RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy4728
(214 letters)
>gnl|CDD|185504 PTZ00184, PTZ00184, calmodulin; Provisional.
Length = 149
Score = 81.7 bits (202), Expect = 7e-20
Identities = 44/117 (37%), Positives = 74/117 (63%), Gaps = 5/117 (4%)
Query: 2 VGTIMEMLGHPQSQEALNEIIKEVDEDGSGELEFNEFCTLAAKFLEEEEENPEAMRAELR 61
+GT+M LG ++ L ++I EVD DG+G ++F EF TL A+ +++ + E++
Sbjct: 33 LGTVMRSLGQNPTEAELQDMINEVDADGNGTIDFPEFLTLMARKMKDTD-----SEEEIK 87
Query: 62 EAFMLYDREGNGYITTDVLREIISELDPNLDYEELNEMIEEIDSDGSGTIDFDVLTR 118
EAF ++DR+GNG+I+ LR +++ L L EE++EMI E D DG G I+++ +
Sbjct: 88 EAFKVFDRDGNGFISAAELRHVMTNLGEKLTDEEVDEMIREADVDGDGQINYEEFVK 144
Score = 75.2 bits (185), Expect = 2e-17
Identities = 48/143 (33%), Positives = 77/143 (53%), Gaps = 17/143 (11%)
Query: 50 EENPEAMRAELREAFMLYDREGNGYITTDVLREIISELDPNLDYEELNEMIEEIDSDGSG 109
++ E AE +EAF L+D++G+G ITT L ++ L N EL +MI E+D+DG+G
Sbjct: 3 DQLTEEQIAEFKEAFSLFDKDGDGTITTKELGTVMRSLGQNPTEAELQDMINEVDADGNG 62
Query: 110 TIDF-----------------DVLTRAFEAFDQEKKGSIPTDMVGTIMEMLGHPQSQEAL 152
TIDF + + AF+ FD++ G I + +M LG + E +
Sbjct: 63 TIDFPEFLTLMARKMKDTDSEEEIKEAFKVFDRDGNGFISAAELRHVMTNLGEKLTDEEV 122
Query: 153 NEIIKEVDEDGSGELEFNEFCTL 175
+E+I+E D DG G++ + EF +
Sbjct: 123 DEMIREADVDGDGQINYEEFVKM 145
Score = 58.6 bits (142), Expect = 4e-11
Identities = 32/86 (37%), Positives = 54/86 (62%), Gaps = 5/86 (5%)
Query: 119 AFEAFDQEKKGSIPTDMVGTIMEMLGHPQSQEALNEIIKEVDEDGSGELEFNEFCTLAAK 178
AF FD++ G+I T +GT+M LG ++ L ++I EVD DG+G ++F EF TL A+
Sbjct: 16 AFSLFDKDGDGTITTKELGTVMRSLGQNPTEAELQDMINEVDADGNGTIDFPEFLTLMAR 75
Query: 179 FLEEEEENPEAMRAELREAFMLYDRE 204
+++ + E++EAF ++DR+
Sbjct: 76 KMKDTD-----SEEEIKEAFKVFDRD 96
Score = 29.3 bits (66), Expect = 0.79
Identities = 13/37 (35%), Positives = 23/37 (62%)
Query: 5 IMEMLGHPQSQEALNEIIKEVDEDGSGELEFNEFCTL 41
+M LG + E ++E+I+E D DG G++ + EF +
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 = 72.0 bits (177), Expect = 5e-16
Identities = 45/135 (33%), Positives = 72/135 (53%), Gaps = 18/135 (13%)
Query: 58 AELREAFMLYDREGNGYITTDVLREIISELDPNLDYEELNEMIEEIDSDGSGTIDFDVLT 117
EL+EAF L+DR+ +G I + L +I+ L N E+N++ EEID+ G+ T+DF
Sbjct: 20 QELKEAFQLFDRDSDGLIDRNELGKILRSLGFNPSEAEINKLFEEIDA-GNETVDFPEFL 78
Query: 118 -----------------RAFEAFDQEKKGSIPTDMVGTIMEMLGHPQSQEALNEIIKEVD 160
AF+ FD++ G I + +++ LG S E + +++KE D
Sbjct: 79 TVMSVKLKRGDKEEELREAFKLFDKDHDGYISIGELRRVLKSLGERLSDEEVEKLLKEYD 138
Query: 161 EDGSGELEFNEFCTL 175
EDG GE+++ EF L
Sbjct: 139 EDGDGEIDYEEFKKL 153
Score = 71.6 bits (176), Expect = 6e-16
Identities = 38/121 (31%), Positives = 69/121 (57%), Gaps = 6/121 (4%)
Query: 2 VGTIMEMLGHPQSQEALNEIIKEVDEDGSGELEFNEFCTLAAKFLEEEEENPEAMRAELR 61
+G I+ LG S+ +N++ +E+D G+ ++F EF T+ + L+ + ELR
Sbjct: 42 LGKILRSLGFNPSEAEINKLFEEID-AGNETVDFPEFLTVMSVKLKRGD-----KEEELR 95
Query: 62 EAFMLYDREGNGYITTDVLREIISELDPNLDYEELNEMIEEIDSDGSGTIDFDVLTRAFE 121
EAF L+D++ +GYI+ LR ++ L L EE+ ++++E D DG G ID++ + +
Sbjct: 96 EAFKLFDKDHDGYISIGELRRVLKSLGERLSDEEVEKLLKEYDEDGDGEIDYEEFKKLIK 155
Query: 122 A 122
Sbjct: 156 D 156
Score = 43.5 bits (103), Expect = 1e-05
Identities = 28/86 (32%), Positives = 50/86 (58%), Gaps = 6/86 (6%)
Query: 119 AFEAFDQEKKGSIPTDMVGTIMEMLGHPQSQEALNEIIKEVDEDGSGELEFNEFCTLAAK 178
AF+ FD++ G I + +G I+ LG S+ +N++ +E+D G+ ++F EF T+ +
Sbjct: 25 AFQLFDRDSDGLIDRNELGKILRSLGFNPSEAEINKLFEEID-AGNETVDFPEFLTVMSV 83
Query: 179 FLEEEEENPEAMRAELREAFMLYDRE 204
L+ + ELREAF L+D++
Sbjct: 84 KLKRGD-----KEEELREAFKLFDKD 104
>gnl|CDD|185503 PTZ00183, PTZ00183, centrin; Provisional.
Length = 158
Score = 67.8 bits (166), Expect = 1e-14
Identities = 39/109 (35%), Positives = 61/109 (55%), Gaps = 5/109 (4%)
Query: 6 MEMLGHPQSQEALNEIIKEVDEDGSGELEFNEFCTLAAKFLEEEEENPEAMRAELREAFM 65
M LG +E + ++I +VD+DGSG+++F EF + K L E + R E+ +AF
Sbjct: 43 MRSLGFEPKKEEIKQMIADVDKDGSGKIDFEEFLDIMTKKLGERDP-----REEILKAFR 97
Query: 66 LYDREGNGYITTDVLREIISELDPNLDYEELNEMIEEIDSDGSGTIDFD 114
L+D + G I+ L+ + EL + EEL EMI+E D +G G I +
Sbjct: 98 LFDDDKTGKISLKNLKRVAKELGETITDEELQEMIDEADRNGDGEISEE 146
Score = 60.9 bits (148), Expect = 7e-12
Identities = 47/136 (34%), Positives = 69/136 (50%), Gaps = 17/136 (12%)
Query: 54 EAMRAELREAFMLYDREGNGYITTDVLREIISELDPNLDYEELNEMIEEIDSDGSGTIDF 113
E + E+REAF L+D +G+G I L+ + L EE+ +MI ++D DGSG IDF
Sbjct: 13 EDQKKEIREAFDLFDTDGSGTIDPKELKVAMRSLGFEPKKEEIKQMIADVDKDGSGKIDF 72
Query: 114 ----DVLT-------------RAFEAFDQEKKGSIPTDMVGTIMEMLGHPQSQEALNEII 156
D++T +AF FD +K G I + + + LG + E L E+I
Sbjct: 73 EEFLDIMTKKLGERDPREEILKAFRLFDDDKTGKISLKNLKRVAKELGETITDEELQEMI 132
Query: 157 KEVDEDGSGELEFNEF 172
E D +G GE+ EF
Sbjct: 133 DEADRNGDGEISEEEF 148
Score = 40.8 bits (96), Expect = 1e-04
Identities = 30/91 (32%), Positives = 50/91 (54%), Gaps = 5/91 (5%)
Query: 119 AFEAFDQEKKGSIPTDMVGTIMEMLGHPQSQEALNEIIKEVDEDGSGELEFNEFCTLAAK 178
AF+ FD + G+I + M LG +E + ++I +VD+DGSG+++F EF + K
Sbjct: 22 AFDLFDTDGSGTIDPKELKVAMRSLGFEPKKEEIKQMIADVDKDGSGKIDFEEFLDIMTK 81
Query: 179 FLEEEEENPEAMRAELREAFMLYDREEFMSI 209
L E + R E+ +AF L+D ++ I
Sbjct: 82 KLGERDP-----REEILKAFRLFDDDKTGKI 107
Score = 28.1 bits (63), Expect = 2.3
Identities = 13/30 (43%), Positives = 17/30 (56%)
Query: 9 LGHPQSQEALNEIIKEVDEDGSGELEFNEF 38
LG + E L E+I E D +G GE+ EF
Sbjct: 119 LGETITDEELQEMIDEADRNGDGEISEEEF 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 = 60.6 bits (148), Expect = 1e-12
Identities = 28/56 (50%), Positives = 39/56 (69%)
Query: 59 ELREAFMLYDREGNGYITTDVLREIISELDPNLDYEELNEMIEEIDSDGSGTIDFD 114
ELREAF L+D++G+G I+ D L+ + L L EE++EMI E+D DG G IDF+
Sbjct: 1 ELREAFRLFDKDGDGTISADELKAALKSLGEGLSEEEIDEMIREVDKDGDGKIDFE 56
Score = 48.7 bits (117), Expect = 3e-08
Identities = 25/62 (40%), Positives = 40/62 (64%)
Query: 116 LTRAFEAFDQEKKGSIPTDMVGTIMEMLGHPQSQEALNEIIKEVDEDGSGELEFNEFCTL 175
L AF FD++ G+I D + ++ LG S+E ++E+I+EVD+DG G+++F EF L
Sbjct: 2 LREAFRLFDKDGDGTISADELKAALKSLGEGLSEEEIDEMIREVDKDGDGKIDFEEFLEL 61
Query: 176 AA 177
A
Sbjct: 62 MA 63
Score = 39.1 bits (92), Expect = 8e-05
Identities = 17/40 (42%), Positives = 28/40 (70%)
Query: 4 TIMEMLGHPQSQEALNEIIKEVDEDGSGELEFNEFCTLAA 43
++ LG S+E ++E+I+EVD+DG G+++F EF L A
Sbjct: 24 AALKSLGEGLSEEEIDEMIREVDKDGDGKIDFEEFLELMA 63
>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 = 41.8 bits (99), Expect = 1e-05
Identities = 16/54 (29%), Positives = 23/54 (42%), Gaps = 2/54 (3%)
Query: 120 FEAFDQEKKGSIPTDMVGTIMEMLGHPQSQEALNEIIKEVDEDGSGELEFNEFC 173
F + D + G I D + G P+S L +I D D G+L+ EF
Sbjct: 5 FRSLDPDGDGLISGDEARPFLGKSGLPRSV--LAQIWDLADTDKDGKLDKEEFA 56
Score = 35.3 bits (82), Expect = 0.002
Identities = 13/53 (24%), Positives = 25/53 (47%), Gaps = 2/53 (3%)
Query: 62 EAFMLYDREGNGYITTDVLREIISELDPNLDYEELNEMIEEIDSDGSGTIDFD 114
+ F D +G+G I+ D R + + L L ++ + D+D G +D +
Sbjct: 3 QIFRSLDPDGDGLISGDEARPFLGKS--GLPRSVLAQIWDLADTDKDGKLDKE 53
Score = 31.0 bits (71), Expect = 0.069
Identities = 11/38 (28%), Positives = 16/38 (42%), Gaps = 2/38 (5%)
Query: 2 VGTIMEMLGHPQSQEALNEIIKEVDEDGSGELEFNEFC 39
+ G P+S L +I D D G+L+ EF
Sbjct: 21 ARPFLGKSGLPRSV--LAQIWDLADTDKDGKLDKEEFA 56
>gnl|CDD|222177 pfam13499, EF_hand_5, EF-hand domain pair.
Length = 60
Score = 37.0 bits (86), Expect = 4e-04
Identities = 18/75 (24%), Positives = 29/75 (38%), Gaps = 16/75 (21%)
Query: 101 EEIDSDGSGTIDFDVLTRAFEAFDQEKKGSIPTDMVGTIMEMLGHPQSQEALNEIIKEVD 160
+ +D DG G ID + L + +A L + +E + E+D
Sbjct: 1 KLLDKDGDGYIDVEELRKLLKALG----------------LKLTDEEVEELIEADFNEID 44
Query: 161 EDGSGELEFNEFCTL 175
+DG G + F EF
Sbjct: 45 KDGDGRISFEEFLEA 59
Score = 37.0 bits (86), Expect = 4e-04
Identities = 22/59 (37%), Positives = 32/59 (54%), Gaps = 4/59 (6%)
Query: 66 LYDREGNGYITTDVLREIISELDPNLDYEELNEMIEEI----DSDGSGTIDFDVLTRAF 120
L D++G+GYI + LR+++ L L EE+ E+IE D DG G I F+ A
Sbjct: 2 LLDKDGDGYIDVEELRKLLKALGLKLTDEEVEELIEADFNEIDKDGDGRISFEEFLEAM 60
Score = 29.6 bits (67), Expect = 0.18
Identities = 10/38 (26%), Positives = 17/38 (44%)
Query: 4 TIMEMLGHPQSQEALNEIIKEVDEDGSGELEFNEFCTL 41
+ L + +E + E+D+DG G + F EF
Sbjct: 22 ALGLKLTDEEVEELIEADFNEIDKDGDGRISFEEFLEA 59
Score = 28.1 bits (63), Expect = 0.66
Identities = 13/54 (24%), Positives = 25/54 (46%), Gaps = 2/54 (3%)
Query: 23 KEVDEDGSGELEFNEFCTLAAKFLEEEEENPEAMRAELREAFMLYDREGNGYIT 76
K +D+DG G ++ E L + + E + + F D++G+G I+
Sbjct: 1 KLLDKDGDGYIDVEELRKLLKALGLKLTD--EEVEELIEADFNEIDKDGDGRIS 52
>gnl|CDD|205583 pfam13405, EF_hand_4, EF-hand domain.
Length = 30
Score = 34.5 bits (80), Expect = 0.002
Identities = 15/30 (50%), Positives = 23/30 (76%)
Query: 59 ELREAFMLYDREGNGYITTDVLREIISELD 88
ELREAF L+D++G+GYI+ + LR+ + L
Sbjct: 1 ELREAFKLFDKDGDGYISAEELRKALRSLG 30
Score = 26.0 bits (58), Expect = 2.0
Identities = 10/30 (33%), Positives = 14/30 (46%)
Query: 95 ELNEMIEEIDSDGSGTIDFDVLTRAFEAFD 124
EL E + D DG G I + L +A +
Sbjct: 1 ELREAFKLFDKDGDGYISAEELRKALRSLG 30
Score = 25.2 bits (56), Expect = 3.8
Identities = 9/29 (31%), Positives = 15/29 (51%)
Query: 116 LTRAFEAFDQEKKGSIPTDMVGTIMEMLG 144
L AF+ FD++ G I + + + LG
Sbjct: 2 LREAFKLFDKDGDGYISAEELRKALRSLG 30
>gnl|CDD|222407 pfam13833, EF_hand_6, EF-hand domain pair.
Length = 53
Score = 34.8 bits (81), Expect = 0.002
Identities = 15/44 (34%), Positives = 25/44 (56%)
Query: 71 GNGYITTDVLREIISELDPNLDYEELNEMIEEIDSDGSGTIDFD 114
G IT + L+ ++ L +L EE++ + E D+DG G I F+
Sbjct: 1 EKGLITREELKRALALLGISLSEEEVDILFREFDTDGDGKISFE 44
Score = 29.0 bits (66), Expect = 0.27
Identities = 14/40 (35%), Positives = 24/40 (60%)
Query: 5 IMEMLGHPQSQEALNEIIKEVDEDGSGELEFNEFCTLAAK 44
+ +LG S+E ++ + +E D DG G++ F EFC L +
Sbjct: 13 ALALLGISLSEEEVDILFREFDTDGDGKISFEEFCVLLQR 52
Score = 29.0 bits (66), Expect = 0.27
Identities = 14/40 (35%), Positives = 24/40 (60%)
Query: 139 IMEMLGHPQSQEALNEIIKEVDEDGSGELEFNEFCTLAAK 178
+ +LG S+E ++ + +E D DG G++ F EFC L +
Sbjct: 13 ALALLGISLSEEEVDILFREFDTDGDGKISFEEFCVLLQR 52
>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 = 33.2 bits (77), Expect = 0.016
Identities = 12/37 (32%), Positives = 24/37 (64%)
Query: 8 MLGHPQSQEALNEIIKEVDEDGSGELEFNEFCTLAAK 44
L + + EA+++I+K++D + G+++F EF L K
Sbjct: 43 FLKNQKDPEAVDKIMKDLDVNKDGKVDFQEFLVLIGK 79
Score = 33.2 bits (77), Expect = 0.016
Identities = 12/37 (32%), Positives = 24/37 (64%)
Query: 142 MLGHPQSQEALNEIIKEVDEDGSGELEFNEFCTLAAK 178
L + + EA+++I+K++D + G+++F EF L K
Sbjct: 43 FLKNQKDPEAVDKIMKDLDVNKDGKVDFQEFLVLIGK 79
>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 = 31.6 bits (73), Expect = 0.017
Identities = 11/29 (37%), Positives = 21/29 (72%)
Query: 59 ELREAFMLYDREGNGYITTDVLREIISEL 87
EL+EAF L+D++G+G I + ++++ L
Sbjct: 1 ELKEAFRLFDKDGDGKIDFEEFKDLLKAL 29
Score = 30.4 bits (70), Expect = 0.044
Identities = 10/28 (35%), Positives = 15/28 (53%)
Query: 18 LNEIIKEVDEDGSGELEFNEFCTLAAKF 45
L E + D+DG G+++F EF L
Sbjct: 2 LKEAFRLFDKDGDGKIDFEEFKDLLKAL 29
Score = 30.4 bits (70), Expect = 0.044
Identities = 10/28 (35%), Positives = 15/28 (53%)
Query: 152 LNEIIKEVDEDGSGELEFNEFCTLAAKF 179
L E + D+DG G+++F EF L
Sbjct: 2 LKEAFRLFDKDGDGKIDFEEFKDLLKAL 29
Score = 30.0 bits (69), Expect = 0.077
Identities = 10/20 (50%), Positives = 11/20 (55%)
Query: 95 ELNEMIEEIDSDGSGTIDFD 114
EL E D DG G IDF+
Sbjct: 1 ELKEAFRLFDKDGDGKIDFE 20
>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 = 33.0 bits (76), Expect = 0.026
Identities = 16/54 (29%), Positives = 26/54 (48%), Gaps = 2/54 (3%)
Query: 120 FEAFDQEKKGSIPTDMVGTIMEMLGHPQSQEALNEIIKEVDEDGSGELEFNEFC 173
F + D+ + G++ I+ G PQ+ L +I D D GEL+ +EF
Sbjct: 16 FRSLDKNQDGTVTGAQAKPILLKSGLPQTL--LAKIWNLADIDNDGELDKDEFA 67
Score = 28.4 bits (64), Expect = 1.1
Identities = 13/58 (22%), Positives = 25/58 (43%), Gaps = 2/58 (3%)
Query: 57 RAELREAFMLYDREGNGYITTDVLREIISELDPNLDYEELNEMIEEIDSDGSGTIDFD 114
+A+ + F D+ +G +T + I+ + L L ++ D D G +D D
Sbjct: 9 KAKYEQIFRSLDKNQDGTVTGAQAKPILLKS--GLPQTLLAKIWNLADIDNDGELDKD 64
Score = 27.6 bits (62), Expect = 2.1
Identities = 13/36 (36%), Positives = 18/36 (50%), Gaps = 2/36 (5%)
Query: 4 TIMEMLGHPQSQEALNEIIKEVDEDGSGELEFNEFC 39
I+ G PQ+ L +I D D GEL+ +EF
Sbjct: 34 PILLKSGLPQTL--LAKIWNLADIDNDGELDKDEFA 67
>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 = 30.9 bits (71), Expect = 0.035
Identities = 13/28 (46%), Positives = 16/28 (57%)
Query: 18 LNEIIKEVDEDGSGELEFNEFCTLAAKF 45
L E KE D+DG G++ F EF L K
Sbjct: 2 LKEAFKEFDKDGDGKISFEEFKELLKKL 29
Score = 30.9 bits (71), Expect = 0.035
Identities = 13/28 (46%), Positives = 16/28 (57%)
Query: 152 LNEIIKEVDEDGSGELEFNEFCTLAAKF 179
L E KE D+DG G++ F EF L K
Sbjct: 2 LKEAFKEFDKDGDGKISFEEFKELLKKL 29
Score = 30.5 bits (70), Expect = 0.053
Identities = 10/29 (34%), Positives = 13/29 (44%)
Query: 95 ELNEMIEEIDSDGSGTIDFDVLTRAFEAF 123
EL E +E D DG G I F+ +
Sbjct: 1 ELKEAFKEFDKDGDGKISFEEFKELLKKL 29
Score = 29.7 bits (68), Expect = 0.087
Identities = 11/29 (37%), Positives = 22/29 (75%)
Query: 59 ELREAFMLYDREGNGYITTDVLREIISEL 87
EL+EAF +D++G+G I+ + +E++ +L
Sbjct: 1 ELKEAFKEFDKDGDGKISFEEFKELLKKL 29
>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 = 30.6 bits (69), Expect = 0.14
Identities = 15/41 (36%), Positives = 27/41 (65%)
Query: 3 GTIMEMLGHPQSQEALNEIIKEVDEDGSGELEFNEFCTLAA 43
+ + L + +A+++I+KE+DE+G GE++F EF L A
Sbjct: 39 TELSDFLDAQKDADAVDKIMKELDENGDGEVDFQEFVVLVA 79
Score = 30.6 bits (69), Expect = 0.14
Identities = 15/41 (36%), Positives = 27/41 (65%)
Query: 137 GTIMEMLGHPQSQEALNEIIKEVDEDGSGELEFNEFCTLAA 177
+ + L + +A+++I+KE+DE+G GE++F EF L A
Sbjct: 39 TELSDFLDAQKDADAVDKIMKELDENGDGEVDFQEFVVLVA 79
>gnl|CDD|214935 smart00955, RNB, This domain is the catalytic domain of
ribonuclease II.
Length = 286
Score = 31.5 bits (72), Expect = 0.23
Identities = 17/56 (30%), Positives = 26/56 (46%), Gaps = 4/56 (7%)
Query: 59 ELREAF---MLYDREGNGYITTDVLREIISELDPNLDYEELNEMIEEIDSDGSGTI 111
E R A M D +G + + R +I L YEE++ ++E+I D G I
Sbjct: 89 EDRLALSVEMTLDADGGEILDYEFYRSVIR-SKARLTYEEVDAILEKIVLDEEGKI 143
>gnl|CDD|237186 PRK12740, PRK12740, elongation factor G; Reviewed.
Length = 668
Score = 31.6 bits (73), Expect = 0.25
Identities = 22/87 (25%), Positives = 38/87 (43%), Gaps = 21/87 (24%)
Query: 114 DVLTRAFEAFDQEKK---GSIPTDMVGTIMEMLGHPQSQEALNEIIKEVDEDGSGELEFN 170
D+L+ +D+ IP +++ E +E L E + E D++
Sbjct: 162 DLLSMKAYRYDEGGPSEEIEIPAELLDRAEEA------REELLEALAEFDDE-------- 207
Query: 171 EFCTLAAKFLEEEEENPEAMRAELREA 197
L K+LE EE + E ++A LR+A
Sbjct: 208 ----LMEKYLEGEELSEEEIKAGLRKA 230
Score = 28.2 bits (64), Expect = 4.3
Identities = 16/48 (33%), Positives = 24/48 (50%), Gaps = 12/48 (25%)
Query: 16 EALNEIIKEVDEDGSGELEFNEFCTLAAKFLEEEEENPEAMRAELREA 63
E L E + E D++ L K+LE EE + E ++A LR+A
Sbjct: 195 EELLEALAEFDDE------------LMEKYLEGEELSEEEIKAGLRKA 230
>gnl|CDD|224125 COG1204, COG1204, Superfamily II helicase [General function
prediction only].
Length = 766
Score = 31.6 bits (72), Expect = 0.34
Identities = 22/123 (17%), Positives = 37/123 (30%), Gaps = 12/123 (9%)
Query: 49 EEENPEAMRAELREAFMLYDREGNGYITTDVLREIISELDPNLDYEELNEMIEEIDSDGS 108
EE++ + L E + Y+ T L + I+E D +
Sbjct: 566 EEQSDYLLGERLDELAVEYNLLLQALKTAARLLDWINEADEDEILNAYGV--------AP 617
Query: 109 GTIDFDVLTRAFEAFDQEKKGSIPTDMVGTIMEMLGHPQSQEALNEIIKEVDEDGSGELE 168
G + T + + D G + ++LG EI+ E G E
Sbjct: 618 GDLLRIAETAEWLSADLLALGK----AAERLAKILGLGLHVLRKLEILSLRIEYGVRSEE 673
Query: 169 FNE 171
E
Sbjct: 674 LLE 676
>gnl|CDD|206673 cd01886, EF-G, Elongation factor G (EF-G) family involved in both
the elongation and ribosome recycling phases of protein
synthesis. Translocation is mediated by EF-G (also
called translocase). The structure of EF-G closely
resembles that of the complex between EF-Tu and tRNA.
This is an example of molecular mimicry; a protein
domain evolved so that it mimics the shape of a tRNA
molecule. EF-G in the GTP form binds to the ribosome,
primarily through the interaction of its EF-Tu-like
domain with the 50S subunit. The binding of EF-G to the
ribosome in this manner stimulates the GTPase activity
of EF-G. On GTP hydrolysis, EF-G undergoes a
conformational change that forces its arm deeper into
the A site on the 30S subunit. To accommodate this
domain, the peptidyl-tRNA in the A site moves to the P
site, carrying the mRNA and the deacylated tRNA with it.
The ribosome may be prepared for these rearrangements by
the initial binding of EF-G as well. The dissociation of
EF-G leaves the ribosome ready to accept the next
aminoacyl-tRNA into the A site. This group contains both
eukaryotic and bacterial members.
Length = 270
Score = 30.9 bits (71), Expect = 0.39
Identities = 19/70 (27%), Positives = 32/70 (45%), Gaps = 18/70 (25%)
Query: 128 KGSIPTDMVGTIMEMLGHPQSQEALNEIIKEVDEDGSGELEFNEFCTLAAKFLEEEEENP 187
+ IP D++ E ++E L E + EVD++ L K+LE EE
Sbjct: 185 ETDIPEDLLEEAEE------AREELIETLAEVDDE------------LMEKYLEGEEITE 226
Query: 188 EAMRAELREA 197
E ++A +R+
Sbjct: 227 EEIKAAIRKG 236
Score = 30.2 bits (69), Expect = 0.76
Identities = 15/48 (31%), Positives = 23/48 (47%), Gaps = 12/48 (25%)
Query: 16 EALNEIIKEVDEDGSGELEFNEFCTLAAKFLEEEEENPEAMRAELREA 63
E L E + EVD++ L K+LE EE E ++A +R+
Sbjct: 201 EELIETLAEVDDE------------LMEKYLEGEEITEEEIKAAIRKG 236
>gnl|CDD|180578 PRK06466, PRK06466, acetolactate synthase 3 catalytic subunit;
Validated.
Length = 574
Score = 31.3 bits (71), Expect = 0.41
Identities = 9/29 (31%), Positives = 18/29 (62%)
Query: 186 NPEAMRAELREAFMLYDREEFMSIMIDVN 214
+ + ++ +L EAF + DR F+ I +D +
Sbjct: 522 DLKDLKPKLEEAFAMKDRLVFIDIYVDRS 550
>gnl|CDD|215520 PLN02964, PLN02964, phosphatidylserine decarboxylase.
Length = 644
Score = 30.2 bits (68), Expect = 0.91
Identities = 20/60 (33%), Positives = 26/60 (43%), Gaps = 6/60 (10%)
Query: 21 IIKEVDEDGSGELEFNEFCTLAAKFLEEEEENPEAMRAELREAFMLYDREGNGYITTDVL 80
I+ VD D G+L F+EF L F N + E F D G+G +T D L
Sbjct: 184 ILAIVDYDEDGQLSFSEFSDLIKAFGNLVAAN------KKEELFKAADLNGDGVVTIDEL 237
>gnl|CDD|206733 cd04170, EF-G_bact, Elongation factor G (EF-G) family.
Translocation is mediated by EF-G (also called
translocase). The structure of EF-G closely resembles
that of the complex between EF-Tu and tRNA. This is an
example of molecular mimicry; a protein domain evolved
so that it mimics the shape of a tRNA molecule. EF-G in
the GTP form binds to the ribosome, primarily through
the interaction of its EF-Tu-like domain with the 50S
subunit. The binding of EF-G to the ribosome in this
manner stimulates the GTPase activity of EF-G. On GTP
hydrolysis, EF-G undergoes a conformational change that
forces its arm deeper into the A site on the 30S
subunit. To accommodate this domain, the peptidyl-tRNA
in the A site moves to the P site, carrying the mRNA and
the deacylated tRNA with it. The ribosome may be
prepared for these rearrangements by the initial binding
of EF-G as well. The dissociation of EF-G leaves the
ribosome ready to accept the next aminoacyl-tRNA into
the A site. This group contains only bacterial members.
Length = 268
Score = 28.7 bits (65), Expect = 2.2
Identities = 21/67 (31%), Positives = 28/67 (41%), Gaps = 18/67 (26%)
Query: 131 IPTDMVGTIMEMLGHPQSQEALNEIIKEVDEDGSGELEFNEFCTLAAKFLEEEEENPEAM 190
IP ++ + E +E L E + E DE L K+LEE E E +
Sbjct: 186 IPEELKEKVAEA------REELLEAVAETDE------------ELMEKYLEEGELTEEEL 227
Query: 191 RAELREA 197
RA LR A
Sbjct: 228 RAGLRRA 234
Score = 27.2 bits (61), Expect = 5.7
Identities = 18/48 (37%), Positives = 21/48 (43%), Gaps = 12/48 (25%)
Query: 16 EALNEIIKEVDEDGSGELEFNEFCTLAAKFLEEEEENPEAMRAELREA 63
E L E + E DE L K+LEE E E +RA LR A
Sbjct: 199 EELLEAVAETDE------------ELMEKYLEEGELTEEELRAGLRRA 234
>gnl|CDD|214753 smart00636, Glyco_18, Glyco_18 domain.
Length = 334
Score = 28.8 bits (65), Expect = 2.2
Identities = 13/45 (28%), Positives = 17/45 (37%), Gaps = 10/45 (22%)
Query: 59 ELREAFMLYDREGNGYITT----------DVLREIISELDPNLDY 93
ELREA EG GY+ T D + + LD+
Sbjct: 134 ELREALDKEGAEGKGYLLTIAVPAGPDKIDKGYGDLPAIAKYLDF 178
>gnl|CDD|187770 cd09639, Cas3_I, CRISPR/Cas system-associated protein Cas3. CRISPR
(Clustered Regularly Interspaced Short Palindromic
Repeats) and associated Cas proteins comprise a system
for heritable host defense by prokaryotic cells against
phage and other foreign DNA; DEAD/DEAH box helicase DNA
helicase cas3'; Often but not always is fused to HD
nuclease domain; signature gene for Type I.
Length = 353
Score = 28.5 bits (64), Expect = 2.6
Identities = 16/75 (21%), Positives = 29/75 (38%)
Query: 53 PEAMRAELREAFMLYDREGNGYITTDVLREIISELDPNLDYEELNEMIEEIDSDGSGTID 112
P+ ++ + + + E + I E D + L ++E I GS I
Sbjct: 165 PKFLKEYAEKIGYVEENEPLDLKPNERAPFIKIESDKVGEISSLERLLEFIKKGGSVAII 224
Query: 113 FDVLTRAFEAFDQEK 127
+ + RA E + Q K
Sbjct: 225 VNTVDRAQEFYQQLK 239
>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 = 27.1 bits (60), Expect = 2.8
Identities = 12/36 (33%), Positives = 21/36 (58%)
Query: 8 MLGHPQSQEALNEIIKEVDEDGSGELEFNEFCTLAA 43
L + QE ++++++ +D DG GE +F EF A
Sbjct: 43 FLEEIKEQEVVDKVMETLDSDGDGECDFQEFMAFVA 78
Score = 27.1 bits (60), Expect = 2.8
Identities = 12/36 (33%), Positives = 21/36 (58%)
Query: 142 MLGHPQSQEALNEIIKEVDEDGSGELEFNEFCTLAA 177
L + QE ++++++ +D DG GE +F EF A
Sbjct: 43 FLEEIKEQEVVDKVMETLDSDGDGECDFQEFMAFVA 78
>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 = 27.0 bits (60), Expect = 2.8
Identities = 10/27 (37%), Positives = 21/27 (77%)
Query: 17 ALNEIIKEVDEDGSGELEFNEFCTLAA 43
A+++I+K++D++ G++ F EF +L A
Sbjct: 52 AVDKIMKDLDQNRDGKVNFEEFVSLVA 78
Score = 27.0 bits (60), Expect = 2.8
Identities = 10/27 (37%), Positives = 21/27 (77%)
Query: 151 ALNEIIKEVDEDGSGELEFNEFCTLAA 177
A+++I+K++D++ G++ F EF +L A
Sbjct: 52 AVDKIMKDLDQNRDGKVNFEEFVSLVA 78
>gnl|CDD|220446 pfam09860, DUF2087, Uncharacterized protein conserved in bacteria
(DUF2087). This domain, found in various hypothetical
prokaryotic proteins and transcriptional activators, has
no known function. Structural modelling suggests this
domain may bind nucleic acids.
Length = 71
Score = 26.3 bits (59), Expect = 3.0
Identities = 7/30 (23%), Positives = 15/30 (50%), Gaps = 2/30 (6%)
Query: 79 VLREIISELDPNLDY--EELNEMIEEIDSD 106
+L I +P +Y +E+N +++ D
Sbjct: 16 ILEHIAKRFEPGREYSEKEVNAILKRFHED 45
>gnl|CDD|220942 pfam11014, DUF2852, Protein of unknown function (DUF2852). This
bacterial family of proteins has no known function.
Length = 115
Score = 27.2 bits (61), Expect = 3.3
Identities = 17/48 (35%), Positives = 22/48 (45%), Gaps = 3/48 (6%)
Query: 163 GSGELEFNEFCTLAAKFLEEEEENPEAMRAELREAFMLYDREEFMSIM 210
SG F+E+ + LEEE+ E LR A D+EEF M
Sbjct: 66 SSGNEAFDEYRAETLRRLEEEQRAFEDFLERLRRA---KDKEEFDQFM 110
>gnl|CDD|225762 COG3221, PhnD, ABC-type phosphate/phosphonate transport system,
periplasmic component [Inorganic ion transport and
metabolism].
Length = 299
Score = 28.1 bits (63), Expect = 3.3
Identities = 8/27 (29%), Positives = 17/27 (62%)
Query: 187 PEAMRAELREAFMLYDREEFMSIMIDV 213
P ++ +LR+AF+ + E I++D+
Sbjct: 244 PADLKEKLRDAFLDLAKTEDKKILLDL 270
>gnl|CDD|162819 TIGR02354, thiF_fam2, thiamine biosynthesis protein ThiF, family 2.
Members of the HesA/MoeB/ThiF family of proteins
(pfam00899) include a number of members encoded in the
midst of thiamine biosynthetic operons. This mix of
known and putative ThiF proteins shows a deep split in
phylogenetic trees, with one the E. coli ThiF and the E.
coli MoeB proteins seemingly more closely related than
E. coli ThiF and Campylobacter (for example) ThiF. This
model represents the divergent clade of putative ThiF
proteins such found in Campylobacter [Biosynthesis of
cofactors, prosthetic groups, and carriers, Thiamine].
Length = 200
Score = 27.9 bits (62), Expect = 3.5
Identities = 20/68 (29%), Positives = 33/68 (48%), Gaps = 4/68 (5%)
Query: 73 GYITTDVLREIISELDPNLDYEELNEMIEEIDSDGSGTIDFDVLTRAFEAFDQEKKGSIP 132
G T+ L+E ISE++P + E +E I E + D D D++ EAFD + ++
Sbjct: 72 GEPKTEALKENISEINPYTEIEAYDEKITEENID-KFFKDADIVC---EAFDNAEAKAML 127
Query: 133 TDMVGTIM 140
+ V
Sbjct: 128 VNAVLEKY 135
>gnl|CDD|213904 TIGR04291, arsen_driv_ArsA, arsenical pump-driving ATPase. The
broader family (TIGR00345) to which the current family
belongs consists of transport-energizing ATPases,
including to TRC40/GET3 family involved in
post-translational insertion of protein C-terminal
transmembrane anchors into membranes from the cyotosolic
face. This family, however, is restricted to ATPases
that energize pumps that export arsenite (or
antimonite).
Length = 566
Score = 27.7 bits (62), Expect = 4.8
Identities = 19/84 (22%), Positives = 35/84 (41%), Gaps = 13/84 (15%)
Query: 40 TLAAKFLEEEEENPEAMRAELRE--AFMLYDREGNGYITTDVLREIISELDPNL------ 91
LA + E++ + M A L + L + N + + LR+++++ P L
Sbjct: 242 PLAQAIYKREQKALQHMPAILANLPRYTLPLKPYN-LVGLEALRQLLNDDQPQLSLDITT 300
Query: 92 ----DYEELNEMIEEIDSDGSGTI 111
D L+ +I+EI G I
Sbjct: 301 PQVPDLPSLSRLIDEIAKSEKGLI 324
>gnl|CDD|232888 TIGR00233, trpS, tryptophanyl-tRNA synthetase. This model
represents tryptophanyl-tRNA synthetase. Some members of
the family have a pfam00458 domain amino-terminal to the
region described by this model [Protein synthesis, tRNA
aminoacylation].
Length = 327
Score = 27.7 bits (62), Expect = 5.4
Identities = 18/76 (23%), Positives = 32/76 (42%), Gaps = 6/76 (7%)
Query: 122 AFDQEKKGSIPTDMVGTIMEMLG-HPQSQEALNEIIKEVDEDGSGELEFNEFCTLAAKFL 180
F+ +K +P + I + L + L EI + SG+L + E + L
Sbjct: 226 LFEHREKPGVPN--LLVIYQYLSFFLIDDDKLKEI---YEAYKSGKLGYGECKKALIEVL 280
Query: 181 EEEEENPEAMRAELRE 196
+E + + RAE+ E
Sbjct: 281 QEFLKEIQERRAEIAE 296
>gnl|CDD|180780 PRK06965, PRK06965, acetolactate synthase 3 catalytic subunit;
Validated.
Length = 587
Score = 27.5 bits (61), Expect = 5.7
Identities = 10/28 (35%), Positives = 12/28 (42%)
Query: 185 ENPEAMRAELREAFMLYDREEFMSIMID 212
E + LREA L DR F+ D
Sbjct: 535 EKTSDVEPALREALRLKDRTVFLDFQTD 562
>gnl|CDD|216544 pfam01514, YscJ_FliF, Secretory protein of YscJ/FliF family. This
family includes proteins that are related to the YscJ
lipoprotein, and the amino terminus of FliF, the
flageller M-ring protein. The members of the YscJ family
are thought to be involved in secretion of several
proteins. The FliF protein ring is thought to be part of
the export apparatus for flageller proteins, based on
the similarity to YscJ proteins.
Length = 206
Score = 27.3 bits (61), Expect = 6.0
Identities = 19/88 (21%), Positives = 28/88 (31%), Gaps = 11/88 (12%)
Query: 86 ELDPNLDYEELNEMIEEIDSDGSGTIDFDVLTRAFEAFDQEKKGSIPTDMVGTIMEML-- 143
L L ++ NE++ + G I + +P D V E+L
Sbjct: 29 TLYTGLSEKDANEVLAALLQAG---IPAEKSPD-----GDGGTILVPEDDVARARELLAA 80
Query: 144 -GHPQSQEALNEIIKEVDEDGSGELEFN 170
G P+ E I D GS E
Sbjct: 81 KGLPREGFVGLEEIFPKDGLGSSPFEER 108
>gnl|CDD|226031 COG3500, COG3500, Phage protein D [General function prediction
only].
Length = 350
Score = 27.4 bits (61), Expect = 6.4
Identities = 18/80 (22%), Positives = 25/80 (31%), Gaps = 7/80 (8%)
Query: 52 NPEAMRAELREAFMLYDREGNGYITT---DVLREIISELDPNLDYEELNEMIEEIDSDGS 108
+ A A LR A L + + T D+ EI +E ID
Sbjct: 96 SIRAKAAGLRGA--LTTKRSRSWEKTTLSDIASEIAAEHGLTAAVSATQVAHPHIDQYYE 153
Query: 109 GTIDFDVLTRAFEAFDQEKK 128
D + L R E + K
Sbjct: 154 S--DINFLLRLAERYGAIAK 171
>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 = 27.4 bits (61), Expect = 6.7
Identities = 11/38 (28%), Positives = 16/38 (42%), Gaps = 4/38 (10%)
Query: 39 CTLAAKFLEEEEENPEAMRA----ELREAFMLYDREGN 72
C + L P + A +RE +LYD+ GN
Sbjct: 55 CRCIRQALARSGIAPIDIAAVSATSMREGIVLYDQNGN 92
>gnl|CDD|182853 PRK10939, PRK10939, autoinducer-2 (AI-2) kinase; Provisional.
Length = 520
Score = 27.3 bits (61), Expect = 7.4
Identities = 9/31 (29%), Positives = 14/31 (45%), Gaps = 4/31 (12%)
Query: 46 LEEEEENPEAMRA----ELREAFMLYDREGN 72
L++ + A +RE +LYDR G
Sbjct: 65 LQKAGIPASDIAAVSATSMREGIVLYDRNGT 95
>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 = 25.8 bits (57), Expect = 7.7
Identities = 12/38 (31%), Positives = 23/38 (60%)
Query: 9 LGHPQSQEALNEIIKEVDEDGSGELEFNEFCTLAAKFL 46
L ++Q+A+++I +++D + G+L F EF L K
Sbjct: 44 LKKEKNQKAIDKIFEDLDTNQDGQLSFEEFLVLVIKVG 81
Score = 25.8 bits (57), Expect = 7.7
Identities = 12/38 (31%), Positives = 23/38 (60%)
Query: 143 LGHPQSQEALNEIIKEVDEDGSGELEFNEFCTLAAKFL 180
L ++Q+A+++I +++D + G+L F EF L K
Sbjct: 44 LKKEKNQKAIDKIFEDLDTNQDGQLSFEEFLVLVIKVG 81
>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 = 7.8
Identities = 10/28 (35%), Positives = 14/28 (50%)
Query: 14 SQEALNEIIKEVDEDGSGELEFNEFCTL 41
E L E +K +D + +L F EF L
Sbjct: 45 DVEGLEEKMKNLDVNQDSKLSFEEFWEL 72
Score = 25.8 bits (57), Expect = 7.8
Identities = 10/28 (35%), Positives = 14/28 (50%)
Query: 148 SQEALNEIIKEVDEDGSGELEFNEFCTL 175
E L E +K +D + +L F EF L
Sbjct: 45 DVEGLEEKMKNLDVNQDSKLSFEEFWEL 72
>gnl|CDD|223631 COG0557, VacB, Exoribonuclease R [Transcription].
Length = 706
Score = 27.4 bits (61), Expect = 7.8
Identities = 14/77 (18%), Positives = 27/77 (35%), Gaps = 6/77 (7%)
Query: 63 AFMLYDREGNGYITTDVLREIISELDPNLDYEELNEMIEEIDSDGSGTI--DFDVLTRAF 120
M D EG ++ +I L YEE+ +++ + D + L
Sbjct: 343 CEMTLDSEGR-VKKYEIYPSVIKS-AARLTYEEVQAILDGKEDDKYAPLLDSLLELLELA 400
Query: 121 EAFDQ--EKKGSIPTDM 135
+ + +G+I D
Sbjct: 401 KILKKKRLSRGAIDFDT 417
>gnl|CDD|218969 pfam06277, EutA, Ethanolamine utilisation protein EutA. This
family consists of several bacterial EutA ethanolamine
utilisation proteins. The EutA protein is thought to
protect the lyase (EutBC) from inhibition by CNB12.
Length = 473
Score = 27.2 bits (61), Expect = 7.8
Identities = 13/59 (22%), Positives = 25/59 (42%), Gaps = 5/59 (8%)
Query: 45 FLEEEEENPEAMRAELREAFMLYDREGNGYITTDVLREIISELDPNLDYEELNEMIEEI 103
L++EE+ E + +R+A +D EG V + N ++ + + E I
Sbjct: 344 SLDDEEQGNEPLAEAIRQALAWFDLEGE---VQPV--ALAFPGLKNPSFQAVQALAEAI 397
>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 = 25.8 bits (57), Expect = 8.2
Identities = 10/26 (38%), Positives = 14/26 (53%)
Query: 14 SQEALNEIIKEVDEDGSGELEFNEFC 39
+ L +I D D G+L+F EFC
Sbjct: 41 PDDQLAKIWDLADIDSDGKLDFEEFC 66
Score = 25.8 bits (57), Expect = 8.2
Identities = 10/26 (38%), Positives = 14/26 (53%)
Query: 148 SQEALNEIIKEVDEDGSGELEFNEFC 173
+ L +I D D G+L+F EFC
Sbjct: 41 PDDQLAKIWDLADIDSDGKLDFEEFC 66
>gnl|CDD|132308 TIGR03264, met_CoM_red_C, methyl-coenzyme M reductase I operon
protein C. Members of this protein family are protein
C, a non-structural protein, of the operon for methyl
coenzyme M reductase, also called coenzyme-B
sulfoethylthiotransferase (EC 2.8.4.1). That enzyme,
with alpha, beta, and gamma subunits, catalyzes the last
step in methanogenesis; it has several modified sites,
so accessory proteins are expected. Several methanogens
have encode two such enzymes, designated I and II; this
protein occurs only operons of type I. The precise
function is unknown [Energy metabolism, Methanogenesis].
Length = 194
Score = 26.6 bits (59), Expect = 8.2
Identities = 14/45 (31%), Positives = 26/45 (57%), Gaps = 3/45 (6%)
Query: 115 VLTRAFEAFDQEKKGSIPTDMVGTIMEMLGHPQSQEALNEIIKEV 159
V TRA + + KG++ ++V ++ G QE ++EII++V
Sbjct: 149 VKTRAVMPLEPKTKGTV-VEIVTGVIR--GESCPQEKIDEIIRKV 190
Score = 26.6 bits (59), Expect = 9.3
Identities = 10/29 (34%), Positives = 18/29 (62%), Gaps = 5/29 (17%)
Query: 2 VGTIMEML-----GHPQSQEALNEIIKEV 25
GT++E++ G QE ++EII++V
Sbjct: 162 KGTVVEIVTGVIRGESCPQEKIDEIIRKV 190
>gnl|CDD|233483 TIGR01587, cas3_core, CRISPR-associated helicase Cas3. This model
represents the highly conserved core region of an
alignment of Cas3, a protein found in association with
CRISPR repeat elements in a broad range of bacteria and
archaea. Cas3 appears to be a helicase, with regions
found by pfam00270 (DEAD/DEAH box helicase) and
pfam00271 (Helicase conserved C-terminal domain). Some
but not all members have an N-terminal HD domain region
(pfam01966) that is not included within this model
[Mobile and extrachromosomal element functions, Other].
Length = 358
Score = 27.0 bits (60), Expect = 8.3
Identities = 14/47 (29%), Positives = 20/47 (42%)
Query: 81 REIISELDPNLDYEELNEMIEEIDSDGSGTIDFDVLTRAFEAFDQEK 127
R I E D + L ++E I G I + + RA E + Q K
Sbjct: 197 RFIKIESDKVGEISSLERLLEFIKKGGKIAIIVNTVDRAQEFYQQLK 243
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
0.313 0.134 0.363
Gapped
Lambda K H
0.267 0.0751 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 12,033,082
Number of extensions: 1242506
Number of successful extensions: 1993
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1948
Number of HSP's successfully gapped: 208
Length of query: 214
Length of database: 10,937,602
Length adjustment: 93
Effective length of query: 121
Effective length of database: 6,812,680
Effective search space: 824334280
Effective search space used: 824334280
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 57 (25.7 bits)