RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy3155
(131 letters)
>gnl|CDD|185504 PTZ00184, PTZ00184, calmodulin; Provisional.
Length = 149
Score = 87.1 bits (216), Expect = 5e-23
Identities = 48/130 (36%), Positives = 85/130 (65%), Gaps = 3/130 (2%)
Query: 2 RKAFQMFDTAKTGFIDTLKISTILNTMGQLFDDTELQALIDENDPDATGKVNFDGFCRIA 61
++AF +FD G I T ++ T++ ++GQ + ELQ +I+E D D G ++F F +
Sbjct: 14 KEAFSLFDKDGDGTITTKELGTVMRSLGQNPTEAELQDMINEVDADGNGTIDFPEFLTLM 73
Query: 62 THFLEEDDAEAMQEELKEAFRLYDREGNGYITTATLREILAALDDKLNPEDLDGIIQEID 121
+++ D+E EE+KEAF+++DR+GNG+I+ A LR ++ L +KL E++D +I+E D
Sbjct: 74 ARKMKDTDSE---EEIKEAFKVFDRDGNGFISAAELRHVMTNLGEKLTDEEVDEMIREAD 130
Query: 122 TDGSGTVDFD 131
DG G ++++
Sbjct: 131 VDGDGQINYE 140
Score = 51.3 bits (123), Expect = 3e-09
Identities = 24/56 (42%), Positives = 36/56 (64%)
Query: 75 EELKEAFRLYDREGNGYITTATLREILAALDDKLNPEDLDGIIQEIDTDGSGTVDF 130
E KEAF L+D++G+G ITT L ++ +L +L +I E+D DG+GT+DF
Sbjct: 11 AEFKEAFSLFDKDGDGTITTKELGTVMRSLGQNPTEAELQDMINEVDADGNGTIDF 66
Score = 40.1 bits (94), Expect = 5e-05
Identities = 17/60 (28%), Positives = 36/60 (60%)
Query: 1 MRKAFQMFDTAKTGFIDTLKISTILNTMGQLFDDTELQALIDENDPDATGKVNFDGFCRI 60
+++AF++FD GFI ++ ++ +G+ D E+ +I E D D G++N++ F ++
Sbjct: 86 IKEAFKVFDRDGNGFISAAELRHVMTNLGEKLTDEEVDEMIREADVDGDGQINYEEFVKM 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 = 86.6 bits (215), Expect = 1e-22
Identities = 44/131 (33%), Positives = 80/131 (61%), Gaps = 4/131 (3%)
Query: 1 MRKAFQMFDTAKTGFIDTLKISTILNTMGQLFDDTELQALIDENDPDATGKVNFDGFCRI 60
+++AFQ+FD G ID ++ IL ++G + E+ L +E D V+F F +
Sbjct: 22 LKEAFQLFDRDSDGLIDRNELGKILRSLGFNPSEAEINKLFEEID-AGNETVDFPEFLTV 80
Query: 61 ATHFLEEDDAEAMQEELKEAFRLYDREGNGYITTATLREILAALDDKLNPEDLDGIIQEI 120
+ L+ D E EEL+EAF+L+D++ +GYI+ LR +L +L ++L+ E+++ +++E
Sbjct: 81 MSVKLKRGDKE---EELREAFKLFDKDHDGYISIGELRRVLKSLGERLSDEEVEKLLKEY 137
Query: 121 DTDGSGTVDFD 131
D DG G +D++
Sbjct: 138 DEDGDGEIDYE 148
Score = 42.7 bits (101), Expect = 6e-06
Identities = 17/59 (28%), Positives = 37/59 (62%)
Query: 2 RKAFQMFDTAKTGFIDTLKISTILNTMGQLFDDTELQALIDENDPDATGKVNFDGFCRI 60
R+AF++FD G+I ++ +L ++G+ D E++ L+ E D D G+++++ F ++
Sbjct: 95 REAFKLFDKDHDGYISIGELRRVLKSLGERLSDEEVEKLLKEYDEDGDGEIDYEEFKKL 153
Score = 37.3 bits (87), Expect = 5e-04
Identities = 23/57 (40%), Positives = 37/57 (64%), Gaps = 1/57 (1%)
Query: 75 EELKEAFRLYDREGNGYITTATLREILAALDDKLNPEDLDGIIQEIDTDGSGTVDFD 131
+ELKEAF+L+DR+ +G I L +IL +L + +++ + +EID G+ TVDF
Sbjct: 20 QELKEAFQLFDRDSDGLIDRNELGKILRSLGFNPSEAEINKLFEEIDA-GNETVDFP 75
>gnl|CDD|185503 PTZ00183, PTZ00183, centrin; Provisional.
Length = 158
Score = 68.9 bits (169), Expect = 9e-16
Identities = 41/131 (31%), Positives = 72/131 (54%), Gaps = 3/131 (2%)
Query: 1 MRKAFQMFDTAKTGFIDTLKISTILNTMGQLFDDTELQALIDENDPDATGKVNFDGFCRI 60
+R+AF +FDT +G ID ++ + ++G E++ +I + D D +GK++F+ F I
Sbjct: 19 IREAFDLFDTDGSGTIDPKELKVAMRSLGFEPKKEEIKQMIADVDKDGSGKIDFEEFLDI 78
Query: 61 ATHFLEEDDAEAMQEELKEAFRLYDREGNGYITTATLREILAALDDKLNPEDLDGIIQEI 120
T L E D EE+ +AFRL+D + G I+ L+ + L + + E+L +I E
Sbjct: 79 MTKKLGERDPR---EEILKAFRLFDDDKTGKISLKNLKRVAKELGETITDEELQEMIDEA 135
Query: 121 DTDGSGTVDFD 131
D +G G + +
Sbjct: 136 DRNGDGEISEE 146
Score = 42.4 bits (100), Expect = 7e-06
Identities = 21/61 (34%), Positives = 39/61 (63%)
Query: 71 EAMQEELKEAFRLYDREGNGYITTATLREILAALDDKLNPEDLDGIIQEIDTDGSGTVDF 130
E ++E++EAF L+D +G+G I L+ + +L + E++ +I ++D DGSG +DF
Sbjct: 13 EDQKKEIREAFDLFDTDGSGTIDPKELKVAMRSLGFEPKKEEIKQMIADVDKDGSGKIDF 72
Query: 131 D 131
+
Sbjct: 73 E 73
Score = 40.8 bits (96), Expect = 3e-05
Identities = 22/62 (35%), Positives = 35/62 (56%)
Query: 1 MRKAFQMFDTAKTGFIDTLKISTILNTMGQLFDDTELQALIDENDPDATGKVNFDGFCRI 60
+ KAF++FD KTG I + + +G+ D ELQ +IDE D + G+++ + F RI
Sbjct: 92 ILKAFRLFDDDKTGKISLKNLKRVAKELGETITDEELQEMIDEADRNGDGEISEEEFYRI 151
Query: 61 AT 62
Sbjct: 152 MK 153
>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 = 57.2 bits (139), Expect = 3e-12
Identities = 25/56 (44%), Positives = 42/56 (75%)
Query: 76 ELKEAFRLYDREGNGYITTATLREILAALDDKLNPEDLDGIIQEIDTDGSGTVDFD 131
EL+EAFRL+D++G+G I+ L+ L +L + L+ E++D +I+E+D DG G +DF+
Sbjct: 1 ELREAFRLFDKDGDGTISADELKAALKSLGEGLSEEEIDEMIREVDKDGDGKIDFE 56
Score = 43.7 bits (104), Expect = 5e-07
Identities = 18/61 (29%), Positives = 33/61 (54%)
Query: 2 RKAFQMFDTAKTGFIDTLKISTILNTMGQLFDDTELQALIDENDPDATGKVNFDGFCRIA 61
R+AF++FD G I ++ L ++G+ + E+ +I E D D GK++F+ F +
Sbjct: 3 REAFRLFDKDGDGTISADELKAALKSLGEGLSEEEIDEMIREVDKDGDGKIDFEEFLELM 62
Query: 62 T 62
Sbjct: 63 A 63
Score = 25.6 bits (57), Expect = 2.6
Identities = 15/58 (25%), Positives = 23/58 (39%), Gaps = 4/58 (6%)
Query: 36 ELQALIDENDPDATGKVNFDGFCRIATHFLEEDDAEAMQEELKEAFRLYDREGNGYIT 93
EL+ D D G ++ D E +EE+ E R D++G+G I
Sbjct: 1 ELREAFRLFDKDGDGTISADELKAALKSLGEGLS----EEEIDEMIREVDKDGDGKID 54
>gnl|CDD|222407 pfam13833, EF_hand_6, EF-hand domain pair.
Length = 53
Score = 40.6 bits (96), Expect = 6e-06
Identities = 17/44 (38%), Positives = 25/44 (56%)
Query: 88 GNGYITTATLREILAALDDKLNPEDLDGIIQEIDTDGSGTVDFD 131
G IT L+ LA L L+ E++D + +E DTDG G + F+
Sbjct: 1 EKGLITREELKRALALLGISLSEEEVDILFREFDTDGDGKISFE 44
Score = 32.5 bits (75), Expect = 0.007
Identities = 14/48 (29%), Positives = 23/48 (47%)
Query: 12 KTGFIDTLKISTILNTMGQLFDDTELQALIDENDPDATGKVNFDGFCR 59
+ G I ++ L +G + E+ L E D D GK++F+ FC
Sbjct: 1 EKGLITREELKRALALLGISLSEEEVDILFREFDTDGDGKISFEEFCV 48
>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 = 37.6 bits (88), Expect = 1e-04
Identities = 16/54 (29%), Positives = 22/54 (40%), Gaps = 2/54 (3%)
Query: 78 KEAFRLYDREGNGYITTATLREILAALDDKLNPEDLDGIIQEIDTDGSGTVDFD 131
+ FR D +G+G I+ R L L L I DTD G +D +
Sbjct: 2 DQIFRSLDPDGDGLISGDEARPFLGKS--GLPRSVLAQIWDLADTDKDGKLDKE 53
Score = 29.1 bits (66), Expect = 0.16
Identities = 16/62 (25%), Positives = 24/62 (38%), Gaps = 3/62 (4%)
Query: 3 KAFQMFDTAKTGFIDTLKISTILNTMGQLFDDTELQALIDENDPDATGKVNFDGFCRIAT 62
+ F+ D G I + L G + L + D D D GK++ + F IA
Sbjct: 3 QIFRSLDPDGDGLISGDEARPFLGKSG--LPRSVLAQIWDLADTDKDGKLDKEEFA-IAM 59
Query: 63 HF 64
H
Sbjct: 60 HL 61
>gnl|CDD|222177 pfam13499, EF_hand_5, EF-hand domain pair.
Length = 60
Score = 36.6 bits (85), Expect = 2e-04
Identities = 21/54 (38%), Positives = 32/54 (59%), Gaps = 4/54 (7%)
Query: 82 RLYDREGNGYITTATLREILAALDDKLNPED----LDGIIQEIDTDGSGTVDFD 131
+L D++G+GYI LR++L AL KL E+ ++ EID DG G + F+
Sbjct: 1 KLLDKDGDGYIDVEELRKLLKALGLKLTDEEVEELIEADFNEIDKDGDGRISFE 54
Score = 29.3 bits (66), Expect = 0.12
Identities = 15/59 (25%), Positives = 30/59 (50%), Gaps = 4/59 (6%)
Query: 6 QMFDTAKTGFIDTLKISTILNTMGQLFDDTELQALIDEN----DPDATGKVNFDGFCRI 60
++ D G+ID ++ +L +G D E++ LI+ + D D G+++F+ F
Sbjct: 1 KLLDKDGDGYIDVEELRKLLKALGLKLTDEEVEELIEADFNEIDKDGDGRISFEEFLEA 59
Score = 28.9 bits (65), Expect = 0.17
Identities = 10/49 (20%), Positives = 24/49 (48%)
Query: 45 DPDATGKVNFDGFCRIATHFLEEDDAEAMQEELKEAFRLYDREGNGYIT 93
D D G ++ + ++ + E ++E ++ F D++G+G I+
Sbjct: 4 DKDGDGYIDVEELRKLLKALGLKLTDEEVEELIEADFNEIDKDGDGRIS 52
>gnl|CDD|205583 pfam13405, EF_hand_4, EF-hand domain.
Length = 30
Score = 33.7 bits (78), Expect = 0.002
Identities = 15/30 (50%), Positives = 24/30 (80%)
Query: 76 ELKEAFRLYDREGNGYITTATLREILAALD 105
EL+EAF+L+D++G+GYI+ LR+ L +L
Sbjct: 1 ELREAFKLFDKDGDGYISAEELRKALRSLG 30
Score = 27.2 bits (61), Expect = 0.38
Identities = 9/29 (31%), Positives = 18/29 (62%)
Query: 1 MRKAFQMFDTAKTGFIDTLKISTILNTMG 29
+R+AF++FD G+I ++ L ++G
Sbjct: 2 LREAFKLFDKDGDGYISAEELRKALRSLG 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 = 33.1 bits (77), Expect = 0.002
Identities = 15/29 (51%), Positives = 22/29 (75%)
Query: 76 ELKEAFRLYDREGNGYITTATLREILAAL 104
ELKEAFRL+D++G+G I +++L AL
Sbjct: 1 ELKEAFRLFDKDGDGKIDFEEFKDLLKAL 29
Score = 25.0 bits (56), Expect = 2.6
Identities = 7/20 (35%), Positives = 11/20 (55%)
Query: 112 DLDGIIQEIDTDGSGTVDFD 131
+L + D DG G +DF+
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 = 32.6 bits (75), Expect = 0.012
Identities = 16/51 (31%), Positives = 21/51 (41%), Gaps = 2/51 (3%)
Query: 81 FRLYDREGNGYITTATLREILAALDDKLNPEDLDGIIQEIDTDGSGTVDFD 131
FR D+ +G +T A + IL L L I D D G +D D
Sbjct: 16 FRSLDKNQDGTVTGAQAKPILLKS--GLPQTLLAKIWNLADIDNDGELDKD 64
>gnl|CDD|200946 pfam00036, efhand, EF hand. The EF-hands can be divided into two
classes: signaling proteins and buffering/transport
proteins. The first group is the largest and includes
the most well-known members of the family such as
calmodulin, troponin C and S100B. These proteins
typically undergo a calcium-dependent conformational
change which opens a target binding site. The latter
group is represented by calbindin D9k and do not undergo
calcium dependent conformational changes.
Length = 29
Score = 30.5 bits (70), Expect = 0.026
Identities = 13/29 (44%), Positives = 21/29 (72%)
Query: 76 ELKEAFRLYDREGNGYITTATLREILAAL 104
ELKEAF+ +D++G+G I+ +E+L L
Sbjct: 1 ELKEAFKEFDKDGDGKISFEEFKELLKKL 29
Score = 25.5 bits (57), Expect = 1.9
Identities = 7/20 (35%), Positives = 11/20 (55%)
Query: 112 DLDGIIQEIDTDGSGTVDFD 131
+L +E D DG G + F+
Sbjct: 1 ELKEAFKEFDKDGDGKISFE 20
>gnl|CDD|100008 cd06151, YjgF_YER057c_UK114_like_3, This group of proteins belong
to a large family of YjgF/YER057c/UK114-like proteins
present in bacteria, archaea, and eukaryotes with no
definitive function. The conserved domain is similar
in structure to chorismate mutase but there is no
sequence similarity and no functional connection.
Members of this family have been implicated in
isoleucine (Yeo7, Ibm1, aldR) and purine (YjgF)
biosynthesis, as well as threonine anaerobic
degradation (tdcF) and mitochondrial DNA maintenance
(Ibm1). This domain homotrimerizes forming a distinct
intersubunit cavity that may serve as a small molecule
binding site.
Length = 126
Score = 30.0 bits (68), Expect = 0.19
Identities = 14/46 (30%), Positives = 24/46 (52%), Gaps = 2/46 (4%)
Query: 20 KISTILNTMG-QLFDDTELQALIDENDPDATGKVNFDGFCRIATHF 64
+I TIL + G + D +++ + DP GK++F GF + F
Sbjct: 49 RIETILQSQGLTMGDVVKMRVFLV-ADPALDGKMDFAGFMKAYRQF 93
>gnl|CDD|99718 cd06396, PB1_NBR1, The PB1 domain is an essential part of NBR1
protein, next to BRCA1, a scaffold protein mediating
specific protein-protein interaction with both titin
protein kinase and with another scaffold protein p62. A
canonical PB1-PB1 interaction, which involves
heterodimerization of two PB1 domain, 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. The NBR1 protein
contains a type I PB1 domain.
Length = 81
Score = 29.0 bits (65), Expect = 0.23
Identities = 14/48 (29%), Positives = 24/48 (50%), Gaps = 4/48 (8%)
Query: 45 DPDATGKVNFDGFCRIATHFLEEDDAEAM---QEELKEAFRLYDREGN 89
+A KV+F I +++E++ E Q E +EA + R+GN
Sbjct: 26 SVEAMVKVSFG-LNDIQIKYVDEENEEVSVNSQGEYEEALKSAVRQGN 72
>gnl|CDD|240384 PTZ00367, PTZ00367, squalene epoxidase; Provisional.
Length = 567
Score = 29.0 bits (65), Expect = 0.68
Identities = 15/49 (30%), Positives = 23/49 (46%), Gaps = 7/49 (14%)
Query: 33 DDTELQALIDENDPDATGKVNFDGFCRIATHFLEEDDAEAMQEELKEAF 81
DD EL+ L+D N P + +L ED A + E ++E+F
Sbjct: 270 DDNELRVLVDYNKPTLPSLEE-------QSEWLIEDVAPHLPENMRESF 311
>gnl|CDD|233605 TIGR01865, cas_Csn1, CRISPR-associated protein Cas9/Csn1, subtype
II/NMEMI. CRISPR loci appear to be mobile elements with
a wide host range. This model represents a protein found
only in CRISPR-containing species, near other
CRISPR-associated proteins (cas), as part of the NMENI
subtype of CRISPR/Cas locus. The species range so far
for this protein is animal pathogens and commensals only
[Mobile and extrachromosomal element functions, Other].
Length = 805
Score = 28.9 bits (65), Expect = 0.71
Identities = 22/109 (20%), Positives = 42/109 (38%), Gaps = 14/109 (12%)
Query: 16 IDTLKISTILNTMGQLFDDTELQALIDENDPDATGKVNFDGFCRIATHFLEEDDAEAMQE 75
++ ++I + ++ E Q L+D K + ++ +DA
Sbjct: 295 LNNVRIIILEQGETKILSKEEKQELLDL-----LFKKKKLTYKKLRKLLGLSEDAIFKGL 349
Query: 76 ELKEAFRLYDREGNGYITTATLREILAALDDKL------NPEDLDGIIQ 118
+ L + E I+ T ++ AL DK NP+DLD I++
Sbjct: 350 RYE---GLDNAEKAFNISLKTYHKLRKALGDKDLLDNPKNPKDLDEIVK 395
>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 = 28.1 bits (63), Expect = 0.73
Identities = 8/26 (30%), Positives = 12/26 (46%)
Query: 70 AEAMQEELKEAFRLYDREGNGYITTA 95
+++LKE LY N +T A
Sbjct: 8 DLTAKDDLKEGLELYGTRNNRGLTNA 33
>gnl|CDD|214890 smart00893, ETF, Electron transfer flavoprotein domain. Electron
transfer flavoproteins (ETFs) serve as specific electron
acceptors for primary dehydrogenases, transferring the
electrons to terminal respiratory systems. They can be
functionally classified into constitutive,
"housekeeping" ETFs, mainly involved in the oxidation of
fatty acids (Group I), and ETFs produced by some
prokaryotes under specific growth conditions, receiving
electrons only from the oxidation of specific substrates
(Group II). ETFs are heterodimeric proteins composed of
an alpha and beta subunit, and contain an FAD cofactor
and AMP. ETF consists of three domains: domains I and II
are formed by the N- and C-terminal portions of the
alpha subunit, respectively, while domain III is formed
by the beta subunit. Domains I and III share an almost
identical alpha-beta-alpha sandwich fold, while domain
II forms an alpha-beta-alpha sandwich similar to that of
bacterial flavodoxins. FAD is bound in a cleft between
domains II and III, while domain III binds the AMP
molecule. Interactions between domains I and III
stabilise the protein, forming a shallow bowl where
domain II resides. This entry represents the N-terminal
domain of both the alpha and beta subunits from Group I
and Group II ETFs.
Length = 185
Score = 28.0 bits (63), Expect = 1.2
Identities = 17/46 (36%), Positives = 23/46 (50%)
Query: 66 EEDDAEAMQEELKEAFRLYDREGNGYITTATLREILAALDDKLNPE 111
EE EA+ + + + D GY T ATL E LAAL + P+
Sbjct: 40 EEALREALAMGADKVYLVDDDALAGYDTLATLAEALAALIKEEKPD 85
>gnl|CDD|178415 PLN02820, PLN02820, 3-methylcrotonyl-CoA carboxylase, beta chain.
Length = 569
Score = 28.2 bits (63), Expect = 1.2
Identities = 17/53 (32%), Positives = 24/53 (45%), Gaps = 19/53 (35%)
Query: 75 EELKEAFR-----LYDREGNGYITTATLREILAALDDKLNPEDLDGIIQEIDT 122
+E +EAF+ Y+RE N Y +TA L + DG+I DT
Sbjct: 505 KEEEEAFKAKTVEAYEREANPYYSTARLWD--------------DGVIDPADT 543
>gnl|CDD|139376 PRK13150, PRK13150, cytochrome c-type biogenesis protein CcmE;
Reviewed.
Length = 159
Score = 28.0 bits (62), Expect = 1.3
Identities = 19/70 (27%), Positives = 27/70 (38%), Gaps = 25/70 (35%)
Query: 75 EELKEAFRLYD-----------------REGNGYITTATL--------REILAALDDKLN 109
+ LK F LYD REG G + TL E+LA D+
Sbjct: 76 DSLKVNFSLYDAEGSVTVSYEGILPDLFREGQGVVVQGTLEKGNHVLAHEVLAKHDENYT 135
Query: 110 PEDLDGIIQE 119
P +++ +QE
Sbjct: 136 PPEVEKAMQE 145
>gnl|CDD|217801 pfam03934, T2SK, Type II secretion system (T2SS), protein K.
Members of this family are involved in the Type II
protein secretion system. The T2SK family includes
proteins such as ExeK, PulK, OutX and XcpX.
Length = 282
Score = 28.0 bits (63), Expect = 1.5
Identities = 12/38 (31%), Positives = 19/38 (50%), Gaps = 1/38 (2%)
Query: 92 ITTATLREILAALDDKLNPEDLDGIIQEIDTDGSGTVD 129
+ TA E+LAAL + L+ ++ DG +VD
Sbjct: 188 VNTAPA-EVLAALFEGLSLSQAQRLLAARPADGFESVD 224
>gnl|CDD|223056 PHA03362, PHA03362, single-stranded binding protein UL29;
Provisional.
Length = 1189
Score = 28.1 bits (63), Expect = 1.6
Identities = 20/86 (23%), Positives = 35/86 (40%), Gaps = 11/86 (12%)
Query: 9 DTAKTGFIDTLKISTILNTMGQLFDDTELQALIDENDP----DATGKVNFDGFCRIATHF 64
+ A+ DT + T+ ++ D E + LID + P D + + F ++
Sbjct: 563 EAARAVMQDTYRA-----TLERVMDYLEKEGLIDPDTPTSGEDTSIIRDRASFMTALSNL 617
Query: 65 --LEEDDAEAMQEELKEAFRLYDREG 88
+++AE L EA REG
Sbjct: 618 NRTVDEEAEQFMRNLVEARDYKIREG 643
>gnl|CDD|217775 pfam03874, RNA_pol_Rpb4, RNA polymerase Rpb4. This family includes
the Rpb4 protein. This family also includes C17 (aka
CGRP-RCP) is an essential subunit of RNA polymerase III.
C17 forms a subcomplex with C25 which is likely to be
the counterpart of subcomplex Rpb4/7 in Pol II.
Length = 110
Score = 26.8 bits (60), Expect = 1.9
Identities = 20/73 (27%), Positives = 32/73 (43%), Gaps = 14/73 (19%)
Query: 57 FCRIATHFLEEDDAEAMQEELKEAFRLYDRE----GNGYI---TTATLREILAALDDKLN 109
F R+ + A + EELKE F L E N + T LR I+ +L+ + +
Sbjct: 43 FSRLKN----PESARELVEELKE-FELTKFEALQIVN--LLPETADELRAIIESLESRFS 95
Query: 110 PEDLDGIIQEIDT 122
E L+ I+ +
Sbjct: 96 EEQLEEILDILSK 108
>gnl|CDD|151380 pfam10933, DUF2827, Protein of unknown function (DUF2827). This is
a family of uncharacterized proteins found in
Burkholderia.
Length = 364
Score = 27.4 bits (61), Expect = 2.5
Identities = 15/58 (25%), Positives = 26/58 (44%), Gaps = 3/58 (5%)
Query: 57 FCRIATHFLEEDDAEAMQEELKEAFRLYDREGNGYITTATLREILAALDDKLNPEDLD 114
A ++ + D +A L AFR +D + + Y A R LA++ NP ++
Sbjct: 303 LLGDAGYYYPDFDIQAGARALLRAFRHHDADLDDYRARA--RSFLASVSIY-NPANVA 357
>gnl|CDD|234609 PRK00068, PRK00068, hypothetical protein; Validated.
Length = 970
Score = 27.3 bits (61), Expect = 2.9
Identities = 22/92 (23%), Positives = 30/92 (32%), Gaps = 6/92 (6%)
Query: 22 STILNTMGQLFDDTELQALIDENDPDATGKVNFDGFCRIATHFLEEDDAEAMQEELKEAF 81
TI + QLF D E + + + A LKEA
Sbjct: 875 PTIREALTQLFGDGAGATATGEAPGETKTPPDPPPTAAPPPPTGPVTLSPAKAAALKEAQ 934
Query: 82 RLYDR----EGNGYITTATLREILAALDDKLN 109
Y++ + +G A E L LDD LN
Sbjct: 935 DAYNKAIEAQKSG--DFAEYGEALKELDDALN 964
>gnl|CDD|129911 TIGR00831, a_cpa1, Na+/H+ antiporter, bacterial form. The
Monovalent Cation:Proton Antiporter-1 (CPA1) Family (TC
2.A.36) The CPA1 family is a large family of proteins
derived from Gram-positive and Gram-negative bacteria,
blue green bacteria, yeast, plants and animals.
Transporters from eukaryotes have been functionally
characterized, and all of these catalyze Na+:H+
exchange. Their primary physiological functions may be
in (1) cytoplasmic pH regulation, extruding the H+
generated during metabolism, and (2) salt tolerance (in
plants), due to Na+ uptake into vacuoles. This model is
specific for the bacterial members of this family
[Transport and binding proteins, Cations and iron
carrying compounds].
Length = 525
Score = 27.2 bits (60), Expect = 3.2
Identities = 16/54 (29%), Positives = 21/54 (38%), Gaps = 11/54 (20%)
Query: 65 LEEDDAEAMQEE-LKEAFRLY----------DREGNGYITTATLREILAALDDK 107
EE M E+ L+ RLY D G I+ L E++ LD K
Sbjct: 466 GEEKIRSGMGEKNLRRRARLYVLDAKRSAVVDLRAGGLISQEVLLELMRELDLK 519
>gnl|CDD|224341 COG1423, COG1423, ATP-dependent DNA ligase, homolog of eukaryotic
ligase III [DNA replication, recombination, and repair].
Length = 382
Score = 26.9 bits (60), Expect = 3.4
Identities = 9/30 (30%), Positives = 15/30 (50%)
Query: 72 AMQEELKEAFRLYDREGNGYITTATLREIL 101
A E++K AFR + G + + +RE
Sbjct: 248 ANIEDIKYAFRFFFELGRDFFFSRIIREGF 277
>gnl|CDD|234402 TIGR03928, T7_EssCb_Firm, type VII secretion protein EssC, C-terminal
domain. This model describes the C-terminal domain, or
longer subunit, of the Firmicutes type VII secretion
protein EssC. This protein (homologous to EccC in
Actinobacteria) and the WXG100 target proteins are the
only homologous parts of type VII secretion between
Firmicutes and Actinobacteria [Protein fate, Protein and
peptide secretion and trafficking].
Length = 1296
Score = 26.9 bits (60), Expect = 3.7
Identities = 22/90 (24%), Positives = 38/90 (42%), Gaps = 9/90 (10%)
Query: 21 ISTILNTMGQLFDDTELQALIDENDPDATGKVNFDGFCRIATHFLEEDDAEAMQEELKEA 80
+ ++L T+ + + E LID D G + + +AT+ E++D + + ELKE
Sbjct: 1113 LKSLLKTLAK--QEKEKIGLIDSID---RGLLAYRDLKEVATYIEEKEDLKEILAELKEE 1167
Query: 81 FRL----YDREGNGYITTATLREILAALDD 106
L Y + IL +DD
Sbjct: 1168 IELREAAYKEALQNETGEPAFKPILLIIDD 1197
>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 = 25.6 bits (56), Expect = 4.3
Identities = 20/67 (29%), Positives = 36/67 (53%), Gaps = 7/67 (10%)
Query: 71 EAMQEELKEAFRLYD-REGNGY-ITTATLREILAA-----LDDKLNPEDLDGIIQEIDTD 123
E E L F + +EG+ Y ++ L+++L LD + + + +D I++E+D +
Sbjct: 5 ETAMETLINVFHAHSGKEGDKYKLSKKELKDLLQTELSDFLDAQKDADAVDKIMKELDEN 64
Query: 124 GSGTVDF 130
G G VDF
Sbjct: 65 GDGEVDF 71
>gnl|CDD|232962 TIGR00409, proS_fam_II, prolyl-tRNA synthetase, family II.
Prolyl-tRNA synthetase is a class II tRNA synthetase and
is recognized by pfam model tRNA-synt_2b, which
recognizes tRNA synthetases for Gly, His, Ser, and Pro.
The prolyl-tRNA synthetases are divided into two widely
divergent groups. This group includes enzymes from
Escherichia coli, Bacillus subtilis, Aquifex aeolicus,
the spirochete Treponema pallidum, Synechocystis
PCC6803, and one of the two prolyL-tRNA synthetases of
Saccharomyces cerevisiae. The other group includes the
Pro-specific domain of a human multifunctional tRNA
ligase and the prolyl-tRNA synthetases from the Archaea,
the Mycoplasmas, and the spirochete Borrelia burgdorferi
[Protein synthesis, tRNA aminoacylation].
Length = 568
Score = 26.3 bits (58), Expect = 5.1
Identities = 9/27 (33%), Positives = 14/27 (51%)
Query: 78 KEAFRLYDREGNGYITTATLREILAAL 104
E RL DR+G ++ T E++ L
Sbjct: 91 PELLRLKDRKGREFVLGPTHEEVITDL 117
>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 = 5.5
Identities = 9/11 (81%), Positives = 10/11 (90%)
Query: 74 QEELKEAFRLY 84
Q EL+EAFRLY
Sbjct: 58 QMELEEAFRLY 68
>gnl|CDD|178335 PLN02734, PLN02734, glycyl-tRNA synthetase.
Length = 684
Score = 26.2 bits (58), Expect = 5.5
Identities = 13/33 (39%), Positives = 19/33 (57%), Gaps = 1/33 (3%)
Query: 95 ATLREILAALDDKLNPEDLDGIIQEIDTDGSGT 127
A L+++LA LDD L+ E+L I+E T
Sbjct: 192 AELKDVLAVLDD-LSAEELGAKIKEYGIKAPDT 223
>gnl|CDD|130740 TIGR01679, bact_FAD_ox, FAD-linked oxidoreductase. This model
represents a family of bacterial oxidoreductases with
covalently linked FAD, closely related to two different
eukaryotic oxidases, L-gulonolactone oxidase (EC
1.1.3.8) from rat and D-arabinono-1,4-lactone oxidase
(EC 1.1.3.37) from Saccharomyces cerevisiae.
Length = 419
Score = 26.4 bits (58), Expect = 5.5
Identities = 23/64 (35%), Positives = 30/64 (46%), Gaps = 10/64 (15%)
Query: 58 CRIATHFLEEDDAEAMQEELKEAFRLYD-REGNG---YITTATLREI------LAALDDK 107
C IA H D E+ ++ FR Y R G Y+T ATLRE AA+ D
Sbjct: 343 CSIAVHQYAGMDFESYFRAVEPIFRRYAGRPHWGKRHYLTAATLRERYPRWDDFAAVRDD 402
Query: 108 LNPE 111
L+P+
Sbjct: 403 LDPD 406
>gnl|CDD|234298 TIGR03659, IsdE, heme ABC transporter, heme-binding protein isdE.
This family of ABC substrate-binding proteins is
observed primarily in close proximity with proteins
localized to the cell wall and bearing the NEAT (NEAr
Transporter, pfam05031) heme-binding domain. IsdE has
been shown to bind heme and is involved in the process
of scavenging heme for the purpose of obtaining iron.
Length = 289
Score = 26.1 bits (58), Expect = 5.7
Identities = 7/31 (22%), Positives = 12/31 (38%)
Query: 60 IATHFLEEDDAEAMQEELKEAFRLYDREGNG 90
+ FL + M++ + E Y RE
Sbjct: 114 VEATFLNLTSVDGMKKSITELGEKYGREEQA 144
>gnl|CDD|177817 PLN02157, PLN02157, 3-hydroxyisobutyryl-CoA hydrolase-like protein.
Length = 401
Score = 26.2 bits (57), Expect = 6.6
Identities = 8/22 (36%), Positives = 16/22 (72%)
Query: 58 CRIATHFLEEDDAEAMQEELKE 79
C +ATH++ ++ M+E+LK+
Sbjct: 211 CGLATHYIRSEEIPVMEEQLKK 232
>gnl|CDD|224101 COG1180, PflA, Pyruvate-formate lyase-activating enzyme
[Posttranslational modification, protein turnover,
chaperones].
Length = 260
Score = 26.1 bits (58), Expect = 6.6
Identities = 10/44 (22%), Positives = 15/44 (34%), Gaps = 7/44 (15%)
Query: 69 DAEAMQEELKEAFRLYDREG-------NGYITTATLREILAALD 105
+ E + R G NG++ L E+L LD
Sbjct: 93 EPTLQAEFALDLLRAAKERGLHVALDTNGFLPPEALEELLPLLD 136
>gnl|CDD|111035 pfam02093, Gag_p30, Gag P30 core shell protein. According to
Swiss-Prot annotation this protein is the viral core
shell protein. P30 is essential for viral assembly.
Length = 211
Score = 26.0 bits (57), Expect = 6.7
Identities = 16/49 (32%), Positives = 23/49 (46%), Gaps = 4/49 (8%)
Query: 72 AMQEELKEAFRLY---DREGNGYITTATLREI-LAALDDKLNPEDLDGI 116
A E LKEA+R Y D E G + I +A D + + L+G+
Sbjct: 142 AFLERLKEAYRRYTPFDPEDPGQKANVAMSFIWQSAPDIRKKLQRLEGL 190
>gnl|CDD|187839 cd09708, Csf4_U, CRISPR/Cas system-associated DinG family helicase
Csf4. 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;
DinG family DNA helicase.
Length = 632
Score = 26.1 bits (57), Expect = 6.8
Identities = 13/65 (20%), Positives = 26/65 (40%), Gaps = 9/65 (13%)
Query: 63 HFLEEDD---AEAMQEELKEAFRLYDREGNGYITTATLREILAALDDKLNPEDLDGIIQE 119
E + AE + ++ F +E +++ L+E+L D P D D +++
Sbjct: 61 QLWSELERLTAEGLAGPVQAGFFPGSQE---FVSPGALQELL---DQSDGPGDKDAVVRL 114
Query: 120 IDTDG 124
G
Sbjct: 115 WMGQG 119
>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 = 6.8
Identities = 9/33 (27%), Positives = 12/33 (36%)
Query: 89 NGYITTATLREILAALDDKLNPEDLDGIIQEID 121
T EI L K + ED++ EI
Sbjct: 35 EEGKDKETPEEIKEKLKGKYSEEDIEEAYDEIT 67
>gnl|CDD|214753 smart00636, Glyco_18, Glyco_18 domain.
Length = 334
Score = 26.1 bits (58), Expect = 7.3
Identities = 16/56 (28%), Positives = 25/56 (44%), Gaps = 10/56 (17%)
Query: 75 EELKEAFRLYDREGNGYITTATLREILAALDDKLNPEDLDGIIQEIDTDGSGTVDF 130
+EL+EA EG GY+ T + A DK+ + G + I + +DF
Sbjct: 133 KELREALDKEGAEGKGYLLTIA----VPAGPDKI--DKGYGDLPAI----AKYLDF 178
>gnl|CDD|223683 COG0610, COG0610, Type I site-specific restriction-modification
system, R (restriction) subunit and related helicases
[Defense mechanisms].
Length = 962
Score = 25.8 bits (57), Expect = 7.6
Identities = 10/28 (35%), Positives = 15/28 (53%)
Query: 73 MQEELKEAFRLYDREGNGYITTATLREI 100
++E LK+A +LY EG + A I
Sbjct: 652 LKEALKKALKLYSNEGEEDLKEALEEAI 679
>gnl|CDD|185705 cd07894, Adenylation_RNA_ligase, Adenylation domain of RNA
circularization proteins. RNA circularization proteins
are capable of circularizing RNA molecules in an
ATP-dependent reaction. RNA circularization may protect
RNA from exonuclease activity. This model comprises the
adenylation domain, the minimal catalytic unit that is
common to all members of the ATP-dependent DNA ligase
family, and the carboxy-terminal extension of RNA
circularization protein that serves as a dimerization
module. ATP-dependent polynucleotide ligases catalyze
phosphodiester bond formation of nicked nucleic acid
substrates using the high energy nucleotide of ATP as a
cofactor in a three step reaction mechanism. The
adenylation domain binds ATP and contains many active
site residues.
Length = 342
Score = 26.0 bits (58), Expect = 7.7
Identities = 9/51 (17%), Positives = 24/51 (47%)
Query: 70 AEAMQEELKEAFRLYDREGNGYITTATLREILAALDDKLNPEDLDGIIQEI 120
+ + +++ AFR G + + +RE +++ + E+L+ E+
Sbjct: 205 SYSNCSDIRYAFRYPFDLGRDFFFSRIVREGFQSVELGESEEELEERALEL 255
>gnl|CDD|224719 COG1806, COG1806, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 273
Score = 25.7 bits (57), Expect = 8.3
Identities = 11/37 (29%), Positives = 16/37 (43%), Gaps = 2/37 (5%)
Query: 69 DAEAMQEELKEAFRLYDREGNGYI--TTATLREILAA 103
+ +EEL A L+ R G I T ++ E A
Sbjct: 225 SLDQCREELAYAEALFRRNGIPVIDVTNKSIEETAAK 261
>gnl|CDD|232918 TIGR00321, dhys, deoxyhypusine synthase. Deoxyhypusine synthase is
responsible for the first step in creating hypusine.
Hypusine is a modified amino acid found in eukaryotes
and in archaea in their respective forms of initiation
factor 5A. Its presence is confirmed in archaeal genera
Pyrococcus (PMID:12761201), Sulfolobus, Halobacterium,
and Haloferax (PMID:10648545), but in an older report
was not detected in Methanococcus voltae (J Biol Chem
1987 Dec 5;262(34):16585-9). This family of apparent
orthologs has an unusual UPGMA difference tree, in which
the members from the archaea M. jannaschii and P.
horikoshii cluster with the known eukaryotic
deoxyhypusine synthases. Separated by a fairly deep
branch, although still strongly related, is a small
cluster of proteins from Methanobacterium
thermoautotrophicum and Archeoglobus fulgidus, the
latter of which has two [Protein fate, Protein
modification and repair].
Length = 301
Score = 25.8 bits (57), Expect = 8.4
Identities = 22/98 (22%), Positives = 34/98 (34%), Gaps = 2/98 (2%)
Query: 14 GFIDTLKISTILNTMGQLFDD-TELQALIDENDPDATGKVNFD-GFCRIATHFLEEDDAE 71
I I ++ T L D E D K + G RI F+ ++ E
Sbjct: 67 YLIQHGMIDALVTTGANLEHDLIEALGPTHLGDFAVDDKKLREEGINRIGDVFVPNENFE 126
Query: 72 AMQEELKEAFRLYDREGNGYITTATLREILAALDDKLN 109
+E L E F E + + EI ++DK +
Sbjct: 127 VFEEWLVEIFSEMLGEQPIITPSEFIDEIGKRINDKRS 164
>gnl|CDD|185333 PRK15435, PRK15435, bifunctional DNA-binding transcriptional dual
regulator/O6-methylguanine-DNA methyltransferase;
Provisional.
Length = 353
Score = 25.5 bits (56), Expect = 8.9
Identities = 16/55 (29%), Positives = 25/55 (45%), Gaps = 4/55 (7%)
Query: 56 GFCRIATHFLEEDDAEAMQEELKEAFRLYDREGNGYITTATLREILAALDDKLNP 110
G C I L DD A+ EL++ F D +RE++A+L+ + P
Sbjct: 209 GICAI----LLGDDDAALISELQQMFPAADNAPADLTFQQHVREVIASLNQRDTP 259
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
0.318 0.138 0.386
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: 7,167,893
Number of extensions: 683633
Number of successful extensions: 1375
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1356
Number of HSP's successfully gapped: 131
Length of query: 131
Length of database: 10,937,602
Length adjustment: 86
Effective length of query: 45
Effective length of database: 7,123,158
Effective search space: 320542110
Effective search space used: 320542110
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 53 (24.1 bits)