRIIEQAPRYLKPGGWLLLEIGYDQGEAVRALLAAAGFADVETRKDL 264
>gnl|CDD|214838 smart00827, PKS_AT, Acyl transferase domain in polyketide synthase
(PKS) enzymes.
Length = 298
Score = 27.4 bits (62), Expect = 4.1
Identities = 7/28 (25%), Positives = 15/28 (53%)
Query: 117 VVSGIKEIIEDIKRHLADGEINHRSVDV 144
V+SG ++ ++++ L I R + V
Sbjct: 161 VLSGDEDAVDELAARLEAEGIFARRLKV 188
>gnl|CDD|225126 COG2216, KdpB, High-affinity K+ transport system, ATPase chain B
[Inorganic ion transport and metabolism].
Length = 681
Score = 27.6 bits (62), Expect = 4.2
Identities = 9/19 (47%), Positives = 10/19 (52%)
Query: 157 DLKVGDIVKVYNNSFFPGD 175
+LK GDIV V P D
Sbjct: 122 ELKKGDIVLVEAGEIIPSD 140
>gnl|CDD|152583 pfam12148, DUF3590, Protein of unknown function (DUF3590). This
domain is found in eukaryotes, and is typically between
83 and 97 amino acids in length. It is found in
association with pfam00097, pfam02182, pfam00628,
pfam00240. There are two conserved sequence motifs: RAR
and NYN. The domain is part of the protein NIRF which
has zinc finger and ubiquitinating domains. The function
of this domain is likely to be mainly structural,
however this has not been confirmed.
Length = 85
Score = 26.2 bits (58), Expect = 4.2
Identities = 8/16 (50%), Positives = 12/16 (75%), Gaps = 1/16 (6%)
Query: 154 QWKDLKVGDIVKV-YN 168
+W +L+VG +V V YN
Sbjct: 62 KWNELEVGQVVMVNYN 77
>gnl|CDD|223439 COG0362, Gnd, 6-phosphogluconate dehydrogenase [Carbohydrate
transport and metabolism].
Length = 473
Score = 27.6 bits (62), Expect = 4.2
Identities = 10/27 (37%), Positives = 16/27 (59%), Gaps = 2/27 (7%)
Query: 113 ILIMVVSG--IKEIIEDIKRHLADGEI 137
IL+MV +G + +IE + L G+I
Sbjct: 71 ILLMVKAGTPVDAVIEQLLPLLEKGDI 97
>gnl|CDD|111249 pfam02337, Gag_p10, Retroviral GAG p10 protein. This family
consists of various retroviral GAG (core) polyproteins
and encompasses the p10 region producing the p10 protein
upon proteolytic cleavage of GAG by retroviral protease.
The p10 or matrix protein (MA) is associated with the
virus envelope glycoproteins in most mammalian
retroviruses and may be involved in virus particle
assembly, transport and budding. Some of the GAG
polyproteins have alternate cleavage sites leading to
the production of alternative and longer cleavage
products (e.g. p19) the alignment of this family only
covers the approximately N-terminal (GAG) 100 amino acid
region of homology to p10.
Length = 90
Score = 25.5 bits (56), Expect = 8.0
Identities = 10/33 (30%), Positives = 20/33 (60%), Gaps = 2/33 (6%)
Query: 146 RNGMIYVEQWKDLKVGDIVKVYNNSFFPGDLMV 178
+ G + +++WK +VGD ++ Y N+ P + V
Sbjct: 46 QEGTLDLKRWK--RVGDELQRYYNTHGPEKIPV 76
>gnl|CDD|132742 cd06944, NR_LBD_Ftz-F1_like, The ligand binding domain of FTZ-F1
like nuclear receptors. The ligand binding domain of
FTZ-F1 like nuclear receptors: This nuclear receptor
family includes at least three subgroups of receptors
that function in embryo development and differentiation,
and other processes. FTZ-F1 interacts with the
cis-acting DNA motif of ftz gene, which required at
several stages of development. Particularly, FTZ-F1
genes are strongly linked to steroid biosynthesis and
sex-determination; LRH-1 is a regulator of bile-acid
homeostasis, steroidogenesis, reverse cholesterol
transport and the initial stages of embryonic
development. SF-1 is an essential regulator of endocrine
development and function and is considered a master
regulator of reproduction; SF-1 functions cooperatively
with other transcription factors to modulate gene
expression. Phospholipids have been identified as
potential ligand for LRH-1 and steroidogenic factor-1
(SF-1). However, the ligand for FTZ-F1 has not yet been
identified. Most nuclear receptors function as homodimer
or heterodimers. However, LRH-1 and SF-1 bind to DNA as
a monomer. Like other members of the nuclear receptor
(NR) superfamily of ligand-activated transcription
factors, receptors in this family have a central well
conserved DNA binding domain (DBD), a variable
N-terminal domain, a flexible hinge and a C-terminal
ligand binding domain (LBD).
Length = 237
Score = 26.1 bits (58), Expect = 9.7
Identities = 13/38 (34%), Positives = 22/38 (57%), Gaps = 6/38 (15%)
Query: 142 VDVIRNGMIYVEQWKDLKVGDIVKVYNNSFFPGDLMVL 179
V+ RN + + K+LKV D +K+ N + +L+VL
Sbjct: 55 VEWARNSVFF----KELKVDDQMKLLQNCW--SELLVL 86
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
0.322 0.139 0.411
Gapped
Lambda K H
0.267 0.0893 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 9,505,955
Number of extensions: 907260
Number of successful extensions: 1178
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1171
Number of HSP's successfully gapped: 45
Length of query: 181
Length of database: 10,937,602
Length adjustment: 91
Effective length of query: 90
Effective length of database: 6,901,388
Effective search space: 621124920
Effective search space used: 621124920
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 (21.9 bits)
S2: 56 (25.1 bits)