RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy9869
(111 letters)
>gnl|CDD|200956 pfam00046, Homeobox, Homeobox domain.
Length = 57
Score = 84.1 bits (209), Expect = 3e-23
Identities = 32/57 (56%), Positives = 38/57 (66%)
Query: 23 RRGRQTYTRYQTLELEKEFHTNHYLTRRRRIEMAHALCLTERQIKIWFQNRRMKLKK 79
RR R T+T Q ELEKEF N Y + R E+A L LTERQ+K+WFQNRR K K+
Sbjct: 1 RRKRTTFTPEQLEELEKEFEKNRYPSAEEREELAKKLGLTERQVKVWFQNRRAKWKR 57
>gnl|CDD|238039 cd00086, homeodomain, Homeodomain; DNA binding domains involved
in the transcriptional regulation of key eukaryotic
developmental processes; may bind to DNA as monomers or
as homo- and/or heterodimers, in a sequence-specific
manner.
Length = 59
Score = 75.4 bits (186), Expect = 9e-20
Identities = 34/58 (58%), Positives = 39/58 (67%)
Query: 23 RRGRQTYTRYQTLELEKEFHTNHYLTRRRRIEMAHALCLTERQIKIWFQNRRMKLKKE 80
RR R +T Q ELEKEF N Y +R R E+A L LTERQ+KIWFQNRR KLK+
Sbjct: 1 RRKRTRFTPEQLEELEKEFEKNPYPSREEREELAKELGLTERQVKIWFQNRRAKLKRS 58
>gnl|CDD|197696 smart00389, HOX, Homeodomain. DNA-binding factors that are
involved in the transcriptional regulation of key
developmental processes.
Length = 57
Score = 73.8 bits (182), Expect = 3e-19
Identities = 31/57 (54%), Positives = 39/57 (68%)
Query: 22 RRRGRQTYTRYQTLELEKEFHTNHYLTRRRRIEMAHALCLTERQIKIWFQNRRMKLK 78
+RR R ++T Q ELEKEF N Y +R R E+A L L+ERQ+K+WFQNRR K K
Sbjct: 1 KRRKRTSFTPEQLEELEKEFQKNPYPSREEREELAKKLGLSERQVKVWFQNRRAKWK 57
>gnl|CDD|227863 COG5576, COG5576, Homeodomain-containing transcription factor
[Transcription].
Length = 156
Score = 50.9 bits (122), Expect = 3e-09
Identities = 21/58 (36%), Positives = 35/58 (60%)
Query: 23 RRGRQTYTRYQTLELEKEFHTNHYLTRRRRIEMAHALCLTERQIKIWFQNRRMKLKKE 80
+ R+ T Q + LE+EF N Y + RI+++ L + + ++IWFQN+R K KK+
Sbjct: 52 KSKRRRTTDEQLMVLEREFEINPYPSSITRIKLSLLLNMPPKSVQIWFQNKRAKEKKK 109
>gnl|CDD|226300 COG3777, COG3777, Uncharacterized conserved protein [Function
unknown].
Length = 273
Score = 29.4 bits (66), Expect = 0.27
Identities = 14/53 (26%), Positives = 23/53 (43%), Gaps = 5/53 (9%)
Query: 27 QTYTRYQTLELEKEFH----TNHYLTRRRRIEMAHALCLTERQIKIWFQNRRM 75
Q YT ++T++ +E H ++T LCL ER+ I + N
Sbjct: 95 QEYTCHETIQYIEEKHGRSGELTFVTVPHVYSSPGQLCLFERRT-IVYTNAPA 146
>gnl|CDD|220394 pfam09773, Meckelin, Meckelin (Transmembrane protein 67). Members
of this family are thought to be related to the ciliary
basal body. Defects result in Meckel syndrome type 3, an
autosomal recessive disorder characterized by a
combination of renal cysts and variably associated
features including developmental anomalies of the
central nervous system (typically encephalocele),
hepatic ductal dysplasia and cysts, and polydactyly.
Joubert syndrome type 6 is also a manifestation of
certain mutations; it is an autosomal recessive
congenital malformation of the cerebellar vermis and
brainstem with abnormalities of axonal decussation
(crossing in the brain) affecting the corticospinal
tract and superior cerebellar peduncles. Individuals
with Joubert syndrome have motor and behavioral
abnormalities, including an inability to walk due to
severe clumsiness and 'mirror' movements, and cognitive
and behavioural disturbances.
Length = 847
Score = 29.7 bits (67), Expect = 0.29
Identities = 20/79 (25%), Positives = 27/79 (34%), Gaps = 12/79 (15%)
Query: 7 SDLMTNLEDEGANGLRRRGRQTYTRYQTLELEKEFHTNHYLTRRRRIEMAHALCLTERQI 66
++ +NL E RG + QT E+ H YL E +A ER
Sbjct: 634 EEMQSNLRREAQGMCPVRGLGGQSDCQTFEVFVGPHLRQYL------ERCYAEIENER-- 685
Query: 67 KIWFQNRRMKLKKEIQAIK 85
Q MK Q I+
Sbjct: 686 ----QRGPMKSLSSSQPIQ 700
>gnl|CDD|199823 cd10498, MH2_SMAD_4, C-terminal Mad Homology 2 (MH2) domain in
SMAD4. The MH2 domain is located at the C-terminus of
the SMAD (small mothers against decapentaplegic) family
of proteins, which are signal transducers and
transcriptional modulators that mediate multiple
signaling pathways. The MH2 domain is responsible for
type I receptor interaction, phosphorylation-triggered
homo- and hetero-oligomerization, and transactivation.
It is negatively regulated by the N-terminal MH1 domain.
SMAD4, which belongs to the Dwarfin family of proteins,
is involved in many cell functions such as
differentiation, apoptosis, gastrulation, embryonic
development and the cell cycle. SMAD4 binds receptor
regulated SMADs (R-SMADs) such as SMAD1 or SMAD2, and
forms an oligomeric complex that binds to DNA and serves
as a transcription factor. SMAD4 is often mutated in
several cancers, such as multiploid colorectal cancer,
cervical cancer and pancreatic carcinoma, as well as in
juvenile polyposis syndrome.
Length = 222
Score = 28.2 bits (63), Expect = 0.75
Identities = 10/23 (43%), Positives = 15/23 (65%)
Query: 89 EQEKQAQAQKAAAAALAAAAVDH 111
+ ++QA +AAAAA AAA +
Sbjct: 127 QMQQQAATAQAAAAAQAAAVAGN 149
Score = 25.5 bits (56), Expect = 7.5
Identities = 12/22 (54%), Positives = 14/22 (63%), Gaps = 1/22 (4%)
Query: 90 QEKQAQAQKAAAAALA-AAAVD 110
++ Q QA A AAA A AAAV
Sbjct: 126 RQMQQQAATAQAAAAAQAAAVA 147
>gnl|CDD|151367 pfam10920, DUF2705, Protein of unknown function (DUF2705). This
bacterial family of proteins has no known function.
Length = 247
Score = 28.3 bits (63), Expect = 0.78
Identities = 11/45 (24%), Positives = 21/45 (46%)
Query: 26 RQTYTRYQTLELEKEFHTNHYLTRRRRIEMAHALCLTERQIKIWF 70
+ Y+ L++ +EF +L ++ I + T QI I+F
Sbjct: 69 KDLLISYEFLKISREFKKEKWLMKQFLIIFIRLIIFTLLQIAIFF 113
>gnl|CDD|234659 PRK00137, rplI, 50S ribosomal protein L9; Reviewed.
Length = 147
Score = 27.7 bits (63), Expect = 0.93
Identities = 10/30 (33%), Positives = 16/30 (53%), Gaps = 2/30 (6%)
Query: 78 KKEIQAIKELNEQEKQAQAQKAAAAALAAA 107
K+++A + E E +A + A A ALA
Sbjct: 44 LKQLEARRA--ELEAKAAEELAEAEALAEK 71
>gnl|CDD|240341 PTZ00272, PTZ00272, heat shock protein 83 kDa (Hsp83); Provisional.
Length = 701
Score = 27.7 bits (61), Expect = 1.4
Identities = 30/113 (26%), Positives = 53/113 (46%), Gaps = 11/113 (9%)
Query: 2 YATFSSDLMTNLEDEGANGLRRRGRQTYTRYQTLELEKEFHTNHYLTRRRRIEMAHALCL 61
Y+T S + MT L+D R + Q Y T + +K+ T+ ++ + RR + L +
Sbjct: 438 YSTESGEEMTTLKDYVT---RMKAGQKSIYYITGDSKKKLETSPFIEQARRRGL-EVLFM 493
Query: 62 TE-------RQIKIWFQNRRMKLKKEIQAIKELNEQEKQAQAQKAAAAALAAA 107
TE +Q+K + + L KE +E E+++Q + +KAA L
Sbjct: 494 TEPIDEYVMQQVKDFEDKKFACLTKEGVHFEESEEEKQQREEEKAACEKLCKT 546
>gnl|CDD|216872 pfam02096, 60KD_IMP, 60Kd inner membrane protein.
Length = 193
Score = 27.1 bits (61), Expect = 1.6
Identities = 12/42 (28%), Positives = 21/42 (50%), Gaps = 6/42 (14%)
Query: 61 LTERQIKIWFQNRRMK-LKKEIQAIKE--LNEQEKQAQAQKA 99
LT +Q K +M+ L+ EI+ I+E ++ +K Q
Sbjct: 21 LTLKQYK---SMAKMQELQPEIKEIQEKYKDDPQKLQQEMMK 59
>gnl|CDD|203350 pfam05920, Homeobox_KN, Homeobox KN domain. This is a homeobox
transcription factor KN domain conserved from fungi to
human and plants.
Length = 40
Score = 25.5 bits (57), Expect = 1.6
Identities = 11/32 (34%), Positives = 16/32 (50%)
Query: 44 NHYLTRRRRIEMAHALCLTERQIKIWFQNRRM 75
N Y + + E+A L+ +QI WF N R
Sbjct: 8 NPYPSEEEKSELARQTGLSRKQIDNWFINARR 39
>gnl|CDD|220431 pfam09831, DUF2058, Uncharacterized protein conserved in bacteria
(DUF2058). This domain, found in various prokaryotic
proteins, has no known function.
Length = 177
Score = 26.8 bits (60), Expect = 1.8
Identities = 9/34 (26%), Positives = 17/34 (50%), Gaps = 4/34 (11%)
Query: 71 QNRRMKLKKEIQAIKELNEQEKQAQAQKAAAAAL 104
+ + K +++ +ELN Q + QKA A +
Sbjct: 48 EAKAEKAERD----RELNRQRQAEAEQKAIVAQI 77
>gnl|CDD|233430 TIGR01477, RIFIN, variant surface antigen, rifin family. This
model represents the rifin branch of the rifin/stevor
family (pfam02009) of predicted variant surface antigens
as found in Plasmodium falciparum. This model is based
on a set of rifin sequences kindly provided by Matt
Berriman from the Sanger Center. This is a global model
and assesses a penalty for incomplete sequence.
Additional fragmentary sequences may be found with the
fragment model and a cutoff of 20 bits.
Length = 353
Score = 27.0 bits (60), Expect = 2.1
Identities = 10/17 (58%), Positives = 14/17 (82%)
Query: 73 RRMKLKKEIQAIKELNE 89
R+ K+KK++Q IK LNE
Sbjct: 337 RKKKMKKKLQYIKLLNE 353
>gnl|CDD|234272 TIGR03592, yidC_oxa1_cterm, membrane protein insertase, YidC/Oxa1
family, C-terminal domain. This model describes
full-length from some species, and the C-terminal
region only from other species, of the YidC/Oxa1 family
of proteins. This domain appears to be univeral among
bacteria (although absent from Archaea). The
well-characterized YidC protein from Escherichia coli
and its close homologs contain a large N-terminal
periplasmic domain in addition to the region modeled
here [Protein fate, Protein and peptide secretion and
trafficking].
Length = 181
Score = 26.7 bits (60), Expect = 2.1
Identities = 11/40 (27%), Positives = 22/40 (55%), Gaps = 6/40 (15%)
Query: 61 LTERQIKIWFQNRRMK-LKKEIQAIKEL--NEQEKQAQAQ 97
LT +Q K R+M+ L+ +++ I+E ++ +K Q
Sbjct: 20 LTLKQYK---SMRKMQELQPKLKEIQEKYKDDPQKLQQEM 56
>gnl|CDD|220441 pfam09849, DUF2076, Uncharacterized protein conserved in bacteria
(DUF2076). This domain, found in various hypothetical
prokaryotic proteins, has no known function. The domain,
however, is found in various periplasmic ligand-binding
sensor proteins.
Length = 234
Score = 26.9 bits (60), Expect = 2.3
Identities = 5/22 (22%), Positives = 12/22 (54%)
Query: 82 QAIKELNEQEKQAQAQKAAAAA 103
A+K+ N + ++ +AQ +
Sbjct: 55 AALKQANARIEELEAQAQHPQS 76
>gnl|CDD|215395 PLN02742, PLN02742, Probable galacturonosyltransferase.
Length = 534
Score = 27.0 bits (60), Expect = 2.5
Identities = 14/35 (40%), Positives = 16/35 (45%), Gaps = 3/35 (8%)
Query: 75 MKLKKEIQAIKELNEQEKQAQAQKAAAAALAAAAV 109
M LK IQA L E+ A Q LAA A+
Sbjct: 157 MTLKAHIQA---LEERANAATVQSTKFGQLAAEAL 188
>gnl|CDD|215222 PLN02397, PLN02397, aspartate transaminase.
Length = 423
Score = 26.8 bits (60), Expect = 2.5
Identities = 18/56 (32%), Positives = 27/56 (48%), Gaps = 10/56 (17%)
Query: 9 LMTNLEDEGANG-----LRRRGRQTYT---RYQTLELEKEFHTNHYLTRRRRIEMA 56
L LE G+ G ++ G ++T + Q + KE+H Y+TR RI MA
Sbjct: 348 LYDALEARGSPGDWSHITKQIGMFSFTGLNKEQVDRMTKEYHI--YMTRDGRISMA 401
>gnl|CDD|237744 PRK14521, rpsP, 30S ribosomal protein S16; Provisional.
Length = 186
Score = 26.7 bits (59), Expect = 2.6
Identities = 14/31 (45%), Positives = 20/31 (64%)
Query: 78 KKEIQAIKELNEQEKQAQAQKAAAAALAAAA 108
K ++A K++NE +A A+K AA A A AA
Sbjct: 130 KAALEAEKKVNEARAEAVAEKKAAEAAAVAA 160
>gnl|CDD|214368 CHL00117, rpoC2, RNA polymerase beta'' subunit; Reviewed.
Length = 1364
Score = 26.4 bits (59), Expect = 3.2
Identities = 14/49 (28%), Positives = 19/49 (38%), Gaps = 15/49 (30%)
Query: 46 YLTRR----------RRIEMAHALCLTERQIKIWFQNRRMKLKKEIQAI 84
YLTRR R + C T R I + +N M + IQ +
Sbjct: 201 YLTRRLVEVVQHIVVRETD-----CGTTRGISVSPRNGMMIERILIQTL 244
>gnl|CDD|217451 pfam03249, TSA, Type specific antigen. There are several antigenic
variants in Rickettsia tsutsugamushi, and a
type-specific antigen (TSA) of 56-kilodaltons located on
the rickettsial surface is responsible for the
variation. TSA proteins are probably integral membrane
proteins.
Length = 502
Score = 26.8 bits (59), Expect = 3.2
Identities = 12/20 (60%), Positives = 13/20 (65%)
Query: 90 QEKQAQAQKAAAAALAAAAV 109
Q +Q QAQ A A AAAAV
Sbjct: 315 QGQQQQAQATAQEAAAAAAV 334
>gnl|CDD|200219 TIGR02927, SucB_Actino, 2-oxoglutarate dehydrogenase, E2 component,
dihydrolipoamide succinyltransferase. This model
represents an Actinobacterial clade of E2 enzyme, a
component of the 2-oxoglutarate dehydrogenase complex
involved in the TCA cycle. These proteins have multiple
domains including the catalytic domain (pfam00198), one
or two biotin domains (pfam00364) and an E3-component
binding domain (pfam02817).
Length = 579
Score = 26.5 bits (58), Expect = 3.4
Identities = 13/31 (41%), Positives = 19/31 (61%)
Query: 78 KKEIQAIKELNEQEKQAQAQKAAAAALAAAA 108
K+++ A + E+ + A A AAAAA AA A
Sbjct: 297 KQDVLAAAKAAEEARAAAAAPAAAAAPAAPA 327
>gnl|CDD|200473 cd11334, AmyAc_TreS, Alpha amylase catalytic domain found in
Trehalose synthetase. Trehalose synthetase (TreS)
catalyzes the reversible interconversion of trehalose
and maltose. The enzyme catalyzes the reaction in both
directions, but the preferred substrate is maltose.
Glucose is formed as a by-product of this reaction. It
is believed that the catalytic mechanism may involve the
cutting of the incoming disaccharide and transfer of a
glucose to an enzyme-bound glucose. This enzyme also
catalyzes production of a glucosamine disaccharide from
maltose and glucosamine. The Alpha-amylase family
comprises the largest family of glycoside hydrolases
(GH), with the majority of enzymes acting on starch,
glycogen, and related oligo- and polysaccharides. These
proteins catalyze the transformation of alpha-1,4 and
alpha-1,6 glucosidic linkages with retention of the
anomeric center. The protein is described as having 3
domains: A, B, C. A is a (beta/alpha) 8-barrel; B is a
loop between the beta 3 strand and alpha 3 helix of A; C
is the C-terminal extension characterized by a Greek
key. The majority of the enzymes have an active site
cleft found between domains A and B where a triad of
catalytic residues (Asp, Glu and Asp) performs
catalysis. Other members of this family have lost the
catalytic activity as in the case of the human 4F2hc, or
only have 2 residues that serve as the catalytic
nucleophile and the acid/base, such as Thermus A4
beta-galactosidase with 2 Glu residues (GH42) and human
alpha-galactosidase with 2 Asp residues (GH31). The
family members are quite extensive and include: alpha
amylase, maltosyltransferase, cyclodextrin
glycotransferase, maltogenic amylase, neopullulanase,
isoamylase, 1,4-alpha-D-glucan maltotetrahydrolase,
4-alpha-glucotransferase, oligo-1,6-glucosidase,
amylosucrase, sucrose phosphorylase, and amylomaltase.
Length = 447
Score = 26.4 bits (59), Expect = 4.2
Identities = 7/13 (53%), Positives = 11/13 (84%)
Query: 50 RRRIEMAHALCLT 62
RRRIE+A++L +
Sbjct: 348 RRRIELAYSLLFS 360
>gnl|CDD|224060 COG1137, YhbG, ABC-type (unclassified) transport system, ATPase
component [General function prediction only].
Length = 243
Score = 26.0 bits (58), Expect = 4.5
Identities = 15/54 (27%), Positives = 21/54 (38%), Gaps = 12/54 (22%)
Query: 21 LRRRGRQTYTRYQTLELE---KEFHTNHYLTR---------RRRIEMAHALCLT 62
L R + + EL+ +EFH H RRR+E+A AL
Sbjct: 104 LEIREKDLKKAERKEELDALLEEFHITHLRDSKAYSLSGGERRRVEIARALAAN 157
>gnl|CDD|106978 PHA00670, PHA00670, hypothetical protein.
Length = 540
Score = 26.0 bits (57), Expect = 5.9
Identities = 13/36 (36%), Positives = 22/36 (61%)
Query: 75 MKLKKEIQAIKELNEQEKQAQAQKAAAAALAAAAVD 110
+ K+++Q+I++ Q++QA Q A A A A AA
Sbjct: 493 IVPKEQVQSIRKQRAQQQQAAQQAAIAEAAANAAKA 528
>gnl|CDD|133191 cd05060, PTKc_Syk_like, Catalytic domain of Spleen Tyrosine
Kinase-like Protein Tyrosine Kinases. Protein Tyrosine
Kinase (PTK) family; Spleen Tyrosine Kinase (Syk)
subfamily; catalytic (c) domain. The Syk subfamily is
composed of Syk, ZAP-70, Shark, and similar proteins.
The PTKc family is part of a larger superfamily that
includes the catalytic domains of other kinases such as
protein serine/threonine kinases, RIO kinases, and
phosphoinositide 3-kinase (PI3K). PTKs catalyze the
transfer of the gamma-phosphoryl group from ATP to
tyrosine (tyr) residues in protein substrates. Syk
subfamily kinases are cytoplasmic (or nonreceptor) tyr
kinases containing two Src homology 2 (SH2) domains
N-terminal to the catalytic tyr kinase domain. They are
involved in the signaling downstream of activated
receptors (including B-cell, T-cell, and Fc receptors)
that contain ITAMs (immunoreceptor tyr activation
motifs), leading to processes such as cell
proliferation, differentiation, survival, adhesion,
migration, and phagocytosis. Syk is important in B-cell
receptor (BCR) signaling, while Zap-70 is primarily
expressed in T-cells and NK cells, and is a crucial
component in T-cell receptor (TCR) signaling. Syk also
plays a central role in Fc receptor-mediated
phagocytosis in the adaptive immune system. Shark is
exclusively expressed in ectodermally derived epithelia,
and is localized preferentially to the apical surface of
the epithelial cells, it may play a role in a signaling
pathway for epithelial cell polarity.
Length = 257
Score = 25.4 bits (56), Expect = 6.4
Identities = 12/39 (30%), Positives = 20/39 (51%), Gaps = 1/39 (2%)
Query: 74 RMKLKKEIQ-AIKELNEQEKQAQAQKAAAAALAAAAVDH 111
MK KE++ A+K L ++ A ++ A A +DH
Sbjct: 17 LMKSGKEVEVAVKTLKQEHIAAGKKEFLREASVMAQLDH 55
>gnl|CDD|225606 COG3064, TolA, Membrane protein involved in colicin uptake [Cell
envelope biogenesis, outer membrane].
Length = 387
Score = 25.7 bits (56), Expect = 6.7
Identities = 22/81 (27%), Positives = 37/81 (45%)
Query: 26 RQTYTRYQTLELEKEFHTNHYLTRRRRIEMAHALCLTERQIKIWFQNRRMKLKKEIQAIK 85
R+ EL+ + ++ E A ++ + Q + + ++E QA K
Sbjct: 81 RKKKEEQVAEELKPKQAAEQERLKQLEKERLKAQEQQKQAEEAEKQAQLEQKQQEEQARK 140
Query: 86 ELNEQEKQAQAQKAAAAALAA 106
EQ+K+A+A KA AAA AA
Sbjct: 141 AAAEQKKKAEAAKAKAAAEAA 161
>gnl|CDD|236545 PRK09510, tolA, cell envelope integrity inner membrane protein
TolA; Provisional.
Length = 387
Score = 25.5 bits (56), Expect = 8.1
Identities = 12/33 (36%), Positives = 19/33 (57%)
Query: 78 KKEIQAIKELNEQEKQAQAQKAAAAALAAAAVD 110
K+ +A K+ ++KQA+ A AAA A A +
Sbjct: 118 KQAEEAAKQAALKQKQAEEAAAKAAAAAKAKAE 150
>gnl|CDD|215264 PLN02475, PLN02475,
5-methyltetrahydropteroyltriglutamate--homocysteine
methyltransferase.
Length = 766
Score = 25.5 bits (56), Expect = 8.5
Identities = 13/47 (27%), Positives = 16/47 (34%), Gaps = 8/47 (17%)
Query: 73 RRMKLKKEI--------QAIKELNEQEKQAQAQKAAAAALAAAAVDH 111
KL KE+ Q + E+ K QK A A AA
Sbjct: 340 NETKLDKELKSWLAFAAQKVVEVVALAKALAGQKDEAFFSANAAAQA 386
>gnl|CDD|173839 cd01150, AXO, Peroxisomal acyl-CoA oxidase. Peroxisomal acyl-CoA
oxidases (AXO) catalyze the first set in the
peroxisomal fatty acid beta-oxidation, the alpha,beta
dehydrogenation of the corresponding trans-enoyl-CoA by
FAD, which becomes reduced. In a second oxidative
half-reaction, the reduced FAD is reoxidized by
molecular oxygen. AXO is generally a homodimer, but it
has been reported to form a different type of oligomer
in yeast. There are several subtypes of AXO's, based on
substrate specificity. Palmitoyl-CoA oxidase acts on
straight-chain fatty acids and prostanoids; whereas,
the closely related Trihydroxycoprostanoly-CoA oxidase
has the greatest activity for 2-methyl branched side
chains of bile precursors. Pristanoyl-CoA oxidase, acts
on 2-methyl branched fatty acids. AXO has an
additional domain, C-terminal to the region with
similarity to acyl-CoA dehydrogenases, which is
included in this alignment.
Length = 610
Score = 25.4 bits (56), Expect = 9.2
Identities = 14/61 (22%), Positives = 24/61 (39%), Gaps = 7/61 (11%)
Query: 3 ATFSSDLMTNLEDEGANGLRRRGRQTYTRYQTLELEKEFH---TNHYLTRRRRIEMAHAL 59
ATF +T++ + G LRR+ + LE + F + +L+R E
Sbjct: 10 ATFDWKALTHILEGGEENLRRK----REVERELESDPLFQRELPSKHLSREELYEELKRK 65
Query: 60 C 60
Sbjct: 66 A 66
>gnl|CDD|221982 pfam13206, VSG_B, Trypanosomal VSG domain. This family represents
the B-type variant surface glycoproteins from
trypanosomal parasites. This family is related to
pfam00913.
Length = 253
Score = 25.2 bits (55), Expect = 9.7
Identities = 17/30 (56%), Positives = 19/30 (63%)
Query: 77 LKKEIQAIKELNEQEKQAQAQKAAAAALAA 106
LKK +A EL E+EK AQ KA AA L A
Sbjct: 223 LKKLEEAATELEEREKAAQEAKALAAQLEA 252
>gnl|CDD|240402 PTZ00399, PTZ00399, cysteinyl-tRNA-synthetase; Provisional.
Length = 651
Score = 25.0 bits (55), Expect = 9.8
Identities = 10/33 (30%), Positives = 19/33 (57%)
Query: 63 ERQIKIWFQNRRMKLKKEIQAIKELNEQEKQAQ 95
E + + Q R KLKK+ + K+ E+ ++A+
Sbjct: 558 EEKEALKEQKRLRKLKKQEEKKKKELEKLEKAK 590
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 0.127 0.353
Gapped
Lambda K H
0.267 0.0788 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 5,763,612
Number of extensions: 507414
Number of successful extensions: 1706
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1622
Number of HSP's successfully gapped: 199
Length of query: 111
Length of database: 10,937,602
Length adjustment: 75
Effective length of query: 36
Effective length of database: 7,611,052
Effective search space: 273997872
Effective search space used: 273997872
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: 53 (24.1 bits)