RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy1083
(173 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 = 66.2 bits (162), Expect = 3e-14
Identities = 43/132 (32%), Positives = 65/132 (49%), Gaps = 9/132 (6%)
Query: 9 LRDIFQRVDRDKSGLISTNELQMALSNGTWKPFNAETVRLMIGMFDKNNTGQISFEDF-G 67
L++ FQ DRD GLI NEL L + + P AE + + D N + F +F
Sbjct: 22 LKEAFQLFDRDSDGLIDRNELGKILRSLGFNPSEAE-INKLFEEIDAGN-ETVDFPEFLT 79
Query: 68 ALWKYVT------DWQSCFKSFDKDNSGNIDKLELKTALGTFGYRLGDNTVDILMKKFDH 121
+ + + + FK FDKD+ G I EL+ L + G RL D V+ L+K++D
Sbjct: 80 VMSVKLKRGDKEEELREAFKLFDKDHDGYISIGELRRVLKSLGERLSDEEVEKLLKEYDE 139
Query: 122 HGKGTILFDDFI 133
G G I +++F
Sbjct: 140 DGDGEIDYEEFK 151
Score = 50.0 bits (120), Expect = 3e-08
Identities = 21/70 (30%), Positives = 36/70 (51%), Gaps = 1/70 (1%)
Query: 3 MPPPEFLRDIFQRVDRDKSGLISTNELQMALSNGTWKPFNAETVRLMIGMFDKNNTGQIS 62
E LR+ F+ D+D G IS EL+ L + + + E V ++ +D++ G+I
Sbjct: 88 GDKEEELREAFKLFDKDHDGYISIGELRRVLKSLGER-LSDEEVEKLLKEYDEDGDGEID 146
Query: 63 FEDFGALWKY 72
+E+F L K
Sbjct: 147 YEEFKKLIKD 156
Score = 45.4 bits (108), Expect = 2e-06
Identities = 25/94 (26%), Positives = 46/94 (48%), Gaps = 12/94 (12%)
Query: 75 DWQSCFKSFDKDNSGNIDKLELKTALGTFGYRLGDNTVDILMKKFDHHGKGTILFDDFIH 134
+ + F+ FD+D+ G ID+ EL L + G+ + ++ L ++ D G T+ F +F+
Sbjct: 21 ELKEAFQLFDRDSDGLIDRNELGKILRSLGFNPSEAEINKLFEEID-AGNETVDFPEFL- 78
Query: 135 CCVMLNLLTT---------SFSQHDEDKDGVVTL 159
VM L +F D+D DG +++
Sbjct: 79 -TVMSVKLKRGDKEEELREAFKLFDKDHDGYISI 111
>gnl|CDD|185504 PTZ00184, PTZ00184, calmodulin; Provisional.
Length = 149
Score = 58.6 bits (142), Expect = 2e-11
Identities = 42/134 (31%), Positives = 67/134 (50%), Gaps = 9/134 (6%)
Query: 7 EFLRDIFQRVDRDKSGLISTNELQMALSNGTWKPFNAETVRLMIGMFDKNNTGQISFEDF 66
EF ++ F D+D G I+T EL + + P AE ++ MI D + G I F +F
Sbjct: 12 EF-KEAFSLFDKDGDGTITTKELGTVMRSLGQNPTEAE-LQDMINEVDADGNGTIDFPEF 69
Query: 67 GALW-KYVTDWQS------CFKSFDKDNSGNIDKLELKTALGTFGYRLGDNTVDILMKKF 119
L + + D S FK FD+D +G I EL+ + G +L D VD ++++
Sbjct: 70 LTLMARKMKDTDSEEEIKEAFKVFDRDGNGFISAAELRHVMTNLGEKLTDEEVDEMIREA 129
Query: 120 DHHGKGTILFDDFI 133
D G G I +++F+
Sbjct: 130 DVDGDGQINYEEFV 143
Score = 32.8 bits (75), Expect = 0.034
Identities = 18/61 (29%), Positives = 31/61 (50%)
Query: 73 VTDWQSCFKSFDKDNSGNIDKLELKTALGTFGYRLGDNTVDILMKKFDHHGKGTILFDDF 132
+ +++ F FDKD G I EL T + + G + + ++ + D G GTI F +F
Sbjct: 10 IAEFKEAFSLFDKDGDGTITTKELGTVMRSLGQNPTEAELQDMINEVDADGNGTIDFPEF 69
Query: 133 I 133
+
Sbjct: 70 L 70
>gnl|CDD|238008 cd00051, EFh, EF-hand, calcium binding motif; A diverse
superfamily of calcium sensors and calcium signal
modulators; most examples in this alignment model have
2 active canonical EF hands. Ca2+ binding induces a
conformational change in the EF-hand motif, leading to
the activation or inactivation of target proteins.
EF-hands tend to occur in pairs or higher copy numbers.
Length = 63
Score = 49.9 bits (120), Expect = 5e-09
Identities = 22/58 (37%), Positives = 32/58 (55%), Gaps = 1/58 (1%)
Query: 9 LRDIFQRVDRDKSGLISTNELQMALSNGTWKPFNAETVRLMIGMFDKNNTGQISFEDF 66
LR+ F+ D+D G IS +EL+ AL + E + MI DK+ G+I FE+F
Sbjct: 2 LREAFRLFDKDGDGTISADELKAALKSLGEGLSEEE-IDEMIREVDKDGDGKIDFEEF 58
Score = 47.2 bits (113), Expect = 6e-08
Identities = 21/55 (38%), Positives = 32/55 (58%)
Query: 80 FKSFDKDNSGNIDKLELKTALGTFGYRLGDNTVDILMKKFDHHGKGTILFDDFIH 134
F+ FDKD G I ELK AL + G L + +D ++++ D G G I F++F+
Sbjct: 6 FRLFDKDGDGTISADELKAALKSLGEGLSEEEIDEMIREVDKDGDGKIDFEEFLE 60
Score = 39.5 bits (93), Expect = 4e-05
Identities = 16/61 (26%), Positives = 26/61 (42%), Gaps = 6/61 (9%)
Query: 46 VRLMIGMFDKNNTGQISFEDFGALWK----YVTD--WQSCFKSFDKDNSGNIDKLELKTA 99
+R +FDK+ G IS ++ A K +++ + DKD G ID E
Sbjct: 2 LREAFRLFDKDGDGTISADELKAALKSLGEGLSEEEIDEMIREVDKDGDGKIDFEEFLEL 61
Query: 100 L 100
+
Sbjct: 62 M 62
Score = 27.5 bits (62), Expect = 0.85
Identities = 15/58 (25%), Positives = 25/58 (43%), Gaps = 8/58 (13%)
Query: 117 KKFDHHGKGTILFDDFIHCCVMLNLLTTS------FSQHDEDKDGVVTLHYEQFLSMV 168
+ FD G GTI D+ L + + D+D DG + +E+FL ++
Sbjct: 7 RLFDKDGDGTISADELKAALKSLGEGLSEEEIDEMIREVDKDGDGKID--FEEFLELM 62
Score = 26.0 bits (58), Expect = 2.6
Identities = 7/28 (25%), Positives = 14/28 (50%)
Query: 7 EFLRDIFQRVDRDKSGLISTNELQMALS 34
E + ++ + VD+D G I E ++
Sbjct: 36 EEIDEMIREVDKDGDGKIDFEEFLELMA 63
>gnl|CDD|185503 PTZ00183, PTZ00183, centrin; Provisional.
Length = 158
Score = 46.6 bits (111), Expect = 5e-07
Identities = 37/132 (28%), Positives = 64/132 (48%), Gaps = 8/132 (6%)
Query: 9 LRDIFQRVDRDKSGLISTNELQMALSNGTWKPFNAETVRLMIGMFDKNNTGQISFEDF-G 67
+R+ F D D SG I EL++A+ + ++P E ++ MI DK+ +G+I FE+F
Sbjct: 19 IREAFDLFDTDGSGTIDPKELKVAMRSLGFEPKK-EEIKQMIADVDKDGSGKIDFEEFLD 77
Query: 68 ALWKYVTD------WQSCFKSFDKDNSGNIDKLELKTALGTFGYRLGDNTVDILMKKFDH 121
+ K + + F+ FD D +G I LK G + D + ++ + D
Sbjct: 78 IMTKKLGERDPREEILKAFRLFDDDKTGKISLKNLKRVAKELGETITDEELQEMIDEADR 137
Query: 122 HGKGTILFDDFI 133
+G G I ++F
Sbjct: 138 NGDGEISEEEFY 149
Score = 40.4 bits (95), Expect = 1e-04
Identities = 27/90 (30%), Positives = 41/90 (45%), Gaps = 11/90 (12%)
Query: 79 CFKSFDKDNSGNIDKLELKTALGTFGYRLGDNTVDILMKKFDHHGKGTILFDDFIHCCVM 138
F FD D SG ID ELK A+ + G+ + ++ D G G I F++F+ +M
Sbjct: 22 AFDLFDTDGSGTIDPKELKVAMRSLGFEPKKEEIKQMIADVDKDGSGKIDFEEFLD--IM 79
Query: 139 LNLLTT---------SFSQHDEDKDGVVTL 159
L +F D+DK G ++L
Sbjct: 80 TKKLGERDPREEILKAFRLFDDDKTGKISL 109
Score = 36.6 bits (85), Expect = 0.002
Identities = 24/103 (23%), Positives = 43/103 (41%), Gaps = 6/103 (5%)
Query: 4 PPPEFLRDIFQRVDRDKSGLISTNELQMALSNGTWKPFNAETVRLMIGMFDKNNTGQISF 63
P E ++ + VD+D SG I E ++ + E + +FD + TG+IS
Sbjct: 50 PKKEEIKQMIADVDKDGSGKIDFEEFLDIMTKKLGERDPREEILKAFRLFDDDKTGKISL 109
Query: 64 EDF----GALWKYVTD--WQSCFKSFDKDNSGNIDKLELKTAL 100
++ L + +TD Q D++ G I + E +
Sbjct: 110 KNLKRVAKELGETITDEELQEMIDEADRNGDGEISEEEFYRIM 152
>gnl|CDD|222177 pfam13499, EF_hand_5, EF-hand domain pair.
Length = 60
Score = 42.7 bits (101), Expect = 3e-06
Identities = 19/60 (31%), Positives = 27/60 (45%), Gaps = 4/60 (6%)
Query: 81 KSFDKDNSGNIDKLELKTALGTFGYRLGD----NTVDILMKKFDHHGKGTILFDDFIHCC 136
K DKD G ID EL+ L G +L D ++ + D G G I F++F+
Sbjct: 1 KLLDKDGDGYIDVEELRKLLKALGLKLTDEEVEELIEADFNEIDKDGDGRISFEEFLEAM 60
Score = 38.9 bits (91), Expect = 6e-05
Identities = 17/56 (30%), Positives = 26/56 (46%), Gaps = 3/56 (5%)
Query: 14 QRVDRDKSGLISTNELQMALSNGTWKPFNAE---TVRLMIGMFDKNNTGQISFEDF 66
+ +D+D G I EL+ L K + E + DK+ G+ISFE+F
Sbjct: 1 KLLDKDGDGYIDVEELRKLLKALGLKLTDEEVEELIEADFNEIDKDGDGRISFEEF 56
Score = 29.6 bits (67), Expect = 0.14
Identities = 15/59 (25%), Positives = 22/59 (37%), Gaps = 10/59 (16%)
Query: 52 MFDKNNTGQISFEDFGALWKYVTD----------WQSCFKSFDKDNSGNIDKLELKTAL 100
+ DK+ G I E+ L K + ++ F DKD G I E A+
Sbjct: 2 LLDKDGDGYIDVEELRKLLKALGLKLTDEEVEELIEADFNEIDKDGDGRISFEEFLEAM 60
Score = 27.3 bits (61), Expect = 1.1
Identities = 15/62 (24%), Positives = 26/62 (41%), Gaps = 12/62 (19%)
Query: 117 KKFDHHGKGTILFDDFIHCCVMLN----------LLTTSFSQHDEDKDGVVTLHYEQFLS 166
K D G G I ++ L L+ F++ D+D DG ++ +E+FL
Sbjct: 1 KLLDKDGDGYIDVEELRKLLKALGLKLTDEEVEELIEADFNEIDKDGDGRIS--FEEFLE 58
Query: 167 MV 168
+
Sbjct: 59 AM 60
Score = 25.0 bits (55), Expect = 5.8
Identities = 8/24 (33%), Positives = 11/24 (45%)
Query: 7 EFLRDIFQRVDRDKSGLISTNELQ 30
E + F +D+D G IS E
Sbjct: 34 ELIEADFNEIDKDGDGRISFEEFL 57
>gnl|CDD|222407 pfam13833, EF_hand_6, EF-hand domain pair.
Length = 53
Score = 39.0 bits (92), Expect = 4e-05
Identities = 18/52 (34%), Positives = 29/52 (55%), Gaps = 1/52 (1%)
Query: 20 KSGLISTNELQMALSNGTWKPFNAETVRLMIGMFDKNNTGQISFEDFGALWK 71
+ GLI+ EL+ AL+ + E V ++ FD + G+ISFE+F L +
Sbjct: 1 EKGLITREELKRALALLG-ISLSEEEVDILFREFDTDGDGKISFEEFCVLLQ 51
Score = 35.6 bits (83), Expect = 9e-04
Identities = 20/46 (43%), Positives = 26/46 (56%)
Query: 88 SGNIDKLELKTALGTFGYRLGDNTVDILMKKFDHHGKGTILFDDFI 133
G I + ELK AL G L + VDIL ++FD G G I F++F
Sbjct: 2 KGLITREELKRALALLGISLSEEEVDILFREFDTDGDGKISFEEFC 47
>gnl|CDD|205583 pfam13405, EF_hand_4, EF-hand domain.
Length = 30
Score = 34.1 bits (79), Expect = 0.002
Identities = 13/30 (43%), Positives = 17/30 (56%)
Query: 75 DWQSCFKSFDKDNSGNIDKLELKTALGTFG 104
+ + FK FDKD G I EL+ AL + G
Sbjct: 1 ELREAFKLFDKDGDGYISAEELRKALRSLG 30
Score = 30.6 bits (70), Expect = 0.029
Identities = 12/28 (42%), Positives = 17/28 (60%)
Query: 9 LRDIFQRVDRDKSGLISTNELQMALSNG 36
LR+ F+ D+D G IS EL+ AL +
Sbjct: 2 LREAFKLFDKDGDGYISAEELRKALRSL 29
Score = 25.2 bits (56), Expect = 3.2
Identities = 7/20 (35%), Positives = 11/20 (55%)
Query: 52 MFDKNNTGQISFEDFGALWK 71
+FDK+ G IS E+ +
Sbjct: 8 LFDKDGDGYISAEELRKALR 27
>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 = 31.3 bits (72), Expect = 0.022
Identities = 9/27 (33%), Positives = 14/27 (51%)
Query: 9 LRDIFQRVDRDKSGLISTNELQMALSN 35
L++ F+ D+D G IS E + L
Sbjct: 2 LKEAFKEFDKDGDGKISFEEFKELLKK 28
Score = 30.9 bits (71), Expect = 0.028
Identities = 11/26 (42%), Positives = 16/26 (61%)
Query: 46 VRLMIGMFDKNNTGQISFEDFGALWK 71
++ FDK+ G+ISFE+F L K
Sbjct: 2 LKEAFKEFDKDGDGKISFEEFKELLK 27
Score = 29.3 bits (67), Expect = 0.094
Identities = 11/29 (37%), Positives = 13/29 (44%)
Query: 75 DWQSCFKSFDKDNSGNIDKLELKTALGTF 103
+ + FK FDKD G I E K L
Sbjct: 1 ELKEAFKEFDKDGDGKISFEEFKELLKKL 29
>gnl|CDD|205383 pfam13202, EF_hand_3, EF hand.
Length = 25
Score = 30.3 bits (70), Expect = 0.035
Identities = 10/25 (40%), Positives = 16/25 (64%)
Query: 9 LRDIFQRVDRDKSGLISTNELQMAL 33
L+D+F++ D + G IS EL+ L
Sbjct: 1 LKDLFRQFDTNGDGKISKEELKRLL 25
Score = 29.6 bits (68), Expect = 0.081
Identities = 10/24 (41%), Positives = 13/24 (54%)
Query: 77 QSCFKSFDKDNSGNIDKLELKTAL 100
+ F+ FD + G I K ELK L
Sbjct: 2 KDLFRQFDTNGDGKISKEELKRLL 25
Score = 24.9 bits (56), Expect = 3.6
Identities = 8/18 (44%), Positives = 10/18 (55%)
Query: 52 MFDKNNTGQISFEDFGAL 69
FD N G+IS E+ L
Sbjct: 7 QFDTNGDGKISKEELKRL 24
>gnl|CDD|197492 smart00054, EFh, EF-hand, calcium binding motif. EF-hands are
calcium-binding motifs that occur at least in pairs.
Links between disease states and genes encoding
EF-hands, particularly the S100 subclass, are emerging.
Each motif consists of a 12 residue loop flanked on
either side by a 12 residue alpha-helix. EF-hands
undergo a conformational change unpon binding calcium
ions.
Length = 29
Score = 30.0 bits (69), Expect = 0.049
Identities = 10/23 (43%), Positives = 14/23 (60%)
Query: 49 MIGMFDKNNTGQISFEDFGALWK 71
+FDK+ G+I FE+F L K
Sbjct: 5 AFRLFDKDGDGKIDFEEFKDLLK 27
Score = 29.7 bits (68), Expect = 0.078
Identities = 8/27 (29%), Positives = 13/27 (48%)
Query: 9 LRDIFQRVDRDKSGLISTNELQMALSN 35
L++ F+ D+D G I E + L
Sbjct: 2 LKEAFRLFDKDGDGKIDFEEFKDLLKA 28
Score = 28.9 bits (66), Expect = 0.12
Identities = 11/29 (37%), Positives = 14/29 (48%)
Query: 75 DWQSCFKSFDKDNSGNIDKLELKTALGTF 103
+ + F+ FDKD G ID E K L
Sbjct: 1 ELKEAFRLFDKDGDGKIDFEEFKDLLKAL 29
>gnl|CDD|238009 cd00052, EH, Eps15 homology domain; found in proteins implicated in
endocytosis, vesicle transport, and signal transduction.
The alignment contains a pair of EF-hand motifs,
typically one of them is canonical and binds to Ca2+,
while the other may not bind to Ca2+. A hydrophobic
binding pocket is formed by residues from both EF-hand
motifs. The EH domain binds to proteins containing NPF
(class I), [WF]W or SWG (class II), or H[TS]F (class
III) sequence motifs.
Length = 67
Score = 27.2 bits (61), Expect = 1.1
Identities = 15/69 (21%), Positives = 25/69 (36%), Gaps = 8/69 (11%)
Query: 77 QSCFKSFDKDNSGNIDKLELKTALGTFGYRLGDNTVDILMKKF---DHHGKGTILFDDFI 133
F+S D D G I E + LG G +L + + D G + ++F
Sbjct: 2 DQIFRSLDPDGDGLISGDEARPFLGKSGL-----PRSVLAQIWDLADTDKDGKLDKEEFA 56
Query: 134 HCCVMLNLL 142
++ L
Sbjct: 57 IAMHLIALA 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 = 27.1 bits (61), Expect = 1.8
Identities = 9/34 (26%), Positives = 16/34 (47%)
Query: 33 LSNGTWKPFNAETVRLMIGMFDKNNTGQISFEDF 66
L N + E V ++ D N G++ F++F
Sbjct: 40 LPNFLKNQKDPEAVDKIMKDLDVNKDGKVDFQEF 73
>gnl|CDD|238641 cd01316, CAD_DHOase, The eukaryotic CAD protein is a trifunctional
enzyme of carbamoylphosphate synthetase-aspartate
transcarbamoylase-dihydroorotase, which catalyzes the
first three steps of de novo pyrimidine nucleotide
biosynthesis. Dihydroorotase (DHOase) catalyzes the
third step, the reversible interconversion of carbamoyl
aspartate to dihydroorotate.
Length = 344
Score = 27.8 bits (62), Expect = 3.5
Identities = 13/37 (35%), Positives = 17/37 (45%), Gaps = 3/37 (8%)
Query: 11 DIFQRVDRDKSGLISTNELQMALSNGTWKPFNAETVR 47
D + VD D+ I N LQ S W PF + V+
Sbjct: 285 DTYVEVDLDEEWTIPKNPLQ---SKKGWTPFEGKKVK 318
>gnl|CDD|183349 PRK11869, PRK11869, 2-oxoacid ferredoxin oxidoreductase subunit
beta; Provisional.
Length = 280
Score = 27.4 bits (61), Expect = 3.7
Identities = 10/34 (29%), Positives = 14/34 (41%), Gaps = 3/34 (8%)
Query: 111 TVDILMKKFDHHGKGTILFDDFIHCCVMLNLLTT 144
T +IL + H G + D CV N + T
Sbjct: 172 TKEILKEAIKHKGLAIV---DIFQPCVSFNKVNT 202
>gnl|CDD|218582 pfam05419, GUN4, GUN4-like. In Arabidopsis, GUN4 is required for
the functioning of the plastid mediated repression of
nuclear transcription that is involved in controlling
the levels of magnesium- protoporphyrin IX. GUN4 binds
the product and substrate of Mg-chelatase, an enzyme
that produces Mg-Proto, and activates Mg-chelatase.
GUN4 is thought to participates in plastid-to-nucleus
signaling by regulating magnesium-protoporphyrin IX
synthesis or trafficking.
Length = 132
Score = 26.8 bits (60), Expect = 4.5
Identities = 13/38 (34%), Positives = 20/38 (52%)
Query: 29 LQMALSNGTWKPFNAETVRLMIGMFDKNNTGQISFEDF 66
LQ L+ G WK + ET RL++ + + G + F D
Sbjct: 1 LQDLLAAGKWKEADEETSRLLLELAGREKRGWLYFSDI 38
>gnl|CDD|224283 COG1364, ArgJ, N-acetylglutamate synthase (N-acetylornithine
aminotransferase) [Amino acid transport and metabolism].
Length = 404
Score = 27.2 bits (61), Expect = 4.5
Identities = 10/23 (43%), Positives = 10/23 (43%)
Query: 24 ISTNELQMALSNGTWKPFNAETV 46
I LQ AL K FN TV
Sbjct: 202 IEPAALQKALRRAVDKTFNMITV 224
>gnl|CDD|238591 cd01186, INT_SG3_C, INT_SG3, DNA breaking-rejoining enzymes,
integrase/recombinases subgroup 3, catalytic domain. The
CD contains various predicted bacterial and phage
integrase/recombinase sequences for which not much
experimental characterization is available.
Length = 180
Score = 26.4 bits (59), Expect = 6.3
Identities = 11/23 (47%), Positives = 13/23 (56%), Gaps = 2/23 (8%)
Query: 102 TFGYRLGDNTVDI--LMKKFDHH 122
TFGY T DI LM+ F+H
Sbjct: 133 TFGYHYYKQTKDIALLMEIFNHS 155
>gnl|CDD|234066 TIGR02940, anfO_nitrog, Fe-only nitrogenase accessory protein AnfO.
Members of this protein family, called Anf1 in
Rhodobacter capsulatus and AnfO in Azotobacter
vinelandii, are found only in species with the Fe-only
nitrogenase and are encoded immediately downstream of
the structural genes in the above named species.
Length = 214
Score = 26.3 bits (58), Expect = 7.3
Identities = 13/67 (19%), Positives = 24/67 (35%), Gaps = 17/67 (25%)
Query: 56 NNTGQIS----------FEDFGALWKYVTDWQSCFKSFDKDNSGNIDKLELKTALGTFGY 105
++ GQIS +E G WK + D + + + ++ A+
Sbjct: 7 DDEGQISSIFDPGFILLYEGSGGEWKLLKDIE-----NAVCPAKGLA--AVRAAVADMVK 59
Query: 106 RLGDNTV 112
+L D V
Sbjct: 60 QLDDCRV 66
>gnl|CDD|99809 cd06213, oxygenase_e_transfer_subunit, The oxygenase reductase
FAD/NADH binding domain acts as part of the
multi-component bacterial oxygenases which oxidize
hydrocarbons. Electron transfer is from NADH via FAD (in
the oxygenase reductase) and an [2FE-2S] ferredoxin
center (fused to the FAD/NADH domain and/or discrete) to
the oxygenase. Dioxygenases add both atoms of oxygen to
the substrate while mono-oxygenases add one atom to the
substrate and one atom to water. In dioxygenases, Class
I enzymes are 2 component, containing a reductase with
Rieske type [2Fe-2S] redox centers and an oxygenase.
Class II are 3 component, having discrete flavin and
ferredoxin proteins and an oxygenase. Class III have 2
[2Fe-2S] centers, one fused to the flavin domain and the
other separate.
Length = 227
Score = 26.5 bits (59), Expect = 7.5
Identities = 9/30 (30%), Positives = 15/30 (50%), Gaps = 2/30 (6%)
Query: 83 FDKDNSGNIDKLELKTALGTFGYRLGDNTV 112
F D +G ++L ++ G F R GD +
Sbjct: 76 FGADRTG--ERLTVRGPFGDFWLRPGDAPI 103
>gnl|CDD|232810 TIGR00071, hisT_truA, tRNA pseudouridine(38-40) synthase. Members
of this family are the tRNA modification enzyme TruA,
tRNA pseudouridine(38-40) synthase. In a few species
(e.g. Bacillus anthracis), TruA is represented by two
paralogs [Protein synthesis, tRNA and rRNA base
modification].
Length = 227
Score = 26.5 bits (59), Expect = 7.5
Identities = 6/26 (23%), Positives = 10/26 (38%)
Query: 46 VRLMIGMFDKNNTGQISFEDFGALWK 71
VR ++G G++ E L
Sbjct: 184 VRKIVGALVLVGRGKLPPEWVAKLLD 209
>gnl|CDD|239168 cd02767, MopB_ydeP, The MopB_ydeP CD includes a group of related
uncharacterized bacterial molybdopterin-binding
oxidoreductase-like domains with a putative
molybdopterin cofactor binding site. These members
belong to the molybdopterin_binding (MopB) superfamily
of proteins.
Length = 574
Score = 26.5 bits (59), Expect = 8.6
Identities = 7/13 (53%), Positives = 9/13 (69%)
Query: 123 GKGTILFDDFIHC 135
GKGT+ +DF H
Sbjct: 152 GKGTVSLEDFEHT 164
>gnl|CDD|215877 pfam00360, PHY, Phytochrome region. Phytochromes are red/far-red
photochromic biliprotein photoreceptors which regulate
plant development. They are widely represented in both
photosynthetic and non-photosynthetic bacteria and are
known in a variety of fungi. Although sequence
similarities are low, this domain is structurally
related to pfam01590, which is generally located
immediately N-terminal to this domain. Compared with
pfam01590, this domain carries an additional
tongue-like hairpin loop between the fifth beta-sheet
and the sixth alpha-helix which functions to seal the
chromophore pocket and stabilise the photoactivated
far-red-absorbing state (Pfr). The tongue carries a
conserved PRxSF motif, from which an arginine finger
points into the chromophore pocket close to ring D
forming a salt bridge with a conserved aspartate
residue.
Length = 183
Score = 26.0 bits (58), Expect = 9.9
Identities = 9/27 (33%), Positives = 15/27 (55%), Gaps = 1/27 (3%)
Query: 4 PPPEFLRDIFQRVDR-DKSGLISTNEL 29
P E +RD+ ++R S + ST+ L
Sbjct: 53 PTEEQIRDLAAWLNRESDSTVFSTDSL 79
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
0.323 0.139 0.429
Gapped
Lambda K H
0.267 0.0908 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 8,919,151
Number of extensions: 801959
Number of successful extensions: 710
Number of sequences better than 10.0: 1
Number of HSP's gapped: 688
Number of HSP's successfully gapped: 66
Length of query: 173
Length of database: 10,937,602
Length adjustment: 90
Effective length of query: 83
Effective length of database: 6,945,742
Effective search space: 576496586
Effective search space used: 576496586
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 55 (24.6 bits)