RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy17265
(161 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 = 55.6 bits (135), Expect = 3e-11
Identities = 25/63 (39%), Positives = 38/63 (60%), Gaps = 5/63 (7%)
Query: 84 AFKMYDLDNDDAISRDELLAVLHMMVGANISEEQLTSIAERTILEADQNGDQMISFDEFC 143
AF+++D D D IS DEL A L + G +SEE++ + I E D++GD I F+EF
Sbjct: 5 AFRLFDKDGDGTISADELKAALKSL-GEGLSEEEI----DEMIREVDKDGDGKIDFEEFL 59
Query: 144 KAL 146
+ +
Sbjct: 60 ELM 62
>gnl|CDD|222177 pfam13499, EF_hand_5, EF-hand domain pair.
Length = 60
Score = 52.8 bits (127), Expect = 3e-10
Identities = 21/61 (34%), Positives = 36/61 (59%), Gaps = 1/61 (1%)
Query: 86 KMYDLDNDDAISRDELLAVLHMMVGANISEEQLTSIAERTILEADQNGDQMISFDEFCKA 145
K+ D D D I +EL +L + G +++E++ + E E D++GD ISF+EF +A
Sbjct: 1 KLLDKDGDGYIDVEELRKLLKAL-GLKLTDEEVEELIEADFNEIDKDGDGRISFEEFLEA 59
Query: 146 L 146
+
Sbjct: 60 M 60
>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 = 46.9 bits (112), Expect = 4e-07
Identities = 22/65 (33%), Positives = 35/65 (53%), Gaps = 5/65 (7%)
Query: 84 AFKMYDLDNDDAISRDELLAVLHMMVGANISEEQLTSIAERTILEADQNGDQMISFDEFC 143
AFK++D D+D IS EL VL ++ E E+ + E D++GD I ++EF
Sbjct: 97 AFKLFDKDHDGYISIGELRRVL-----KSLGERLSDEEVEKLLKEYDEDGDGEIDYEEFK 151
Query: 144 KALER 148
K ++
Sbjct: 152 KLIKD 156
Score = 31.1 bits (71), Expect = 0.14
Identities = 21/75 (28%), Positives = 39/75 (52%), Gaps = 6/75 (8%)
Query: 84 AFKMYDLDNDDAISRDELLAVLHMMVGANISEEQLTSIAERTILEADQNGDQMISFDEFC 143
AF+++D D+D I R+EL +L + G N SE ++ + E G++ + F EF
Sbjct: 25 AFQLFDRDSDGLIDRNELGKILRSL-GFNPSEAEINK-----LFEEIDAGNETVDFPEFL 78
Query: 144 KALERTKKKKKKKKK 158
+ K+ K+++
Sbjct: 79 TVMSVKLKRGDKEEE 93
>gnl|CDD|185504 PTZ00184, PTZ00184, calmodulin; Provisional.
Length = 149
Score = 42.1 bits (99), Expect = 2e-05
Identities = 22/63 (34%), Positives = 37/63 (58%), Gaps = 5/63 (7%)
Query: 84 AFKMYDLDNDDAISRDELLAVLHMMVGANISEEQLTSIAERTILEADQNGDQMISFDEFC 143
AFK++D D + IS EL V+ + G +++E+ + I EAD +GD I+++EF
Sbjct: 89 AFKVFDRDGNGFISAAELRHVMTNL-GEKLTDEE----VDEMIREADVDGDGQINYEEFV 143
Query: 144 KAL 146
K +
Sbjct: 144 KMM 146
Score = 34.0 bits (78), Expect = 0.015
Identities = 23/68 (33%), Positives = 34/68 (50%), Gaps = 5/68 (7%)
Query: 84 AFKMYDLDNDDAISRDELLAVLHMMVGANISEEQLTSIAERTILEADQNGDQMISFDEFC 143
AF ++D D D I+ EL V+ + G N +E +L + I E D +G+ I F EF
Sbjct: 16 AFSLFDKDGDGTITTKELGTVMRSL-GQNPTEAELQDM----INEVDADGNGTIDFPEFL 70
Query: 144 KALERTKK 151
+ R K
Sbjct: 71 TLMARKMK 78
>gnl|CDD|222407 pfam13833, EF_hand_6, EF-hand domain pair.
Length = 53
Score = 39.0 bits (92), Expect = 4e-05
Identities = 21/56 (37%), Positives = 33/56 (58%), Gaps = 5/56 (8%)
Query: 93 DDAISRDELLAVLHMMVGANISEEQLTSIAERTILEADQNGDQMISFDEFCKALER 148
I+R+EL L ++ G ++SEE++ + E D +GD ISF+EFC L+R
Sbjct: 2 KGLITREELKRALALL-GISLSEEEVDIL----FREFDTDGDGKISFEEFCVLLQR 52
Score = 24.4 bits (54), Expect = 8.3
Identities = 8/21 (38%), Positives = 12/21 (57%)
Query: 85 FKMYDLDNDDAISRDELLAVL 105
F+ +D D D IS +E +L
Sbjct: 30 FREFDTDGDGKISFEEFCVLL 50
>gnl|CDD|185503 PTZ00183, PTZ00183, centrin; Provisional.
Length = 158
Score = 37.0 bits (86), Expect = 0.001
Identities = 24/66 (36%), Positives = 38/66 (57%), Gaps = 5/66 (7%)
Query: 84 AFKMYDLDNDDAISRDELLAVLHMMVGANISEEQLTSIAERTILEADQNGDQMISFDEFC 143
AF+++D D IS L V + G I++E+L + I EAD+NGD IS +EF
Sbjct: 95 AFRLFDDDKTGKISLKNLKRVAKEL-GETITDEELQEM----IDEADRNGDGEISEEEFY 149
Query: 144 KALERT 149
+ +++T
Sbjct: 150 RIMKKT 155
Score = 25.8 bits (57), Expect = 7.8
Identities = 16/59 (27%), Positives = 29/59 (49%), Gaps = 5/59 (8%)
Query: 84 AFKMYDLDNDDAISRDELLAVLHMMVGANISEEQLTSIAERTILEADQNGDQMISFDEF 142
AF ++D D I EL + + G +E++ ++ I + D++G I F+EF
Sbjct: 22 AFDLFDTDGSGTIDPKELKVAMRSL-GFEPKKEEI----KQMIADVDKDGSGKIDFEEF 75
>gnl|CDD|205583 pfam13405, EF_hand_4, EF-hand domain.
Length = 30
Score = 33.0 bits (76), Expect = 0.004
Identities = 11/25 (44%), Positives = 15/25 (60%)
Query: 84 AFKMYDLDNDDAISRDELLAVLHMM 108
AFK++D D D IS +EL L +
Sbjct: 5 AFKLFDKDGDGYISAEELRKALRSL 29
>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 = 33.7 bits (78), Expect = 0.004
Identities = 17/62 (27%), Positives = 25/62 (40%), Gaps = 7/62 (11%)
Query: 85 FKMYDLDNDDAISRDELLAVLHMMVGANISEEQLTSIAERTILEADQNGDQMISFDEFCK 144
F+ D D D IS DE L + + L I + AD + D + +EF
Sbjct: 5 FRSLDPDGDGLISGDEARPFL---GKSGLPRSVLAQIWD----LADTDKDGKLDKEEFAI 57
Query: 145 AL 146
A+
Sbjct: 58 AM 59
>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 = 30.8 bits (71), Expect = 0.027
Identities = 9/30 (30%), Positives = 16/30 (53%), Gaps = 1/30 (3%)
Query: 79 EFRMVAFKMYDLDNDDAISRDELLAVLHMM 108
E + AF+++D D D I +E +L +
Sbjct: 1 ELKE-AFRLFDKDGDGKIDFEEFKDLLKAL 29
Score = 28.5 bits (65), Expect = 0.20
Identities = 8/19 (42%), Positives = 11/19 (57%)
Query: 128 EADQNGDQMISFDEFCKAL 146
D++GD I F+EF L
Sbjct: 8 LFDKDGDGKIDFEEFKDLL 26
>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 = 30.5 bits (70), Expect = 0.037
Identities = 10/25 (40%), Positives = 14/25 (56%)
Query: 84 AFKMYDLDNDDAISRDELLAVLHMM 108
AFK +D D D IS +E +L +
Sbjct: 5 AFKEFDKDGDGKISFEEFKELLKKL 29
Score = 29.0 bits (66), Expect = 0.13
Identities = 10/28 (35%), Positives = 17/28 (60%)
Query: 122 AERTILEADQNGDQMISFDEFCKALERT 149
+ E D++GD ISF+EF + L++
Sbjct: 2 LKEAFKEFDKDGDGKISFEEFKELLKKL 29
>gnl|CDD|205383 pfam13202, EF_hand_3, EF hand.
Length = 25
Score = 26.9 bits (61), Expect = 0.55
Identities = 8/22 (36%), Positives = 14/22 (63%)
Query: 84 AFKMYDLDNDDAISRDELLAVL 105
F+ +D + D IS++EL +L
Sbjct: 4 LFRQFDTNGDGKISKEELKRLL 25
>gnl|CDD|147395 pfam05186, Dpy-30, Dpy-30 motif. This motif is found in a wide
variety of domain contexts. It is found in the Dpy-30
proteins hence the motifs name. It is about 40 residues
long and is probably fomed of two alpha-helices. It may
be a dimerisation motif analogous to pfam02197 (Bateman
A pers obs).
Length = 42
Score = 27.2 bits (61), Expect = 0.65
Identities = 7/21 (33%), Positives = 11/21 (52%)
Query: 1 MTRLFKAIAVLARSRPPSPVE 21
L + + LA+ RP P+E
Sbjct: 11 APILLQGLTELAKERPEDPIE 31
>gnl|CDD|235651 PRK05940, PRK05940, anthranilate synthase component I-like
protein; Validated.
Length = 463
Score = 29.7 bits (67), Expect = 0.75
Identities = 15/35 (42%), Positives = 20/35 (57%), Gaps = 2/35 (5%)
Query: 2 TRLFK--AIAVLARSRPPSPVEAPSLSQHSLDASS 34
RLF IA L S P+P + P LS++S+ A S
Sbjct: 25 ERLFGQQGIATLLESPYPTPADYPPLSRYSICAGS 59
>gnl|CDD|239953 cd04517, TLF, TBP-like factors (TLF; also called TLP, TRF, TRP),
which are found in most metazoans. TLFs and TBPs have
well-conserved core domains; however, they only share
about 60% similarity. TLFs, like TBPs, interact with
TFIIA and TFIIB, which are part of the basal
transcription machinery. Yet, in contrast to TBPs, TLFs
seem not to interact with the TATA-box and even have a
negative effect on the transcription of TATA-containing
promoters. Recent results indicate that TLFs are
involved in the transcription via TATA-less promoters.
Length = 174
Score = 28.5 bits (64), Expect = 1.2
Identities = 10/34 (29%), Positives = 18/34 (52%)
Query: 5 FKAIAVLARSRPPSPVEAPSLSQHSLDASSYQGE 38
F+ + VLA P P+ L+ + ++SY+ E
Sbjct: 93 FRVVNVLATCSMPFPIRLDELAAKNRSSASYEPE 126
>gnl|CDD|237046 PRK12297, obgE, GTPase CgtA; Reviewed.
Length = 424
Score = 27.4 bits (62), Expect = 3.4
Identities = 19/63 (30%), Positives = 31/63 (49%), Gaps = 11/63 (17%)
Query: 38 EEEEATEQVYVVPDEVFAGLVKPENVRPDDNTAFWEYQMFGEF--RMVAFKMYDLDNDDA 95
EEEE E+VY +E K + D++ F + GE R+ FKM + + D++
Sbjct: 335 EEEEVEEEVYYKFEE----EEKDFTITRDEDGVF---VVSGEKIERL--FKMTNFNRDES 385
Query: 96 ISR 98
+ R
Sbjct: 386 LRR 388
>gnl|CDD|133247 cd05116, PTKc_Syk, Catalytic domain of the Protein Tyrosine Kinase,
Spleen tyrosine kinase. Protein Tyrosine Kinase (PTK)
family; Spleen tyrosine kinase (Syk); catalytic (c)
domain. 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,
together with Zap-70, form the Syk subfamily of kinases
which are cytoplasmic (or nonreceptor) tyr kinases
containing two Src homology 2 (SH2) domains N-terminal
to the catalytic tyr kinase domain. Syk was first cloned
from the spleen, and its function in hematopoietic cells
is well-established. Syk is involved in the signaling
downstream of activated receptors (including B-cell and
Fc receptors) that contain ITAMs (immunoreceptor tyr
activation motifs), leading to processes such as cell
proliferation, differentiation, survival, adhesion,
migration, and phagocytosis. More recently, Syk
expression has been detected in other cell types
(including epithelial cells, vascular endothelial cells,
neurons, hepatocytes, and melanocytes), suggesting a
variety of biological functions in non-immune cells. Syk
plays a critical role in maintaining vascular integrity
and in wound healing during embryogenesis. It also
regulates Vav3, which is important in osteoclast
function including bone development. In breast
epithelial cells, where Syk acts as a negative regulator
for epidermal growth factor receptor (EGFR) signaling,
loss of Syk expression is associated with abnormal
proliferation during cancer development suggesting a
potential role as a tumor suppressor. In mice, Syk has
been shown to inhibit malignant transformation of
mammary epithelial cells induced with murine mammary
tumor virus (MMTV).
Length = 257
Score = 27.2 bits (60), Expect = 3.9
Identities = 13/35 (37%), Positives = 20/35 (57%)
Query: 74 YQMFGEFRMVAFKMYDLDNDDAISRDELLAVLHMM 108
Y+M + VA K+ DN+D +DELL ++M
Sbjct: 16 YKMKKSEKTVAVKILKNDNNDPALKDELLREANVM 50
>gnl|CDD|193239 pfam12763, efhand_3, Cytoskeletal-regulatory complex EF hand. This
is an efhand family from the N-terminal of actin
cytoskeleton-regulatory complex END3 and similar
proteins from fungi and closely related species.
Length = 104
Score = 26.2 bits (58), Expect = 4.0
Identities = 14/54 (25%), Positives = 29/54 (53%), Gaps = 7/54 (12%)
Query: 93 DDAISRDELLAVLHMMVGANISEEQLTSIAERTILEADQNGDQMISFDEFCKAL 146
++ ++ D++ VL + + ++QL I + AD + D + F+EFC A+
Sbjct: 23 NNKLTGDQVSPVLK---NSRLPDDQLAKIWDL----ADIDSDGKLDFEEFCIAM 69
>gnl|CDD|188347 TIGR03595, Obg_CgtA_exten, Obg family GTPase CgtA, C-terminal
extension. CgtA (see model TIGR02729) is a broadly
conserved member of the obg family of GTPases
associated with ribosome maturation. This model
represents a unique C-terminal domain found in some but
not all sequences of CgtA. This region is preceded, and
may be followed, by a region of low-complexity
sequence.
Length = 69
Score = 25.5 bits (57), Expect = 4.3
Identities = 6/36 (16%), Positives = 13/36 (36%), Gaps = 4/36 (11%)
Query: 63 VRPDDNTAFWEYQMFGEFRMVAFKMYDLDNDDAISR 98
R +D + + G+ +ND+ + R
Sbjct: 4 ERDEDGV----FVVSGKKIERWVAKTPFNNDENLRR 35
>gnl|CDD|218431 pfam05099, TerB, Tellurite resistance protein TerB. This family
contains the TerB tellurite resistance proteins from a a
number of bacteria.
Length = 140
Score = 26.4 bits (59), Expect = 5.0
Identities = 9/58 (15%), Positives = 24/58 (41%), Gaps = 5/58 (8%)
Query: 93 DDAISRDELLAVLHMMVGA-NISEEQLTSIAERTILEADQNGDQMISFDEFCKALERT 149
D + +E A+ ++ + E+ ++ E A++ + EF +A++
Sbjct: 37 DGQVDEEERQAIRRLLRSRFGLDPEEAAALIE----LAEEAEQEAPDLYEFTRAIKDH 90
>gnl|CDD|184619 PRK14322, glmM, phosphoglucosamine mutase; Provisional.
Length = 429
Score = 26.9 bits (59), Expect = 5.2
Identities = 16/51 (31%), Positives = 26/51 (50%), Gaps = 5/51 (9%)
Query: 104 VLHMMV--GANISEEQLTSIAERTILEADQNGDQMISFDEFCKALERTKKK 152
VL M+ GAN+ E+ I IL+ GD +I+ E + L+R+ +
Sbjct: 301 VLEKMLESGANLGGERSGHI---IILDRSTTGDGLITALELMRVLKRSGRN 348
>gnl|CDD|238131 cd00213, S-100, S-100: S-100 domain, which represents the largest
family within the superfamily of proteins carrying the
Ca-binding EF-hand motif. Note that this S-100 hierarchy
contains only S-100 EF-hand domains, other EF-hands have
been modeled separately. S100 proteins are expressed
exclusively in vertebrates, and are implicated in
intracellular and extracellular regulatory activities.
Intracellularly, S100 proteins act as Ca-signaling or
Ca-buffering proteins. The most unusual characteristic
of certain S100 proteins is their occurrence in
extracellular space, where they act in a cytokine-like
manner through RAGE, the receptor for advanced glycation
products. Structural data suggest that many S100 members
exist within cells as homo- or heterodimers and even
oligomers; oligomerization contributes to their
functional diversification. Upon binding calcium, most
S100 proteins change conformation to a more open
structure exposing a hydrophobic cleft. This hydrophobic
surface represents the interaction site of S100 proteins
with their target proteins. There is experimental
evidence showing that many S100 proteins have multiple
binding partners with diverse mode of interaction with
different targets. In addition to S100 proteins (such as
S100A1,-3,-4,-6,-7,-10,-11,and -13), this group includes
the ''fused'' gene family, a group of calcium binding
S100-related proteins. The ''fused'' gene family
includes multifunctional epidermal differentiation
proteins - profilaggrin, trichohyalin, repetin,
hornerin, and cornulin; functionally these proteins are
associated with keratin intermediate filaments and
partially crosslinked to the cell envelope. These
''fused'' gene proteins contain N-terminal sequence with
two Ca-binding EF-hands motif, which may be associated
with calcium signaling in epidermal cells and
autoprocessing in a calcium-dependent manner. In
contrast to S100 proteins, "fused" gene family proteins
contain an extraordinary high number of almost perfect
peptide repeats with regular array of polar and charged
residues similar to many known cell envelope proteins.
Length = 88
Score = 25.5 bits (57), Expect = 5.2
Identities = 14/61 (22%), Positives = 24/61 (39%), Gaps = 18/61 (29%)
Query: 92 NDDAISRDELLAVLHMMVGANISEEQLTSIAER--------TILEA-DQNGDQMISFDEF 142
+ D +S+ EL +L E +L + + I++ D N D + F EF
Sbjct: 23 DKDTLSKKELKELL---------ETELPNFLKNQKDPEAVDKIMKDLDVNKDGKVDFQEF 73
Query: 143 C 143
Sbjct: 74 L 74
>gnl|CDD|219868 pfam08496, Peptidase_S49_N, Peptidase family S49 N-terminal. This
domain is found to the N-terminus of bacterial signal
peptidases of the S49 family (pfam01343).
Length = 154
Score = 26.3 bits (59), Expect = 5.6
Identities = 8/18 (44%), Positives = 11/18 (61%)
Query: 144 KALERTKKKKKKKKKKHN 161
KA E+ +KK +K K K
Sbjct: 69 KAWEKAEKKAEKAKAKAE 86
>gnl|CDD|227033 COG4689, Adc, Acetoacetate decarboxylase [Secondary metabolites
biosynthesis, transport, and catabolism].
Length = 247
Score = 26.7 bits (59), Expect = 6.4
Identities = 21/66 (31%), Positives = 30/66 (45%), Gaps = 10/66 (15%)
Query: 41 EATEQVYVVPDEVFAGLVKPENVRPDDNTAFWEYQMFGEFRMVAFK---------MYDLD 91
+A V P E+ LVK E +R D+T F +Y G+ V+F MY LD
Sbjct: 42 DALRAVVPEPLEIDEPLVKFEFIRMPDSTGFGDYTESGQVIPVSFNGRKGSYTHCMY-LD 100
Query: 92 NDDAIS 97
+ I+
Sbjct: 101 DHPPIA 106
>gnl|CDD|218647 pfam05591, DUF770, Protein of unknown function (DUF770). This
family consists of several proteins of unknown function
from various bacterial species.
Length = 159
Score = 26.3 bits (59), Expect = 6.5
Identities = 15/62 (24%), Positives = 29/62 (46%), Gaps = 8/62 (12%)
Query: 88 YDLDNDDAISRDELLAVLHMMVG--ANISEEQLTSIAERTILEADQNGDQMISFDEFCKA 145
YD++ A + EL V+ ++G + E+L + ER + D++ FD+ K
Sbjct: 14 YDVETGGAQKKVELPFVM-GVLGDLSGGPTEELPPLEERKFVNIDKDN-----FDDVMKE 67
Query: 146 LE 147
+
Sbjct: 68 MN 69
>gnl|CDD|204651 pfam11452, DUF3000, Protein of unknown function (DUF3000). This is
a bacterial family of uncharacterized proteins.
Length = 177
Score = 26.1 bits (58), Expect = 6.9
Identities = 11/26 (42%), Positives = 16/26 (61%), Gaps = 2/26 (7%)
Query: 78 GEFRMVAFKMYDLDNDDAISRDELLA 103
G FR+VA+ DL+ + A+ D LL
Sbjct: 70 GTFRLVAYIQADLEPEMAV--DPLLP 93
>gnl|CDD|114701 pfam05993, Reovirus_M2, Reovirus major virion structural protein
Mu-1/Mu-1C (M2). This family consists of several
Reovirus major virion structural protein Mu-1/Mu-1C (M2)
sequences. This family is family is thought to play a
role in host cell membrane penetration.
Length = 648
Score = 26.7 bits (58), Expect = 7.4
Identities = 22/94 (23%), Positives = 37/94 (39%), Gaps = 10/94 (10%)
Query: 7 AIAVLARSRPPSPVEAPSLSQHSLDASSYQGEEEEATEQVYVVPDEVFAGLVKPEN---- 62
A A+ A + E L + ++D + + + +P VFA + P +
Sbjct: 228 AAALAASAEAGPLEEKSKLLEQAIDLMA--AADLDIIAADTPLPAPVFAIPLAPADYNPA 285
Query: 63 -VRPDDNTAFWEYQMFGEFRMVAFKMYDLDNDDA 95
++ DD W +M EF F + LDN A
Sbjct: 286 FIKIDDAK--W-LRMIAEFMGSLFIIKTLDNSGA 316
>gnl|CDD|226019 COG3488, COG3488, Predicted thiol oxidoreductase [Energy production
and conversion].
Length = 481
Score = 26.4 bits (58), Expect = 7.5
Identities = 13/46 (28%), Positives = 20/46 (43%), Gaps = 2/46 (4%)
Query: 13 RSRPPSP-VEAPS-LSQHSLDASSYQGEEEEATEQVYVVPDEVFAG 56
R RPP +A S L + + A Q + A ++ PD + G
Sbjct: 108 RGRPPEADTDAVSMLVRLARPARDEQEKAALAVHELLNFPDPTYGG 153
>gnl|CDD|236978 PRK11778, PRK11778, putative inner membrane peptidase; Provisional.
Length = 330
Score = 26.3 bits (59), Expect = 7.7
Identities = 7/18 (38%), Positives = 12/18 (66%)
Query: 144 KALERTKKKKKKKKKKHN 161
KA + +KKK+K++ K
Sbjct: 67 KAWHKAQKKKEKQEAKAA 84
>gnl|CDD|235311 PRK04781, PRK04781, histidinol-phosphate aminotransferase;
Provisional.
Length = 364
Score = 26.4 bits (58), Expect = 8.0
Identities = 18/59 (30%), Positives = 27/59 (45%), Gaps = 3/59 (5%)
Query: 8 IAVLARSRPPSPVEAP--SLSQHSLDASSYQGEEEEATEQVYVVPDEVFAGLVKPENVR 64
IAVL R + P PV P +L++ +L A + E V + + A L + VR
Sbjct: 239 IAVLRRCQAPYPVPTPCAALAEQALSAPALAVTARRVAE-VRAERERLHAALAQLPGVR 296
>gnl|CDD|188606 TIGR04091, LTA_dltB, D-alanyl-lipoteichoic acid biosynthesis
protein DltB. Members of this protein family are DltB,
part of a four-gene operon for D-alanyl-lipoteichoic
acid biosynthesis that is present in the vast majority
of low-GC Gram-positive organisms. This protein may be
involved in transport of D-alanine across the plasma
membrane [Cell envelope, Biosynthesis and degradation of
murein sacculus and peptidoglycan].
Length = 380
Score = 26.3 bits (59), Expect = 8.3
Identities = 8/26 (30%), Positives = 11/26 (42%), Gaps = 6/26 (23%)
Query: 136 MISFDEFCKALERTKKKKKKKKKKHN 161
+ D + +K KK KK K N
Sbjct: 335 LALTDAW------QRKSKKYKKNKKN 354
>gnl|CDD|221923 pfam13102, DUF3946, Protein of unknown function (DUF3946). A
family of uncharacterized proteins found by clustering
human gut metagenomic sequences. This family appears
related to the N-terminal domain of phage integrases.
Length = 140
Score = 25.6 bits (57), Expect = 8.4
Identities = 12/48 (25%), Positives = 19/48 (39%), Gaps = 1/48 (2%)
Query: 114 SEEQLTSIAERTILEADQNGDQMISFDEFCKALERTKKKKKKKKKKHN 161
++ L E E D+ I F ++ K K+KK K + N
Sbjct: 60 AKRILELQNEEYGFE-DKTEKSKIDFLDYFKEYIEKKEKKGSKSNRLN 106
>gnl|CDD|219901 pfam08555, DUF1754, Eukaryotic family of unknown function
(DUF1754). This is a eukaryotic protein family of
unknown function.
Length = 90
Score = 25.1 bits (55), Expect = 9.1
Identities = 10/16 (62%), Positives = 10/16 (62%)
Query: 144 KALERTKKKKKKKKKK 159
KKKKKKKKKK
Sbjct: 14 GKKIDVKKKKKKKKKK 29
Score = 25.1 bits (55), Expect = 10.0
Identities = 10/12 (83%), Positives = 10/12 (83%)
Query: 150 KKKKKKKKKKHN 161
KKKKKKKKK N
Sbjct: 19 VKKKKKKKKKKN 30
>gnl|CDD|132725 cd06528, RNAP_A'', A'' subunit of Archaeal RNA Polymerase (RNAP).
Archaeal RNA polymerase (RNAP), like bacterial RNAP, is
a large multi-subunit complex responsible for the
synthesis of all RNAs in the cell. The relative
positioning of the RNAP core is highly conserved between
archaeal RNAP and the three classes of eukaryotic RNAPs.
In archaea, the largest subunit is split into two
polypeptides, A' and A'', which are encoded by separate
genes in an operon. Sequence alignments reveal that the
archaeal A'' subunit corresponds to the C-terminal
one-third of the RNAPII largest subunit (Rpb1). In
subunit A'', several loops in the jaw domain are
shorter. The RNAPII Rpb1 interacts with the
second-largest subunit (Rpb2) to form the DNA entry and
RNA exit channels in addition to the catalytic center of
RNA synthesis.
Length = 363
Score = 26.1 bits (58), Expect = 9.8
Identities = 13/46 (28%), Positives = 24/46 (52%), Gaps = 3/46 (6%)
Query: 112 NISEEQLTSIAERTI---LEADQNGDQMISFDEFCKALERTKKKKK 154
N++E+ + I L+ + D+ I+ D+ KA+E+ KK K
Sbjct: 124 NLAEDISIDLFNMRITIELDEEMLEDRGITVDDVLKAIEKLKKGKV 169
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
0.315 0.129 0.360
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: 8,333,689
Number of extensions: 778714
Number of successful extensions: 1582
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1544
Number of HSP's successfully gapped: 74
Length of query: 161
Length of database: 10,937,602
Length adjustment: 89
Effective length of query: 72
Effective length of database: 6,990,096
Effective search space: 503286912
Effective search space used: 503286912
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: 41 (21.6 bits)
S2: 55 (24.6 bits)