RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy13834
(104 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 = 49.9 bits (120), Expect = 1e-09
Identities = 19/44 (43%), Positives = 30/44 (68%)
Query: 46 GNGYITTDVLREILKELDDKISADDLDMMIAEIDSDGSGTVDFD 89
G+G I+ D L+ LK L + +S +++D MI E+D DG G +DF+
Sbjct: 13 GDGTISADELKAALKSLGEGLSEEEIDEMIREVDKDGDGKIDFE 56
>gnl|CDD|222407 pfam13833, EF_hand_6, EF-hand domain pair.
Length = 53
Score = 44.0 bits (105), Expect = 1e-07
Identities = 14/44 (31%), Positives = 25/44 (56%)
Query: 46 GNGYITTDVLREILKELDDKISADDLDMMIAEIDSDGSGTVDFD 89
G IT + L+ L L +S +++D++ E D+DG G + F+
Sbjct: 1 EKGLITREELKRALALLGISLSEEEVDILFREFDTDGDGKISFE 44
>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 = 45.0 bits (107), Expect = 5e-07
Identities = 15/44 (34%), Positives = 30/44 (68%)
Query: 46 GNGYITTDVLREILKELDDKISADDLDMMIAEIDSDGSGTVDFD 89
+GYI+ LR +LK L +++S ++++ ++ E D DG G +D++
Sbjct: 105 HDGYISIGELRRVLKSLGERLSDEEVEKLLKEYDEDGDGEIDYE 148
Score = 28.8 bits (65), Expect = 0.30
Identities = 14/54 (25%), Positives = 29/54 (53%), Gaps = 3/54 (5%)
Query: 7 GNGYITTDVLREILKELDDKISRHPVYQDTYRVTKSTKIGNGYITTDVLREILK 60
+GYI+ LR +LK L +++S V + + + G+G I + ++++K
Sbjct: 105 HDGYISIGELRRVLKSLGERLSDEEV-EKLLKE--YDEDGDGEIDYEEFKKLIK 155
Score = 27.3 bits (61), Expect = 1.1
Identities = 15/44 (34%), Positives = 25/44 (56%), Gaps = 1/44 (2%)
Query: 46 GNGYITTDVLREILKELDDKISADDLDMMIAEIDSDGSGTVDFD 89
+G I + L +IL+ L S +++ + EID+ G+ TVDF
Sbjct: 33 SDGLIDRNELGKILRSLGFNPSEAEINKLFEEIDA-GNETVDFP 75
>gnl|CDD|185504 PTZ00184, PTZ00184, calmodulin; Provisional.
Length = 149
Score = 40.5 bits (95), Expect = 2e-05
Identities = 16/44 (36%), Positives = 30/44 (68%)
Query: 46 GNGYITTDVLREILKELDDKISADDLDMMIAEIDSDGSGTVDFD 89
GNG+I+ LR ++ L +K++ +++D MI E D DG G ++++
Sbjct: 97 GNGFISAAELRHVMTNLGEKLTDEEVDEMIREADVDGDGQINYE 140
Score = 39.0 bits (91), Expect = 6e-05
Identities = 19/45 (42%), Positives = 29/45 (64%)
Query: 44 KIGNGYITTDVLREILKELDDKISADDLDMMIAEIDSDGSGTVDF 88
K G+G ITT L +++ L + +L MI E+D+DG+GT+DF
Sbjct: 22 KDGDGTITTKELGTVMRSLGQNPTEAELQDMINEVDADGNGTIDF 66
>gnl|CDD|222177 pfam13499, EF_hand_5, EF-hand domain pair.
Length = 60
Score = 32.3 bits (74), Expect = 0.005
Identities = 16/48 (33%), Positives = 29/48 (60%), Gaps = 4/48 (8%)
Query: 46 GNGYITTDVLREILKELDDKISADDLDMMIAEI----DSDGSGTVDFD 89
G+GYI + LR++LK L K++ ++++ +I D DG G + F+
Sbjct: 7 GDGYIDVEELRKLLKALGLKLTDEEVEELIEADFNEIDKDGDGRISFE 54
>gnl|CDD|185503 PTZ00183, PTZ00183, centrin; Provisional.
Length = 158
Score = 32.4 bits (74), Expect = 0.021
Identities = 14/42 (33%), Positives = 24/42 (57%)
Query: 48 GYITTDVLREILKELDDKISADDLDMMIAEIDSDGSGTVDFD 89
G I+ L+ + KEL + I+ ++L MI E D +G G + +
Sbjct: 105 GKISLKNLKRVAKELGETITDEELQEMIDEADRNGDGEISEE 146
Score = 28.9 bits (65), Expect = 0.31
Identities = 15/44 (34%), Positives = 27/44 (61%)
Query: 46 GNGYITTDVLREILKELDDKISADDLDMMIAEIDSDGSGTVDFD 89
G+G I L+ ++ L + +++ MIA++D DGSG +DF+
Sbjct: 30 GSGTIDPKELKVAMRSLGFEPKKEEIKQMIADVDKDGSGKIDFE 73
>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 = 0.055
Identities = 7/20 (35%), Positives = 10/20 (50%)
Query: 70 DLDMMIAEIDSDGSGTVDFD 89
+L D DG G +DF+
Sbjct: 1 ELKEAFRLFDKDGDGKIDFE 20
>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 = 28.7 bits (65), Expect = 0.16
Identities = 11/46 (23%), Positives = 19/46 (41%), Gaps = 2/46 (4%)
Query: 44 KIGNGYITTDVLREILKELDDKISADDLDMMIAEIDSDGSGTVDFD 89
G+G I+ D R L + + L + D+D G +D +
Sbjct: 10 PDGDGLISGDEARPFLGKS--GLPRSVLAQIWDLADTDKDGKLDKE 53
>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 = 27.4 bits (62), Expect = 0.21
Identities = 7/20 (35%), Positives = 10/20 (50%)
Query: 70 DLDMMIAEIDSDGSGTVDFD 89
+L E D DG G + F+
Sbjct: 1 ELKEAFKEFDKDGDGKISFE 20
>gnl|CDD|236626 PRK09814, PRK09814, beta-1,6-galactofuranosyltransferase;
Provisional.
Length = 333
Score = 29.2 bits (66), Expect = 0.29
Identities = 16/49 (32%), Positives = 24/49 (48%), Gaps = 8/49 (16%)
Query: 20 LKELDDKISRHPVYQDTY-----RVTK-STKIGNGYITTDVLREILKEL 62
L+EL + I + ++ Y V K S + NGY T L + +KEL
Sbjct: 287 LEELPEIIDN--ITEEEYQEMVENVKKISKLLRNGYFTKKALVDAIKEL 333
>gnl|CDD|197477 smart00027, EH, Eps15 homology domain. Pair of EF hand motifs
that recognise proteins containing Asn-Pro-Phe (NPF)
sequences.
Length = 96
Score = 26.5 bits (59), Expect = 1.5
Identities = 11/46 (23%), Positives = 18/46 (39%), Gaps = 2/46 (4%)
Query: 44 KIGNGYITTDVLREILKELDDKISADDLDMMIAEIDSDGSGTVDFD 89
K +G +T + IL + + L + D D G +D D
Sbjct: 21 KNQDGTVTGAQAKPILLKS--GLPQTLLAKIWNLADIDNDGELDKD 64
>gnl|CDD|224696 COG1782, COG1782, Predicted metal-dependent RNase, consists of a
metallo-beta-lactamase domain and an RNA-binding KH
domain [General function prediction only].
Length = 637
Score = 27.3 bits (61), Expect = 1.6
Identities = 11/25 (44%), Positives = 17/25 (68%), Gaps = 1/25 (4%)
Query: 17 REILKELDDKISRHPVYQDTY-RVT 40
REIL+ + +I R P+ +D + RVT
Sbjct: 160 REILRNVGRRIHREPLVKDRWVRVT 184
>gnl|CDD|173899 cd00672, CysRS_core, catalytic core domain of cysteinyl tRNA
synthetase. Cysteinyl tRNA synthetase (CysRS)
catalytic core domain. This class I enzyme is a monomer
which aminoacylates the 2'-OH of the nucleotide at the
3' of the appropriate tRNA. The core domain is based on
the Rossman fold and is responsible for the
ATP-dependent formation of the enzyme bound
aminoacyl-adenylate. It contains the characteristic
class I HIGH and KMSKS motifs, which are involved in
ATP binding.
Length = 213
Score = 27.2 bits (61), Expect = 1.7
Identities = 14/50 (28%), Positives = 19/50 (38%), Gaps = 15/50 (30%)
Query: 39 VTKSTKIGNG--YITTDVLREILKEL-------------DDKISADDLDM 73
V IG+ Y+ DVLR L++L DDKI +
Sbjct: 30 VYDYAHIGHARTYVVFDVLRRYLEDLGYKVRYVQNITDIDDKIIKRAREE 79
>gnl|CDD|236737 PRK10696, PRK10696, tRNA 2-thiocytidine biosynthesis protein TtcA;
Provisional.
Length = 258
Score = 26.7 bits (60), Expect = 2.0
Identities = 11/29 (37%), Positives = 14/29 (48%), Gaps = 2/29 (6%)
Query: 13 TDVLREILKELDDKISRHPVYQDTYRVTK 41
VL E L+ L + H QDTY + K
Sbjct: 76 EHVLPEYLESLG--VPYHIEEQDTYSIVK 102
>gnl|CDD|237986 cd00019, AP2Ec, AP endonuclease family 2; These endonucleases play
a role in DNA repair. Cleave phosphodiester bonds at
apurinic or apyrimidinic sites; the alignment also
contains hexulose-6-phosphate isomerases, enzymes that
catalyze the epimerization of D-arabino-6-hexulose
3-phosphate to D-fructose 6-phosphate, via cleaving the
phosphoesterbond with the sugar. .
Length = 279
Score = 26.5 bits (59), Expect = 2.5
Identities = 16/58 (27%), Positives = 25/58 (43%), Gaps = 6/58 (10%)
Query: 20 LKELDDKISRHP---VYQDTYRVTKSTKIGNGYITTDVLREILKELDDKISADDLDMM 74
LKE+ D I P V DT + + G T + ++L+E D I + L +
Sbjct: 158 LKEIIDLIKEKPRVGVCIDTCHIFAA---GYDISTVEGFEKVLEEFDKVIGLEYLKAI 212
>gnl|CDD|216798 pfam01937, DUF89, Protein of unknown function DUF89. This family
has no known function.
Length = 315
Score = 26.1 bits (58), Expect = 3.7
Identities = 10/36 (27%), Positives = 16/36 (44%)
Query: 53 DVLREILKELDDKISADDLDMMIAEIDSDGSGTVDF 88
D E+ K L+ I DD D + + + VD+
Sbjct: 132 DQESELRKALERPILVDDTDALWERLKGSRAKRVDY 167
>gnl|CDD|182087 PRK09804, PRK09804, putative cryptic C4-dicarboxylate transporter
DcuD; Provisional.
Length = 455
Score = 26.1 bits (57), Expect = 3.7
Identities = 9/25 (36%), Positives = 16/25 (64%)
Query: 4 PGAGNGYITTDVLREILKELDDKIS 28
P +GY+ D+ EIL+ L ++I+
Sbjct: 50 PAKSSGYLIVDIYNEILRMLSNRIA 74
Score = 26.1 bits (57), Expect = 4.3
Identities = 10/28 (35%), Positives = 18/28 (64%)
Query: 47 NGYITTDVLREILKELDDKISADDLDMM 74
+GY+ D+ EIL+ L ++I+ L +M
Sbjct: 54 SGYLIVDIYNEILRMLSNRIAGLGLSIM 81
>gnl|CDD|176459 cd03586, PolY_Pol_IV_kappa, DNA Polymerase IV/Kappa. Pol IV, also
known as Pol kappa, DinB, and Dpo4, is a translesion
synthesis (TLS) polymerase. Translesion synthesis is a
process that allows the bypass of a variety of DNA
lesions. TLS polymerases lack proofreading activity and
have low fidelity and low processivity. They use
damaged DNA as templates and insert nucleotides opposite
the lesions. Known primarily as Pol IV in prokaryotes
and Pol kappa in eukaryotes, this polymerase has a
propensity for generating frameshift mutations. The
eukaryotic Pol kappa differs from Pol IV and Dpo4 by an
N-terminal extension of ~75 residues known as the
"N-clasp" region. The structure of Pol kappa shows DNA
that is almost totally encircled by Pol kappa, with the
N-clasp region augmenting the interactions between DNA
and the polymerase. Pol kappa is more resistant than Pol
eta and Pol iota to bulky guanine adducts and is
efficient at catalyzing the incorporation of dCTP.
Bacterial pol IV has a higher error rate than other
Y-family polymerases.
Length = 334
Score = 25.9 bits (58), Expect = 3.8
Identities = 11/63 (17%), Positives = 27/63 (42%), Gaps = 10/63 (15%)
Query: 14 DVLREILKELDDKISRHPV----------YQDTYRVTKSTKIGNGYITTDVLREILKELD 63
+ L E+ +EL +++ + + Y D T+S + + + E+ EL
Sbjct: 256 EELLELAEELAERLRKRGLKGRTVTVKLKYADFSTRTRSRTLPEPTDDAEDIYELALELL 315
Query: 64 DKI 66
+++
Sbjct: 316 EEL 318
>gnl|CDD|217915 pfam04130, Spc97_Spc98, Spc97 / Spc98 family. The spindle pole
body (SPB) functions as the microtubule-organising
centre in yeast. Members of this family are spindle pole
body (SBP) components such as Spc97 and Spc98 that form
a complex with gamma-tubulin. This family of proteins
includes the grip motif 1 and grip moti 2.
Length = 528
Score = 26.3 bits (58), Expect = 3.9
Identities = 11/34 (32%), Positives = 19/34 (55%), Gaps = 1/34 (2%)
Query: 48 GYITTDVLREILKELDDKIS-ADDLDMMIAEIDS 80
YI DV+ ++L +++ A DLD +IA +
Sbjct: 485 YYIQVDVIESNWQKLQEQLQKAKDLDELIAAHED 518
>gnl|CDD|233868 TIGR02438, catachol_actin, catechol 1,2-dioxygenase,
Actinobacterial. Members of this family are catechol
1,2-dioxygenases of the Actinobacteria. They are more
closely related to actinobacterial chlorocatechol
1,2-dioxygenases than to proteobacterial catechol
1,2-dioxygenases, and so are built in this separate
model. The member from Rhodococcus rhodochrous NCIMB
13259 (GB|AAC33003.1) is described as a homodimer with
bound Fe, similarly active on catechol,
3-methylcatechol and 4-methylcatechol.
Length = 281
Score = 25.9 bits (57), Expect = 3.9
Identities = 11/32 (34%), Positives = 17/32 (53%)
Query: 17 REILKELDDKISRHPVYQDTYRVTKSTKIGNG 48
R++L +++ I +H V D Y V K I G
Sbjct: 40 RDVLGAINETILKHKVTYDEYNVLKQWLIDVG 71
>gnl|CDD|233948 TIGR02606, antidote_CC2985, putative addiction module antidote
protein, CC2985 family. This bacterial protein family
has a very similar seed alignment to that of pfam03693
but is a more stringent model with higher cutoff
scores. Proteins that score above the trusted cutoff to
this model almost invariably are found adjacent to a
ParE family protein (pfam05016), where ParE is the
killing partner of an addiction module for plasmid
stabilization. Members of this family, therefore, are
putative addiction module antidote proteins. Some are
encoded on plasmids or in prophage regions, but others
appear chromosomal. A genome may contain several
identical copies, such as the four in Magnetococcus sp.
MC-1. This family is named for one member, CC2985 of
Caulobacter crescentus CB15 [Cellular processes, Other,
Mobile and extrachromosomal element functions, Plasmid
functions].
Length = 69
Score = 24.9 bits (55), Expect = 4.2
Identities = 9/43 (20%), Positives = 18/43 (41%), Gaps = 1/43 (2%)
Query: 51 TTDVLREILKELDDKISADD-LDMMIAEIDSDGSGTVDFDVIQ 92
++V+R L+ L+++ + L I E + G D
Sbjct: 26 ASEVVRAALRLLEERETKLQALRDAIEEGEQSGEAGRSLDDFL 68
>gnl|CDD|236592 PRK09616, pheT, phenylalanyl-tRNA synthetase subunit beta;
Reviewed.
Length = 552
Score = 25.5 bits (57), Expect = 5.2
Identities = 9/38 (23%), Positives = 17/38 (44%)
Query: 53 DVLREILKELDDKISADDLDMMIAEIDSDGSGTVDFDV 90
D+ R I +L+D D L M+ E++ + +
Sbjct: 10 DLERLIGIDLEDDELEDLLPMLKCEVEEIEDDEIKIEF 47
>gnl|CDD|240152 cd05025, S-100A1, S-100A1: S-100A1 domain found in proteins
similar to S100A1. S100A1 is a calcium-binding protein
belonging to a large S100 vertebrate-specific protein
family within the EF-hand superfamily of
calcium-binding proteins. Note that the S-100
hierarchy, to which this S-100A1 group belongs,
contains only S-100 EF-hand domains, other EF-hands
have been modeled separately. As is the case with many
other members of S100 protein family, S100A1 is
implicated in intracellular and extracellular
regulatory activities, including interaction with
myosin-associated twitchin kinase, actin-capping
protein CapZ, sinapsin I, and tubulin. Structural data
suggests that S100A1 proteins exist within cells as
antiparallel homodimers, while heterodimers with
S100A4 and S100B also has been reported. Upon binding
calcium S100A1 changes conformation to expose a
hydrophobic cleft which is the interaction site of
S100A1 with its more that 20 known target proteins.
Length = 92
Score = 24.8 bits (54), Expect = 5.6
Identities = 19/55 (34%), Positives = 32/55 (58%), Gaps = 6/55 (10%)
Query: 40 TKSTKIGNGY-ITTDVLREILK-ELDDKISA----DDLDMMIAEIDSDGSGTVDF 88
S K G+ Y ++ L+++L+ EL D + A D +D ++ E+D +G G VDF
Sbjct: 17 AHSGKEGDKYKLSKKELKDLLQTELSDFLDAQKDADAVDKIMKELDENGDGEVDF 71
>gnl|CDD|224646 COG1732, OpuBC, Periplasmic glycine betaine/choline-binding
(lipo)protein of an ABC-type transport system
(osmoprotectant binding protein) [Cell envelope
biogenesis, outer membrane].
Length = 300
Score = 25.3 bits (56), Expect = 6.6
Identities = 20/80 (25%), Positives = 32/80 (40%), Gaps = 8/80 (10%)
Query: 6 AGNGYITTD--VLREILKELDDKISRHPVYQDTYRVTKSTKIGNGYITTDVLREILKELD 63
A + Y +TD + LK L D P YQ V + + L+ IL +L
Sbjct: 214 AADAY-STDGRIAAYGLKVLKDDKGFFPPYQAAPVVREEVLKKH-----PELKTILNKLS 267
Query: 64 DKISADDLDMMIAEIDSDGS 83
KI + + + +D +G
Sbjct: 268 GKIDTETMQALNYRVDVEGK 287
>gnl|CDD|183486 PRK12381, PRK12381, bifunctional succinylornithine
transaminase/acetylornithine transaminase; Provisional.
Length = 406
Score = 25.5 bits (56), Expect = 7.4
Identities = 15/42 (35%), Positives = 21/42 (50%), Gaps = 3/42 (7%)
Query: 30 HPVYQD--TYRVTKSTKIGNGYITTDVLREILKELDDKISAD 69
HP ++ + +K GNGY VLR + K+L D AD
Sbjct: 57 HPALREALNEQASKFWHTGNGYTNEPVLR-LAKKLIDATFAD 97
>gnl|CDD|223056 PHA03362, PHA03362, single-stranded binding protein UL29;
Provisional.
Length = 1189
Score = 25.4 bits (56), Expect = 8.2
Identities = 11/44 (25%), Positives = 16/44 (36%), Gaps = 7/44 (15%)
Query: 46 GNGYITTDVLREILKELDDKISADDLDMMIAEIDSDGSGTVDFD 89
G G + + E+LKEL+ +A G DF
Sbjct: 1103 GGGDWSVEAALEVLKELEAGATA------GGGPAGGG-EAFDFG 1139
>gnl|CDD|223721 COG0648, Nfo, Endonuclease IV [DNA replication, recombination, and
repair].
Length = 280
Score = 24.9 bits (55), Expect = 8.9
Identities = 18/70 (25%), Positives = 27/70 (38%), Gaps = 9/70 (12%)
Query: 6 AGNGYITTDVLREILKELDDKISRHPV---------YQDTYRVTKSTKIGNGYITTDVLR 56
AG IT + ++L E D + + Y + IG GYI + LR
Sbjct: 182 AGYDIITEEDFEKVLNEFDKVLGLEYLKHIHLNDSKYPLGSNKDRHENIGEGYIGFEALR 241
Query: 57 EILKELDDKI 66
+ILK+
Sbjct: 242 KILKDFRIDG 251
>gnl|CDD|130079 TIGR01006, polys_exp_MPA1, polysaccharide export protein, MPA1
family, Gram-positive type. This family contains
members from Low GC Gram-positive bacteria; they are
proposed to have a function in the export of complex
polysaccharides [Transport and binding proteins,
Carbohydrates, organic alcohols, and acids].
Length = 226
Score = 25.1 bits (55), Expect = 8.9
Identities = 7/23 (30%), Positives = 14/23 (60%)
Query: 53 DVLREILKELDDKISADDLDMMI 75
D+L ++ K+L +S +L M+
Sbjct: 88 DILDKVSKDLKLDLSPKELSSMV 110
>gnl|CDD|240975 cd12531, RRM3_MEI2_like, RNA recognition motif 3 in plant
Mei2-like proteins. This subgroup corresponds to the
RRM3 of Mei2-like proteins, representing an ancient
eukaryotic RNA-binding proteins family. Their
corresponding Mei2-like genes appear to have arisen
early in eukaryote evolution, been lost from some
lineages such as Saccharomyces cerevisiae and
metazoans, and diversified in the plant lineage. The
plant Mei2-like genes may function in cell fate
specification during development, rather than as
stimulators of meiosis. Members in this family contain
three RNA recognition motifs (RRMs), also termed RBDs
(RNA binding domains) or RNPs (ribonucleoprotein
domains). The C-terminal RRM (RRM3) is unique to
Mei2-like proteins and is highly conserved between
plants and fungi. To date, the intracellular
localization, RNA target(s), cellular interactions and
phosphorylation states of Mei2-like proteins in plants
remain unclear. .
Length = 86
Score = 24.3 bits (53), Expect = 9.1
Identities = 8/16 (50%), Positives = 10/16 (62%)
Query: 73 MMIAEIDSDGSGTVDF 88
M++A ID GT DF
Sbjct: 14 MLLAAIDEKHRGTYDF 29
>gnl|CDD|232785 TIGR00020, prfB, peptide chain release factor 2. In many but not
all taxa, there is a conserved real translational
frameshift at a TGA codon. RF-2 helps terminate
translation at TGA codons and can therefore regulate
its own production by readthrough when RF-2 is
insufficient. There is a PFAM model called "RF-1" for
the superfamily of RF-1, RF-2, mitochondrial, RF-H, etc
[Protein synthesis, Translation factors].
Length = 364
Score = 25.1 bits (55), Expect = 9.3
Identities = 12/60 (20%), Positives = 26/60 (43%), Gaps = 4/60 (6%)
Query: 9 GYITTDVLREILKELDDKISRHPVYQDTYR---VTKSTKIGNGYITT-DVLREILKELDD 64
G + + + L+EL+ ++ + D R V K + T + L+ L++L +
Sbjct: 21 GSLDPEKKKARLEELEKEMEDPNFWNDQERAQAVIKERSSLEAVLDTLEELKNSLEDLSE 80
>gnl|CDD|151381 pfam10934, DUF2634, Protein of unknown function (DUF2634). Some
members in this family of proteins are annotated as
phage related, xkdS however currently there is no known
function.
Length = 112
Score = 24.5 bits (54), Expect = 9.4
Identities = 15/66 (22%), Positives = 27/66 (40%), Gaps = 3/66 (4%)
Query: 29 RHPVYQDTYRVTKSTKIGNGYITTDVLREILKELDDKISADD--LDMMIAEIDSDGSG-T 85
++ +Y D Y IG Y V E+ + +++ + D D+ E + +
Sbjct: 41 KYLIYSDNYGNELEDLIGKIYSKDYVESEVKRMIEEALLVDPRIKDVDNFEFEKEKDSLY 100
Query: 86 VDFDVI 91
V F VI
Sbjct: 101 VSFTVI 106
>gnl|CDD|177836 PLN02180, PLN02180, gamma-glutamyl transpeptidase 4.
Length = 639
Score = 25.0 bits (54), Expect = 9.9
Identities = 15/54 (27%), Positives = 24/54 (44%)
Query: 38 RVTKSTKIGNGYITTDVLREILKELDDKISADDLDMMIAEIDSDGSGTVDFDVI 91
++ K K G IT D LR + D +S D + I + GT+ F ++
Sbjct: 279 KLVKDVKKAGGIITMDDLRSYEVLVTDAMSVDVMGYTIHGMPPPSGGTLGFSMV 332
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 0.138 0.379
Gapped
Lambda K H
0.267 0.0674 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 5,620,221
Number of extensions: 502594
Number of successful extensions: 769
Number of sequences better than 10.0: 1
Number of HSP's gapped: 763
Number of HSP's successfully gapped: 103
Length of query: 104
Length of database: 10,937,602
Length adjustment: 69
Effective length of query: 35
Effective length of database: 7,877,176
Effective search space: 275701160
Effective search space used: 275701160
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: 42 (22.0 bits)
S2: 53 (24.3 bits)