Query 013828
Match_columns 436
No_of_seqs 138 out of 154
Neff 2.7
Searched_HMMs 46136
Date Fri Mar 29 07:47:57 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/013828.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/013828hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0825 PHD Zn-finger protein 98.7 3.8E-09 8.3E-14 114.7 2.1 50 2-52 215-264 (1134)
2 PF00628 PHD: PHD-finger; Int 98.4 1E-07 2.2E-12 69.2 1.5 48 4-53 1-50 (51)
3 KOG4443 Putative transcription 98.4 1.2E-07 2.6E-12 101.5 2.0 72 3-82 69-140 (694)
4 smart00249 PHD PHD zinc finger 98.2 1.3E-06 2.8E-11 59.9 3.4 47 4-51 1-47 (47)
5 KOG1512 PHD Zn-finger protein 97.8 7.3E-06 1.6E-10 82.1 1.6 48 3-54 315-363 (381)
6 KOG4299 PHD Zn-finger protein 97.6 1.6E-05 3.4E-10 85.1 1.0 53 3-57 254-308 (613)
7 KOG1245 Chromatin remodeling c 97.6 8.9E-06 1.9E-10 93.6 -1.0 53 2-56 1108-1160(1404)
8 KOG0955 PHD finger protein BR1 97.5 4.6E-05 1E-09 85.8 2.9 54 1-58 218-273 (1051)
9 cd04718 BAH_plant_2 BAH, or Br 97.5 6.4E-05 1.4E-09 68.6 2.5 31 28-59 2-32 (148)
10 KOG0956 PHD finger protein AF1 97.2 0.00015 3.1E-09 79.2 1.4 52 1-56 4-59 (900)
11 PF13831 PHD_2: PHD-finger; PD 97.2 8.8E-05 1.9E-09 53.0 -0.2 35 15-52 2-36 (36)
12 KOG0954 PHD finger protein [Ge 96.7 0.00054 1.2E-08 75.3 1.0 49 2-54 271-321 (893)
13 KOG0957 PHD finger protein [Ge 96.2 0.0024 5.2E-08 68.3 2.0 50 1-51 543-595 (707)
14 KOG0383 Predicted helicase [Ge 95.7 0.0035 7.5E-08 68.7 0.8 48 3-55 48-95 (696)
15 KOG4323 Polycomb-like PHD Zn-f 95.3 0.0059 1.3E-07 64.3 0.9 53 3-56 169-226 (464)
16 COG5141 PHD zinc finger-contai 95.1 0.0081 1.8E-07 64.3 1.0 49 2-54 193-243 (669)
17 KOG1246 DNA-binding protein ju 91.4 0.14 3.1E-06 57.0 3.0 49 3-54 156-204 (904)
18 KOG0957 PHD finger protein [Ge 80.0 1.2 2.6E-05 48.6 2.4 53 4-57 121-182 (707)
19 KOG4443 Putative transcription 76.8 0.66 1.4E-05 51.3 -0.6 53 5-58 21-75 (694)
20 PF07649 C1_3: C1-like domain; 76.2 1.1 2.3E-05 30.4 0.5 28 4-32 2-29 (30)
21 PF15446 zf-PHD-like: PHD/FYVE 73.3 1.7 3.7E-05 41.4 1.2 31 4-35 1-34 (175)
22 PF14446 Prok-RING_1: Prokaryo 72.4 2.4 5.2E-05 33.6 1.7 33 2-35 5-38 (54)
23 KOG1844 PHD Zn-finger proteins 68.0 3.1 6.6E-05 42.8 1.8 47 6-55 89-136 (508)
24 KOG4299 PHD Zn-finger protein 65.8 7.7 0.00017 43.0 4.3 107 3-120 48-163 (613)
25 PRK14559 putative protein seri 62.1 6.5 0.00014 43.4 3.0 51 3-56 2-52 (645)
26 COG4393 Predicted membrane pro 57.6 3.5 7.7E-05 43.2 0.1 23 4-26 336-360 (405)
27 PLN02400 cellulose synthase 53.5 13 0.00029 43.6 3.8 52 3-59 37-92 (1085)
28 COG1773 Rubredoxin [Energy pro 52.2 9.4 0.0002 30.5 1.7 41 3-53 4-44 (55)
29 PF03107 C1_2: C1 domain; Int 50.5 14 0.00031 25.2 2.2 29 4-33 2-30 (30)
30 PF10080 DUF2318: Predicted me 48.1 11 0.00023 33.0 1.5 26 4-30 37-64 (102)
31 PF05502 Dynactin_p62: Dynacti 47.3 9.6 0.00021 40.6 1.3 35 15-56 3-37 (483)
32 PF13832 zf-HC5HC2H_2: PHD-zin 44.9 12 0.00027 31.0 1.4 32 2-36 55-88 (110)
33 PLN02189 cellulose synthase 43.9 19 0.00042 42.1 3.2 50 3-57 35-88 (1040)
34 PLN02915 cellulose synthase A 43.4 19 0.00041 42.2 3.0 51 3-58 16-70 (1044)
35 PLN02436 cellulose synthase A 42.4 22 0.00047 41.9 3.2 50 3-57 37-90 (1094)
36 PLN02638 cellulose synthase A 42.0 19 0.00041 42.4 2.7 52 3-59 18-73 (1079)
37 PF14569 zf-UDP: Zinc-binding 40.7 6.9 0.00015 33.4 -0.7 53 2-59 9-65 (80)
38 KOG1632 Uncharacterized PHD Zn 39.8 15 0.00032 37.7 1.3 52 7-59 64-118 (345)
39 PF00130 C1_1: Phorbol esters/ 39.6 30 0.00064 25.3 2.5 34 2-36 11-46 (53)
40 KOG0956 PHD finger protein AF1 37.9 25 0.00054 40.1 2.7 81 2-83 117-210 (900)
41 PLN02195 cellulose synthase A 34.0 24 0.00053 41.2 1.9 49 2-55 6-58 (977)
42 cd00350 rubredoxin_like Rubred 33.8 23 0.0005 24.7 1.1 11 44-54 16-26 (33)
43 PF14205 Cys_rich_KTR: Cystein 33.3 23 0.00049 28.5 1.1 12 14-25 25-36 (55)
44 KOG4218 Nuclear hormone recept 31.9 20 0.00043 38.1 0.8 27 3-30 16-44 (475)
45 PF12773 DZR: Double zinc ribb 31.2 39 0.00084 24.6 2.0 39 5-55 1-39 (50)
46 KOG4216 Steroid hormone nuclea 31.1 18 0.00039 38.9 0.3 27 2-29 46-74 (479)
47 PRK14714 DNA polymerase II lar 30.5 63 0.0014 39.0 4.5 21 3-26 668-688 (1337)
48 PF13248 zf-ribbon_3: zinc-rib 29.5 31 0.00067 22.9 1.1 23 1-24 1-23 (26)
49 KOG1705 Uncharacterized conser 28.5 27 0.0006 31.0 1.0 59 4-64 29-91 (110)
50 COG1107 Archaea-specific RecJ- 28.3 38 0.00083 38.1 2.2 52 3-55 54-105 (715)
51 PRK04023 DNA polymerase II lar 28.2 41 0.00089 39.8 2.5 35 3-55 627-661 (1121)
52 PF02977 CarbpepA_inh: Carboxy 26.9 30 0.00066 27.0 0.8 21 28-52 8-28 (46)
53 TIGR02098 MJ0042_CXXC MJ0042 f 26.8 51 0.0011 22.9 1.9 25 1-25 1-33 (38)
54 KOG1473 Nucleosome remodeling 26.6 11 0.00024 44.8 -2.3 49 2-55 428-480 (1414)
55 cd03031 GRX_GRX_like Glutaredo 26.5 70 0.0015 29.2 3.2 43 3-54 100-142 (147)
56 KOG1080 Histone H3 (Lys4) meth 26.0 50 0.0011 38.8 2.7 48 3-53 574-623 (1005)
57 KOG1734 Predicted RING-contain 25.4 16 0.00034 37.7 -1.2 59 2-64 224-289 (328)
58 KOG1244 Predicted transcriptio 24.6 18 0.0004 37.2 -0.9 54 2-57 224-287 (336)
59 KOG1512 PHD Zn-finger protein 24.6 20 0.00043 37.3 -0.7 53 3-56 259-319 (381)
60 TIGR01206 lysW lysine biosynth 24.5 77 0.0017 25.0 2.7 34 1-35 1-39 (54)
61 KOG2041 WD40 repeat protein [G 22.5 59 0.0013 37.8 2.3 50 3-56 1118-1167(1189)
62 cd00029 C1 Protein kinase C co 22.4 63 0.0014 22.7 1.7 34 2-36 11-46 (50)
63 KOG1473 Nucleosome remodeling 22.3 63 0.0014 38.9 2.6 48 3-55 345-392 (1414)
64 smart00109 C1 Protein kinase C 22.3 41 0.00088 23.3 0.7 34 2-36 11-45 (49)
65 TIGR00270 conserved hypothetic 22.1 37 0.00081 31.2 0.6 22 4-25 2-32 (154)
66 PF13771 zf-HC5HC2H: PHD-like 22.0 50 0.0011 26.3 1.3 31 2-36 36-69 (90)
67 PF01753 zf-MYND: MYND finger; 21.9 67 0.0015 22.4 1.8 23 5-34 1-23 (37)
68 PF04981 NMD3: NMD3 family ; 21.7 54 0.0012 31.4 1.6 46 5-57 1-47 (236)
69 cd00729 rubredoxin_SM Rubredox 20.4 41 0.0009 23.8 0.4 22 4-25 4-26 (34)
No 1
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=98.72 E-value=3.8e-09 Score=114.70 Aligned_cols=50 Identities=26% Similarity=0.654 Sum_probs=46.8
Q ss_pred CcccccccCCCcccceeeccCCCCCceeeccCCCCCCCCCCCCcccccccc
Q 013828 2 VTVCQQCGDKGFYEALIGCEKCQTTAVHIYCLPVLPASFEDDVLWYCEDCE 52 (436)
Q Consensus 2 vtVC~ICGD~GfED~LllCd~Cd~~AeHtYCL~~~l~sVPE~g~W~C~eCq 52 (436)
++.|.||+.-+-+|+||+||.|+.+.+|+|||++.+..+|. +.|||+.|.
T Consensus 215 ~~~C~IC~~~DpEdVLLLCDsCN~~~YH~YCLDPdl~eiP~-~eWYC~NC~ 264 (1134)
T KOG0825|consen 215 EVKCDICTVHDPEDVLLLCDSCNKVYYHVYCLDPDLSESPV-NEWYCTNCS 264 (1134)
T ss_pred cccceeeccCChHHhheeecccccceeeccccCcccccccc-cceecCcch
Confidence 57899999999999999999999977999999998889996 899999994
No 2
>PF00628 PHD: PHD-finger; InterPro: IPR019787 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the PHD (homeodomain) zinc finger domain [,], which is a C4HC3 zinc-finger-like motif found in nuclear proteins thought to be involved in chromatin-mediated transcriptional regulation. The PHD finger motif is reminiscent of, but distinct from the C3HC4 type RING finger. The function of this domain is not yet known but in analogy with the LIM domain it could be involved in protein-protein interaction and be important for the assembly or activity of multicomponent complexes involved in transcriptional activation or repression. Alternatively, the interactions could be intra-molecular and be important in maintaining the structural integrity of the protein. In similarity to the RING finger and the LIM domain, the PHD finger is thought to bind two zinc ions. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0005515 protein binding; PDB: 3ZVY_A 2LGG_A 3SOW_A 3SOU_B 3ASL_A 3ASK_A 3ZVZ_B 3T6R_A 2LGK_A 3SOX_B ....
Probab=98.40 E-value=1e-07 Score=69.24 Aligned_cols=48 Identities=27% Similarity=0.720 Sum_probs=41.3
Q ss_pred ccccccCCCcccceeeccCCCCCceeeccCCCCCC--CCCCCCccccccccc
Q 013828 4 VCQQCGDKGFYEALIGCEKCQTTAVHIYCLPVLPA--SFEDDVLWYCEDCEP 53 (436)
Q Consensus 4 VC~ICGD~GfED~LllCd~Cd~~AeHtYCL~~~l~--sVPE~g~W~C~eCqs 53 (436)
+|.+||..+.++.++.|+.|+. .+|.+|+++... .++. +.|+|+.|+.
T Consensus 1 ~C~vC~~~~~~~~~i~C~~C~~-~~H~~C~~~~~~~~~~~~-~~w~C~~C~~ 50 (51)
T PF00628_consen 1 YCPVCGQSDDDGDMIQCDSCNR-WYHQECVGPPEKAEEIPS-GDWYCPNCRP 50 (51)
T ss_dssp EBTTTTSSCTTSSEEEBSTTSC-EEETTTSTSSHSHHSHHS-SSBSSHHHHH
T ss_pred eCcCCCCcCCCCCeEEcCCCCh-hhCcccCCCChhhccCCC-CcEECcCCcC
Confidence 5899999999999999999995 899999999766 3332 5999999974
No 3
>KOG4443 consensus Putative transcription factor HALR/MLL3, involved in embryonic development [General function prediction only]
Probab=98.38 E-value=1.2e-07 Score=101.47 Aligned_cols=72 Identities=24% Similarity=0.524 Sum_probs=59.4
Q ss_pred cccccccCCCcccceeeccCCCCCceeeccCCCCCCCCCCCCcccccccccccCCCCCccCCCCCCCCCCCCCcchhHHH
Q 013828 3 TVCQQCGDKGFYEALIGCEKCQTTAVHIYCLPVLPASFEDDVLWYCEDCEPKVAKPSTIVNPSSVLGGRCDSDSENLEIV 82 (436)
Q Consensus 3 tVC~ICGD~GfED~LllCd~Cd~~AeHtYCL~~~l~sVPE~g~W~C~eCqs~~~~~s~~~n~ss~~~~~~e~~s~~~qi~ 82 (436)
++|+.||-.|++-.+++|++|++ ++|+||+.+..+.||. |.|+|.||..-..-.+ -.+|..+++...++||-
T Consensus 69 rvCe~c~~~gD~~kf~~Ck~cDv-syh~yc~~P~~~~v~s-g~~~ckk~~~c~qc~~------~lpg~s~~~~~~~~~~~ 140 (694)
T KOG4443|consen 69 RVCEACGTTGDPKKFLLCKRCDV-SYHCYCQKPPNDKVPS-GPWLCKKCTRCRQCDS------TLPGLSLDLQEGYLQCA 140 (694)
T ss_pred eeeeeccccCCcccccccccccc-cccccccCCccccccC-cccccHHHHhhhhccc------cccccchhhhccCcccc
Confidence 68999999999999999999996 8999999999999996 9999999976655444 34445666666666643
No 4
>smart00249 PHD PHD zinc finger. The plant homeodomain (PHD) finger is a C4HC3 zinc-finger-like motif found in nuclear proteins thought to be involved in epigenetics and chromatin-mediated transcriptional regulation. The PHD finger binds two zinc ions using the so-called 'cross-brace' motif and is thus structurally related to the KOG1512 consensus PHD Zn-finger protein [General function prediction only]
Probab=97.81 E-value=7.3e-06 Score=82.15 Aligned_cols=48 Identities=19% Similarity=0.600 Sum_probs=41.6
Q ss_pred cccccccCCCcccceeeccCCCCCceeeccCCCCCCCCCCCCccccc-ccccc
Q 013828 3 TVCQQCGDKGFYEALIGCEKCQTTAVHIYCLPVLPASFEDDVLWYCE-DCEPK 54 (436)
Q Consensus 3 tVC~ICGD~GfED~LllCd~Cd~~AeHtYCL~~~l~sVPE~g~W~C~-eCqs~ 54 (436)
..|.|||..--|+-+++||.|+. .+||||.++ ..+|. |.|+|+ .|...
T Consensus 315 ~lC~IC~~P~~E~E~~FCD~CDR-G~HT~CVGL--~~lP~-G~WICD~~C~~~ 363 (381)
T KOG1512|consen 315 ELCRICLGPVIESEHLFCDVCDR-GPHTLCVGL--QDLPR-GEWICDMRCREA 363 (381)
T ss_pred HhhhccCCcccchheeccccccC-CCCcccccc--ccccC-ccchhhhHHHHh
Confidence 36999999999999999999996 699999997 69995 999999 45433
No 6
>KOG4299 consensus PHD Zn-finger protein [General function prediction only]
Probab=97.63 E-value=1.6e-05 Score=85.15 Aligned_cols=53 Identities=26% Similarity=0.802 Sum_probs=47.2
Q ss_pred cccccccCCCcccceeeccCCCCCceeeccCCCC--CCCCCCCCcccccccccccCC
Q 013828 3 TVCQQCGDKGFYEALIGCEKCQTTAVHIYCLPVL--PASFEDDVLWYCEDCEPKVAK 57 (436)
Q Consensus 3 tVC~ICGD~GfED~LllCd~Cd~~AeHtYCL~~~--l~sVPE~g~W~C~eCqs~~~~ 57 (436)
..|..|+..|.-..+++||.|.. .+|.||+.++ +..+|. |.|||++|......
T Consensus 254 ~fCsaCn~~~~F~~~i~CD~Cp~-sFH~~CLePPl~~eniP~-g~W~C~ec~~k~~i 308 (613)
T KOG4299|consen 254 DFCSACNGSGLFNDIICCDGCPR-SFHQTCLEPPLEPENIPP-GSWFCPECKIKSVI 308 (613)
T ss_pred HHHHHhCCccccccceeecCCch-HHHHhhcCCCCCcccCCC-CccccCCCeeeeec
Confidence 37999999999899999999995 8999999998 789994 89999999877543
No 7
>KOG1245 consensus Chromatin remodeling complex WSTF-ISWI, large subunit (contains heterochromatin localization, PHD and BROMO domains) [Chromatin structure and dynamics]
Probab=97.63 E-value=8.9e-06 Score=93.62 Aligned_cols=53 Identities=25% Similarity=0.654 Sum_probs=48.6
Q ss_pred CcccccccCCCcccceeeccCCCCCceeeccCCCCCCCCCCCCcccccccccccC
Q 013828 2 VTVCQQCGDKGFYEALIGCEKCQTTAVHIYCLPVLPASFEDDVLWYCEDCEPKVA 56 (436)
Q Consensus 2 vtVC~ICGD~GfED~LllCd~Cd~~AeHtYCL~~~l~sVPE~g~W~C~eCqs~~~ 56 (436)
..-|.+|...+..+.+++|+.|.. .+|.||+++.+.++|. ++|+|++|+....
T Consensus 1108 ~~~c~~cr~k~~~~~m~lc~~c~~-~~h~~C~rp~~~~~~~-~dW~C~~c~~e~~ 1160 (1404)
T KOG1245|consen 1108 NALCKVCRRKKQDEKMLLCDECLS-GFHLFCLRPALSSVPP-GDWMCPSCRKEHR 1160 (1404)
T ss_pred hhhhhhhhhcccchhhhhhHhhhh-hHHHHhhhhhhccCCc-CCccCCccchhhh
Confidence 357999999999999999999996 7999999999999995 9999999998763
No 8
>KOG0955 consensus PHD finger protein BR140/LIN-49 [General function prediction only]
Probab=97.53 E-value=4.6e-05 Score=85.84 Aligned_cols=54 Identities=26% Similarity=0.590 Sum_probs=45.0
Q ss_pred CCcccccccCCCcc--cceeeccCCCCCceeeccCCCCCCCCCCCCcccccccccccCCC
Q 013828 1 MVTVCQQCGDKGFY--EALIGCEKCQTTAVHIYCLPVLPASFEDDVLWYCEDCEPKVAKP 58 (436)
Q Consensus 1 mvtVC~ICGD~GfE--D~LllCd~Cd~~AeHtYCL~~~l~sVPE~g~W~C~eCqs~~~~~ 58 (436)
+..+|+||-+..-. +.+++||+|+. +.|.||.+++ -+|| |.|+|-.|.....+.
T Consensus 218 ~D~~C~iC~~~~~~n~n~ivfCD~Cnl-~VHq~Cygi~--~ipe-g~WlCr~Cl~s~~~~ 273 (1051)
T KOG0955|consen 218 EDAVCCICLDGECQNSNVIVFCDGCNL-AVHQECYGIP--FIPE-GQWLCRRCLQSPQRP 273 (1051)
T ss_pred CCccceeecccccCCCceEEEcCCCcc-hhhhhccCCC--CCCC-CcEeehhhccCcCcc
Confidence 36799999776655 99999999997 8999999964 6775 999999998666544
No 9
>cd04718 BAH_plant_2 BAH, or Bromo Adjacent Homology domain, plant-specific sub-family with unknown function. BAH domains are found in a variety of proteins playing roles in transcriptional silencing and the remodeling of chromatin. It is assumed that in most or all of these instances the BAH domain mediates protein-protein interactions.
Probab=97.47 E-value=6.4e-05 Score=68.60 Aligned_cols=31 Identities=26% Similarity=0.498 Sum_probs=27.5
Q ss_pred eeeccCCCCCCCCCCCCcccccccccccCCCC
Q 013828 28 VHIYCLPVLPASFEDDVLWYCEDCEPKVAKPS 59 (436)
Q Consensus 28 eHtYCL~~~l~sVPE~g~W~C~eCqs~~~~~s 59 (436)
+|+|||+++|..+|+ |+|+|+.|+......+
T Consensus 2 ~H~~CL~Ppl~~~P~-g~W~Cp~C~~~~~~~~ 32 (148)
T cd04718 2 FHLCCLRPPLKEVPE-GDWICPFCEVEKSGQS 32 (148)
T ss_pred cccccCCCCCCCCCC-CCcCCCCCcCCCCCCc
Confidence 799999999999997 9999999998765554
No 10
>KOG0956 consensus PHD finger protein AF10 [General function prediction only]
Probab=97.17 E-value=0.00015 Score=79.25 Aligned_cols=52 Identities=33% Similarity=0.820 Sum_probs=44.4
Q ss_pred CCcccccccC-CCc-ccceeeccC--CCCCceeeccCCCCCCCCCCCCcccccccccccC
Q 013828 1 MVTVCQQCGD-KGF-YEALIGCEK--CQTTAVHIYCLPVLPASFEDDVLWYCEDCEPKVA 56 (436)
Q Consensus 1 mvtVC~ICGD-~Gf-ED~LllCd~--Cd~~AeHtYCL~~~l~sVPE~g~W~C~eCqs~~~ 56 (436)
||-.|+||-| .|+ |.-|++||+ |-+ |.|.-|-+. ..||+ |.|||.-|+++..
T Consensus 4 MVGGCCVCSDErGWaeNPLVYCDG~nCsV-AVHQaCYGI--vqVPt-GpWfCrKCesqer 59 (900)
T KOG0956|consen 4 MVGGCCVCSDERGWAENPLVYCDGHNCSV-AVHQACYGI--VQVPT-GPWFCRKCESQER 59 (900)
T ss_pred cccceeeecCcCCCccCceeeecCCCcee-eeehhccee--EecCC-Cchhhhhhhhhhh
Confidence 7899999987 455 667999985 986 899999997 69996 9999999987653
No 11
>PF13831 PHD_2: PHD-finger; PDB: 2L43_A 2KU3_A.
Probab=97.16 E-value=8.8e-05 Score=53.04 Aligned_cols=35 Identities=37% Similarity=0.858 Sum_probs=19.9
Q ss_pred cceeeccCCCCCceeeccCCCCCCCCCCCCcccccccc
Q 013828 15 EALIGCEKCQTTAVHIYCLPVLPASFEDDVLWYCEDCE 52 (436)
Q Consensus 15 D~LllCd~Cd~~AeHtYCL~~~l~sVPE~g~W~C~eCq 52 (436)
+.|+.|++|+. +.|..|-++. .+|+...|+|+.|+
T Consensus 2 n~ll~C~~C~v-~VH~~CYGv~--~~~~~~~W~C~~C~ 36 (36)
T PF13831_consen 2 NPLLFCDNCNV-AVHQSCYGVS--EVPDGDDWLCDRCE 36 (36)
T ss_dssp CEEEE-SSS---EEEHHHHT-S--S--SS-----HHH-
T ss_pred CceEEeCCCCC-cCChhhCCcc--cCCCCCcEECCcCC
Confidence 57999999997 8999999984 66765589999985
No 12
>KOG0954 consensus PHD finger protein [General function prediction only]
Probab=96.70 E-value=0.00054 Score=75.29 Aligned_cols=49 Identities=22% Similarity=0.639 Sum_probs=41.5
Q ss_pred CcccccccCC--CcccceeeccCCCCCceeeccCCCCCCCCCCCCcccccccccc
Q 013828 2 VTVCQQCGDK--GFYEALIGCEKCQTTAVHIYCLPVLPASFEDDVLWYCEDCEPK 54 (436)
Q Consensus 2 vtVC~ICGD~--GfED~LllCd~Cd~~AeHtYCL~~~l~sVPE~g~W~C~eCqs~ 54 (436)
..+|++|... ..-+.|++||.|+. ..|.-|.+. ..+|+ +.|.|-+|.-.
T Consensus 271 dviCDvCrspD~e~~neMVfCd~Cn~-cVHqaCyGI--le~p~-gpWlCr~Calg 321 (893)
T KOG0954|consen 271 DVICDVCRSPDSEEANEMVFCDKCNI-CVHQACYGI--LEVPE-GPWLCRTCALG 321 (893)
T ss_pred cceeceecCCCccccceeEEeccchh-HHHHhhhce--eecCC-CCeeehhcccc
Confidence 5689999765 44567999999997 799999997 59996 99999999654
No 13
>KOG0957 consensus PHD finger protein [General function prediction only]
Probab=96.19 E-value=0.0024 Score=68.34 Aligned_cols=50 Identities=24% Similarity=0.588 Sum_probs=45.3
Q ss_pred CCcccccccCCCcccceeeccCCCCCceeeccCCCCCCCCCCC---Cccccccc
Q 013828 1 MVTVCQQCGDKGFYEALIGCEKCQTTAVHIYCLPVLPASFEDD---VLWYCEDC 51 (436)
Q Consensus 1 mvtVC~ICGD~GfED~LllCd~Cd~~AeHtYCL~~~l~sVPE~---g~W~C~eC 51 (436)
|..-|-||...-+-++|++||.|.. .+|.-||+++|..+|-- -.|.|.+|
T Consensus 543 ~~ysCgiCkks~dQHll~~CDtC~l-hYHlGCL~PPLTR~Pkk~kn~gWqCsEC 595 (707)
T KOG0957|consen 543 MNYSCGICKKSTDQHLLTQCDTCHL-HYHLGCLSPPLTRLPKKNKNFGWQCSEC 595 (707)
T ss_pred cceeeeeeccchhhHHHhhcchhhc-eeeccccCCccccCcccccCcceeeccc
Confidence 4567999999999999999999996 89999999999999854 36999999
No 14
>KOG0383 consensus Predicted helicase [General function prediction only]
Probab=95.72 E-value=0.0035 Score=68.70 Aligned_cols=48 Identities=25% Similarity=0.587 Sum_probs=40.2
Q ss_pred cccccccCCCcccceeeccCCCCCceeeccCCCCCCCCCCCCccccccccccc
Q 013828 3 TVCQQCGDKGFYEALIGCEKCQTTAVHIYCLPVLPASFEDDVLWYCEDCEPKV 55 (436)
Q Consensus 3 tVC~ICGD~GfED~LllCd~Cd~~AeHtYCL~~~l~sVPE~g~W~C~eCqs~~ 55 (436)
.-|.||++.|. ++.|+.|. ..+|.||+++++..+|..+ |.|+.|....
T Consensus 48 e~c~ic~~~g~---~l~c~tC~-~s~h~~cl~~pl~~~p~~~-~~c~Rc~~p~ 95 (696)
T KOG0383|consen 48 EACRICADGGE---LLWCDTCP-ASFHASCLGPPLTPQPNGE-FICPRCFCPK 95 (696)
T ss_pred hhhhhhcCCCc---EEEecccc-HHHHHHccCCCCCcCCccc-eeeeeeccCC
Confidence 36999999874 66699999 5999999999999999754 9999995443
No 15
>KOG4323 consensus Polycomb-like PHD Zn-finger protein [General function prediction only]
Probab=95.35 E-value=0.0059 Score=64.33 Aligned_cols=53 Identities=25% Similarity=0.546 Sum_probs=39.3
Q ss_pred ccccccc--CCCcccceeeccCCCCCceeeccCCCCCCCC--CC-CCcccccccccccC
Q 013828 3 TVCQQCG--DKGFYEALIGCEKCQTTAVHIYCLPVLPASF--ED-DVLWYCEDCEPKVA 56 (436)
Q Consensus 3 tVC~ICG--D~GfED~LllCd~Cd~~AeHtYCL~~~l~sV--PE-~g~W~C~eCqs~~~ 56 (436)
-.|.+|+ ..|.-+.|+.|++|+. .+|.-|+.++.+.. -+ ...|||..|.....
T Consensus 169 ~qc~vC~~g~~~~~NrmlqC~~C~~-~fHq~Chqp~i~~~l~~D~~~~w~C~~C~~~~~ 226 (464)
T KOG4323|consen 169 LQCSVCYCGGPGAGNRMLQCDKCRQ-WYHQACHQPLIKDELAGDPFYEWFCDVCNRGPK 226 (464)
T ss_pred ceeeeeecCCcCccceeeeeccccc-HHHHHhccCCCCHhhccCccceEeehhhccchh
Confidence 3477775 5666779999999997 89999999853322 11 27899999986654
No 16
>COG5141 PHD zinc finger-containing protein [General function prediction only]
Probab=95.08 E-value=0.0081 Score=64.30 Aligned_cols=49 Identities=22% Similarity=0.655 Sum_probs=40.2
Q ss_pred CcccccccCCCc--ccceeeccCCCCCceeeccCCCCCCCCCCCCcccccccccc
Q 013828 2 VTVCQQCGDKGF--YEALIGCEKCQTTAVHIYCLPVLPASFEDDVLWYCEDCEPK 54 (436)
Q Consensus 2 vtVC~ICGD~Gf--ED~LllCd~Cd~~AeHtYCL~~~l~sVPE~g~W~C~eCqs~ 54 (436)
.-.|-+|-.... .+.+++||+|+. +.|.-|-+.. -+|| |.|+|-.|.-.
T Consensus 193 d~~C~~c~~t~~eN~naiVfCdgC~i-~VHq~CYGI~--f~pe-G~WlCrkCi~~ 243 (669)
T COG5141 193 DDICTKCTSTHNENSNAIVFCDGCEI-CVHQSCYGIQ--FLPE-GFWLCRKCIYG 243 (669)
T ss_pred hhhhHhccccccCCcceEEEecCcch-hhhhhcccce--ecCc-chhhhhhhccc
Confidence 346888876554 688999999997 8999999984 7886 99999999643
No 17
>KOG1246 consensus DNA-binding protein jumonji/RBP2/SMCY, contains JmjC domain [General function prediction only]
Probab=91.35 E-value=0.14 Score=57.02 Aligned_cols=49 Identities=29% Similarity=0.680 Sum_probs=43.9
Q ss_pred cccccccCCCcccceeeccCCCCCceeeccCCCCCCCCCCCCcccccccccc
Q 013828 3 TVCQQCGDKGFYEALIGCEKCQTTAVHIYCLPVLPASFEDDVLWYCEDCEPK 54 (436)
Q Consensus 3 tVC~ICGD~GfED~LllCd~Cd~~AeHtYCL~~~l~sVPE~g~W~C~eCqs~ 54 (436)
..|.+|+....+.++ +|+.|+. ..|+||.++.+..+|+ +.|.|+.|...
T Consensus 156 ~~~~~~~k~~~~~~~-~~~~~~~-~~~~~~~~~~~~~~~~-~~~~~~~~~~~ 204 (904)
T KOG1246|consen 156 PQCNTCSKGKEEKLL-LCDSCDD-SYHTYCLRPPLTRVPD-GDWRCPKCIPT 204 (904)
T ss_pred hhhhccccCCCccce-ecccccC-cccccccCCCCCcCCc-CcccCCccccc
Confidence 468999999999555 9999997 7999999999999996 89999999877
No 18
>KOG0957 consensus PHD finger protein [General function prediction only]
Probab=80.01 E-value=1.2 Score=48.61 Aligned_cols=53 Identities=30% Similarity=0.626 Sum_probs=37.8
Q ss_pred ccccccCC--CcccceeeccCCCCCceeeccCCCC-CCCCCCC------CcccccccccccCC
Q 013828 4 VCQQCGDK--GFYEALIGCEKCQTTAVHIYCLPVL-PASFEDD------VLWYCEDCEPKVAK 57 (436)
Q Consensus 4 VC~ICGD~--GfED~LllCd~Cd~~AeHtYCL~~~-l~sVPE~------g~W~C~eCqs~~~~ 57 (436)
.|+||=.. .+-+-++.||+|.+ ..|--|-++. -+++|.. ..|||+.|+--+..
T Consensus 121 iCcVClg~rs~da~ei~qCd~CGi-~VHEgCYGv~dn~si~s~~s~~stepWfCeaC~~Gvs~ 182 (707)
T KOG0957|consen 121 ICCVCLGQRSVDAGEILQCDKCGI-NVHEGCYGVLDNVSIPSGSSDCSTEPWFCEACLYGVSL 182 (707)
T ss_pred EEEEeecCccccccceeeccccCc-eecccccccccccccCCCCccCCCCchhhhhHhcCCCC
Confidence 68999433 33456899999998 7999999984 1223321 47999999866643
No 19
>KOG4443 consensus Putative transcription factor HALR/MLL3, involved in embryonic development [General function prediction only]
Probab=76.76 E-value=0.66 Score=51.34 Aligned_cols=53 Identities=26% Similarity=0.575 Sum_probs=38.2
Q ss_pred cccccCCC--cccceeeccCCCCCceeeccCCCCCCCCCCCCcccccccccccCCC
Q 013828 5 CQQCGDKG--FYEALIGCEKCQTTAVHIYCLPVLPASFEDDVLWYCEDCEPKVAKP 58 (436)
Q Consensus 5 C~ICGD~G--fED~LllCd~Cd~~AeHtYCL~~~l~sVPE~g~W~C~eCqs~~~~~ 58 (436)
|.+||..| -+..|+.|..|.. .+|.||....+..+.=.+-|-|+.|.--.+-+
T Consensus 21 c~l~~s~G~~~ag~m~ac~~c~~-~yH~~cvt~~~~~~~l~~gWrC~~crvCe~c~ 75 (694)
T KOG4443|consen 21 CPLCGSSGKGRAGRLLACSDCGQ-KYHPYCVTSWAQHAVLSGGWRCPSCRVCEACG 75 (694)
T ss_pred hhhhccccccccCcchhhhhhcc-cCCcchhhHHHhHHHhcCCcccCCceeeeecc
Confidence 55666554 4777999999996 89999999544333223569999997766654
No 20
>PF07649 C1_3: C1-like domain; InterPro: IPR011424 This short domain is rich in cysteines and histidines. The pattern of conservation is similar to that found in IPR002219 from INTERPRO. C1 domains are protein kinase C-like zinc finger structures. Diacylglycerol (DAG) kinases (DGKs) have a two or three commonly conserved cysteine-rich C1 domains []. DGKs modulate the balance between the two signaling lipids, DAG and phosphatidic acid (PA), by phosphorylating DAG to yield PA []. The PKD (protein kinase D) family are novel DAG receptors. They have twin C1 domains, designated C1a and C1b, which bind DAG or phorbol esters. Individual C1 domains differ in ligand-binding activity and selectivity []. ; GO: 0047134 protein-disulfide reductase activity, 0055114 oxidation-reduction process; PDB: 1V5N_A.
Probab=76.22 E-value=1.1 Score=30.41 Aligned_cols=28 Identities=25% Similarity=0.570 Sum_probs=13.0
Q ss_pred ccccccCCCcccceeeccCCCCCceeecc
Q 013828 4 VCQQCGDKGFYEALIGCEKCQTTAVHIYC 32 (436)
Q Consensus 4 VC~ICGD~GfED~LllCd~Cd~~AeHtYC 32 (436)
.|.+||..+..+....|..|+. ..|.-|
T Consensus 2 ~C~~C~~~~~~~~~Y~C~~Cdf-~lH~~C 29 (30)
T PF07649_consen 2 RCDACGKPIDGGWFYRCSECDF-DLHEEC 29 (30)
T ss_dssp --TTTS----S--EEE-TTT------HHH
T ss_pred cCCcCCCcCCCCceEECccCCC-ccChhc
Confidence 6999999999999999999996 688877
No 21
>PF15446 zf-PHD-like: PHD/FYVE-zinc-finger like domain
Probab=73.32 E-value=1.7 Score=41.41 Aligned_cols=31 Identities=32% Similarity=0.765 Sum_probs=27.1
Q ss_pred ccccc---cCCCcccceeeccCCCCCceeeccCCC
Q 013828 4 VCQQC---GDKGFYEALIGCEKCQTTAVHIYCLPV 35 (436)
Q Consensus 4 VC~IC---GD~GfED~LllCd~Cd~~AeHtYCL~~ 35 (436)
+|.+| |+.-..-.|++|-+|-. ++|.-|+++
T Consensus 1 ~C~~C~~~g~~~~kG~Lv~CQGCs~-sYHk~CLG~ 34 (175)
T PF15446_consen 1 TCDTCGYEGDDRNKGPLVYCQGCSS-SYHKACLGP 34 (175)
T ss_pred CcccccCCCCCccCCCeEEcCccCh-HHHhhhcCC
Confidence 58999 67777889999999985 899999987
No 22
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=72.42 E-value=2.4 Score=33.62 Aligned_cols=33 Identities=24% Similarity=0.511 Sum_probs=28.5
Q ss_pred CcccccccCCCc-ccceeeccCCCCCceeeccCCC
Q 013828 2 VTVCQQCGDKGF-YEALIGCEKCQTTAVHIYCLPV 35 (436)
Q Consensus 2 vtVC~ICGD~Gf-ED~LllCd~Cd~~AeHtYCL~~ 35 (436)
...|.+||+.=. +|-++.|..|.. .+|+-|-..
T Consensus 5 ~~~C~~Cg~~~~~~dDiVvCp~Cga-pyHR~C~~~ 38 (54)
T PF14446_consen 5 GCKCPVCGKKFKDGDDIVVCPECGA-PYHRDCWEK 38 (54)
T ss_pred CccChhhCCcccCCCCEEECCCCCC-cccHHHHhh
Confidence 578999999875 889999999995 899999754
No 23
>KOG1844 consensus PHD Zn-finger proteins [General function prediction only]
Probab=68.02 E-value=3.1 Score=42.81 Aligned_cols=47 Identities=23% Similarity=0.469 Sum_probs=39.4
Q ss_pred ccccCCCc-ccceeeccCCCCCceeeccCCCCCCCCCCCCccccccccccc
Q 013828 6 QQCGDKGF-YEALIGCEKCQTTAVHIYCLPVLPASFEDDVLWYCEDCEPKV 55 (436)
Q Consensus 6 ~ICGD~Gf-ED~LllCd~Cd~~AeHtYCL~~~l~sVPE~g~W~C~eCqs~~ 55 (436)
++||-... +-+++.|+.|.. -+|.+|++.....-| ..-.|..|..+.
T Consensus 89 c~c~~~~~~~g~~i~c~~c~~-Wqh~~C~g~~~~~~p--~~y~c~~c~~~~ 136 (508)
T KOG1844|consen 89 CDCGLEDDMEGLMIQCDWCGR-WQHKICCGSFKSTKP--DKYVCEICTPRN 136 (508)
T ss_pred cccccccCCCceeeCCcccCc-ccCceeeeecCCCCc--hhceeeeecccc
Confidence 47999999 899999999996 899999999755554 478899997665
No 24
>KOG4299 consensus PHD Zn-finger protein [General function prediction only]
Probab=65.81 E-value=7.7 Score=42.98 Aligned_cols=107 Identities=21% Similarity=0.264 Sum_probs=71.1
Q ss_pred cccccccCCCcccceeeccCCCCCceeeccCCCCCCCCCC--CCcccccccccccCCCCCccCCCCCCCC-------CCC
Q 013828 3 TVCQQCGDKGFYEALIGCEKCQTTAVHIYCLPVLPASFED--DVLWYCEDCEPKVAKPSTIVNPSSVLGG-------RCD 73 (436)
Q Consensus 3 tVC~ICGD~GfED~LllCd~Cd~~AeHtYCL~~~l~sVPE--~g~W~C~eCqs~~~~~s~~~n~ss~~~~-------~~e 73 (436)
+.|.+|...|+ ++.|+.|.. ++|.-|-++.+. |+ ...|.|..|-........+.|+-+.++. ..-
T Consensus 48 ts~~~~~~~gn---~~~~~~~~~-s~h~~~~~~~~s--p~~~~~~~~~~~~~~~~~~~~~sn~~~~vnk~~~~~~~r~r~ 121 (613)
T KOG4299|consen 48 TSCGICKSGGN---LLCCDHCPA-SFHLECDKPPLS--PDLKGSEINCSRCPKGREDSEKSNNSPSVNKLVRKSGKRTRT 121 (613)
T ss_pred hhcchhhhcCC---ccccccCcc-ccchhccCcccC--cccccccccccCCCcccccccccccCCCccchhhhhcccccC
Confidence 56889988887 589999996 899999888654 32 2789999998876666666677676544 223
Q ss_pred CCcchhHHHHhhhhhhhhhhhhhhhhhhccccccccccchhhHhhhc
Q 013828 74 SDSENLEIVQATQSNLRLKKNAVDRLSKNERKRNDSGSLAKAEVQKS 120 (436)
Q Consensus 74 ~~s~~~qi~~~~q~~~~~~~~~~~r~~~~~~~~~~~~sl~~~~~~~~ 120 (436)
|+ |+. ...-+.++.+++.++.| ++..+.-+ ..+++..-+++.
T Consensus 122 ~~--y~~-~~vr~~~~E~~~~~~a~-~~~~~~~~-p~~~r~~n~lk~ 163 (613)
T KOG4299|consen 122 WS--YTD-GLVRSEKTELKKVPHAR-QKDRFAEV-PDSFRDKNSLKY 163 (613)
T ss_pred cc--ccc-cccccchhhhhcccccc-cccccccC-CCcchhhhhhhh
Confidence 33 322 23333778899999999 44433333 344555555553
No 25
>PRK14559 putative protein serine/threonine phosphatase; Provisional
Probab=62.11 E-value=6.5 Score=43.44 Aligned_cols=51 Identities=22% Similarity=0.394 Sum_probs=39.6
Q ss_pred cccccccCCCcccceeeccCCCCCceeeccCCCCCCCCCCCCcccccccccccC
Q 013828 3 TVCQQCGDKGFYEALIGCEKCQTTAVHIYCLPVLPASFEDDVLWYCEDCEPKVA 56 (436)
Q Consensus 3 tVC~ICGD~GfED~LllCd~Cd~~AeHtYCL~~~l~sVPE~g~W~C~eCqs~~~ 56 (436)
.+|+-||..- ++---+|.+|+....|..|..- ...+|. +.-||+.|-....
T Consensus 2 ~~Cp~Cg~~n-~~~akFC~~CG~~l~~~~Cp~C-G~~~~~-~~~fC~~CG~~~~ 52 (645)
T PRK14559 2 LICPQCQFEN-PNNNRFCQKCGTSLTHKPCPQC-GTEVPV-DEAHCPNCGAETG 52 (645)
T ss_pred CcCCCCCCcC-CCCCccccccCCCCCCCcCCCC-CCCCCc-ccccccccCCccc
Confidence 4899999874 5555689999987777889886 467774 8999999965543
No 26
>COG4393 Predicted membrane protein [Function unknown]
Probab=57.60 E-value=3.5 Score=43.16 Aligned_cols=23 Identities=30% Similarity=0.931 Sum_probs=20.3
Q ss_pred ccccccCCCc--ccceeeccCCCCC
Q 013828 4 VCQQCGDKGF--YEALIGCEKCQTT 26 (436)
Q Consensus 4 VC~ICGD~Gf--ED~LllCd~Cd~~ 26 (436)
.|.+|||.|+ ++--++|-+|+++
T Consensus 336 AC~iCGd~GYv~e~dqvICv~C~Vr 360 (405)
T COG4393 336 ACDICGDQGYVMEGDQVICVRCDVR 360 (405)
T ss_pred HHHhccccceEeECCEEEEEEccEE
Confidence 5999999998 7788999999863
No 27
>PLN02400 cellulose synthase
Probab=53.49 E-value=13 Score=43.56 Aligned_cols=52 Identities=23% Similarity=0.591 Sum_probs=39.8
Q ss_pred cccccccCC----CcccceeeccCCCCCceeeccCCCCCCCCCCCCcccccccccccCCCC
Q 013828 3 TVCQQCGDK----GFYEALIGCEKCQTTAVHIYCLPVLPASFEDDVLWYCEDCEPKVAKPS 59 (436)
Q Consensus 3 tVC~ICGD~----GfED~LllCd~Cd~~AeHtYCL~~~l~sVPE~g~W~C~eCqs~~~~~s 59 (436)
-+|+||||. -+.|.-+-|+.|.. +.=+=|..+ +-- +|--.|+.|..+-.+-+
T Consensus 37 qiCqICGD~VG~t~dGe~FVAC~eCaF-PVCRpCYEY---ERk-eGnq~CPQCkTrYkR~K 92 (1085)
T PLN02400 37 QICQICGDDVGVTETGDVFVACNECAF-PVCRPCYEY---ERK-DGTQCCPQCKTRYRRHK 92 (1085)
T ss_pred ceeeecccccCcCCCCCEEEEEccCCC-ccccchhhe---ecc-cCCccCcccCCcccccc
Confidence 389999996 45678899999985 677778865 333 38999999998866444
No 28
>COG1773 Rubredoxin [Energy production and conversion]
Probab=52.24 E-value=9.4 Score=30.49 Aligned_cols=41 Identities=20% Similarity=0.184 Sum_probs=27.2
Q ss_pred cccccccCCCcccceeeccCCCCCceeeccCCCCCCCCCCCCccccccccc
Q 013828 3 TVCQQCGDKGFYEALIGCEKCQTTAVHIYCLPVLPASFEDDVLWYCEDCEP 53 (436)
Q Consensus 3 tVC~ICGD~GfED~LllCd~Cd~~AeHtYCL~~~l~sVPE~g~W~C~eCqs 53 (436)
-.|.+||-+=++++=- ..+.-|-+-....+|+ +|.|+.|-.
T Consensus 4 ~~C~~CG~vYd~e~Gd--------p~~gi~pgT~fedlPd--~w~CP~Cg~ 44 (55)
T COG1773 4 WRCSVCGYVYDPEKGD--------PRCGIAPGTPFEDLPD--DWVCPECGV 44 (55)
T ss_pred eEecCCceEeccccCC--------ccCCCCCCCchhhCCC--ccCCCCCCC
Confidence 3688888776665421 2333455555678874 999999974
No 29
>PF03107 C1_2: C1 domain; InterPro: IPR004146 This short domain is rich in cysteines and histidines. The pattern of conservation is similar to that found in DAG_PE-bind (IPR002219 from INTERPRO), therefore we have termed this domain DC1 for divergent C1 domain. This domain probably also binds to two zinc ions. The function of proteins with this domain is uncertain, however this domain may bind to molecules such as diacylglycerol. This family are found in plant proteins.
Probab=50.49 E-value=14 Score=25.16 Aligned_cols=29 Identities=24% Similarity=0.487 Sum_probs=24.1
Q ss_pred ccccccCCCcccceeeccCCCCCceeeccC
Q 013828 4 VCQQCGDKGFYEALIGCEKCQTTAVHIYCL 33 (436)
Q Consensus 4 VC~ICGD~GfED~LllCd~Cd~~AeHtYCL 33 (436)
.|.+|+...+....-.|..|.. ..|.-|.
T Consensus 2 ~C~~C~~~~~~~~~Y~C~~c~f-~lh~~Ca 30 (30)
T PF03107_consen 2 WCDVCRRKIDGFYFYHCSECCF-TLHVRCA 30 (30)
T ss_pred CCCCCCCCcCCCEeEEeCCCCC-eEcCccC
Confidence 4999999887766888999994 7998874
No 30
>PF10080 DUF2318: Predicted membrane protein (DUF2318); InterPro: IPR018758 This domain of unknown function is found in hypothetical bacterial membrane proteins with no known function.
Probab=48.05 E-value=11 Score=32.95 Aligned_cols=26 Identities=27% Similarity=0.837 Sum_probs=21.2
Q ss_pred ccccccCCCc--ccceeeccCCCCCceee
Q 013828 4 VCQQCGDKGF--YEALIGCEKCQTTAVHI 30 (436)
Q Consensus 4 VC~ICGD~Gf--ED~LllCd~Cd~~AeHt 30 (436)
.|++||+.|| +.--|.|-.|+. ..+.
T Consensus 37 aCeiC~~~GY~q~g~~lvC~~C~~-~~~~ 64 (102)
T PF10080_consen 37 ACEICGPKGYYQEGDQLVCKNCGV-RFNL 64 (102)
T ss_pred eccccCCCceEEECCEEEEecCCC-EEeh
Confidence 6999999999 556899999997 3443
No 31
>PF05502 Dynactin_p62: Dynactin p62 family; InterPro: IPR008603 Dynactin is a multi-subunit complex and a required cofactor for most, or all, o f the cellular processes powered by the microtubule-based motor cytoplasmic dyn ein. p62 binds directly to the Arp1 subunit of dynactin [, ].
Probab=47.28 E-value=9.6 Score=40.59 Aligned_cols=35 Identities=29% Similarity=0.616 Sum_probs=27.8
Q ss_pred cceeeccCCCCCceeeccCCCCCCCCCCCCcccccccccccC
Q 013828 15 EALIGCEKCQTTAVHIYCLPVLPASFEDDVLWYCEDCEPKVA 56 (436)
Q Consensus 15 D~LllCd~Cd~~AeHtYCL~~~l~sVPE~g~W~C~eCqs~~~ 56 (436)
+.|++|..|.. .-..||... +| ..|||+-|.....
T Consensus 3 ~~L~fC~~C~~-irc~~c~~~---Ei---~~~yCp~CL~~~p 37 (483)
T PF05502_consen 3 EELYFCEHCHK-IRCPRCVSE---EI---DSYYCPNCLFEVP 37 (483)
T ss_pred ccceecccccc-cCChhhccc---cc---ceeECccccccCC
Confidence 46899999986 567788876 55 4899999987764
No 32
>PF13832 zf-HC5HC2H_2: PHD-zinc-finger like domain
Probab=44.92 E-value=12 Score=31.02 Aligned_cols=32 Identities=34% Similarity=0.623 Sum_probs=26.9
Q ss_pred CcccccccCCCcccceeeccC--CCCCceeeccCCCC
Q 013828 2 VTVCQQCGDKGFYEALIGCEK--CQTTAVHIYCLPVL 36 (436)
Q Consensus 2 vtVC~ICGD~GfED~LllCd~--Cd~~AeHtYCL~~~ 36 (436)
...|.+|+.. .-.++.|.. |.. ++|.+|....
T Consensus 55 ~~~C~iC~~~--~G~~i~C~~~~C~~-~fH~~CA~~~ 88 (110)
T PF13832_consen 55 KLKCSICGKS--GGACIKCSHPGCST-AFHPTCARKA 88 (110)
T ss_pred CCcCcCCCCC--CceeEEcCCCCCCc-CCCHHHHHHC
Confidence 4589999998 567999999 996 8999998763
No 33
>PLN02189 cellulose synthase
Probab=43.93 E-value=19 Score=42.13 Aligned_cols=50 Identities=22% Similarity=0.552 Sum_probs=39.5
Q ss_pred cccccccCC----CcccceeeccCCCCCceeeccCCCCCCCCCCCCcccccccccccCC
Q 013828 3 TVCQQCGDK----GFYEALIGCEKCQTTAVHIYCLPVLPASFEDDVLWYCEDCEPKVAK 57 (436)
Q Consensus 3 tVC~ICGD~----GfED~LllCd~Cd~~AeHtYCL~~~l~sVPE~g~W~C~eCqs~~~~ 57 (436)
-+|.||||. .+.+.-+-|..|.. +.=.-|..+ +-- +|--.|+.|..+-.+
T Consensus 35 ~~C~iCgd~vg~~~~g~~fvaC~~C~f-pvCr~Cyey---er~-eg~q~CpqCkt~Y~r 88 (1040)
T PLN02189 35 QVCEICGDEIGLTVDGDLFVACNECGF-PVCRPCYEY---ERR-EGTQNCPQCKTRYKR 88 (1040)
T ss_pred ccccccccccCcCCCCCEEEeeccCCC-ccccchhhh---hhh-cCCccCcccCCchhh
Confidence 389999998 67788899999985 677778765 333 489999999987653
No 34
>PLN02915 cellulose synthase A [UDP-forming], catalytic subunit
Probab=43.39 E-value=19 Score=42.24 Aligned_cols=51 Identities=20% Similarity=0.505 Sum_probs=38.9
Q ss_pred cccccccCC----CcccceeeccCCCCCceeeccCCCCCCCCCCCCcccccccccccCCC
Q 013828 3 TVCQQCGDK----GFYEALIGCEKCQTTAVHIYCLPVLPASFEDDVLWYCEDCEPKVAKP 58 (436)
Q Consensus 3 tVC~ICGD~----GfED~LllCd~Cd~~AeHtYCL~~~l~sVPE~g~W~C~eCqs~~~~~ 58 (436)
-+|+||||. -+.|.-+-|..|.. +.-.-|..+ +.- +|--.|+.|..+-.+-
T Consensus 16 ~~c~iCGd~vg~~~~Ge~FVAC~eC~f-pvCr~cyey---e~~-~g~~~cp~c~t~y~~~ 70 (1044)
T PLN02915 16 KTCRVCGDEVGVKEDGQPFVACHVCGF-PVCKPCYEY---ERS-EGNQCCPQCNTRYKRH 70 (1044)
T ss_pred chhhccccccCcCCCCCEEEEeccCCC-ccccchhhh---hhh-cCCccCCccCCchhhh
Confidence 489999997 45667899999985 666677765 333 3899999999876543
No 35
>PLN02436 cellulose synthase A
Probab=42.38 E-value=22 Score=41.94 Aligned_cols=50 Identities=24% Similarity=0.541 Sum_probs=38.5
Q ss_pred cccccccCC----CcccceeeccCCCCCceeeccCCCCCCCCCCCCcccccccccccCC
Q 013828 3 TVCQQCGDK----GFYEALIGCEKCQTTAVHIYCLPVLPASFEDDVLWYCEDCEPKVAK 57 (436)
Q Consensus 3 tVC~ICGD~----GfED~LllCd~Cd~~AeHtYCL~~~l~sVPE~g~W~C~eCqs~~~~ 57 (436)
-+|+||||. -+.|.-+-|+.|.. +.=.-|..+ +.- +|--.|+.|..+-.+
T Consensus 37 ~iCqICGD~Vg~t~dGe~FVACn~C~f-pvCr~Cyey---er~-eg~~~Cpqckt~Y~r 90 (1094)
T PLN02436 37 QTCQICGDEIELTVDGEPFVACNECAF-PVCRPCYEY---ERR-EGNQACPQCKTRYKR 90 (1094)
T ss_pred ccccccccccCcCCCCCEEEeeccCCC-ccccchhhh---hhh-cCCccCcccCCchhh
Confidence 389999996 45678899999985 677778765 333 489999999987653
No 36
>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=41.96 E-value=19 Score=42.37 Aligned_cols=52 Identities=29% Similarity=0.549 Sum_probs=39.4
Q ss_pred cccccccCC----CcccceeeccCCCCCceeeccCCCCCCCCCCCCcccccccccccCCCC
Q 013828 3 TVCQQCGDK----GFYEALIGCEKCQTTAVHIYCLPVLPASFEDDVLWYCEDCEPKVAKPS 59 (436)
Q Consensus 3 tVC~ICGD~----GfED~LllCd~Cd~~AeHtYCL~~~l~sVPE~g~W~C~eCqs~~~~~s 59 (436)
-+|+||||. .+.|.-+-|+.|.. +.=.=|-.+ +-- +|--.|+.|..+-.+-+
T Consensus 18 qiCqICGD~vg~~~~Ge~FVAC~eC~F-PVCrpCYEY---Er~-eG~q~CPqCktrYkr~k 73 (1079)
T PLN02638 18 QVCQICGDNVGKTVDGEPFVACDVCAF-PVCRPCYEY---ERK-DGNQSCPQCKTKYKRHK 73 (1079)
T ss_pred ceeeecccccCcCCCCCEEEEeccCCC-ccccchhhh---hhh-cCCccCCccCCchhhhc
Confidence 389999997 45668899999985 676778765 333 38999999998765333
No 37
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=40.68 E-value=6.9 Score=33.40 Aligned_cols=53 Identities=23% Similarity=0.530 Sum_probs=24.7
Q ss_pred CcccccccCC----CcccceeeccCCCCCceeeccCCCCCCCCCCCCcccccccccccCCCC
Q 013828 2 VTVCQQCGDK----GFYEALIGCEKCQTTAVHIYCLPVLPASFEDDVLWYCEDCEPKVAKPS 59 (436)
Q Consensus 2 vtVC~ICGD~----GfED~LllCd~Cd~~AeHtYCL~~~l~sVPE~g~W~C~eCqs~~~~~s 59 (436)
..+|+||||. .+-++.+.|..|.. ..=.-|+.+ ..- .|.-.|+.|.++-.+-+
T Consensus 9 ~qiCqiCGD~VGl~~~Ge~FVAC~eC~f-PvCr~CyEY---Erk-eg~q~CpqCkt~ykr~k 65 (80)
T PF14569_consen 9 GQICQICGDDVGLTENGEVFVACHECAF-PVCRPCYEY---ERK-EGNQVCPQCKTRYKRHK 65 (80)
T ss_dssp S-B-SSS--B--B-SSSSB--S-SSS------HHHHHH---HHH-TS-SB-TTT--B----T
T ss_pred CcccccccCccccCCCCCEEEEEcccCC-ccchhHHHH---Hhh-cCcccccccCCCccccc
Confidence 3589999984 45789999999986 677778776 333 38899999997755444
No 38
>KOG1632 consensus Uncharacterized PHD Zn-finger protein [General function prediction only]
Probab=39.80 E-value=15 Score=37.71 Aligned_cols=52 Identities=15% Similarity=0.292 Sum_probs=42.6
Q ss_pred cccCCCccc-ceeeccCCCCCceeecc--CCCCCCCCCCCCcccccccccccCCCC
Q 013828 7 QCGDKGFYE-ALIGCEKCQTTAVHIYC--LPVLPASFEDDVLWYCEDCEPKVAKPS 59 (436)
Q Consensus 7 ICGD~GfED-~LllCd~Cd~~AeHtYC--L~~~l~sVPE~g~W~C~eCqs~~~~~s 59 (436)
.|-....++ +...|+.|-+ .+|.=| .+..-..+|-...|+|.+|....++..
T Consensus 64 ~~~~~~~p~~~~~~cd~C~~-~~~~ec~~v~~~~~e~p~~~~~~c~~c~~~~~~~~ 118 (345)
T KOG1632|consen 64 KCYKPCDPDDLMEQCDLCED-WYHGECWEVGTAEKEAPKEDPKVCDECKEAQDGMS 118 (345)
T ss_pred hcccccCchhhhhccccccc-cccccccccCchhhcCCccccccccccchhhhhhh
Confidence 344555555 8889999996 799999 888878888789999999998887666
No 39
>PF00130 C1_1: Phorbol esters/diacylglycerol binding domain (C1 domain); InterPro: IPR002219 Diacylglycerol (DAG) is an important second messenger. Phorbol esters (PE) are analogues of DAG and potent tumour promoters that cause a variety of physiological changes when administered to both cells and tissues. DAG activates a family of serine/threonine protein kinases, collectively known as protein kinase C (PKC) []. Phorbol esters can directly stimulate PKC. The N-terminal region of PKC, known as C1, has been shown [] to bind PE and DAG in a phospholipid and zinc-dependent fashion. The C1 region contains one or two copies (depending on the isozyme of PKC) of a cysteine-rich domain, which is about 50 amino-acid residues long, and which is essential for DAG/PE-binding. The DAG/PE-binding domain binds two zinc ions; the ligands of these metal ions are probably the six cysteines and two histidines that are conserved in this domain.; GO: 0035556 intracellular signal transduction; PDB: 1RFH_A 2FNF_X 3PFQ_A 1PTQ_A 1PTR_A 2VRW_B 1XA6_A 2ENN_A 1TBN_A 1TBO_A ....
Probab=39.61 E-value=30 Score=25.27 Aligned_cols=34 Identities=26% Similarity=0.486 Sum_probs=27.1
Q ss_pred CcccccccCCC--cccceeeccCCCCCceeeccCCCC
Q 013828 2 VTVCQQCGDKG--FYEALIGCEKCQTTAVHIYCLPVL 36 (436)
Q Consensus 2 vtVC~ICGD~G--fED~LllCd~Cd~~AeHtYCL~~~ 36 (436)
.+.|.+|+..= ..-.-+.|..|+. ..|..|+...
T Consensus 11 ~~~C~~C~~~i~g~~~~g~~C~~C~~-~~H~~C~~~~ 46 (53)
T PF00130_consen 11 PTYCDVCGKFIWGLGKQGYRCSWCGL-VCHKKCLSKV 46 (53)
T ss_dssp TEB-TTSSSBECSSSSCEEEETTTT--EEETTGGCTS
T ss_pred CCCCcccCcccCCCCCCeEEECCCCC-hHhhhhhhhc
Confidence 46799999865 6777899999996 8999999874
No 40
>KOG0956 consensus PHD finger protein AF10 [General function prediction only]
Probab=37.91 E-value=25 Score=40.15 Aligned_cols=81 Identities=20% Similarity=0.370 Sum_probs=50.6
Q ss_pred CcccccccCCCcccc-----eeecc--CCCCCceeeccCCCCCCCCCC-----CCcccccccccccCCCCCccCCCCC-C
Q 013828 2 VTVCQQCGDKGFYEA-----LIGCE--KCQTTAVHIYCLPVLPASFED-----DVLWYCEDCEPKVAKPSTIVNPSSV-L 68 (436)
Q Consensus 2 vtVC~ICGD~GfED~-----LllCd--~Cd~~AeHtYCL~~~l~sVPE-----~g~W~C~eCqs~~~~~s~~~n~ss~-~ 68 (436)
++.|-||...|.|.+ -|.|. +|+. ++|..|..-.----.| +..-||--|+-.-.+-.++-+.+.- .
T Consensus 117 nKtCYIC~E~GrpnkA~~GACMtCNKs~Ckq-aFHVTCAQ~~GLLCEE~gn~~dNVKYCGYCk~HfsKlkk~~~~k~ips 195 (900)
T KOG0956|consen 117 NKTCYICNEEGRPNKAAKGACMTCNKSGCKQ-AFHVTCAQRAGLLCEEEGNISDNVKYCGYCKYHFSKLKKSPAIKVIPS 195 (900)
T ss_pred cceeeeecccCCccccccccceecccccchh-hhhhhHhhhhccceeccccccccceechhHHHHHHHhhcCCCcccCCC
Confidence 467999999998765 57886 5986 8999997542110001 2468999998766655555454443 2
Q ss_pred CCCCCCCcchhHHHH
Q 013828 69 GGRCDSDSENLEIVQ 83 (436)
Q Consensus 69 ~~~~e~~s~~~qi~~ 83 (436)
....+.++...|...
T Consensus 196 y~~s~s~s~s~q~~s 210 (900)
T KOG0956|consen 196 YKPSQSASPSVQQLS 210 (900)
T ss_pred CccccccCCchhhhh
Confidence 334555555554433
No 41
>PLN02195 cellulose synthase A
Probab=34.00 E-value=24 Score=41.15 Aligned_cols=49 Identities=22% Similarity=0.578 Sum_probs=37.2
Q ss_pred CcccccccC----CCcccceeeccCCCCCceeeccCCCCCCCCCCCCccccccccccc
Q 013828 2 VTVCQQCGD----KGFYEALIGCEKCQTTAVHIYCLPVLPASFEDDVLWYCEDCEPKV 55 (436)
Q Consensus 2 vtVC~ICGD----~GfED~LllCd~Cd~~AeHtYCL~~~l~sVPE~g~W~C~eCqs~~ 55 (436)
..+|.|||| ..+.+.-+-|+.|.. +.=.-|..+ +-- +|---|+.|..+-
T Consensus 6 ~~~c~~cgd~~~~~~~g~~fvaC~eC~~-pvCrpCyey---er~-eg~q~CpqCkt~Y 58 (977)
T PLN02195 6 APICATCGEEVGVDSNGEAFVACHECSY-PLCKACLEY---EIK-EGRKVCLRCGGPY 58 (977)
T ss_pred CccceecccccCcCCCCCeEEEeccCCC-ccccchhhh---hhh-cCCccCCccCCcc
Confidence 458999999 345677899999985 677778865 333 4899999997653
No 42
>cd00350 rubredoxin_like Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.
Probab=33.80 E-value=23 Score=24.67 Aligned_cols=11 Identities=27% Similarity=0.890 Sum_probs=8.2
Q ss_pred Ccccccccccc
Q 013828 44 VLWYCEDCEPK 54 (436)
Q Consensus 44 g~W~C~eCqs~ 54 (436)
.+|.|+.|...
T Consensus 16 ~~~~CP~Cg~~ 26 (33)
T cd00350 16 APWVCPVCGAP 26 (33)
T ss_pred CCCcCcCCCCc
Confidence 47899998654
No 43
>PF14205 Cys_rich_KTR: Cysteine-rich KTR
Probab=33.26 E-value=23 Score=28.52 Aligned_cols=12 Identities=25% Similarity=0.562 Sum_probs=6.2
Q ss_pred ccceeeccCCCC
Q 013828 14 YEALIGCEKCQT 25 (436)
Q Consensus 14 ED~LllCd~Cd~ 25 (436)
..+.++|.+|+.
T Consensus 25 kNfPlyCpKCK~ 36 (55)
T PF14205_consen 25 KNFPLYCPKCKQ 36 (55)
T ss_pred ccccccCCCCCc
Confidence 444555555553
No 44
>KOG4218 consensus Nuclear hormone receptor betaFTZ-F1 [Transcription]
Probab=31.89 E-value=20 Score=38.15 Aligned_cols=27 Identities=37% Similarity=0.908 Sum_probs=22.1
Q ss_pred cccccccCC--CcccceeeccCCCCCceee
Q 013828 3 TVCQQCGDK--GFYEALIGCEKCQTTAVHI 30 (436)
Q Consensus 3 tVC~ICGD~--GfED~LllCd~Cd~~AeHt 30 (436)
-.|++|||. |+--=|+.|..|+ +++-+
T Consensus 16 ElCPVCGDkVSGYHYGLLTCESCK-GFFKR 44 (475)
T KOG4218|consen 16 ELCPVCGDKVSGYHYGLLTCESCK-GFFKR 44 (475)
T ss_pred cccccccCccccceeeeeehhhhh-hHHHH
Confidence 469999996 7888899999998 46544
No 45
>PF12773 DZR: Double zinc ribbon
Probab=31.21 E-value=39 Score=24.59 Aligned_cols=39 Identities=23% Similarity=0.485 Sum_probs=23.0
Q ss_pred cccccCCCcccceeeccCCCCCceeeccCCCCCCCCCCCCccccccccccc
Q 013828 5 CQQCGDKGFYEALIGCEKCQTTAVHIYCLPVLPASFEDDVLWYCEDCEPKV 55 (436)
Q Consensus 5 C~ICGD~GfED~LllCd~Cd~~AeHtYCL~~~l~sVPE~g~W~C~eCqs~~ 55 (436)
|..||.. .++-..+|..|..... .+....++|+.|-...
T Consensus 1 Cp~Cg~~-~~~~~~fC~~CG~~l~-----------~~~~~~~~C~~Cg~~~ 39 (50)
T PF12773_consen 1 CPHCGTP-NPDDAKFCPHCGTPLP-----------PPDQSKKICPNCGAEN 39 (50)
T ss_pred CCCcCCc-CCccccCChhhcCChh-----------hccCCCCCCcCCcCCC
Confidence 6677776 3444667888876322 1112467777776654
No 46
>KOG4216 consensus Steroid hormone nuclear receptor [Transcription]
Probab=31.12 E-value=18 Score=38.85 Aligned_cols=27 Identities=33% Similarity=0.741 Sum_probs=19.3
Q ss_pred CcccccccCCCc--ccceeeccCCCCCcee
Q 013828 2 VTVCQQCGDKGF--YEALIGCEKCQTTAVH 29 (436)
Q Consensus 2 vtVC~ICGD~Gf--ED~LllCd~Cd~~AeH 29 (436)
|.+|.||||+.- --=.++|.+|+ +++-
T Consensus 46 vIPCKiCGDKSSGiHYGVITCEGCK-GFFR 74 (479)
T KOG4216|consen 46 IIPCKICGDKSSGIHYGVITCEGCK-GFFR 74 (479)
T ss_pred EEeeeeccCCCCcceeeeEeeccch-Hhhh
Confidence 679999999753 44567788886 4443
No 47
>PRK14714 DNA polymerase II large subunit; Provisional
Probab=30.51 E-value=63 Score=39.04 Aligned_cols=21 Identities=29% Similarity=0.798 Sum_probs=16.7
Q ss_pred cccccccCCCcccceeeccCCCCC
Q 013828 3 TVCQQCGDKGFYEALIGCEKCQTT 26 (436)
Q Consensus 3 tVC~ICGD~GfED~LllCd~Cd~~ 26 (436)
..|+-||...+. .+|..|+..
T Consensus 668 rkCPkCG~~t~~---~fCP~CGs~ 688 (1337)
T PRK14714 668 RRCPSCGTETYE---NRCPDCGTH 688 (1337)
T ss_pred EECCCCCCcccc---ccCcccCCc
Confidence 579999998765 399999863
No 48
>PF13248 zf-ribbon_3: zinc-ribbon domain
Probab=29.54 E-value=31 Score=22.94 Aligned_cols=23 Identities=26% Similarity=0.611 Sum_probs=13.4
Q ss_pred CCcccccccCCCcccceeeccCCC
Q 013828 1 MVTVCQQCGDKGFYEALIGCEKCQ 24 (436)
Q Consensus 1 mvtVC~ICGD~GfED~LllCd~Cd 24 (436)
|-..|.-||. ..++---+|..|.
T Consensus 1 m~~~Cp~Cg~-~~~~~~~fC~~CG 23 (26)
T PF13248_consen 1 MEMFCPNCGA-EIDPDAKFCPNCG 23 (26)
T ss_pred CcCCCcccCC-cCCcccccChhhC
Confidence 4456666666 3444455666665
No 49
>KOG1705 consensus Uncharacterized conserved protein, contains CXXC motifs [Function unknown]
Probab=28.47 E-value=27 Score=31.01 Aligned_cols=59 Identities=20% Similarity=0.362 Sum_probs=37.6
Q ss_pred ccccccCCCcccce-eeccCCCCCceeeccCCCCCCCCCCCCccccccccc---ccCCCCCccCC
Q 013828 4 VCQQCGDKGFYEAL-IGCEKCQTTAVHIYCLPVLPASFEDDVLWYCEDCEP---KVAKPSTIVNP 64 (436)
Q Consensus 4 VC~ICGD~GfED~L-llCd~Cd~~AeHtYCL~~~l~sVPE~g~W~C~eCqs---~~~~~s~~~n~ 64 (436)
.|.||..--.+-.| -+|++|..+.+.--|.--...-| ....||.+|.. +.++=+.++|-
T Consensus 29 kC~ICDS~VRP~tlVRiC~eC~~Gs~q~~ciic~~~gV--~d~~yc~ectr~ekdrdgCpri~nl 91 (110)
T KOG1705|consen 29 KCVICDSYVRPCTLVRICDECNYGSYQGRCVICGGVGV--SDAYYCKECTRQEKDRDGCPKIVNL 91 (110)
T ss_pred cccccccccccceeeeeehhcCCccccCceEEecCCcc--cchHHHHHHHhhccccccChhhhhc
Confidence 57888776666544 58999998877755554333345 35899999963 33444444443
No 50
>COG1107 Archaea-specific RecJ-like exonuclease, contains DnaJ-type Zn finger domain [DNA replication, recombination, and repair]
Probab=28.30 E-value=38 Score=38.11 Aligned_cols=52 Identities=21% Similarity=0.344 Sum_probs=35.9
Q ss_pred cccccccCCCcccceeeccCCCCCceeeccCCCCCCCCCCCCccccccccccc
Q 013828 3 TVCQQCGDKGFYEALIGCEKCQTTAVHIYCLPVLPASFEDDVLWYCEDCEPKV 55 (436)
Q Consensus 3 tVC~ICGD~GfED~LllCd~Cd~~AeHtYCL~~~l~sVPE~g~W~C~eCqs~~ 55 (436)
.+|..|...|--..+..|+.|.....=.-|-----..+| ....+|++|+...
T Consensus 54 ~pc~~c~gkG~V~v~~~c~~c~G~gkv~~c~~cG~~~~~-~~~~lc~~c~~~~ 105 (715)
T COG1107 54 IPCPKCRGKGTVTVYDTCPECGGTGKVLTCDICGDIIVP-WEEGLCPECRRKP 105 (715)
T ss_pred CCCCeeccceeEEEEeecccCCCceeEEeeccccceecC-cccccChhHhhCC
Confidence 589999999999999999999865555555544211222 2334799998654
No 51
>PRK04023 DNA polymerase II large subunit; Validated
Probab=28.19 E-value=41 Score=39.79 Aligned_cols=35 Identities=26% Similarity=0.679 Sum_probs=25.5
Q ss_pred cccccccCCCcccceeeccCCCCCceeeccCCCCCCCCCCCCccccccccccc
Q 013828 3 TVCQQCGDKGFYEALIGCEKCQTTAVHIYCLPVLPASFEDDVLWYCEDCEPKV 55 (436)
Q Consensus 3 tVC~ICGD~GfED~LllCd~Cd~~AeHtYCL~~~l~sVPE~g~W~C~eCqs~~ 55 (436)
..|.-||..+ ..+.|.+|... + ...|+|++|....
T Consensus 627 RfCpsCG~~t---~~frCP~CG~~--------------T-e~i~fCP~CG~~~ 661 (1121)
T PRK04023 627 RKCPSCGKET---FYRRCPFCGTH--------------T-EPVYRCPRCGIEV 661 (1121)
T ss_pred ccCCCCCCcC---CcccCCCCCCC--------------C-CcceeCccccCcC
Confidence 4699999887 45899999852 2 2578999995544
No 52
>PF02977 CarbpepA_inh: Carboxypeptidase A inhibitor; InterPro: IPR004231 Peptide proteinase inhibitors can be found as single domain proteins or as single or multiple domains within proteins; these are referred to as either simple or compound inhibitors, respectively. In many cases they are synthesised as part of a larger precursor protein, either as a prepropeptide or as an N-terminal domain associated with an inactive peptidase or zymogen. This domain prevents access of the substrate to the active site. Removal of the N-terminal inhibitor domain either by interaction with a second peptidase or by autocatalytic cleavage activates the zymogen. Other inhibitors interact direct with proteinases using a simple noncovalent lock and key mechanism; while yet others use a conformational change-based trapping mechanism that depends on their structural and thermodynamic properties. This family is represented by the well-characterised metallocarboxypeptidase A inhibitor (MCPI) from potatoes, which belongs to the MEROPS inhibitor family I37, clan IE. It inhibits metallopeptidases belonging to MEROPS peptidase family M14, carboxypeptidase A. In Russet Burbank potatoes, it is a mixture of approximately equal amounts of two polypeptide chains containing 38 or 39 amino acid residues. The chains differ in their amino terminal sequence only [] and are resistant to fragmentation by proteases []. The structure of the complex between bovine carboxypeptidase A and the 39-amino-acid carboxypeptidase A inhibitor from potatoes has been determined at 2.5-A resolution []. The potato inhibitor is synthesised as a precursor, having a 29 residue N-terminal signal peptide, a 27 residue pro-peptide, the 39 residue mature inhibitor region and a 7 residue C-terminal extension. The 7 residue C-terminal extension is involved in inhibitor inactivation and may be required for targeting to the vacuole where the mature active inhibitor accumulates []. The N-terminal region and the mature inhibitor are weakly related to other solananaceous proteins found in this entry, from potato, tomato and henbane, which have been incorrectly described as metallocarboxipeptidase inhibitors [].; GO: 0008191 metalloendopeptidase inhibitor activity; PDB: 4CPA_I 1H20_A 2HLG_A.
Probab=26.90 E-value=30 Score=26.99 Aligned_cols=21 Identities=19% Similarity=0.411 Sum_probs=11.6
Q ss_pred eeeccCCCCCCCCCCCCcccccccc
Q 013828 28 VHIYCLPVLPASFEDDVLWYCEDCE 52 (436)
Q Consensus 28 eHtYCL~~~l~sVPE~g~W~C~eCq 52 (436)
.|-||..- ++- .|.|||+||.
T Consensus 8 Cn~~C~t~--sDC--~g~tlC~~C~ 28 (46)
T PF02977_consen 8 CNKYCNTN--SDC--SGITLCQWCW 28 (46)
T ss_dssp TT-B-SSS--CCC--TTSSSS-EE-
T ss_pred cCCccccC--ccc--cceeehHHHH
Confidence 34578775 222 3899999993
No 53
>TIGR02098 MJ0042_CXXC MJ0042 family finger-like domain. This domain contains a CXXCX(19)CXXC motif suggestive of both zinc fingers and thioredoxin, usually found at the N-terminus of prokaryotic proteins. One partially characterized gene, agmX, is among a large set in Myxococcus whose interruption affects adventurous gliding motility.
Probab=26.77 E-value=51 Score=22.91 Aligned_cols=25 Identities=24% Similarity=0.474 Sum_probs=14.7
Q ss_pred CCcccccccC---CCc-----ccceeeccCCCC
Q 013828 1 MVTVCQQCGD---KGF-----YEALIGCEKCQT 25 (436)
Q Consensus 1 mvtVC~ICGD---~Gf-----ED~LllCd~Cd~ 25 (436)
|...|+-||. ... ....+.|.+|+.
T Consensus 1 M~~~CP~C~~~~~v~~~~~~~~~~~v~C~~C~~ 33 (38)
T TIGR02098 1 MRIQCPNCKTSFRVVDSQLGANGGKVRCGKCGH 33 (38)
T ss_pred CEEECCCCCCEEEeCHHHcCCCCCEEECCCCCC
Confidence 5667777776 221 223567777764
No 54
>KOG1473 consensus Nucleosome remodeling factor, subunit NURF301/BPTF [Chromatin structure and dynamics; Transcription]
Probab=26.64 E-value=11 Score=44.76 Aligned_cols=49 Identities=18% Similarity=0.261 Sum_probs=39.9
Q ss_pred CcccccccCCCcccceeeccC-CCCCceee-ccCC--CCCCCCCCCCccccccccccc
Q 013828 2 VTVCQQCGDKGFYEALIGCEK-CQTTAVHI-YCLP--VLPASFEDDVLWYCEDCEPKV 55 (436)
Q Consensus 2 vtVC~ICGD~GfED~LllCd~-Cd~~AeHt-YCL~--~~l~sVPE~g~W~C~eCqs~~ 55 (436)
+..|-||| .++.++.|+. |-. ++|. -|++ ++-..+++ ++|+|.+|..+.
T Consensus 428 ~rrl~Ie~---~det~l~yysT~pq-ly~ll~cLd~~~~e~~L~d-~i~~~~ee~~rq 480 (1414)
T KOG1473|consen 428 SRRLRIEG---MDETLLWYYSTCPQ-LYHLLRCLDRTYVEMYLCD-GIWERREEIIRQ 480 (1414)
T ss_pred eeeeEEec---CCCcEEEEecCcHH-HHHHHHHhchHHHHHhhcc-chhhhHHHHHHh
Confidence 34677887 7788999999 987 8998 9999 66667884 999999997654
No 55
>cd03031 GRX_GRX_like Glutaredoxin (GRX) family, GRX-like domain containing protein subfamily; composed of uncharacterized eukaryotic proteins containing a GRX-like domain having only one conserved cysteine, aligning to the C-terminal cysteine of the CXXC motif of GRXs. This subfamily is predominantly composed of plant proteins. GRX is a glutathione (GSH) dependent reductase, catalyzing the disulfide reduction of target proteins via a redox active CXXC motif using a similar dithiol mechanism employed by TRXs. GRX has preference for mixed GSH disulfide substrates, in which it uses a monothiol mechanism where only the N-terminal cysteine is required. Proteins containing only the C-terminal cysteine are generally redox inactive.
Probab=26.47 E-value=70 Score=29.21 Aligned_cols=43 Identities=21% Similarity=0.704 Sum_probs=29.4
Q ss_pred cccccccCCCcccceeeccCCCCCceeeccCCCCCCCCCCCCcccccccccc
Q 013828 3 TVCQQCGDKGFYEALIGCEKCQTTAVHIYCLPVLPASFEDDVLWYCEDCEPK 54 (436)
Q Consensus 3 tVC~ICGD~GfED~LllCd~Cd~~AeHtYCL~~~l~sVPE~g~W~C~eCqs~ 54 (436)
.+|..||+.+| +.|..|. +.--.|-.+. +.+.+..-|++|-+.
T Consensus 100 ~~C~~Cgg~rf----v~C~~C~-Gs~k~~~~~~----~~~~~~~rC~~Cnen 142 (147)
T cd03031 100 GVCEGCGGARF----VPCSECN-GSCKVFAENA----TAAGGFLRCPECNEN 142 (147)
T ss_pred CCCCCCCCcCe----EECCCCC-CcceEEeccC----cccccEEECCCCCcc
Confidence 36999999886 7899998 4444554331 122357889999753
No 56
>KOG1080 consensus Histone H3 (Lys4) methyltransferase complex, subunit SET1 and related methyltransferases [Chromatin structure and dynamics; Transcription]
Probab=26.01 E-value=50 Score=38.80 Aligned_cols=48 Identities=29% Similarity=0.663 Sum_probs=39.0
Q ss_pred cccccccCCCc--ccceeeccCCCCCceeeccCCCCCCCCCCCCccccccccc
Q 013828 3 TVCQQCGDKGF--YEALIGCEKCQTTAVHIYCLPVLPASFEDDVLWYCEDCEP 53 (436)
Q Consensus 3 tVC~ICGD~Gf--ED~LllCd~Cd~~AeHtYCL~~~l~sVPE~g~W~C~eCqs 53 (436)
..|.+|++... ..+.+.|++|+. ..|+-|.+..+.-. +..|.|..|+.
T Consensus 574 ~~c~~~~~~~~~~~n~~~~~~~~~~-~~~s~~~g~~~~~~--~~~~~~~~~~~ 623 (1005)
T KOG1080|consen 574 ERCAVCRDDEDWEKNVSIICDRCTR-SVHSECYGNLKSYD--GTSWVCDSCET 623 (1005)
T ss_pred ccccccccccccccceeeeeccccc-cCCCcccccCCCCC--CCcchhhcccc
Confidence 46889988754 677899999996 89999999853333 47999999996
No 57
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=25.37 E-value=16 Score=37.69 Aligned_cols=59 Identities=22% Similarity=0.365 Sum_probs=41.2
Q ss_pred CcccccccCCCcccc-------eeeccCCCCCceeeccCCCCCCCCCCCCcccccccccccCCCCCccCC
Q 013828 2 VTVCQQCGDKGFYEA-------LIGCEKCQTTAVHIYCLPVLPASFEDDVLWYCEDCEPKVAKPSTIVNP 64 (436)
Q Consensus 2 vtVC~ICGD~GfED~-------LllCd~Cd~~AeHtYCL~~~l~sVPE~g~W~C~eCqs~~~~~s~~~n~ 64 (436)
+.+|-+||..=+-+. -.+==.|+. -+|-+|.+.- --| ..--+||-|.++.+.+.-.+||
T Consensus 224 d~vCaVCg~~~~~s~~eegvienty~LsCnH-vFHEfCIrGW-civ--GKkqtCPYCKekVdl~rmfsnp 289 (328)
T KOG1734|consen 224 DSVCAVCGQQIDVSVDEEGVIENTYKLSCNH-VFHEFCIRGW-CIV--GKKQTCPYCKEKVDLKRMFSNP 289 (328)
T ss_pred cchhHhhcchheeecchhhhhhhheeeeccc-chHHHhhhhh-eee--cCCCCCchHHHHhhHhhhccCc
Confidence 578999998765444 222234777 6999999872 222 3466899999999887755554
No 58
>KOG1244 consensus Predicted transcription factor Requiem/NEURO-D4 [Transcription]
Probab=24.63 E-value=18 Score=37.22 Aligned_cols=54 Identities=28% Similarity=0.633 Sum_probs=40.3
Q ss_pred Ccccccc-c------CCCcccceeeccCCCCCceeeccCCCC---CCCCCCCCcccccccccccCC
Q 013828 2 VTVCQQC-G------DKGFYEALIGCEKCQTTAVHIYCLPVL---PASFEDDVLWYCEDCEPKVAK 57 (436)
Q Consensus 2 vtVC~IC-G------D~GfED~LllCd~Cd~~AeHtYCL~~~---l~sVPE~g~W~C~eCqs~~~~ 57 (436)
+..|++| | ..|.++-|+-|..|.. .-|--|+... +..|-. --|-|-+|..-...
T Consensus 224 n~YCDFclgdsr~nkkt~~peelvscsdcgr-sghpsclqft~nm~~avk~-yrwqcieck~csic 287 (336)
T KOG1244|consen 224 NPYCDFCLGDSRENKKTGMPEELVSCSDCGR-SGHPSCLQFTANMIAAVKT-YRWQCIECKYCSIC 287 (336)
T ss_pred CcccceeccccccccccCCchhhcchhhcCC-CCCcchhhhhHHHHHHHHh-heeeeeecceeccc
Confidence 4568888 3 3478999999999995 8999999863 334432 47999999876443
No 59
>KOG1512 consensus PHD Zn-finger protein [General function prediction only]
Probab=24.63 E-value=20 Score=37.30 Aligned_cols=53 Identities=25% Similarity=0.556 Sum_probs=36.2
Q ss_pred cccccccC------CCcccceeeccCCCCCceeeccCCCCCCCCC--CCCcccccccccccC
Q 013828 3 TVCQQCGD------KGFYEALIGCEKCQTTAVHIYCLPVLPASFE--DDVLWYCEDCEPKVA 56 (436)
Q Consensus 3 tVC~ICGD------~GfED~LllCd~Cd~~AeHtYCL~~~l~sVP--E~g~W~C~eCqs~~~ 56 (436)
..|.+|=| +|--+-++.|.-|.. +.|-||+.-.+.-|- -.-.|.|.+|.--..
T Consensus 259 ~~~~~~~~~~~~~~~~r~~S~I~C~~C~~-~~HP~Ci~M~~elv~~~KTY~W~C~~C~lC~I 319 (381)
T KOG1512|consen 259 NERKHFWDIQTNIIQSRRNSWIVCKPCAT-RPHPYCVAMIPELVGQYKTYFWKCSSCELCRI 319 (381)
T ss_pred hhhhhhhcchhhhhhhhhccceeeccccc-CCCCcchhcCHHHHhHHhhcchhhcccHhhhc
Confidence 34566644 356788999999996 899999986432221 014799999975543
No 60
>TIGR01206 lysW lysine biosynthesis protein LysW. This very small, poorly characterized protein has been shown essential in Thermus thermophilus for an unusual pathway of Lys biosynthesis from aspartate by way of alpha-aminoadipate (AAA) rather than diaminopimelate. It is found also in Deinococcus radiodurans and Pyrococcus horikoshii, which appear to share the AAA pathway.
Probab=24.48 E-value=77 Score=25.01 Aligned_cols=34 Identities=24% Similarity=0.574 Sum_probs=23.2
Q ss_pred CCcccccccCC-----CcccceeeccCCCCCceeeccCCC
Q 013828 1 MVTVCQQCGDK-----GFYEALIGCEKCQTTAVHIYCLPV 35 (436)
Q Consensus 1 mvtVC~ICGD~-----GfED~LllCd~Cd~~AeHtYCL~~ 35 (436)
|...|+.||.. .....++.|..|.. ..-....++
T Consensus 1 ~~~~CP~CG~~iev~~~~~GeiV~Cp~CGa-eleVv~~~p 39 (54)
T TIGR01206 1 MQFECPDCGAEIELENPELGELVICDECGA-ELEVVSLDP 39 (54)
T ss_pred CccCCCCCCCEEecCCCccCCEEeCCCCCC-EEEEEeCCC
Confidence 56789999952 23356889999986 344555554
No 61
>KOG2041 consensus WD40 repeat protein [General function prediction only]
Probab=22.49 E-value=59 Score=37.76 Aligned_cols=50 Identities=26% Similarity=0.676 Sum_probs=33.8
Q ss_pred cccccccCCCcccceeeccCCCCCceeeccCCCCCCCCCCCCcccccccccccC
Q 013828 3 TVCQQCGDKGFYEALIGCEKCQTTAVHIYCLPVLPASFEDDVLWYCEDCEPKVA 56 (436)
Q Consensus 3 tVC~ICGD~GfED~LllCd~Cd~~AeHtYCL~~~l~sVPE~g~W~C~eCqs~~~ 56 (436)
.-|.+||..=. +.-+.|.+|+..+ --|..- -.-+.++..|+|+.|...+.
T Consensus 1118 vdc~~cg~~i~-~~~~~c~ec~~kf--P~Cias-G~pIt~~~fWlC~~CkH~a~ 1167 (1189)
T KOG2041|consen 1118 VDCSVCGAKID-PYDLQCSECQTKF--PVCIAS-GRPITDNIFWLCPRCKHRAH 1167 (1189)
T ss_pred eeeeecCCcCC-ccCCCChhhcCcC--ceeecc-CCccccceEEEccccccccc
Confidence 35999997544 4557899999643 345433 13455567999999987653
No 62
>cd00029 C1 Protein kinase C conserved region 1 (C1) . Cysteine-rich zinc binding domain. Some members of this domain family bind phorbol esters and diacylglycerol, some are reported to bind RasGTP. May occur in tandem arrangement. Diacylglycerol (DAG) is a second messenger, released by activation of Phospholipase D. Phorbol Esters (PE) can act as analogues of DAG and mimic its downstream effects in, for example, tumor promotion. Protein Kinases C are activated by DAG/PE, this activation is mediated by their N-terminal conserved region (C1). DAG/PE binding may be phospholipid dependent. C1 domains may also mediate DAG/PE signals in chimaerins (a family of Rac GTPase activating proteins), RasGRPs (exchange factors for Ras/Rap1), and Munc13 isoforms (scaffolding proteins involved in exocytosis).
Probab=22.36 E-value=63 Score=22.73 Aligned_cols=34 Identities=21% Similarity=0.477 Sum_probs=25.1
Q ss_pred CcccccccCCCcc--cceeeccCCCCCceeeccCCCC
Q 013828 2 VTVCQQCGDKGFY--EALIGCEKCQTTAVHIYCLPVL 36 (436)
Q Consensus 2 vtVC~ICGD~GfE--D~LllCd~Cd~~AeHtYCL~~~ 36 (436)
.+.|.+|+..=.. ..-+.|..|+. ..|.-|....
T Consensus 11 ~~~C~~C~~~i~~~~~~~~~C~~C~~-~~H~~C~~~v 46 (50)
T cd00029 11 PTFCDVCRKSIWGLFKQGLRCSWCKV-KCHKKCADKV 46 (50)
T ss_pred CCChhhcchhhhccccceeEcCCCCC-chhhhhhccC
Confidence 3568888775443 56778999985 7999998863
No 63
>KOG1473 consensus Nucleosome remodeling factor, subunit NURF301/BPTF [Chromatin structure and dynamics; Transcription]
Probab=22.35 E-value=63 Score=38.90 Aligned_cols=48 Identities=31% Similarity=0.706 Sum_probs=40.6
Q ss_pred cccccccCCCcccceeeccCCCCCceeeccCCCCCCCCCCCCccccccccccc
Q 013828 3 TVCQQCGDKGFYEALIGCEKCQTTAVHIYCLPVLPASFEDDVLWYCEDCEPKV 55 (436)
Q Consensus 3 tVC~ICGD~GfED~LllCd~Cd~~AeHtYCL~~~l~sVPE~g~W~C~eCqs~~ 55 (436)
-+|.+|-|.|. |++|-.|.. .+|.-|...+.-++|+ ..|-|.-|....
T Consensus 345 dhcrf~~d~~~---~lc~Et~pr-vvhlEcv~hP~~~~~s-~~~e~evc~~hk 392 (1414)
T KOG1473|consen 345 DHCRFCHDLGD---LLCCETCPR-VVHLECVFHPRFAVPS-AFWECEVCNIHK 392 (1414)
T ss_pred ccccccCcccc---eeecccCCc-eEEeeecCCccccCCC-ccchhhhhhhhc
Confidence 46888887764 889999996 6999999999999997 799999998543
No 64
>smart00109 C1 Protein kinase C conserved region 1 (C1) domains (Cysteine-rich domains). Some bind phorbol esters and diacylglycerol. Some bind RasGTP. Zinc-binding domains.
Probab=22.32 E-value=41 Score=23.33 Aligned_cols=34 Identities=21% Similarity=0.420 Sum_probs=24.3
Q ss_pred CcccccccCCCccc-ceeeccCCCCCceeeccCCCC
Q 013828 2 VTVCQQCGDKGFYE-ALIGCEKCQTTAVHIYCLPVL 36 (436)
Q Consensus 2 vtVC~ICGD~GfED-~LllCd~Cd~~AeHtYCL~~~ 36 (436)
.+.|.+|++.=..- .-+.|..|+. ..|.-|+...
T Consensus 11 ~~~C~~C~~~i~~~~~~~~C~~C~~-~~H~~C~~~v 45 (49)
T smart00109 11 PTKCCVCRKSIWGSFQGLRCSWCKV-KCHKKCAEKV 45 (49)
T ss_pred CCCccccccccCcCCCCcCCCCCCc-hHHHHHHhhc
Confidence 45688897754322 3678999985 7999998863
No 65
>TIGR00270 conserved hypothetical protein TIGR00270.
Probab=22.09 E-value=37 Score=31.22 Aligned_cols=22 Identities=27% Similarity=0.643 Sum_probs=15.1
Q ss_pred ccccccCCCcc---------cceeeccCCCC
Q 013828 4 VCQQCGDKGFY---------EALIGCEKCQT 25 (436)
Q Consensus 4 VC~ICGD~GfE---------D~LllCd~Cd~ 25 (436)
.|+|||..=.. -.|..|+.|-.
T Consensus 2 ~CEiCG~~i~~~~~~v~iega~l~vC~~C~k 32 (154)
T TIGR00270 2 NCEICGRKIKGKGFKIVIEGSEMTVCGECRK 32 (154)
T ss_pred ccccCCCccCCCCeEEEEcCeEEehhhhHHh
Confidence 39999943322 35888999964
No 66
>PF13771 zf-HC5HC2H: PHD-like zinc-binding domain
Probab=21.96 E-value=50 Score=26.30 Aligned_cols=31 Identities=35% Similarity=0.804 Sum_probs=26.2
Q ss_pred CcccccccCC-CcccceeeccC--CCCCceeeccCCCC
Q 013828 2 VTVCQQCGDK-GFYEALIGCEK--CQTTAVHIYCLPVL 36 (436)
Q Consensus 2 vtVC~ICGD~-GfED~LllCd~--Cd~~AeHtYCL~~~ 36 (436)
...|.+|+.. | ..+.|.. |.. .+|..|....
T Consensus 36 ~~~C~~C~~~~G---a~i~C~~~~C~~-~fH~~CA~~~ 69 (90)
T PF13771_consen 36 KLKCSICKKKGG---ACIGCSHPGCSR-SFHVPCARKA 69 (90)
T ss_pred CCCCcCCCCCCC---eEEEEeCCCCCc-EEChHHHccC
Confidence 4689999988 6 8899987 996 7999999873
No 67
>PF01753 zf-MYND: MYND finger; InterPro: IPR002893 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents MYND-type zinc finger domains. The MYND domain (myeloid, Nervy, and DEAF-1) is present in a large group of proteins that includes RP-8 (PDCD2), Nervy, and predicted proteins from Drosophila, mammals, Caenorhabditis elegans, yeast, and plants [, , ]. The MYND domain consists of a cluster of cysteine and histidine residues, arranged with an invariant spacing to form a potential zinc-binding motif []. Mutating conserved cysteine residues in the DEAF-1 MYND domain does not abolish DNA binding, which suggests that the MYND domain might be involved in protein-protein interactions []. Indeed, the MYND domain of ETO/MTG8 interacts directly with the N-CoR and SMRT co-repressors [, ]. Aberrant recruitment of co-repressor complexes and inappropriate transcriptional repression is believed to be a general mechanism of leukemogenesis caused by the t(8;21) translocations that fuse ETO with the acute myelogenous leukemia 1 (AML1) protein. ETO has been shown to be a co-repressor recruited by the promyelocytic leukemia zinc finger (PLZF) protein []. A divergent MYND domain present in the adenovirus E1A binding protein BS69 was also shown to interact with N-CoR and mediate transcriptional repression []. The current evidence suggests that the MYND motif in mammalian proteins constitutes a protein-protein interaction domain that functions as a co-repressor-recruiting interface. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 3QWW_A 3QWV_A 3TG5_A 3S7F_A 3RIB_B 3TG4_A 3S7J_A 3S7D_A 3S7B_A 3RU0_A ....
Probab=21.93 E-value=67 Score=22.40 Aligned_cols=23 Identities=39% Similarity=1.102 Sum_probs=15.1
Q ss_pred cccccCCCcccceeeccCCCCCceeeccCC
Q 013828 5 CQQCGDKGFYEALIGCEKCQTTAVHIYCLP 34 (436)
Q Consensus 5 C~ICGD~GfED~LllCd~Cd~~AeHtYCL~ 34 (436)
|.+||. ..+..|.+|... .||..
T Consensus 1 C~~C~~----~~~~~C~~C~~~---~YCs~ 23 (37)
T PF01753_consen 1 CAVCGK----PALKRCSRCKSV---YYCSE 23 (37)
T ss_dssp -TTTSS----CSSEEETTTSSS---EESSH
T ss_pred CcCCCC----CcCCcCCCCCCE---EecCH
Confidence 678888 344499999753 57753
No 68
>PF04981 NMD3: NMD3 family ; InterPro: IPR007064 The NMD3 protein is involved in nonsense mediated mRNA decay. This N-terminal region contains four conserved CXXC motifs that could be metal binding. NMD3 is involved in export of the 60S ribosomal subunit is mediated by the adapter protein Nmd3p in a Crm1p-dependent pathway [].
Probab=21.69 E-value=54 Score=31.38 Aligned_cols=46 Identities=17% Similarity=0.219 Sum_probs=32.7
Q ss_pred cccccCCCcccceeeccCCCCCceeeccCCCCCCCCCCC-CcccccccccccCC
Q 013828 5 CQQCGDKGFYEALIGCEKCQTTAVHIYCLPVLPASFEDD-VLWYCEDCEPKVAK 57 (436)
Q Consensus 5 C~ICGD~GfED~LllCd~Cd~~AeHtYCL~~~l~sVPE~-g~W~C~eCqs~~~~ 57 (436)
|+.||....+-.--+|..|-. ..| .+..+|+. ..-+|+.|-+-..+
T Consensus 1 C~~CG~~~~~~~~~lC~~C~~-~~~------~i~ei~~~i~v~~C~~Cg~~~~~ 47 (236)
T PF04981_consen 1 CPRCGREIEPLIDGLCPDCYL-KRF------DIIEIPDRIEVTICPKCGRYRIG 47 (236)
T ss_pred CCCCCCCCCCcccccChHHhc-ccC------CeeecCCccCceECCCCCCEECC
Confidence 999999776666679999975 333 22345543 57899999877655
No 69
>cd00729 rubredoxin_SM Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.
Probab=20.40 E-value=41 Score=23.83 Aligned_cols=22 Identities=36% Similarity=0.561 Sum_probs=11.7
Q ss_pred ccccccCCCccc-ceeeccCCCC
Q 013828 4 VCQQCGDKGFYE-ALIGCEKCQT 25 (436)
Q Consensus 4 VC~ICGD~GfED-~LllCd~Cd~ 25 (436)
+|.+||..-..+ ..-.|-.|..
T Consensus 4 ~C~~CG~i~~g~~~p~~CP~Cg~ 26 (34)
T cd00729 4 VCPVCGYIHEGEEAPEKCPICGA 26 (34)
T ss_pred ECCCCCCEeECCcCCCcCcCCCC
Confidence 566666663322 3445555554
Done!