RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy17871
(189 letters)
>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 = 53.1 bits (128), Expect = 3e-09
Identities = 30/112 (26%), Positives = 50/112 (44%), Gaps = 8/112 (7%)
Query: 63 NPFGDRICHIFSS--SHDGDCTFEDFLDMMSVFSESAPKPVKAEHAFRIFDFDGDDMLGM 120
NP I +F + + F +FL +MSV + K + AF++FD D D G
Sbjct: 52 NPSEAEINKLFEEIDAGNETVDFPEFLTVMSVKLKRGDKEEELREAFKLFDKDHD---GY 108
Query: 121 TDLKQIIDRLTGTHHLSDNDIQHLIQNILDEADLDDDGALSFAEFELFIEKS 172
+ ++ L L + ++ +L E D D DG + + EF+ I+ S
Sbjct: 109 ISIGELRRVLKS---LGERLSDEEVEKLLKEYDEDGDGEIDYEEFKKLIKDS 157
>gnl|CDD|222177 pfam13499, EF_hand_5, EF-hand domain pair.
Length = 60
Score = 42.7 bits (101), Expect = 2e-06
Identities = 19/62 (30%), Positives = 36/62 (58%), Gaps = 2/62 (3%)
Query: 108 RIFDFDGDDMLGMTDLKQIIDRLTGTHHLSDNDIQHLIQNILDEADLDDDGALSFAEFEL 167
++ D DGD + + +L++++ L L+D +++ LI+ +E D D DG +SF EF
Sbjct: 1 KLLDKDGDGYIDVEELRKLLKALG--LKLTDEEVEELIEADFNEIDKDGDGRISFEEFLE 58
Query: 168 FI 169
+
Sbjct: 59 AM 60
>gnl|CDD|185503 PTZ00183, PTZ00183, centrin; Provisional.
Length = 158
Score = 43.1 bits (102), Expect = 1e-05
Identities = 28/88 (31%), Positives = 45/88 (51%), Gaps = 6/88 (6%)
Query: 78 DGDCTFEDFLDMMSVFSESAPKPVKAEHAFRIFDFDGDDMLGMTDLKQIIDRLTGTHHLS 137
G FE+FLD+M+ + AFR+FD D + + +LK++ L ++
Sbjct: 67 SGKIDFEEFLDIMTKKLGERDPREEILKAFRLFDDDKTGKISLKNLKRVAKELG--ETIT 124
Query: 138 DNDIQHLIQNILDEADLDDDGALSFAEF 165
D ++Q +I DEAD + DG +S EF
Sbjct: 125 DEELQEMI----DEADRNGDGEISEEEF 148
>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 = 39.5 bits (93), Expect = 4e-05
Identities = 22/64 (34%), Positives = 32/64 (50%), Gaps = 6/64 (9%)
Query: 102 KAEHAFRIFDFDGDDMLGMTDLKQIIDRLTGTHHLSDNDIQHLIQNILDEADLDDDGALS 161
+ AFR+FD DGD + +LK + L LS+ + I ++ E D D DG +
Sbjct: 1 ELREAFRLFDKDGDGTISADELKAALKSLGEG--LSEEE----IDEMIREVDKDGDGKID 54
Query: 162 FAEF 165
F EF
Sbjct: 55 FEEF 58
>gnl|CDD|185504 PTZ00184, PTZ00184, calmodulin; Provisional.
Length = 149
Score = 40.1 bits (94), Expect = 1e-04
Identities = 24/88 (27%), Positives = 48/88 (54%), Gaps = 6/88 (6%)
Query: 78 DGDCTFEDFLDMMSVFSESAPKPVKAEHAFRIFDFDGDDMLGMTDLKQIIDRLTGTHHLS 137
+G F +FL +M+ + + + AF++FD DG+ + +L+ ++ L L+
Sbjct: 61 NGTIDFPEFLTLMARKMKDTDSEEEIKEAFKVFDRDGNGFISAAELRHVMTNL--GEKLT 118
Query: 138 DNDIQHLIQNILDEADLDDDGALSFAEF 165
D ++ +I+ EAD+D DG +++ EF
Sbjct: 119 DEEVDEMIR----EADVDGDGQINYEEF 142
Score = 29.7 bits (67), Expect = 0.48
Identities = 23/83 (27%), Positives = 39/83 (46%), Gaps = 11/83 (13%)
Query: 106 AFRIFDFDGDDMLGMTDLKQIIDRLTGTHHLSDNDIQHLIQNILDEADLDDDGALSFAEF 165
AF +FD DGD + +L ++ L N + +Q++++E D D +G + F EF
Sbjct: 16 AFSLFDKDGDGTITTKELGTVM------RSLGQNPTEAELQDMINEVDADGNGTIDFPEF 69
Query: 166 -ELFIEKSQDFAKWTSIQREYIQ 187
L K +D T + E +
Sbjct: 70 LTLMARKMKD----TDSEEEIKE 88
>gnl|CDD|222407 pfam13833, EF_hand_6, EF-hand domain pair.
Length = 53
Score = 32.5 bits (75), Expect = 0.013
Identities = 15/52 (28%), Positives = 24/52 (46%), Gaps = 6/52 (11%)
Query: 114 GDDMLGMTDLKQIIDRLTGTHHLSDNDIQHLIQNILDEADLDDDGALSFAEF 165
++ +LK+ + L LS+ ++ L E D D DG +SF EF
Sbjct: 1 EKGLITREELKRALALLGI--SLSEEEVDILF----REFDTDGDGKISFEEF 46
Score = 30.2 bits (69), Expect = 0.075
Identities = 11/43 (25%), Positives = 18/43 (41%), Gaps = 1/43 (2%)
Query: 77 HDGDCTFEDFLDMMSVFSESAPKPVKAEHAFRIFDFDGDDMLG 119
G T E+ +++ S + + FR FD DGD +
Sbjct: 1 EKGLITREELKRALALLGIS-LSEEEVDILFREFDTDGDGKIS 42
>gnl|CDD|205383 pfam13202, EF_hand_3, EF hand.
Length = 25
Score = 26.9 bits (61), Expect = 0.67
Identities = 5/25 (20%), Positives = 14/25 (56%)
Query: 145 IQNILDEADLDDDGALSFAEFELFI 169
++++ + D + DG +S E + +
Sbjct: 1 LKDLFRQFDTNGDGKISKEELKRLL 25
>gnl|CDD|217077 pfam02514, CobN-Mg_chel, CobN/Magnesium Chelatase. This family
contains a domain common to the cobN protein and to
magnesium protoporphyrin chelatase. CobN is implicated
in the conversion of hydrogenobyrinic acid a,c-diamide
to cobyrinic acid. Magnesium protoporphyrin chelatase is
involved in chlorophyll biosynthesis.
Length = 1079
Score = 29.9 bits (68), Expect = 0.79
Identities = 12/50 (24%), Positives = 21/50 (42%), Gaps = 3/50 (6%)
Query: 119 GMTDLKQIIDRLTGTHHLSDN---DIQHLIQNILDEADLDDDGALSFAEF 165
+ +L+++ID L ++ I + +E LD D F EF
Sbjct: 501 ELAELEELIDEYREADGLDPARREALREEILELAEELGLDRDLGEDFEEF 550
>gnl|CDD|216110 pfam00771, FHIPEP, FHIPEP family.
Length = 658
Score = 29.7 bits (68), Expect = 0.84
Identities = 12/47 (25%), Positives = 24/47 (51%), Gaps = 10/47 (21%)
Query: 115 DDMLGMTDLKQIIDRLTGTH----------HLSDNDIQHLIQNILDE 151
++LG ++++++DRL + L IQ ++QN+L E
Sbjct: 471 AELLGRQEVQKLLDRLEKEYPKLVEELVPKLLPLGRIQKVLQNLLKE 517
>gnl|CDD|215520 PLN02964, PLN02964, phosphatidylserine decarboxylase.
Length = 644
Score = 29.8 bits (67), Expect = 1.0
Identities = 17/63 (26%), Positives = 29/63 (46%), Gaps = 1/63 (1%)
Query: 65 FGDRICHIFSSSHDGDCTFEDFLDMMSVFSESAPKPVKAEHAFRIFDFDGDDMLGMTDLK 124
F RI I DG +F +F D++ F K E F+ D +GD ++ + +L
Sbjct: 180 FARRILAIVDYDEDGQLSFSEFSDLIKAFGNLVAAN-KKEELFKAADLNGDGVVTIDELA 238
Query: 125 QII 127
++
Sbjct: 239 ALL 241
Score = 27.5 bits (61), Expect = 5.0
Identities = 12/29 (41%), Positives = 17/29 (58%)
Query: 142 QHLIQNILDEADLDDDGALSFAEFELFIE 170
+ + IL D D+DG LSF+EF I+
Sbjct: 178 RSFARRILAIVDYDEDGQLSFSEFSDLIK 206
>gnl|CDD|236153 PRK08116, PRK08116, hypothetical protein; Validated.
Length = 268
Score = 28.8 bits (65), Expect = 1.4
Identities = 15/61 (24%), Positives = 28/61 (45%), Gaps = 13/61 (21%)
Query: 120 MTDLKQIIDRLTGTHHLSDNDIQHLIQNILDEADL---DDDGALSFAEFELFIEKSQDFA 176
+ Q+++R+ T+ S + ++ I L ADL DD GA E+ ++A
Sbjct: 147 FVNFPQLLNRIKSTYKSSGKEDENEIIRSLVNADLLILDDLGA----------ERDTEWA 196
Query: 177 K 177
+
Sbjct: 197 R 197
>gnl|CDD|205583 pfam13405, EF_hand_4, EF-hand domain.
Length = 30
Score = 26.0 bits (58), Expect = 1.8
Identities = 9/29 (31%), Positives = 17/29 (58%)
Query: 102 KAEHAFRIFDFDGDDMLGMTDLKQIIDRL 130
+ AF++FD DGD + +L++ + L
Sbjct: 1 ELREAFKLFDKDGDGYISAEELRKALRSL 29
>gnl|CDD|162338 TIGR01398, FlhA, flagellar biosynthesis protein FlhA. This model
describes flagellar biosynthesis protein FlhA, one of a
large number of genes associated with the biosynthesis
of functional bacterial flagella. Homologs of many such
proteins, including FlhA, function in type III protein
secretion systems. A separate model describes InvA
(Salmonella enterica), LcrD (Yersinia enterocolitica),
HrcV (Xanthomonas), etc., all of which score below the
noise cutoff for this model [Cellular processes,
Chemotaxis and motility].
Length = 678
Score = 28.8 bits (65), Expect = 2.0
Identities = 9/47 (19%), Positives = 21/47 (44%), Gaps = 10/47 (21%)
Query: 115 DDMLGMTDLKQIIDRLTGTH----------HLSDNDIQHLIQNILDE 151
++L +++ ++DRL + + IQ ++Q +L E
Sbjct: 485 AELLTRQEVQNLLDRLKEEYPKLVEELIPDKVPLGTIQKVLQLLLRE 531
>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 = 25.5 bits (57), Expect = 2.3
Identities = 10/27 (37%), Positives = 16/27 (59%)
Query: 145 IQNILDEADLDDDGALSFAEFELFIEK 171
++ E D D DG +SF EF+ ++K
Sbjct: 2 LKEAFKEFDKDGDGKISFEEFKELLKK 28
>gnl|CDD|220463 pfam09900, DUF2127, Predicted membrane protein (DUF2127). This
domain, found in various hypothetical prokaryotic and
archaeal proteins, has no known function.
Length = 141
Score = 27.6 bits (62), Expect = 2.9
Identities = 14/53 (26%), Positives = 17/53 (32%), Gaps = 4/53 (7%)
Query: 118 LGMTDLKQIIDRLTGTHHLSDNDIQHLIQNI-LDEADLDDDGALSFAEFELFI 169
L DL+ + + L HL D NI L AD L L
Sbjct: 27 LLHHDLQALAEHLIQHLHL---DPASHYPNIFLSLADRLTPSRLHLLALGLLA 76
>gnl|CDD|235672 PRK06012, flhA, flagellar biosynthesis protein FlhA; Validated.
Length = 697
Score = 28.2 bits (64), Expect = 3.0
Identities = 13/46 (28%), Positives = 25/46 (54%), Gaps = 10/46 (21%)
Query: 116 DMLGMTDLKQIIDRLTGTH----------HLSDNDIQHLIQNILDE 151
++LG +++Q++DRL + LS +Q ++QN+L E
Sbjct: 502 ELLGRQEVQQLLDRLAKEYPKLVEELVPKVLSLGTLQKVLQNLLKE 547
>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 = 26.0 bits (58), Expect = 3.5
Identities = 10/18 (55%), Positives = 10/18 (55%)
Query: 148 ILDEADLDDDGALSFAEF 165
I D AD D DG L EF
Sbjct: 38 IWDLADTDKDGKLDKEEF 55
>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 = 26.6 bits (59), Expect = 3.9
Identities = 11/18 (61%), Positives = 12/18 (66%)
Query: 148 ILDEADLDDDGALSFAEF 165
I D AD+D DG L F EF
Sbjct: 48 IWDLADIDSDGKLDFEEF 65
>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 = 26.3 bits (59), Expect = 4.0
Identities = 15/59 (25%), Positives = 29/59 (49%), Gaps = 3/59 (5%)
Query: 114 GDDMLGMTDLKQIIDR-LTGTHHLSDNDIQHLIQNILDEADLDDDGALSFAEFELFIEK 171
D L +LK++++ L + L + + I+ + D++ DG + F EF + I K
Sbjct: 23 DKDTLSKKELKELLETELP--NFLKNQKDPEAVDKIMKDLDVNKDGKVDFQEFLVLIGK 79
>gnl|CDD|189762 pfam00901, Orbi_VP5, Orbivirus outer capsid protein VP5.
cryoelectron microscopy indicates that VP5 is a trimer
implying that there are 360 copies of VP5 per virion.
Length = 507
Score = 27.7 bits (62), Expect = 4.6
Identities = 14/42 (33%), Positives = 24/42 (57%), Gaps = 4/42 (9%)
Query: 123 LKQIIDRLTGTH--HLSDNDIQ-HLIQNILDE-ADLDDDGAL 160
LK++I+ L+G HL IQ ++ +L++ D+ D AL
Sbjct: 252 LKKVINALSGIDLSHLETPKIQPKTLETLLEKPTDVIPDAAL 293
>gnl|CDD|177082 CHL00180, rbcR, LysR transcriptional regulator; Provisional.
Length = 305
Score = 27.3 bits (61), Expect = 5.2
Identities = 14/47 (29%), Positives = 21/47 (44%), Gaps = 6/47 (12%)
Query: 138 DNDIQHLIQNILDEADLDDDGALSFAEFELFIEKSQDFAKWTSIQRE 184
++ ++ IL+ +D E L I KS FAK IQ+E
Sbjct: 151 GGEVPTELKKILEITPYVED------ELALIIPKSHPFAKLKKIQKE 191
>gnl|CDD|178501 PLN02913, PLN02913, dihydrofolate synthetase.
Length = 510
Score = 27.1 bits (60), Expect = 6.8
Identities = 17/44 (38%), Positives = 27/44 (61%), Gaps = 6/44 (13%)
Query: 139 NDIQHLIQNILDEADLDDDGALSFAE------FELFIEKSQDFA 176
ND+ H I+ ILDEA ++G+L+ E F+LF +++ D A
Sbjct: 134 NDLFHGIKPILDEAIQLENGSLTHFEVLTALAFKLFAQENVDIA 177
>gnl|CDD|234416 TIGR03956, rSAM_HydE, [FeFe] hydrogenase H-cluster radical SAM
maturase HydE. This model describes the radical SAM
protein HydE, one of a pair of radical SAM proteins,
along with GTP-binding protein HydF, for maturation of
[Fe] hydrogenase in Chlamydomonas reinhardtii and
numerous bacteria [Protein fate, Protein modification
and repair].
Length = 340
Score = 26.8 bits (60), Expect = 7.3
Identities = 11/30 (36%), Positives = 18/30 (60%), Gaps = 1/30 (3%)
Query: 126 IIDRLTGTHHLSDNDIQHLIQNILDEADLD 155
+ID+L H LS + + L++N DE D +
Sbjct: 1 LIDKLRKEHTLSKEEFKRLLENR-DEEDAE 29
>gnl|CDD|240156 cd05030, calgranulins, Calgranulins: S-100 domain found in proteins
belonging to the Calgranulin subgroup of the S100 family
of EF-hand calcium-modulated proteins, including S100A8,
S100A9, and S100A12 . Note that the S-100 hierarchy, to
which this Calgranulin group belongs, contains only
S-100 EF-hand domains, other EF-hands have been modeled
separately. These proteins are expressed mainly in
granulocytes, and are involved in inflammation, allergy,
and neuritogenesis, as well as in host-parasite
response. Calgranulins are modulated not only by
calcium, but also by other metals such as zinc and
copper. Structural data suggested that calgranulins may
exist in multiple structural forms, homodimers, as well
as hetero-oligomers. For example, the S100A8/S100A9
complex called calprotectin plays important roles in the
regulation of inflammatory processes, wound repair, and
regulating zinc-dependent enzymes as well as microbial
growth.
Length = 88
Score = 25.4 bits (56), Expect = 8.2
Identities = 12/30 (40%), Positives = 17/30 (56%)
Query: 142 QHLIQNILDEADLDDDGALSFAEFELFIEK 171
Q I I ++ D + DG LSF EF + + K
Sbjct: 50 QKAIDKIFEDLDTNQDGQLSFEEFLVLVIK 79
>gnl|CDD|212087 cd11518, SLC6sbd_SIT1, Na(+)- and Cl(-)-dependent imino acid
transporter SIT1; solute-binding domain. SIT1 (also
called XTRP3, XT3, IMINO) transports imino acids, such
as proline, pipecolate, MeAIB, and sarcosine. It has
weak affinity for neutral amino acids such as
phenylalanine. Human SIT1 is encoded by the SLC6A20
gene. SIT1 is expressed in brain, kidney, small
intestine, thymus, spleen, ovary, and lung. SLC6A20 is a
candidate gene for the rare disorder iminoglycinuria.
This subgroup belongs to the solute carrier 6 (SLC6)
transporter family.
Length = 576
Score = 26.7 bits (59), Expect = 8.6
Identities = 10/46 (21%), Positives = 21/46 (45%), Gaps = 1/46 (2%)
Query: 110 FDFDGDDMLGMTDLKQIIDRLTGTHHLSDNDIQHLIQNILDEADLD 155
FD + + + M++L+ + L + I ++N E +LD
Sbjct: 320 FDLE-EGSITMSNLEDMKKYLNAAYPQEYAQIAPQLKNCSLEKELD 364
>gnl|CDD|151014 pfam10437, Lip_prot_lig_C, Bacterial lipoate protein ligase
C-terminus. This is the C-terminal domain of a
bacterial lipoate protein ligase. There is no
conservation between this C-terminus and that of
vertebrate lipoate protein ligase C-termini, but both
are associated with the domain BPL_LipA_LipB pfam03099,
further upstream. This domain is required for
adenylation of lipoic acid by lipoate protein ligases.
The domain is not required for transfer of lipoic acid
from the adenylate to the lipoyl domain. Upon
adenylation, this domain rotates 180 degrees away from
the active site cleft. Therefore, the domain does not
interact with the lipoyl domain during transfer.
Length = 85
Score = 25.2 bits (56), Expect = 10.0
Identities = 11/41 (26%), Positives = 21/41 (51%), Gaps = 8/41 (19%)
Query: 116 DMLGMTDLKQIIDRLTGTHH--------LSDNDIQHLIQNI 148
D LG DL+++ ++L G + L++ D++ NI
Sbjct: 37 DFLGPGDLEELEEKLIGVKYDKEAIKKALNEIDLKDYFGNI 77
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
0.320 0.137 0.399
Gapped
Lambda K H
0.267 0.0786 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 9,929,455
Number of extensions: 935899
Number of successful extensions: 987
Number of sequences better than 10.0: 1
Number of HSP's gapped: 974
Number of HSP's successfully gapped: 55
Length of query: 189
Length of database: 10,937,602
Length adjustment: 91
Effective length of query: 98
Effective length of database: 6,901,388
Effective search space: 676336024
Effective search space used: 676336024
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 (21.8 bits)
S2: 56 (25.2 bits)