RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy9937
(149 letters)
>gnl|CDD|238008 cd00051, EFh, EF-hand, calcium binding motif; A diverse superfamily
of calcium sensors and calcium signal modulators; most
examples in this alignment model have 2 active canonical
EF hands. Ca2+ binding induces a conformational change
in the EF-hand motif, leading to the activation or
inactivation of target proteins. EF-hands tend to occur
in pairs or higher copy numbers.
Length = 63
Score = 51.4 bits (124), Expect = 9e-10
Identities = 18/62 (29%), Positives = 31/62 (50%), Gaps = 4/62 (6%)
Query: 69 IKFTFLIYDLNNDGFITREEMFQLLR----GTNEELIKFTFLIYDLNNDGFITREEMFQL 124
++ F ++D + DG I+ +E+ L+ G +EE I D + DG I EE +L
Sbjct: 2 LREAFRLFDKDGDGTISADELKAALKSLGEGLSEEEIDEMIREVDKDGDGKIDFEEFLEL 61
Query: 125 LR 126
+
Sbjct: 62 MA 63
Score = 39.8 bits (94), Expect = 2e-05
Identities = 20/61 (32%), Positives = 25/61 (40%)
Query: 34 ERIFCAFDRLCDGVIHLDEWVLGLSCFLRGTNEELIKFTFLIYDLNNDGFITREEMFQLL 93
F FD+ DG I DE L G +EE I D + DG I EE +L+
Sbjct: 3 REAFRLFDKDGDGTISADELKAALKSLGEGLSEEEIDEMIREVDKDGDGKIDFEEFLELM 62
Query: 94 R 94
Sbjct: 63 A 63
>gnl|CDD|227455 COG5126, FRQ1, Ca2+-binding protein (EF-Hand superfamily) [Signal
transduction mechanisms / Cytoskeleton / Cell division
and chromosome partitioning / General function
prediction only].
Length = 160
Score = 49.2 bits (118), Expect = 3e-08
Identities = 27/102 (26%), Positives = 53/102 (51%), Gaps = 6/102 (5%)
Query: 32 LMERIFCAFDRLCDGVIHLDEWVLGLSCFL-RGTNEELIKFTFLIYDLNNDGFITREEMF 90
+ ++F D + + E++ +S L RG EE ++ F ++D ++DG+I+ E+
Sbjct: 57 EINKLFEEIDAGNET-VDFPEFLTVMSVKLKRGDKEEELREAFKLFDKDHDGYISIGELR 115
Query: 91 QLLRGTNEEL----IKFTFLIYDLNNDGFITREEMFQLLRYS 128
++L+ E L ++ YD + DG I EE +L++ S
Sbjct: 116 RVLKSLGERLSDEEVEKLLKEYDEDGDGEIDYEEFKKLIKDS 157
Score = 31.9 bits (73), Expect = 0.071
Identities = 20/93 (21%), Positives = 37/93 (39%), Gaps = 40/93 (43%)
Query: 73 FLIYDLNNDGFITREE-------------------MF---------------------QL 92
F ++D ++DG I R E +F +L
Sbjct: 26 FQLFDRDSDGLIDRNELGKILRSLGFNPSEAEINKLFEEIDAGNETVDFPEFLTVMSVKL 85
Query: 93 LRGTNEELIKFTFLIYDLNNDGFITREEMFQLL 125
RG EE ++ F ++D ++DG+I+ E+ ++L
Sbjct: 86 KRGDKEEELREAFKLFDKDHDGYISIGELRRVL 118
>gnl|CDD|183426 PRK12309, PRK12309, transaldolase/EF-hand domain-containing
protein; Provisional.
Length = 391
Score = 44.7 bits (106), Expect = 4e-06
Identities = 24/49 (48%), Positives = 29/49 (59%), Gaps = 9/49 (18%)
Query: 73 FLIYDLNNDGFITREEMFQLLRGTNEELIKFTFLIYDLNNDGFITREEM 121
F +YDL+ DGFITREE G++ F DLN+DG IT EEM
Sbjct: 340 FRLYDLDGDGFITREEWL----GSDA-----VFDALDLNHDGKITPEEM 379
Score = 31.2 bits (71), Expect = 0.18
Identities = 20/56 (35%), Positives = 27/56 (48%), Gaps = 13/56 (23%)
Query: 34 ERIFCAFDRLCDGVIHLDEWVLGLSCFLRGTNEELIKFTFLIYDLNNDGFITREEM 89
+ IF +D DG I +EW+ G++ F DLN+DG IT EEM
Sbjct: 337 QEIFRLYDLDGDGFITREEWL--------GSDA-----VFDALDLNHDGKITPEEM 379
>gnl|CDD|222177 pfam13499, EF_hand_5, EF-hand domain pair.
Length = 60
Score = 41.2 bits (97), Expect = 6e-06
Identities = 19/59 (32%), Positives = 30/59 (50%), Gaps = 8/59 (13%)
Query: 75 IYDLNNDGFITREEMFQLLRGTN--------EELIKFTFLIYDLNNDGFITREEMFQLL 125
+ D + DG+I EE+ +LL+ EELI+ F D + DG I+ EE + +
Sbjct: 2 LLDKDGDGYIDVEELRKLLKALGLKLTDEEVEELIEADFNEIDKDGDGRISFEEFLEAM 60
Score = 31.6 bits (72), Expect = 0.024
Identities = 17/59 (28%), Positives = 25/59 (42%), Gaps = 4/59 (6%)
Query: 39 AFDRLCDGVIHLDEWVLGLSCFL----RGTNEELIKFTFLIYDLNNDGFITREEMFQLL 93
D+ DG I ++E L EELI+ F D + DG I+ EE + +
Sbjct: 2 LLDKDGDGYIDVEELRKLLKALGLKLTDEEVEELIEADFNEIDKDGDGRISFEEFLEAM 60
Score = 25.4 bits (56), Expect = 3.6
Identities = 8/20 (40%), Positives = 14/20 (70%)
Query: 107 IYDLNNDGFITREEMFQLLR 126
+ D + DG+I EE+ +LL+
Sbjct: 2 LLDKDGDGYIDVEELRKLLK 21
>gnl|CDD|238155 cd00252, SPARC_EC, SPARC_EC; extracellular Ca2+ binding domain
(containing 2 EF-hand motifs) of SPARC and related
proteins (QR1, SC1/hevin, testican and tsc-36/FRP).
SPARC (BM-40) is a multifunctional glycoprotein, a
matricellular protein, that functions to regulate
cell-matrix interactions; binds to such proteins as
collagen and vitronectin and binds to endothelial cells
thus inhibiting cellular proliferation. The EC domain
interacts with a follistatin-like (FS) domain which
appears to stabilize Ca2+ binding. The two EF-hands
interact canonically but their conserved disulfide bonds
confer a tight association between the EF-hand pair and
an acid/amphiphilic N-terminal helix. Proposed active
form involves a Ca2+ dependent symmetric
homodimerization of EC-FS modules.
Length = 116
Score = 36.6 bits (85), Expect = 8e-04
Identities = 16/44 (36%), Positives = 23/44 (52%)
Query: 77 DLNNDGFITREEMFQLLRGTNEELIKFTFLIYDLNNDGFITREE 120
D N DG ++ E+ + NE IK F DL+ DG I+ +E
Sbjct: 58 DGNYDGKLSHHELAPIRLDPNEHCIKPFFESCDLDKDGSISLDE 101
>gnl|CDD|205583 pfam13405, EF_hand_4, EF-hand domain.
Length = 30
Score = 30.3 bits (69), Expect = 0.040
Identities = 9/26 (34%), Positives = 18/26 (69%)
Query: 69 IKFTFLIYDLNNDGFITREEMFQLLR 94
++ F ++D + DG+I+ EE+ + LR
Sbjct: 2 LREAFKLFDKDGDGYISAEELRKALR 27
Score = 30.3 bits (69), Expect = 0.040
Identities = 9/26 (34%), Positives = 18/26 (69%)
Query: 101 IKFTFLIYDLNNDGFITREEMFQLLR 126
++ F ++D + DG+I+ EE+ + LR
Sbjct: 2 LREAFKLFDKDGDGYISAEELRKALR 27
>gnl|CDD|200946 pfam00036, efhand, EF hand. The EF-hands can be divided into two
classes: signaling proteins and buffering/transport
proteins. The first group is the largest and includes
the most well-known members of the family such as
calmodulin, troponin C and S100B. These proteins
typically undergo a calcium-dependent conformational
change which opens a target binding site. The latter
group is represented by calbindin D9k and do not
undergo calcium dependent conformational changes.
Length = 29
Score = 29.7 bits (68), Expect = 0.059
Identities = 10/26 (38%), Positives = 16/26 (61%)
Query: 69 IKFTFLIYDLNNDGFITREEMFQLLR 94
+K F +D + DG I+ EE +LL+
Sbjct: 2 LKEAFKEFDKDGDGKISFEEFKELLK 27
Score = 29.7 bits (68), Expect = 0.059
Identities = 10/26 (38%), Positives = 16/26 (61%)
Query: 101 IKFTFLIYDLNNDGFITREEMFQLLR 126
+K F +D + DG I+ EE +LL+
Sbjct: 2 LKEAFKEFDKDGDGKISFEEFKELLK 27
>gnl|CDD|205383 pfam13202, EF_hand_3, EF hand.
Length = 25
Score = 29.6 bits (68), Expect = 0.061
Identities = 10/22 (45%), Positives = 15/22 (68%)
Query: 72 TFLIYDLNNDGFITREEMFQLL 93
F +D N DG I++EE+ +LL
Sbjct: 4 LFRQFDTNGDGKISKEELKRLL 25
Score = 29.6 bits (68), Expect = 0.061
Identities = 10/22 (45%), Positives = 15/22 (68%)
Query: 104 TFLIYDLNNDGFITREEMFQLL 125
F +D N DG I++EE+ +LL
Sbjct: 4 LFRQFDTNGDGKISKEELKRLL 25
>gnl|CDD|119334 cd06564, GH20_DspB_LnbB-like, Glycosyl hydrolase family 20 (GH20)
catalytic domain of dispersin B (DspB),
lacto-N-biosidase (LnbB) and related proteins. Dispersin
B is a soluble beta-N-acetylglucosamidase found in
bacteria that hydrolyzes the beta-1,6-linkages of PGA
(poly-beta-(1,6)-N-acetylglucosamine), a major component
of the extracellular polysaccharide matrix.
Lacto-N-biosidase hydrolyzes lacto-N-biose (LNB) type I
oligosaccharides at the nonreducing terminus to produce
lacto-N-biose as part of the GNB/LNB
(galacto-N-biose/lacto-N-biose I) degradation pathway.
The lacto-N-biosidase from Bifidobacterium bifidum has
this GH20 domain, a carbohydrate binding module 32, and
a bacterial immunoglobulin-like domain 2, as well as a
YSIRK signal peptide and a G5 membrane anchor at the N
and C termini, respectively. The GH20 hexosaminidases
are thought to act via a catalytic mechanism in which
the catalytic nucleophile is not provided by solvent or
the enzyme, but by the substrate itself.
Length = 326
Score = 32.3 bits (74), Expect = 0.068
Identities = 14/66 (21%), Positives = 25/66 (37%), Gaps = 7/66 (10%)
Query: 70 KFTFLIYDLNNDGFITREEMFQLLRGTNEELIKFTFLI-----YDLNNDGFITREEMFQL 124
K L LN++ ++M N NDG+ T+EE +L
Sbjct: 30 KMNDLQLHLNDNLIFNLDDMST--TVNNATYASDDVKSGNNYYNLTANDGYYTKEEFKEL 87
Query: 125 LRYSRN 130
+ Y+++
Sbjct: 88 IAYAKD 93
>gnl|CDD|197492 smart00054, EFh, EF-hand, calcium binding motif. EF-hands are
calcium-binding motifs that occur at least in pairs.
Links between disease states and genes encoding
EF-hands, particularly the S100 subclass, are emerging.
Each motif consists of a 12 residue loop flanked on
either side by a 12 residue alpha-helix. EF-hands
undergo a conformational change unpon binding calcium
ions.
Length = 29
Score = 28.9 bits (66), Expect = 0.098
Identities = 10/26 (38%), Positives = 15/26 (57%)
Query: 69 IKFTFLIYDLNNDGFITREEMFQLLR 94
+K F ++D + DG I EE LL+
Sbjct: 2 LKEAFRLFDKDGDGKIDFEEFKDLLK 27
Score = 28.9 bits (66), Expect = 0.098
Identities = 10/26 (38%), Positives = 15/26 (57%)
Query: 101 IKFTFLIYDLNNDGFITREEMFQLLR 126
+K F ++D + DG I EE LL+
Sbjct: 2 LKEAFRLFDKDGDGKIDFEEFKDLLK 27
>gnl|CDD|133450 cd05211, NAD_bind_Glu_Leu_Phe_Val, NAD(P) binding domain of
glutamate dehydrogenase, leucine dehydrogenase,
phenylalanine dehydrogenase, and valine dehydrogenase.
Amino acid dehydrogenase (DH) is a widely distributed
family of enzymes that catalyzes the oxidative
deamination of an amino acid to its keto acid and
ammonia with concomitant reduction of NAD(P)+. This
subfamily includes glutamate, leucine, phenylalanine,
and valine DHs. Glutamate DH is a multi-domain enzyme
that catalyzes the reaction from glutamate to
2-oxyoglutarate and ammonia in the presence of NAD or
NADP. It is present in all organisms. Enzymes involved
in ammonia assimilation are typically NADP+-dependent,
while those involved in glutamate catabolism are
generally NAD+-dependent. As in other NAD+-dependent
DHs, monomers in this family have 2 domains separated by
a deep cleft. Here the c-terminal domain contains a
modified NAD-binding Rossmann fold with 7 rather than
the usual 6 beta strands and one strand anti-parrallel
to the others. Amino acid DH-like NAD(P)-binding domains
are members of the Rossmann fold superfamily and include
glutamate, leucine, and phenylalanine DHs, methylene
tetrahydrofolate DH, methylene-tetrahydromethanopterin
DH, methylene-tetrahydropholate DH/cyclohydrolase,
Shikimate DH-like proteins, malate oxidoreductases, and
glutamyl tRNA reductase. Amino acid DHs catalyze the
deamination of amino acids to keto acids with NAD(P)+ as
a cofactor. The NAD(P)-binding Rossmann fold superfamily
includes a wide variety of protein families including
NAD(P)- binding domains of alcohol DHs,
tyrosine-dependent oxidoreductases,
glyceraldehyde-3-phosphate DH, lactate/malate DHs,
formate/glycerate DHs, siroheme synthases,
6-phosphogluconate DH, amino acid DHs, repressor rex,
NAD-binding potassium channel domain, CoA-binding, and
ornithine cyclodeaminase-like domains. These domains
have an alpha-beta-alpha configuration. NAD binding
involves numerous hydrogen and van der Waals contacts.
Length = 217
Score = 31.8 bits (72), Expect = 0.099
Identities = 19/59 (32%), Positives = 25/59 (42%), Gaps = 4/59 (6%)
Query: 29 EEILMER-IFCAFDRLCD--GVIHL-DEWVLGLSCFLRGTNEELIKFTFLIYDLNNDGF 83
IL ER I A D + + GVI EWV L E K ++ D++N F
Sbjct: 136 LRILHERGIVVAPDIVANAGGVIVSYFEWVQNLQRLSWDAEEVRSKLEQVMTDIHNGVF 194
>gnl|CDD|238009 cd00052, EH, Eps15 homology domain; found in proteins implicated in
endocytosis, vesicle transport, and signal transduction.
The alignment contains a pair of EF-hand motifs,
typically one of them is canonical and binds to Ca2+,
while the other may not bind to Ca2+. A hydrophobic
binding pocket is formed by residues from both EF-hand
motifs. The EH domain binds to proteins containing NPF
(class I), [WF]W or SWG (class II), or H[TS]F (class
III) sequence motifs.
Length = 67
Score = 29.1 bits (66), Expect = 0.20
Identities = 15/56 (26%), Positives = 24/56 (42%), Gaps = 10/56 (17%)
Query: 73 FLIYDLNNDGFITREEMFQLLRGTN---EELIKFTFLIYDL---NNDGFITREEMF 122
F D + DG I+ +E L + L + I+DL + DG + +EE
Sbjct: 5 FRSLDPDGDGLISGDEARPFLGKSGLPRSVLAQ----IWDLADTDKDGKLDKEEFA 56
>gnl|CDD|185504 PTZ00184, PTZ00184, calmodulin; Provisional.
Length = 149
Score = 30.1 bits (68), Expect = 0.24
Identities = 23/87 (26%), Positives = 48/87 (55%), Gaps = 7/87 (8%)
Query: 45 DGVIHLDEWVLGLSCFLRGT-NEELIKFTFLIYDLNNDGFITREEMFQLL-----RGTNE 98
+G I E++ ++ ++ T +EE IK F ++D + +GFI+ E+ ++ + T+E
Sbjct: 61 NGTIDFPEFLTLMARKMKDTDSEEEIKEAFKVFDRDGNGFISAAELRHVMTNLGEKLTDE 120
Query: 99 ELIKFTFLIYDLNNDGFITREEMFQLL 125
E+ + D++ DG I EE +++
Sbjct: 121 EVDEMIREA-DVDGDGQINYEEFVKMM 146
>gnl|CDD|204523 pfam10591, SPARC_Ca_bdg, Secreted protein acidic and rich in
cysteine Ca binding region. The SPARC_Ca_bdg domain of
Secreted Protein Acidic and Rich in Cysteine is
responsible for the anti-spreading activity of human
urothelial cells. It is rich in alpha-helices. This
extracellular calcium-binding domain contains two
EF-hands that each coordinates one Ca2+ ion, forming a
helix-loop-helix structure that not only drives the
conformation of the protein but is also necessary for
biological activity. The anti-spreading activity was
dependent on the coordination of Ca2+ by a Glu residue
at the Z position of EF-hand 2.
Length = 112
Score = 28.9 bits (65), Expect = 0.49
Identities = 16/57 (28%), Positives = 23/57 (40%), Gaps = 12/57 (21%)
Query: 70 KFTFLIYDLNNDGFITREEMFQLLRGTNEELIK-----FTFLIY-DLNNDGFITREE 120
F L D N+DG+++R E L L+ F D + DG I+ E
Sbjct: 58 MFNQL--DTNHDGYLSRSE----LAPLRAPLVPMEHCIKPFFKSCDADKDGLISLRE 108
>gnl|CDD|239863 cd04398, RhoGAP_fRGD1, RhoGAP_fRGD1: RhoGAP (GTPase-activator
protein [GAP] for Rho-like small GTPases) domain of
fungal RGD1-like proteins. Yeast Rgd1 is a GAP protein
for Rho3 and Rho4 and plays a role in low-pH response.
Small GTPases cluster into distinct families, and all
act as molecular switches, active in their GTP-bound
form but inactive when GDP-bound. The Rho family of
GTPases activates effectors involved in a wide variety
of developmental processes, including regulation of
cytoskeleton formation, cell proliferation and the JNK
signaling pathway. GTPases generally have a low
intrinsic GTPase hydrolytic activity but there are
family-specific groups of GAPs that enhance the rate of
GTP hydrolysis by several orders of magnitude.
Length = 192
Score = 28.5 bits (64), Expect = 0.96
Identities = 17/45 (37%), Positives = 25/45 (55%), Gaps = 3/45 (6%)
Query: 106 LIYDLNNDGFIT-REEMFQLLRYSRNQSYNRLDLNVGTLCVVQGP 149
LI DL + + T R MF L R ++S NR ++V L ++ GP
Sbjct: 119 LINDLPDANYATLRALMFHLARIKEHESVNR--MSVNNLAIIWGP 161
>gnl|CDD|213592 TIGR01179, galE, UDP-glucose-4-epimerase GalE. Alternate name:
UDPgalactose 4-epimerase This enzyme interconverts
UDP-glucose and UDP-galactose. A set of related
proteins, some of which are tentatively identified as
UDP-glucose-4-epimerase in Thermotoga maritima, Bacillus
halodurans, and several archaea, but deeply branched
from this set and lacking experimental evidence, are
excluded from This model and described by a separate
model [Energy metabolism, Sugars].
Length = 328
Score = 27.7 bits (62), Expect = 2.2
Identities = 29/133 (21%), Positives = 44/133 (33%), Gaps = 44/133 (33%)
Query: 11 LGSLVCRELLHNTFDLVTEEILMERIFCAFDRLCDGVIHLDEWVLGLSCFLRGTNEELIK 70
+GS R+LL + ++V D L +G E +
Sbjct: 11 IGSHTVRQLLESGHEVVI-----------LDNLSNGSREALPRG-----------ERITP 48
Query: 71 FTFLIYDLNNDGFITREEMFQLLRGTNEE-----LIKFTFLIYDLNNDGFITREEMFQLL 125
TF+ DL + +LL EE +I F LI E + + L
Sbjct: 49 VTFVEGDLRD---------RELLDRLFEEHKIDAVIHFAGLIA--------VGESVQKPL 91
Query: 126 RYSRNQSYNRLDL 138
+Y RN L+L
Sbjct: 92 KYYRNNVVGTLNL 104
>gnl|CDD|222407 pfam13833, EF_hand_6, EF-hand domain pair.
Length = 53
Score = 25.6 bits (57), Expect = 3.3
Identities = 18/50 (36%), Positives = 25/50 (50%), Gaps = 4/50 (8%)
Query: 81 DGFITREE----MFQLLRGTNEELIKFTFLIYDLNNDGFITREEMFQLLR 126
G ITREE + L +EE + F +D + DG I+ EE LL+
Sbjct: 2 KGLITREELKRALALLGISLSEEEVDILFREFDTDGDGKISFEEFCVLLQ 51
>gnl|CDD|222190 pfam13517, VCBS, Family description. This domain of about 100
residues is found in multiple (up to 35) copies in long
proteins from several species of Vibrio, Colwellia,
Bradyrhizobium, and Shewanella (hence the name VCBS) and
in smaller copy numbers in proteins from several other
bacteria. The large protein size and repeat copy
numbers, species distribution, and suggested activities
of several member proteins suggests a role for this
domain in adhesion (TIGR).
Length = 61
Score = 24.9 bits (55), Expect = 6.4
Identities = 10/55 (18%), Positives = 17/55 (30%), Gaps = 17/55 (30%)
Query: 77 DLNNDG----FITREEMFQLLRGTNEELIKFT-------------FLIYDLNNDG 114
DL+ DG + + +L + F + DL+ DG
Sbjct: 1 DLDGDGRLDLVVASDGGVRLYLNNGDGTFTFVTSTLLGTGGGGTSVAVADLDGDG 55
>gnl|CDD|215520 PLN02964, PLN02964, phosphatidylserine decarboxylase.
Length = 644
Score = 26.4 bits (58), Expect = 7.1
Identities = 20/65 (30%), Positives = 29/65 (44%), Gaps = 12/65 (18%)
Query: 75 IYDLNNDGFITREEMFQLLRG--------TNEELIKFTFLIYDLNNDGFITREEMFQLLR 126
I D + DG ++ E L++ EEL F DLN DG +T +E+ LL
Sbjct: 187 IVDYDEDGQLSFSEFSDLIKAFGNLVAANKKEEL----FKAADLNGDGVVTIDELAALLA 242
Query: 127 YSRNQ 131
+ Q
Sbjct: 243 LQQEQ 247
>gnl|CDD|189541 pfam00426, VP4_haemagglut, Outer Capsid protein VP4
(Hemagglutinin).
Length = 776
Score = 26.3 bits (58), Expect = 7.5
Identities = 16/51 (31%), Positives = 24/51 (47%), Gaps = 7/51 (13%)
Query: 80 NDGF-ITREEMFQLLRGTNEELIKFTFLIYDLNNDGFITREEMFQLLRYSR 129
ND + ITRE+ + LLR L F +N + I + + QL+ R
Sbjct: 731 NDNYGITREQAYNLLRSDPRVLRSF------INQNNPIIKNRIEQLILQCR 775
>gnl|CDD|205731 pfam13553, FIIND, Function to find. The function to find (FIIND)
was initially discovered in two proteins, NLRP1 (aka
NALP1, CARD7, NAC, DEFCAP) and CARD8 (aka TUCAN,
Cardinal). NLRP1 is a member of the Nod-like receptor
(NLR) protein superfamily and is involved in apoptosis
and inflammation. To date, it is the only NLR protein
known to have a FIIND domain. The FIIND domain is also
present in the CARD8 protein where, like in NLRP1, it
is followed by a C-terminal CARD domain. Both proteins
are described to form an "inflammasome", a
macro-molecular complex able to process caspase 1 and
activate pro-IL1beta. The FIIND domain is present in
only a very small subset of the kingdom of life,
comprising primates, rodents (mouse, rat), carnivores
(dog) and a few more, such as horse. The function of
this domain is yet to be determined. Publications
describing the newly discovered NLRP1 protein failed to
identify it as a separate domain; for example, it was
taken as part of the adjacent leucine rich repeat
domain (LRR). Upon discovery of CARD8 it was noted that
the N-terminal region shared significant sequence
identity with an undescribed region in NLRP1. Before
getting its final name, FIIND, this domain was termed
NALP1-associated domain (NAD).
Length = 255
Score = 26.3 bits (58), Expect = 7.5
Identities = 7/31 (22%), Positives = 15/31 (48%)
Query: 26 LVTEEILMERIFCAFDRLCDGVIHLDEWVLG 56
+V + ++ FC + + D + H WV+
Sbjct: 20 VVRRAVTIDIEFCVWSQYLDKLQHQKSWVVA 50
>gnl|CDD|114995 pfam06306, CgtA, Beta-1,4-N-acetylgalactosaminyltransferase (CgtA).
This family consists of several
beta-1,4-N-acetylgalactosaminyltransferase proteins from
Campylobacter jejuni.
Length = 347
Score = 26.1 bits (57), Expect = 7.7
Identities = 15/55 (27%), Positives = 29/55 (52%), Gaps = 3/55 (5%)
Query: 69 IKFTFLIYDLNND---GFITREEMFQLLRGTNEELIKFTFLIYDLNNDGFITREE 120
IK TFL+ ++ D ++ ++ + Q+ + NE+LIK I + G+ +E
Sbjct: 24 IKKTFLLKNIQRDKIDSYLPKKTLIQINKYNNEDLIKLNKAIIGEGHKGYFNYDE 78
>gnl|CDD|185503 PTZ00183, PTZ00183, centrin; Provisional.
Length = 158
Score = 25.8 bits (57), Expect = 8.2
Identities = 26/108 (24%), Positives = 51/108 (47%), Gaps = 23/108 (21%)
Query: 33 MERIFCAFDRLCDGVIHLDEWVLGLSCFL--RGTNEELIKFTFLIYDLNNDGFITREEMF 90
++++ D+ G I +E++ ++ L R EE++K F ++D + G I+
Sbjct: 55 IKQMIADVDKDGSGKIDFEEFLDIMTKKLGERDPREEILK-AFRLFDDDKTGKIS----L 109
Query: 91 QLLRG---------TNEEL---IKFTFLIYDLNNDGFITREEMFQLLR 126
+ L+ T+EEL I D N DG I+ EE +++++
Sbjct: 110 KNLKRVAKELGETITDEELQEMIDEA----DRNGDGEISEEEFYRIMK 153
>gnl|CDD|185369 PRK15472, PRK15472, nucleoside triphosphatase NudI; Provisional.
Length = 141
Score = 25.5 bits (56), Expect = 9.1
Identities = 17/51 (33%), Positives = 23/51 (45%), Gaps = 6/51 (11%)
Query: 95 GTNEELIKFTFLIYDL---NNDGFITREEMFQLLRYSRNQSYNRLDLNVGT 142
G EE I +LI+D N D + E FQ + + + DLNV T
Sbjct: 84 GRKEE-IYMIYLIFDCVSANRD--VKINEEFQDYAWVKPEDLVHYDLNVAT 131
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
0.331 0.148 0.454
Gapped
Lambda K H
0.267 0.0908 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 7,926,465
Number of extensions: 759898
Number of successful extensions: 869
Number of sequences better than 10.0: 1
Number of HSP's gapped: 853
Number of HSP's successfully gapped: 50
Length of query: 149
Length of database: 10,937,602
Length adjustment: 88
Effective length of query: 61
Effective length of database: 7,034,450
Effective search space: 429101450
Effective search space used: 429101450
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.8 bits)
S2: 54 (24.3 bits)