RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy12124
(115 letters)
>gnl|CDD|185504 PTZ00184, PTZ00184, calmodulin; Provisional.
Length = 149
Score = 81.3 bits (201), Expect = 6e-21
Identities = 43/108 (39%), Positives = 76/108 (70%), Gaps = 3/108 (2%)
Query: 5 ILRLMGQPFNKKILDELIEEVDADKSGRLEFDEFVTLAAKFIVEEDDEAMQKELREAFRL 64
++R +GQ + L ++I EVDAD +G ++F EF+TL A+ + + D E +E++EAF++
Sbjct: 36 VMRSLGQNPTEAELQDMINEVDADGNGTIDFPEFLTLMARKMKDTDSE---EEIKEAFKV 92
Query: 65 YDKDGNGYIPTSCLKEILRELDDQLTNEELDGMIDEIDSDGSGTVDFD 112
+D+DGNG+I + L+ ++ L ++LT+EE+D MI E D DG G ++++
Sbjct: 93 FDRDGNGFISAAELRHVMTNLGEKLTDEEVDEMIREADVDGDGQINYE 140
Score = 54.4 bits (131), Expect = 2e-10
Identities = 28/55 (50%), Positives = 38/55 (69%)
Query: 57 ELREAFRLYDKDGNGYIPTSCLKEILRELDDQLTNEELDGMIDEIDSDGSGTVDF 111
E +EAF L+DKDG+G I T L ++R L T EL MI+E+D+DG+GT+DF
Sbjct: 12 EFKEAFSLFDKDGDGTITTKELGTVMRSLGQNPTEAELQDMINEVDADGNGTIDF 66
Score = 27.4 bits (61), Expect = 1.3
Identities = 11/37 (29%), Positives = 23/37 (62%)
Query: 5 ILRLMGQPFNKKILDELIEEVDADKSGRLEFDEFVTL 41
++ +G+ + +DE+I E D D G++ ++EFV +
Sbjct: 109 VMTNLGEKLTDEEVDEMIREADVDGDGQINYEEFVKM 145
>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 = 75.8 bits (187), Expect = 1e-18
Identities = 40/111 (36%), Positives = 72/111 (64%), Gaps = 4/111 (3%)
Query: 2 VADILRLMGQPFNKKILDELIEEVDADKSGRLEFDEFVTLAAKFIVEEDDEAMQKELREA 61
+ ILR +G ++ +++L EE+DA ++F EF+T+ + + D E +ELREA
Sbjct: 42 LGKILRSLGFNPSEAEINKLFEEIDAGN-ETVDFPEFLTVMSVKLKRGDKE---EELREA 97
Query: 62 FRLYDKDGNGYIPTSCLKEILRELDDQLTNEELDGMIDEIDSDGSGTVDFD 112
F+L+DKD +GYI L+ +L+ L ++L++EE++ ++ E D DG G +D++
Sbjct: 98 FKLFDKDHDGYISIGELRRVLKSLGERLSDEEVEKLLKEYDEDGDGEIDYE 148
Score = 45.8 bits (109), Expect = 3e-07
Identities = 24/57 (42%), Positives = 39/57 (68%), Gaps = 1/57 (1%)
Query: 56 KELREAFRLYDKDGNGYIPTSCLKEILRELDDQLTNEELDGMIDEIDSDGSGTVDFD 112
+EL+EAF+L+D+D +G I + L +ILR L + E++ + +EID+ G+ TVDF
Sbjct: 20 QELKEAFQLFDRDSDGLIDRNELGKILRSLGFNPSEAEINKLFEEIDA-GNETVDFP 75
Score = 31.1 bits (71), Expect = 0.067
Identities = 10/40 (25%), Positives = 26/40 (65%)
Query: 2 VADILRLMGQPFNKKILDELIEEVDADKSGRLEFDEFVTL 41
+ +L+ +G+ + + +++L++E D D G ++++EF L
Sbjct: 114 LRRVLKSLGERLSDEEVEKLLKEYDEDGDGEIDYEEFKKL 153
>gnl|CDD|185503 PTZ00183, PTZ00183, centrin; Provisional.
Length = 158
Score = 64.7 bits (158), Expect = 2e-14
Identities = 39/107 (36%), Positives = 65/107 (60%), Gaps = 3/107 (2%)
Query: 6 LRLMGQPFNKKILDELIEEVDADKSGRLEFDEFVTLAAKFIVEEDDEAMQKELREAFRLY 65
+R +G K+ + ++I +VD D SG+++F+EF+ + K + E D +E+ +AFRL+
Sbjct: 43 MRSLGFEPKKEEIKQMIADVDKDGSGKIDFEEFLDIMTKKLGERDPR---EEILKAFRLF 99
Query: 66 DKDGNGYIPTSCLKEILRELDDQLTNEELDGMIDEIDSDGSGTVDFD 112
D D G I LK + +EL + +T+EEL MIDE D +G G + +
Sbjct: 100 DDDKTGKISLKNLKRVAKELGETITDEELQEMIDEADRNGDGEISEE 146
Score = 47.4 bits (113), Expect = 7e-08
Identities = 28/61 (45%), Positives = 39/61 (63%)
Query: 52 EAMQKELREAFRLYDKDGNGYIPTSCLKEILRELDDQLTNEELDGMIDEIDSDGSGTVDF 111
E +KE+REAF L+D DG+G I LK +R L + EE+ MI ++D DGSG +DF
Sbjct: 13 EDQKKEIREAFDLFDTDGSGTIDPKELKVAMRSLGFEPKKEEIKQMIADVDKDGSGKIDF 72
Query: 112 D 112
+
Sbjct: 73 E 73
>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 = 59.9 bits (146), Expect = 2e-13
Identities = 31/56 (55%), Positives = 40/56 (71%)
Query: 57 ELREAFRLYDKDGNGYIPTSCLKEILRELDDQLTNEELDGMIDEIDSDGSGTVDFD 112
ELREAFRL+DKDG+G I LK L+ L + L+ EE+D MI E+D DG G +DF+
Sbjct: 1 ELREAFRLFDKDGDGTISADELKAALKSLGEGLSEEEIDEMIREVDKDGDGKIDFE 56
Score = 36.0 bits (84), Expect = 3e-04
Identities = 15/39 (38%), Positives = 28/39 (71%)
Query: 5 ILRLMGQPFNKKILDELIEEVDADKSGRLEFDEFVTLAA 43
L+ +G+ +++ +DE+I EVD D G+++F+EF+ L A
Sbjct: 25 ALKSLGEGLSEEEIDEMIREVDKDGDGKIDFEEFLELMA 63
Score = 34.4 bits (80), Expect = 0.001
Identities = 17/56 (30%), Positives = 21/56 (37%), Gaps = 4/56 (7%)
Query: 18 LDELIEEVDADKSGRLEFDEFVTLAAKFIVEEDDEAMQKELREAFRLYDKDGNGYI 73
L E D D G + DE +E E+ E R DKDG+G I
Sbjct: 2 LREAFRLFDKDGDGTISADELKAALKSLGEGLSEE----EIDEMIREVDKDGDGKI 53
>gnl|CDD|222407 pfam13833, EF_hand_6, EF-hand domain pair.
Length = 53
Score = 35.6 bits (83), Expect = 3e-04
Identities = 16/44 (36%), Positives = 22/44 (50%)
Query: 69 GNGYIPTSCLKEILRELDDQLTNEELDGMIDEIDSDGSGTVDFD 112
G I LK L L L+ EE+D + E D+DG G + F+
Sbjct: 1 EKGLITREELKRALALLGISLSEEEVDILFREFDTDGDGKISFE 44
Score = 33.3 bits (77), Expect = 0.002
Identities = 13/41 (31%), Positives = 22/41 (53%)
Query: 4 DILRLMGQPFNKKILDELIEEVDADKSGRLEFDEFVTLAAK 44
L L+G +++ +D L E D D G++ F+EF L +
Sbjct: 12 RALALLGISLSEEEVDILFREFDTDGDGKISFEEFCVLLQR 52
>gnl|CDD|222177 pfam13499, EF_hand_5, EF-hand domain pair.
Length = 60
Score = 35.4 bits (82), Expect = 4e-04
Identities = 14/51 (27%), Positives = 26/51 (50%)
Query: 23 EEVDADKSGRLEFDEFVTLAAKFIVEEDDEAMQKELREAFRLYDKDGNGYI 73
+ +D D G ++ +E L ++ DE +++ + F DKDG+G I
Sbjct: 1 KLLDKDGDGYIDVEELRKLLKALGLKLTDEEVEELIEADFNEIDKDGDGRI 51
Score = 33.9 bits (78), Expect = 0.002
Identities = 21/54 (38%), Positives = 35/54 (64%), Gaps = 4/54 (7%)
Query: 63 RLYDKDGNGYIPTSCLKEILRELDDQLTNEELDGMIDEI----DSDGSGTVDFD 112
+L DKDG+GYI L+++L+ L +LT+EE++ +I+ D DG G + F+
Sbjct: 1 KLLDKDGDGYIDVEELRKLLKALGLKLTDEEVEELIEADFNEIDKDGDGRISFE 54
Score = 28.5 bits (64), Expect = 0.19
Identities = 8/27 (29%), Positives = 17/27 (62%)
Query: 15 KKILDELIEEVDADKSGRLEFDEFVTL 41
+++++ E+D D GR+ F+EF+
Sbjct: 33 EELIEADFNEIDKDGDGRISFEEFLEA 59
>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 = 34.9 bits (81), Expect = 9e-04
Identities = 15/53 (28%), Positives = 23/53 (43%), Gaps = 2/53 (3%)
Query: 60 EAFRLYDKDGNGYIPTSCLKEILRELDDQLTNEELDGMIDEIDSDGSGTVDFD 112
+ FR D DG+G I + L + L L + D D+D G +D +
Sbjct: 3 QIFRSLDPDGDGLISGDEARPFLGKS--GLPRSVLAQIWDLADTDKDGKLDKE 53
Score = 26.4 bits (59), Expect = 1.4
Identities = 8/23 (34%), Positives = 15/23 (65%)
Query: 17 ILDELIEEVDADKSGRLEFDEFV 39
+L ++ + D DK G+L+ +EF
Sbjct: 34 VLAQIWDLADTDKDGKLDKEEFA 56
>gnl|CDD|205583 pfam13405, EF_hand_4, EF-hand domain.
Length = 30
Score = 33.7 bits (78), Expect = 0.001
Identities = 18/30 (60%), Positives = 23/30 (76%)
Query: 57 ELREAFRLYDKDGNGYIPTSCLKEILRELD 86
ELREAF+L+DKDG+GYI L++ LR L
Sbjct: 1 ELREAFKLFDKDGDGYISAEELRKALRSLG 30
>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 = 32.4 bits (75), Expect = 0.003
Identities = 16/29 (55%), Positives = 22/29 (75%)
Query: 57 ELREAFRLYDKDGNGYIPTSCLKEILREL 85
EL+EAFRL+DKDG+G I K++L+ L
Sbjct: 1 ELKEAFRLFDKDGDGKIDFEEFKDLLKAL 29
Score = 28.9 bits (66), Expect = 0.078
Identities = 9/28 (32%), Positives = 13/28 (46%)
Query: 18 LDELIEEVDADKSGRLEFDEFVTLAAKF 45
L E D D G+++F+EF L
Sbjct: 2 LKEAFRLFDKDGDGKIDFEEFKDLLKAL 29
Score = 25.4 bits (57), Expect = 1.2
Identities = 8/20 (40%), Positives = 10/20 (50%)
Query: 93 ELDGMIDEIDSDGSGTVDFD 112
EL D DG G +DF+
Sbjct: 1 ELKEAFRLFDKDGDGKIDFE 20
>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 = 32.0 bits (74), Expect = 0.006
Identities = 15/29 (51%), Positives = 22/29 (75%)
Query: 57 ELREAFRLYDKDGNGYIPTSCLKEILREL 85
EL+EAF+ +DKDG+G I KE+L++L
Sbjct: 1 ELKEAFKEFDKDGDGKISFEEFKELLKKL 29
Score = 29.0 bits (66), Expect = 0.064
Identities = 11/28 (39%), Positives = 15/28 (53%)
Query: 18 LDELIEEVDADKSGRLEFDEFVTLAAKF 45
L E +E D D G++ F+EF L K
Sbjct: 2 LKEAFKEFDKDGDGKISFEEFKELLKKL 29
Score = 25.1 bits (56), Expect = 1.7
Identities = 8/20 (40%), Positives = 10/20 (50%)
Query: 93 ELDGMIDEIDSDGSGTVDFD 112
EL E D DG G + F+
Sbjct: 1 ELKEAFKEFDKDGDGKISFE 20
>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 = 32.7 bits (75), Expect = 0.009
Identities = 13/35 (37%), Positives = 24/35 (68%)
Query: 14 NKKILDELIEEVDADKSGRLEFDEFVTLAAKFIVE 48
N+K +D++ E++D ++ G+L F+EF+ L K V
Sbjct: 49 NQKAIDKIFEDLDTNQDGQLSFEEFLVLVIKVGVA 83
>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 = 32.1 bits (74), Expect = 0.012
Identities = 9/37 (24%), Positives = 24/37 (64%)
Query: 8 LMGQPFNKKILDELIEEVDADKSGRLEFDEFVTLAAK 44
+ + + +D++++++D +K G+++F EF+ L K
Sbjct: 43 FLKNQKDPEAVDKIMKDLDVNKDGKVDFQEFLVLIGK 79
>gnl|CDD|184899 PRK14906, PRK14906, DNA-directed RNA polymerase subunit beta'/alpha
domain fusion protein; Provisional.
Length = 1460
Score = 32.9 bits (75), Expect = 0.028
Identities = 28/98 (28%), Positives = 51/98 (52%), Gaps = 7/98 (7%)
Query: 2 VADILRLMGQPFNKKILDELIEEVDADKSGRLE-FDEFVTLAAKFIVEEDDEAMQKELRE 60
+ D RL + ++ D + EE + K+ R E FD F+ + K ++ DEA+ +E+R
Sbjct: 193 IGDDERLTAEEVRAEVAD-IYEEYNERKALRREAFDAFMQIEPKQLIS--DEALYREMRL 249
Query: 61 AFRLYDKDGNGYIPTSCLKEILRELDDQLTNEELDGMI 98
+ +Y K G G ++++L +D + EEL +I
Sbjct: 250 NYSIYFKGGMG---AEAVRDLLDAIDLEKEAEELRAII 284
>gnl|CDD|184560 PRK14190, PRK14190, bifunctional 5,10-methylene-tetrahydrofolate
dehydrogenase/ 5,10-methylene-tetrahydrofolate
cyclohydrolase; Provisional.
Length = 284
Score = 28.4 bits (64), Expect = 0.79
Identities = 26/104 (25%), Positives = 45/104 (43%), Gaps = 16/104 (15%)
Query: 1 MVADILRLMGQPFNKKILDELIEEVDADKSGRLEFDEFVTLAAKFIVEEDDEAMQKELRE 60
M+A I+ G+ K+ ++L EEV K ++ + I+ DD A +R
Sbjct: 1 MMAVIID--GKEVAKEKREQLKEEVVKLK------EQGIVPGLAVILVGDDPASHSYVRG 52
Query: 61 AFRLYDKDGNGYIPTSCLKEILRELDDQLTNEELDGMIDEIDSD 104
+ +K G + L E +T EEL +ID +++D
Sbjct: 53 KKKAAEKVG--------IYSELYEFPADITEEELLALIDRLNAD 88
>gnl|CDD|215520 PLN02964, PLN02964, phosphatidylserine decarboxylase.
Length = 644
Score = 27.9 bits (62), Expect = 1.1
Identities = 18/59 (30%), Positives = 27/59 (45%), Gaps = 8/59 (13%)
Query: 13 FNKKILDELIEEVDADKSGRLEFDEFVTLAAKFIVEEDDEAMQKELREAFRLYDKDGNG 71
F ++IL VD D+ G+L F EF L F + + E F+ D +G+G
Sbjct: 180 FARRIL----AIVDYDEDGQLSFSEFSDLIKAF----GNLVAANKKEELFKAADLNGDG 230
>gnl|CDD|240153 cd05026, S-100Z, S-100Z: S-100Z domain found in proteins similar
to S100Z. S100Z is a member of the S100 domain family
within the EF-hand Ca2+-binding proteins superfamily.
Note that the S-100 hierarchy, to which this S-100Z
group belongs, contains only S-100 EF-hand domains,
other EF-hands have been modeled separately.S100
proteins exhibit unique patterns of tissue- and cell
type-specific expression and have been implicated in
the Ca2+-dependent regulation of diverse physiological
processes, including cell cycle regulation,
differentiation, growth, and metabolic control. S100Z
is normally expressed in various tissues, with its
highest level of expression being in spleen and
leukocytes. The function of S100Z remains unclear.
Preliminary structural data suggests that S100Z is
homodimer, however a heterodimer with S100P has been
reported. S100Z is capable of binding calcium ions.
When calcium binds to S110Z, the protein experiences a
conformational change, which exposes hydrophobic
surfaces on the protein. In comparison with their
normal tissue counterparts, S100Z gene expression
appears to be deregulated in some tumor tissues.
Length = 93
Score = 27.1 bits (60), Expect = 1.2
Identities = 13/44 (29%), Positives = 27/44 (61%), Gaps = 1/44 (2%)
Query: 8 LMGQPFNKKILDELIEEVDADKSGRLEFDEFVTLAAKFIVEEDD 51
L Q + ++D+++ ++D++K ++F+EFV L A V +D
Sbjct: 46 LSSQK-DPMLVDKIMNDLDSNKDNEVDFNEFVVLVAALTVACND 88
>gnl|CDD|176673 cd07250, HPPD_C_like, C-terminal domain of 4-hydroxyphenylpyruvate
dioxygenase (HppD) and hydroxymandelate Synthase (HmaS).
HppD and HmaS are non-heme iron-dependent dioxygenases,
which modify a common substrate, 4-hydroxyphenylpyruvate
(HPP), but yield different products. HPPD catalyzes the
second reaction in tyrosine catabolism, the conversion
of 4-hydroxyphenylpyruvate to homogentisate
(2,5-dihydroxyphenylacetic acid, HG). HmaS converts HPP
to 4-hydroxymandelate, a committed step in the formation
of hydroxyphenylglycerine, a structural component of
nonproteinogenic macrocyclic peptide antibiotics, such
as vancomycin. If the emphasis is on catalytic
chemistry, HPPD and HmaS are classified as members of a
large family of alpha-keto acid dependent mononuclear
non-heme iron oxygenases most of which require Fe(II),
molecular oxygen, and an alpha-keto acid (typically
alpha-ketoglutarate) to either oxygenate or oxidize a
third substrate. Both enzymes are exceptions in that
they require two, instead of three, substrates, do not
use alpha-ketoglutarate, and incorporate both atoms of
dioxygen into the aromatic product. Both HPPD and HmaS
exhibit duplicate beta barrel topology in their N- and
C-terminal domains which share sequence similarity,
suggestive of a gene duplication. Each protein has only
one catalytic site located in at the C-terminal domain.
This HPPD_C_like domain represents the C-terminal
domain.
Length = 191
Score = 27.1 bits (61), Expect = 2.0
Identities = 12/33 (36%), Positives = 15/33 (45%), Gaps = 1/33 (3%)
Query: 40 TLAAKFIVEEDDEAMQKELREAFRLYDKDGNGY 72
L A+ DE + LRE L D+D GY
Sbjct: 118 DLEARLDGILVDEDLDT-LRELGILVDRDDGGY 149
>gnl|CDD|233759 TIGR02170, thyX, thymidylate synthase, flavin-dependent. Two forms
of microbial thymidylate synthase are known: ThyA
(2.1.1.45) and ThyX (2.1.1.148). This model describes
ThyX, a homotetrameric flavoprotein. Both enzymes
convert dUMP to dTMP. Under oxygen-limiting conditions,
thyX can complement a thyA mutation [Purines,
pyrimidines, nucleosides, and nucleotides,
2'-Deoxyribonucleotide metabolism].
Length = 209
Score = 26.9 bits (60), Expect = 2.3
Identities = 8/39 (20%), Positives = 16/39 (41%)
Query: 44 KFIVEEDDEAMQKELREAFRLYDKDGNGYIPTSCLKEIL 82
+ +VE+ + R ++ LY K I + +L
Sbjct: 116 EEVVEKAYAEAEDHYRASYELYRKLLEAGIAREDARFVL 154
>gnl|CDD|190615 pfam03368, dsRNA_bind, Double stranded RNA binding domain. This
domain is a divergent double stranded RNA-binding
domain. It is found in members of the Dicer protein
family which function in RNA interference, an
evolutionarily conserved mechanism for gene silencing
using double-stranded RNA (dsRNA) molecules.
Length = 91
Score = 26.0 bits (58), Expect = 2.4
Identities = 8/28 (28%), Positives = 11/28 (39%)
Query: 32 RLEFDEFVTLAAKFIVEEDDEAMQKELR 59
L D F +L +F VE D +
Sbjct: 11 TLPSDPFTSLRPEFSVEPVDGGYVCTVI 38
>gnl|CDD|232874 TIGR00207, fliG, flagellar motor switch protein FliG. The fliG
protein along with fliM and fliN interact to form the
switch complex of the bacterial flagellar motor located
at the base of the basal body. This complex interacts
with chemotaxis proteins (eg CHEY). In addition the
complex interacts with other components of the motor
that determine the direction of flagellar rotation. The
model contains putative members of the fliG family at
scores of less than 100 from Agrobacterium radiobacter
and Sinorhizobium meliloti as well as fliG-like genes
from treponema pallidum and Borrelia burgdorferi. That
is why the suggested cutoff is set at 20 but was set at
100 to construct the family [Cellular processes,
Chemotaxis and motility].
Length = 338
Score = 26.7 bits (59), Expect = 2.6
Identities = 20/60 (33%), Positives = 35/60 (58%), Gaps = 4/60 (6%)
Query: 2 VADILRLMGQPFNKKILDELIEEVDADKSGRLEFDEFVTLAAKFIVEEDDEAMQKELREA 61
VA+I+ LM + K I+ +EE D + + ++ + FV + IV+ DD ++Q+ LRE
Sbjct: 204 VAEIINLMDRKTEKTIITS-LEEFDPELAEEIKKEMFVF---EDIVDLDDRSIQRVLREV 259
>gnl|CDD|233315 TIGR01213, pseudo_Pus10arc, tRNA pseudouridine(54/55) synthase.
Members of this family show twilight-zone similarity to
several predicted RNA pseudouridine synthases. All
trusted members of this family are archaeal. Several
eukaryotic homologs lack N-terminal homology including
two CXXC motifs [Hypothetical proteins, Conserved].
Length = 388
Score = 27.0 bits (60), Expect = 2.7
Identities = 20/85 (23%), Positives = 38/85 (44%), Gaps = 21/85 (24%)
Query: 18 LDELIEEVDADKSGRLEFDEFVTLAAKFIVEEDDEAMQKELREAFRLYDKDGNGYIPTSC 77
LD L EE++ G++E E + A + VEE E +++ A
Sbjct: 239 LDPLEEEINTSGKGKVEV-EGLKFATREEVEEVKEEKHRKVYRA---------------- 281
Query: 78 LKEILRELDDQLTNEELDGMIDEID 102
L E+D +++E+L+ + E++
Sbjct: 282 ----LVEVDGPVSDEDLEELCKELE 302
>gnl|CDD|133049 cd06427, CESA_like_2, CESA_like_2 is a member of the cellulose
synthase superfamily. The cellulose synthase (CESA)
superfamily includes a wide variety of
glycosyltransferase family 2 enzymes that share the
common characteristic of catalyzing the elongation of
polysaccharide chains. The members include cellulose
synthase catalytic subunit, chitin synthase, Glucan
Biosynthesis protein and other families of CESA-like
proteins. Cellulose synthase catalyzes the
polymerization reaction of cellulose, an aggregate of
unbranched polymers of beta-1,4-linked glucose residues
in plants, most algae, some bacteria and fungi, and
even some animals. In bacteria, algae and lower
eukaryotes, there is a second unrelated type of
cellulose synthase (Type II), which produces acylated
cellulose, a derivative of cellulose. Chitin synthase
catalyzes the incorporation of GlcNAc from substrate
UDP-GlcNAc into chitin, which is a linear homopolymer
of beta-(1,4)-linked GlcNAc residues and Glucan
Biosynthesis protein catalyzes the elongation of
beta-1,2 polyglucose chains of glucan.
Length = 241
Score = 26.8 bits (60), Expect = 2.7
Identities = 8/19 (42%), Positives = 10/19 (52%)
Query: 41 LAAKFIVEEDDEAMQKELR 59
L K ++EEDDE R
Sbjct: 33 LDVKLLLEEDDEETIAAAR 51
>gnl|CDD|240149 cd05022, S-100A13, S-100A13: S-100A13 domain found in proteins
similar to S100A13. S100A13 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-100A13 group belongs,
contains only S-100 EF-hand domains, other EF-hands
have been modeled separately. S100A13 is involved in
the cellular export of interleukin-1 (IL-1) and of
fibroblast growth factor-1 (FGF-1), which plays an
important role in angiogenesis and tissue regeneration.
Export is based on the CuII-dependent formation of
multiprotein complexes containing the S100A13 protein.
Assembly of these complexes occurs near the inner
surface of the plasma membrane. Binding of two Ca(II)
ions per monomer triggers key conformational changes
leading to the creation of two identical and
symmetrical Cu(II)-binding sites on the surface of the
protein, close to the interface between the two
monomers. These Cu(II)-binding sites are unique among
the S100 proteins, which are reported to bind Cu(II) or
Zn(II) ions in addition to Ca(II) ions. In addition,
the three-dimensional structure of S100A13 differs
significantly from those of other S100 proteins; the
hydrophobic pocket that largely contributes to
protein-protein interactions in other S100 proteins is
absent in S100A13. The structure of S100A13 contains a
large patch of negatively charged residues flanked by
dense cationic clusters, formed mostly from positively
charged residues from the C-terminal end, which plays
major role in binding FGF-1.
Length = 89
Score = 25.8 bits (57), Expect = 3.0
Identities = 8/24 (33%), Positives = 16/24 (66%)
Query: 18 LDELIEEVDADKSGRLEFDEFVTL 41
L+E ++ +D ++ +L F+EF L
Sbjct: 49 LEEKMKNLDVNQDSKLSFEEFWEL 72
>gnl|CDD|239418 cd03165, NET-5_like_LEL, Tetraspanin, extracellular domain or
large extracellular loop (LEL), NET-5_like family.
Tetraspanins are trans-membrane proteins with 4
trans-membrane segments. Both the N- and C-termini lie
on the intracellular side of the membrane. This
alignment model spans the extracellular domain between
the 3rd and 4th trans-membrane segment. Tetraspanins
are involved in diverse processes and their various
functions may relate to their ability to act as
molecular facilitators. Tetraspanins associate
laterally with one another and cluster dynamically with
numerous parnter domains in membrane microdomains,
forming a network of multimolecular complexes, the
"tetraspanin web". This sub-family contains proteins
similar to human tetraspan NET-5.
Length = 98
Score = 25.8 bits (57), Expect = 3.2
Identities = 7/29 (24%), Positives = 13/29 (44%)
Query: 48 EEDDEAMQKELREAFRLYDKDGNGYIPTS 76
E+ D + +L+E LY N + +
Sbjct: 5 EKVDLTAKDDLKEGLELYGTRNNRGLTNA 33
>gnl|CDD|216027 pfam00620, RhoGAP, RhoGAP domain. GTPase activator proteins
towards Rho/Rac/Cdc42-like small GTPases.
Length = 152
Score = 26.4 bits (59), Expect = 3.4
Identities = 16/40 (40%), Positives = 22/40 (55%), Gaps = 6/40 (15%)
Query: 56 KELREAFR------LYDKDGNGYIPTSCLKEILRELDDQL 89
KELREAF L ++ + ++ S LK LREL + L
Sbjct: 32 KELREAFDSGEDVDLDLEEEDVHVVASLLKLFLRELPEPL 71
>gnl|CDD|240154 cd05027, S-100B, S-100B: S-100B domain found in proteins similar
to S100B. S100B 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-100B group belongs, contains only S-100 EF-hand
domains, other EF-hands have been modeled separately.
S100B is most abundant in glial cells of the central
nervous system, predominately in astrocytes. S100B is
involved in signal transduction via the inhibition of
protein phoshorylation, regulation of enzyme activity
and by affecting the calcium homeostasis. Upon calcium
binding the S100B homodimer changes conformation to
expose a hydrophobic cleft, which represents the
interaction site of S100B with its more than 20 known
target proteins. These target proteins include several
cellular architecture proteins such as tubulin and
GFAP; S100B can inhibit polymerization of these
oligomeric molecules. Furthermore, S100B inhibits the
phosphorylation of multiple kinase substrates including
the Alzheimer protein tau and neuromodulin (GAP-43)
through a calcium-sensitive interaction with the
protein substrates.
Length = 88
Score = 25.2 bits (55), Expect = 4.6
Identities = 9/36 (25%), Positives = 22/36 (61%)
Query: 8 LMGQPFNKKILDELIEEVDADKSGRLEFDEFVTLAA 43
+ + ++++D+++E +D+D G +F EF+ A
Sbjct: 43 FLEEIKEQEVVDKVMETLDSDGDGECDFQEFMAFVA 78
>gnl|CDD|99725 cd06404, PB1_aPKC, PB1 domain is an essential modular domain of
the atypical protein kinase C (aPKC) which in complex
with Par6 and Par3 proteins is crucial for
establishment of apical-basal polarity of animal cells.
PB1 domain is a modular domain mediating specific
protein-protein interaction which play roles in many
critical cell processes. A canonical PB1-PB1
interaction, which involves heterodimerization of two
PB1 domains, is required for the formation of
macromolecular signaling complexes ensuring specificity
and fidelity during cellular signaling. The interaction
between two PB1 domain depends on the type of PB1.
There are three types of PB1 domains: type I which
contains an OPCA motif, acidic aminoacid cluster, type
II which contains a basic cluster, and type I/II which
contains both an OPCA motif and a basic cluster.
Interactions of PB1 domains with other protein domains
have been described as noncanonical PB1-interactions.
The PB1 domain module is conserved in amoebas, fungi,
animals, and plants. The aPKC protein contains a type
I/II PB1 domain.
Length = 83
Score = 25.4 bits (56), Expect = 4.7
Identities = 23/52 (44%), Positives = 27/52 (51%), Gaps = 7/52 (13%)
Query: 17 ILDELIEEVDADKSGRLEFDEFVTLAAKFIVEEDDE---AMQKELREAFRLY 65
L+EL EV R D+ TL K+I EE D + Q EL EAFRLY
Sbjct: 21 SLEELCNEVRD--MCRFHNDQPFTL--KWIDEEGDPCTISSQMELEEAFRLY 68
>gnl|CDD|234425 TIGR03974, rSAM_six_Cys, SCIFF radical SAM maturase. Members of
this protein family are predicted radical SAM enzymes
universally associated with Six Cysteines in Forty-Five
protein, or SCIFF (family TIGR03973), a predicted
ribosomal natural product precursor that is nearly
universal in the class Clostridia. Similarity of this
family to radical SAM maturases (PqqE and subtilosin A
maturase) found in the vicinity of other peptide
precursors suggests this protein is the SCIFF radical
SAM maturase [Cellular processes, Biosynthesis of
natural products].
Length = 451
Score = 26.1 bits (58), Expect = 4.7
Identities = 7/34 (20%), Positives = 14/34 (41%)
Query: 70 NGYIPTSCLKEILRELDDQLTNEELDGMIDEIDS 103
+EI +L + + E+++ DEI
Sbjct: 35 EEGKDKETPEEIKEKLKGKYSEEDIEEAYDEITE 68
>gnl|CDD|205383 pfam13202, EF_hand_3, EF hand.
Length = 25
Score = 23.8 bits (53), Expect = 4.9
Identities = 6/25 (24%), Positives = 12/25 (48%)
Query: 18 LDELIEEVDADKSGRLEFDEFVTLA 42
L +L + D + G++ +E L
Sbjct: 1 LKDLFRQFDTNGDGKISKEELKRLL 25
>gnl|CDD|237842 PRK14868, PRK14868, DNA topoisomerase VI subunit B; Provisional.
Length = 795
Score = 26.3 bits (58), Expect = 5.2
Identities = 11/50 (22%), Positives = 20/50 (40%)
Query: 11 QPFNKKILDELIEEVDADKSGRLEFDEFVTLAAKFIVEEDDEAMQKELRE 60
+ +++ + + D + R E+V AA E DD + RE
Sbjct: 407 EGLAERLAAKFDDGGDRHRLTRDTLREYVDRAADMTEEYDDATFGETARE 456
>gnl|CDD|183426 PRK12309, PRK12309, transaldolase/EF-hand domain-containing
protein; Provisional.
Length = 391
Score = 25.8 bits (57), Expect = 5.3
Identities = 22/61 (36%), Positives = 31/61 (50%), Gaps = 17/61 (27%)
Query: 13 FNKKILDELIEEVDADKSGRLEFDEFVTLAAKFIVEEDDEAMQKELREAFRLYDKDGNGY 72
F+K + E +E++ A + RLE E T AA+ E FRLYD DG+G+
Sbjct: 308 FSKAL--ETLEKLLAHRLARLEGGEAFTHAAQ---------------EIFRLYDLDGDGF 350
Query: 73 I 73
I
Sbjct: 351 I 351
>gnl|CDD|233603 TIGR01862, N2-ase-Ialpha, nitrogenase component I, alpha chain.
This model represents the alpha chain of all three
varieties (Mo-Fe, V-Fe, and Fe-Fe) of component I of
nitrogenase [Central intermediary metabolism, Nitrogen
fixation].
Length = 443
Score = 25.9 bits (57), Expect = 5.5
Identities = 12/36 (33%), Positives = 16/36 (44%), Gaps = 1/36 (2%)
Query: 37 EFVTLAAKFIVEEDDEAMQKELREAFRLYDKDGNGY 72
E V + +F E+D E K + E L D D N
Sbjct: 343 EVVAVGYEFAHEDDYEKTMKRMGEGTLLID-DPNEL 377
>gnl|CDD|107321 cd06326, PBP1_STKc_like, Type I periplasmic binding domain of
uncharacterized extracellular ligand-binding proteins.
The type I periplasmic binding domain of uncharacterized
extracellular ligand-binding proteins, some of which
contain a conserved catalytic serine/threonine protein
kinase (STKc) domain in the N-terminal region. Members
of this group are sequence-similar to the branched-chain
amino acid ABC transporter
leucine-isoleucine-valine-binding protein (LIVBP); their
ligand specificity has not been determined
experimentally, however.
Length = 336
Score = 26.0 bits (58), Expect = 5.5
Identities = 17/70 (24%), Positives = 25/70 (35%), Gaps = 9/70 (12%)
Query: 53 AMQKELREAFRLYDKDGN-------GYIPTSCLKEILRELDDQLTNEELDGMIDEIDS-D 104
+ +E + A + Y GYI L E LR T E L ++ + D
Sbjct: 257 PIVREYQAAMKAYGPGAPPSYVSLEGYIAAKVLVEALRRAGPDPTRESLLAALEAMGKFD 316
Query: 105 GSG-TVDFDG 113
G +DF
Sbjct: 317 LGGFRLDFSP 326
>gnl|CDD|227265 COG4928, COG4928, Predicted P-loop ATPase [General function
prediction only].
Length = 646
Score = 25.9 bits (57), Expect = 5.8
Identities = 15/57 (26%), Positives = 26/57 (45%), Gaps = 5/57 (8%)
Query: 13 FNKKILDELIEEVDADK-SGRLEFDE----FVTLAAKFIVEEDDEAMQKELREAFRL 64
K+ L ++E+D LE E F+ L KF +++ D+ E++E L
Sbjct: 216 DLKQKLVIFLDELDRCNPETYLEKIEAIKLFLPLLDKFFIKKLDDKRLDEIKEGINL 272
>gnl|CDD|238090 cd00159, RhoGAP, RhoGAP: GTPase-activator protein (GAP) for
Rho-like GTPases; GAPs towards Rho/Rac/Cdc42-like small
GTPases. Small GTPases (G proteins) cluster into
distinct families, and all act as molecular switches,
active in their GTP-bound form but inactive when bound
to GDP. The Rho family of small G proteins, which
includes Cdc42Hs, activates effectors involved in a
wide variety of developmental processes, including
regulation of cytoskeleton formation, cell
proliferation and the JNK signaling pathway. G proteins
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. The RhoGAPs are one of the major
classes of regulators of Rho G proteins.
Length = 169
Score = 25.7 bits (57), Expect = 5.9
Identities = 12/48 (25%), Positives = 20/48 (41%), Gaps = 8/48 (16%)
Query: 55 QKELREAFRLYDKDGNG--------YIPTSCLKEILRELDDQLTNEEL 94
++ E + +D+ + + S LK LREL + L EL
Sbjct: 28 ASKIEELKKKFDRGEDIDDLEDYDVHDVASLLKLYLRELPEPLIPFEL 75
>gnl|CDD|224639 COG1725, COG1725, Predicted transcriptional regulators
[Transcription].
Length = 125
Score = 25.3 bits (56), Expect = 5.9
Identities = 17/46 (36%), Positives = 23/46 (50%)
Query: 56 KELREAFRLYDKDGNGYIPTSCLKEILRELDDQLTNEELDGMIDEI 101
+EL + K G G T KEIL +L +L EEL+ I+E
Sbjct: 57 QELEREGIVETKRGKGTFVTEDAKEILDQLKRELAEEELEEFIEEA 102
>gnl|CDD|233409 TIGR01429, AMP_deaminase, AMP deaminase. This model describes AMP
deaminase, a large, well-conserved eukaryotic protein
involved in energy metabolism. Most members of the
family have an additional, poorly alignable region of
150 amino acids or more N-terminal to the region
included in the model.
Length = 611
Score = 26.0 bits (57), Expect = 6.0
Identities = 10/34 (29%), Positives = 15/34 (44%)
Query: 55 QKELREAFRLYDKDGNGYIPTSCLKEILRELDDQ 88
+ LRE F D G +KE+ +L+D
Sbjct: 256 ESRLREIFLKTDNYIGGKYFAELVKEVFTDLEDS 289
>gnl|CDD|180148 PRK05584, PRK05584, 5'-methylthioadenosine/S-adenosylhomocysteine
nucleosidase; Validated.
Length = 230
Score = 25.5 bits (57), Expect = 6.1
Identities = 9/18 (50%), Positives = 12/18 (66%)
Query: 27 ADKSGRLEFDEFVTLAAK 44
AD + FDEF+ +AAK
Sbjct: 199 ADDEAHVSFDEFLAVAAK 216
>gnl|CDD|224475 COG1559, COG1559, Aminodeoxychorismate lyase [Coenzyme transport
and metabolism].
Length = 342
Score = 25.7 bits (57), Expect = 6.6
Identities = 18/45 (40%), Positives = 24/45 (53%), Gaps = 4/45 (8%)
Query: 4 DILRLMGQPFNKKILDELIEEVDADKSGRLEFDEFVTLAAKFIVE 48
DI++ M + +KK LDE E AD E +TLA+ IVE
Sbjct: 182 DIIKRMIKAMDKK-LDEA-WEKRADDLPGKTPYELLTLAS--IVE 222
>gnl|CDD|223990 COG1062, AdhC, Zn-dependent alcohol dehydrogenases, class III
[Energy production and conversion].
Length = 366
Score = 25.6 bits (57), Expect = 7.2
Identities = 10/32 (31%), Positives = 14/32 (43%), Gaps = 2/32 (6%)
Query: 25 VDADKSGRLEFDEFVTLAAKFIVEEDDEAMQK 56
VD +G+L D VT E+ +EA
Sbjct: 324 VDLYMAGKLPLDRLVTHTIPL--EDINEAFDL 353
>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 = 24.5 bits (54), Expect = 8.1
Identities = 15/51 (29%), Positives = 23/51 (45%), Gaps = 2/51 (3%)
Query: 62 FRLYDKDGNGYIPTSCLKEILRELDDQLTNEELDGMIDEIDSDGSGTVDFD 112
FR DK+ +G + + K IL + L L + + D D G +D D
Sbjct: 16 FRSLDKNQDGTVTGAQAKPILLKSG--LPQTLLAKIWNLADIDNDGELDKD 64
>gnl|CDD|224150 COG1229, FwdA, Formylmethanofuran dehydrogenase subunit A [Energy
production and conversion].
Length = 575
Score = 25.5 bits (56), Expect = 8.4
Identities = 8/18 (44%), Positives = 10/18 (55%)
Query: 48 EEDDEAMQKELREAFRLY 65
E E M K++ E FR Y
Sbjct: 531 ESLMEEMLKDVEEKFRKY 548
>gnl|CDD|219019 pfam06420, Mgm101p, Mitochondrial genome maintenance MGM101. The
mgm101 gene was identified as essential for maintenance
of the mitochondrial genome in Saccharomyces cerevisiae.
Based on its DNA-binding activity, and experimental work
with a temperature-sensitive mgm101 mutant, it has been
proposed that the mgm101 gene product performs an
essential function in the repair of oxidatively damaged
mitochondrial DNA.
Length = 241
Score = 25.3 bits (55), Expect = 8.4
Identities = 7/18 (38%), Positives = 13/18 (72%)
Query: 11 QPFNKKILDELIEEVDAD 28
+PF+K+I D L+ ++ D
Sbjct: 83 KPFSKEIQDTLLAPLNPD 100
>gnl|CDD|239844 cd04379, RhoGAP_SYD1, RhoGAP_SYD1: RhoGAP (GTPase-activator protein
[GAP] for Rho-like small GTPases) domain present in
SYD-1_like proteins. Syd-1, first identified and best
studied in C.elegans, has been shown to play an
important role in neuronal development by specifying
axonal properties. 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 = 207
Score = 25.1 bits (55), Expect = 8.5
Identities = 19/56 (33%), Positives = 27/56 (48%), Gaps = 8/56 (14%)
Query: 53 AMQKELREAF----RLYDKDGNGY----IPTSCLKEILRELDDQLTNEELDGMIDE 100
A +KELR+AF + Y + T LK+ LREL + L +L M+ E
Sbjct: 47 AKKKELRDAFERNSAAVELSEELYPDINVITGVLKDYLRELPEPLITPQLYEMVLE 102
>gnl|CDD|235561 PRK05686, fliG, flagellar motor switch protein G; Validated.
Length = 339
Score = 25.1 bits (56), Expect = 8.6
Identities = 20/65 (30%), Positives = 34/65 (52%), Gaps = 14/65 (21%)
Query: 1 MVADILRLMGQPFNKKILDELIEEVDADKSGRLE-----FDEFVTLAAKFIVEEDDEAMQ 55
VA+IL + + K IL+ L EE D + + +++ F++ V L DD ++Q
Sbjct: 206 TVAEILNNLDRQTEKTILESL-EEEDPELAEKIKDLMFVFEDLVDL--------DDRSIQ 256
Query: 56 KELRE 60
+ LRE
Sbjct: 257 RLLRE 261
>gnl|CDD|220131 pfam09172, DUF1943, Domain of unknown function (DUF1943). Members
of this family adopt a structure consisting of several
large open beta-sheets. Their exact function has not, as
yet, been determined.
Length = 288
Score = 25.3 bits (56), Expect = 8.9
Identities = 10/42 (23%), Positives = 17/42 (40%), Gaps = 6/42 (14%)
Query: 3 ADI-LRLMGQ-----PFNKKILDELIEEVDADKSGRLEFDEF 38
A + L+L GQ +K+ +++LI L F
Sbjct: 116 ASVYLKLFGQELAFASIDKETIEQLIRLFKEALKKLLSGVSF 157
>gnl|CDD|198353 cd07775, FGGY_AI-2K, Autoinducer-2 kinases; a subfamily of the
FGGY family of carbohydrate kinases. This subfamily is
composed of bacterial autoinducer-2 (AI-2) kinases and
similar proteins. AI-2 is a small chemical
quorum-sensing signal involved in interspecies
communication in bacteria. Cytoplasmic autoinducer-2
kinase, encoded by the lsrK gene from Salmonella
enterica serovar Typhimurium lsr (luxS regulated)
operon, is the prototypical member of this subfamily.
AI-2 kinase catalyzes the phosphorylation of
intracellular AI-2 to phospho-AI-2, which leads to the
inactivation of lsrR, the repressor of the lsr operon.
Members of this family are homologs of glycerol
kinase-like proteins and belong to the FGGY family of
carbohydrate kinases, the monomers of which contain two
large domains, which are separated by a deep cleft that
forms the active site. This model includes both the
N-terminal domain, which adopts a ribonuclease H-like
fold, and the structurally related C-terminal domain.
Length = 452
Score = 25.5 bits (56), Expect = 9.2
Identities = 7/13 (53%), Positives = 10/13 (76%)
Query: 58 LREAFRLYDKDGN 70
+RE LYD++GN
Sbjct: 80 MREGIVLYDQNGN 92
>gnl|CDD|240157 cd05031, S-100A10_like, S-100A10_like: S-100A10 domain found in
proteins similar to S100A10. S100A10 is a member of the
S100 family of EF-hand superfamily of calcium-binding
proteins. Note that the S-100 hierarchy, to which this
S-100A1_like group belongs, 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. A unique feature of S100A10 is
that it contains mutation in both of the calcium
binding sites, making it calcium insensitive. S100A10
has been detected in brain, heart, gastrointestinal
tract, kidney, liver, lung, spleen, testes, epidermis,
aorta, and thymus. Structural data supports the homo-
and hetero-dimeric as well as hetero-tetrameric nature
of the protein. S100A10 has multiple binding partners
in its calcium free state and is therefore involved in
many diverse biological functions.
Length = 94
Score = 24.7 bits (54), Expect = 9.2
Identities = 9/30 (30%), Positives = 23/30 (76%)
Query: 14 NKKILDELIEEVDADKSGRLEFDEFVTLAA 43
+ +D++++++D ++ G++ F+EFV+L A
Sbjct: 49 DPMAVDKIMKDLDQNRDGKVNFEEFVSLVA 78
>gnl|CDD|225165 COG2256, MGS1, ATPase related to the helicase subunit of the
Holliday junction resolvase [DNA replication,
recombination, and repair].
Length = 436
Score = 25.3 bits (56), Expect = 9.7
Identities = 14/56 (25%), Positives = 25/56 (44%)
Query: 17 ILDELIEEVDADKSGRLEFDEFVTLAAKFIVEEDDEAMQKELREAFRLYDKDGNGY 72
LD L+ + D L E L+A+ E +++ L+ +DKDG+ +
Sbjct: 194 ALDYLVRLSNGDARRALNLLELAALSAEPDEVLILELLEEILQRRSARFDKDGDAH 249
>gnl|CDD|182853 PRK10939, PRK10939, autoinducer-2 (AI-2) kinase; Provisional.
Length = 520
Score = 25.4 bits (56), Expect = 9.7
Identities = 6/13 (46%), Positives = 9/13 (69%)
Query: 58 LREAFRLYDKDGN 70
+RE LYD++G
Sbjct: 83 MREGIVLYDRNGT 95
>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 = 24.5 bits (53), Expect = 9.7
Identities = 11/31 (35%), Positives = 20/31 (64%)
Query: 17 ILDELIEEVDADKSGRLEFDEFVTLAAKFIV 47
+D++++E+D + G ++F EFV L A V
Sbjct: 53 AVDKIMKELDENGDGEVDFQEFVVLVAALTV 83
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 0.139 0.379
Gapped
Lambda K H
0.267 0.0806 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 6,580,850
Number of extensions: 636048
Number of successful extensions: 983
Number of sequences better than 10.0: 1
Number of HSP's gapped: 963
Number of HSP's successfully gapped: 162
Length of query: 115
Length of database: 10,937,602
Length adjustment: 79
Effective length of query: 36
Effective length of database: 7,433,636
Effective search space: 267610896
Effective search space used: 267610896
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 (21.9 bits)
S2: 53 (24.0 bits)