Query 002597
Match_columns 902
No_of_seqs 332 out of 1598
Neff 3.8
Searched_HMMs 46136
Date Fri Mar 29 03:13:49 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/002597.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/002597hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0956 PHD finger protein AF1 99.0 1.5E-10 3.2E-15 133.7 4.1 113 720-833 7-190 (900)
2 KOG1244 Predicted transcriptio 99.0 9.3E-11 2E-15 124.2 1.3 91 717-821 223-329 (336)
3 KOG1512 PHD Zn-finger protein 98.9 3.7E-10 8.1E-15 120.4 1.5 89 719-822 259-362 (381)
4 COG5141 PHD zinc finger-contai 98.5 4.5E-08 9.7E-13 110.5 3.2 59 715-773 190-261 (669)
5 KOG4443 Putative transcription 98.4 5.9E-08 1.3E-12 112.7 0.6 89 717-818 17-114 (694)
6 KOG4299 PHD Zn-finger protein 98.3 2.1E-07 4.6E-12 107.9 0.9 46 718-763 253-305 (613)
7 KOG1473 Nucleosome remodeling 98.2 2.1E-07 4.6E-12 112.5 -1.2 146 590-761 240-389 (1414)
8 KOG0955 PHD finger protein BR1 98.2 1.1E-06 2.4E-11 107.9 4.5 59 715-773 216-287 (1051)
9 KOG1244 Predicted transcriptio 98.2 4.6E-07 9.9E-12 96.8 0.8 79 648-761 245-329 (336)
10 KOG1512 PHD Zn-finger protein 98.2 4.3E-07 9.2E-12 97.5 0.5 74 648-758 278-357 (381)
11 KOG0954 PHD finger protein [Ge 98.1 1.5E-06 3.3E-11 102.1 2.4 87 716-802 269-366 (893)
12 PF15446 zf-PHD-like: PHD/FYVE 98.0 4.3E-06 9.2E-11 84.6 3.6 82 720-801 1-142 (175)
13 KOG1973 Chromatin remodeling p 98.0 2.3E-06 4.9E-11 92.1 1.7 38 724-761 226-266 (274)
14 KOG4299 PHD Zn-finger protein 98.0 3.7E-06 7.9E-11 97.9 3.2 44 718-761 47-93 (613)
15 COG5034 TNG2 Chromatin remodel 98.0 2.7E-06 5.9E-11 90.4 1.9 46 715-761 218-268 (271)
16 smart00249 PHD PHD zinc finger 98.0 5.9E-06 1.3E-10 63.7 3.0 41 720-760 1-47 (47)
17 PF00628 PHD: PHD-finger; Int 97.9 2.2E-06 4.9E-11 69.3 0.5 42 720-761 1-49 (51)
18 KOG4443 Putative transcription 97.9 1.3E-06 2.8E-11 101.9 -1.5 115 650-800 36-180 (694)
19 KOG0825 PHD Zn-finger protein 97.8 4.7E-06 1E-10 98.4 1.1 45 717-761 214-264 (1134)
20 KOG4323 Polycomb-like PHD Zn-f 97.8 1.8E-05 4E-10 90.3 4.3 104 717-828 82-229 (464)
21 KOG0383 Predicted helicase [Ge 97.6 1.8E-05 4E-10 94.3 0.5 50 714-763 43-94 (696)
22 KOG0383 Predicted helicase [Ge 97.4 0.00013 2.9E-09 87.2 3.9 82 735-833 1-106 (696)
23 KOG0825 PHD Zn-finger protein 97.2 0.00012 2.6E-09 87.1 1.3 36 782-822 229-265 (1134)
24 smart00249 PHD PHD zinc finger 96.6 0.0022 4.9E-08 49.3 3.4 35 781-818 12-46 (47)
25 KOG0957 PHD finger protein [Ge 96.5 0.0017 3.6E-08 74.8 3.1 52 719-770 120-193 (707)
26 PF00628 PHD: PHD-finger; Int 96.3 0.0012 2.6E-08 53.5 0.6 45 762-817 2-46 (51)
27 PF13831 PHD_2: PHD-finger; PD 96.0 0.001 2.2E-08 52.0 -1.3 34 728-761 2-36 (36)
28 cd04718 BAH_plant_2 BAH, or Br 96.0 0.0045 9.8E-08 62.1 2.6 30 739-768 1-32 (148)
29 KOG1245 Chromatin remodeling c 95.1 0.0049 1.1E-07 79.2 -0.7 45 717-761 1107-1156(1404)
30 KOG4323 Polycomb-like PHD Zn-f 95.0 0.008 1.7E-07 69.4 0.8 43 719-761 169-222 (464)
31 KOG1973 Chromatin remodeling p 95.0 0.0089 1.9E-07 64.8 1.0 36 781-822 230-268 (274)
32 KOG0957 PHD finger protein [Ge 93.9 0.021 4.6E-07 66.1 0.9 44 718-761 544-596 (707)
33 PF07227 DUF1423: Protein of u 89.4 0.33 7.2E-06 56.2 3.8 66 754-825 123-194 (446)
34 PF01429 MBD: Methyl-CpG bindi 87.0 0.56 1.2E-05 42.0 3.0 58 404-465 11-71 (77)
35 COG5034 TNG2 Chromatin remodel 86.9 0.36 7.8E-06 52.5 2.0 36 781-823 232-270 (271)
36 KOG1245 Chromatin remodeling c 86.5 0.28 6.1E-06 63.8 1.1 50 762-825 1111-1160(1404)
37 KOG0955 PHD finger protein BR1 84.9 0.6 1.3E-05 59.2 2.8 35 780-821 233-267 (1051)
38 KOG1473 Nucleosome remodeling 84.6 0.2 4.3E-06 62.9 -1.4 45 717-761 427-477 (1414)
39 PF13832 zf-HC5HC2H_2: PHD-zin 84.1 0.71 1.5E-05 43.1 2.3 66 720-801 2-88 (110)
40 cd01396 MeCP2_MBD MeCP2, MBD1, 83.8 1.4 3.1E-05 39.9 4.0 57 404-465 7-65 (77)
41 cd04718 BAH_plant_2 BAH, or Br 83.4 0.53 1.1E-05 47.7 1.2 23 792-818 1-23 (148)
42 KOG1081 Transcription factor N 81.9 1.1 2.5E-05 52.3 3.3 45 715-760 86-130 (463)
43 KOG0956 PHD finger protein AF1 78.4 0.97 2.1E-05 54.8 1.3 47 762-822 8-56 (900)
44 cd00122 MBD MeCP2, MBD1, MBD2, 76.5 4 8.6E-05 35.2 4.2 41 404-444 6-48 (62)
45 KOG0954 PHD finger protein [Ge 75.4 1.9 4E-05 52.9 2.5 47 762-822 274-320 (893)
46 KOG0804 Cytoplasmic Zn-finger 74.1 1.8 3.8E-05 50.6 1.8 41 717-761 174-218 (493)
47 KOG1701 Focal adhesion adaptor 73.9 0.73 1.6E-05 53.2 -1.2 74 720-800 336-430 (468)
48 COG5141 PHD zinc finger-contai 73.4 1.7 3.7E-05 51.2 1.5 32 779-816 206-237 (669)
49 PF14446 Prok-RING_1: Prokaryo 72.8 1.9 4.1E-05 37.2 1.3 28 719-746 6-37 (54)
50 KOG4628 Predicted E3 ubiquitin 68.8 4.7 0.0001 46.0 3.7 45 719-764 230-277 (348)
51 PF01342 SAND: SAND domain; I 68.7 1.3 2.8E-05 40.6 -0.6 33 656-689 41-74 (82)
52 smart00258 SAND SAND domain. 61.5 4.4 9.5E-05 36.9 1.3 40 649-689 22-65 (73)
53 PF15446 zf-PHD-like: PHD/FYVE 58.5 6.8 0.00015 40.8 2.3 34 762-801 2-35 (175)
54 PF11793 FANCL_C: FANCL C-term 55.8 5.5 0.00012 35.3 1.0 28 719-746 3-38 (70)
55 PF13831 PHD_2: PHD-finger; PD 51.5 6.1 0.00013 31.2 0.5 31 781-816 2-32 (36)
56 PF05502 Dynactin_p62: Dynacti 49.6 13 0.00028 44.1 3.0 30 729-761 4-33 (483)
57 PF07897 DUF1675: Protein of u 48.8 7.8 0.00017 43.2 1.0 40 640-679 237-283 (284)
58 PF13832 zf-HC5HC2H_2: PHD-zin 48.4 10 0.00022 35.5 1.5 30 717-746 54-86 (110)
59 PF13639 zf-RING_2: Ring finge 48.4 2.1 4.5E-05 33.9 -2.5 40 719-761 1-44 (44)
60 PF13901 DUF4206: Domain of un 47.9 14 0.00031 38.8 2.7 36 719-761 153-196 (202)
61 PF14446 Prok-RING_1: Prokaryo 47.4 12 0.00026 32.5 1.7 33 760-800 6-38 (54)
62 smart00391 MBD Methyl-CpG bind 45.9 40 0.00087 30.7 4.9 37 404-440 8-47 (77)
63 KOG3612 PHD Zn-finger protein 45.2 16 0.00035 43.9 2.8 46 716-761 58-106 (588)
64 PLN03086 PRLI-interacting fact 43.3 9.4 0.0002 46.1 0.6 32 647-681 405-436 (567)
65 KOG1246 DNA-binding protein ju 42.9 28 0.00061 44.1 4.7 49 718-766 155-207 (904)
66 PF10497 zf-4CXXC_R1: Zinc-fin 42.1 15 0.00032 35.3 1.6 37 734-770 34-81 (105)
67 PF12861 zf-Apc11: Anaphase-pr 41.5 11 0.00024 35.3 0.7 31 730-761 47-78 (85)
68 PF13771 zf-HC5HC2H: PHD-like 40.9 15 0.00032 33.0 1.4 29 718-746 36-67 (90)
69 KOG3576 Ovo and related transc 39.5 10 0.00023 40.8 0.2 63 728-799 115-189 (267)
70 KOG1734 Predicted RING-contain 37.5 12 0.00025 41.8 0.2 47 700-746 205-262 (328)
71 KOG2752 Uncharacterized conser 34.7 27 0.00058 39.7 2.4 22 780-801 145-167 (345)
72 COG0143 MetG Methionyl-tRNA sy 34.3 17 0.00037 43.9 0.9 37 753-800 125-172 (558)
73 COG1107 Archaea-specific RecJ- 34.0 21 0.00046 43.5 1.5 35 718-761 68-102 (715)
74 KOG1044 Actin-binding LIM Zn-f 32.8 58 0.0013 39.8 4.8 8 719-726 134-141 (670)
75 KOG1829 Uncharacterized conser 32.6 25 0.00054 42.8 1.9 33 782-826 530-562 (580)
76 KOG1952 Transcription factor N 32.1 16 0.00036 45.8 0.3 43 719-761 192-243 (950)
77 KOG0269 WD40 repeat-containing 31.6 20 0.00043 44.6 0.9 41 750-800 764-810 (839)
78 KOG1701 Focal adhesion adaptor 31.3 6 0.00013 46.2 -3.3 86 719-816 275-385 (468)
79 PRK04023 DNA polymerase II lar 31.2 33 0.00072 44.1 2.6 41 717-768 625-672 (1121)
80 PF13771 zf-HC5HC2H: PHD-like 30.6 25 0.00054 31.6 1.1 30 761-801 38-69 (90)
81 KOG1632 Uncharacterized PHD Zn 29.9 35 0.00075 39.0 2.3 36 729-764 74-114 (345)
82 PRK14559 putative protein seri 28.6 39 0.00084 41.7 2.6 43 730-792 1-50 (645)
83 cd00162 RING RING-finger (Real 28.5 19 0.00041 26.9 -0.0 40 721-761 2-42 (45)
84 PLN02400 cellulose synthase 27.3 60 0.0013 42.2 3.9 45 716-761 34-85 (1085)
85 KOG1632 Uncharacterized PHD Zn 26.9 34 0.00074 39.1 1.6 45 782-830 74-120 (345)
86 PF12678 zf-rbx1: RING-H2 zinc 25.8 15 0.00033 32.6 -1.1 26 734-761 48-73 (73)
87 PF05687 DUF822: Plant protein 25.6 56 0.0012 33.6 2.6 24 395-434 47-70 (150)
88 smart00547 ZnF_RBZ Zinc finger 25.6 43 0.00094 23.9 1.4 9 753-761 1-9 (26)
89 PF07227 DUF1423: Protein of u 25.3 46 0.001 39.4 2.3 30 717-746 127-162 (446)
90 PLN02638 cellulose synthase A 25.3 65 0.0014 41.9 3.7 45 716-761 15-66 (1079)
91 smart00184 RING Ring finger. E 25.0 18 0.00038 26.0 -0.7 39 721-760 1-39 (39)
92 KOG2807 RNA polymerase II tran 23.6 37 0.00081 38.8 1.1 44 716-761 328-374 (378)
93 PLN02436 cellulose synthase A 23.4 75 0.0016 41.4 3.8 44 717-761 35-85 (1094)
94 PF13901 DUF4206: Domain of un 22.9 46 0.001 35.0 1.6 19 782-800 171-189 (202)
95 PF12773 DZR: Double zinc ribb 22.1 68 0.0015 26.1 2.1 8 753-760 28-35 (50)
96 PHA02929 N1R/p28-like protein; 22.1 43 0.00093 36.6 1.2 44 716-761 172-223 (238)
97 KOG1080 Histone H3 (Lys4) meth 21.6 99 0.0021 40.2 4.3 54 719-772 574-640 (1005)
98 PF10367 Vps39_2: Vacuolar sor 21.4 65 0.0014 29.3 2.0 30 717-746 77-108 (109)
99 KOG1169 Diacylglycerol kinase 21.1 39 0.00085 41.5 0.7 77 718-800 116-211 (634)
100 PLN02189 cellulose synthase 21.1 87 0.0019 40.7 3.7 45 716-761 32-83 (1040)
101 PTZ00399 cysteinyl-tRNA-synthe 20.9 2.3E+02 0.005 35.2 7.1 40 393-447 517-557 (651)
102 PF04216 FdhE: Protein involve 20.9 48 0.001 36.4 1.3 60 717-791 171-246 (290)
103 PHA02862 5L protein; Provision 20.8 25 0.00054 36.2 -0.9 30 718-747 2-35 (156)
104 PF00641 zf-RanBP: Zn-finger i 20.1 35 0.00075 25.5 0.0 10 752-761 2-11 (30)
105 cd01397 HAT_MBD Methyl-CpG bin 20.0 1.3E+02 0.0029 27.6 3.6 59 404-467 6-67 (73)
No 1
>KOG0956 consensus PHD finger protein AF10 [General function prediction only]
Probab=99.02 E-value=1.5e-10 Score=133.65 Aligned_cols=113 Identities=27% Similarity=0.691 Sum_probs=82.8
Q ss_pred cCcccCCC-----CCeeeeCC--CCCCCCCcccCCCCCCCCCCCCCccc---------ccccCCCCCCCCCC--------
Q 002597 720 TCGICGDG-----GDLICCDG--CPSTFHQSCLDIQMLPPGDWHCPNCT---------CKFCGLAGEDDAEG-------- 775 (902)
Q Consensus 720 ~C~VCgdG-----GeLLcCD~--CpraFH~~CLg~~~vPeg~W~Cp~C~---------C~~Cg~~~~d~~~e-------- 775 (902)
-|.||.|. ..||+||+ |.-+.|+.|+++.+||.|+|||..|. |.+|...++.-+-.
T Consensus 7 GCCVCSDErGWaeNPLVYCDG~nCsVAVHQaCYGIvqVPtGpWfCrKCesqeraarvrCeLCP~kdGALKkTDn~GWAHV 86 (900)
T KOG0956|consen 7 GCCVCSDERGWAENPLVYCDGHNCSVAVHQACYGIVQVPTGPWFCRKCESQERAARVRCELCPHKDGALKKTDNGGWAHV 86 (900)
T ss_pred ceeeecCcCCCccCceeeecCCCceeeeehhcceeEecCCCchhhhhhhhhhhhccceeecccCcccceecccCCCceEE
Confidence 58899874 35999996 99999999999999999999999996 76665433221100
Q ss_pred -------------------------------------------CCCCCcceeeCC--cchhhhhcccccccccccccc-C
Q 002597 776 -------------------------------------------DDTTTSALLPCA--MCEKKYHKLCMQEMDALSDNL-T 809 (902)
Q Consensus 776 -------------------------------------------d~~s~~~LL~Cd--qCer~YHv~CL~p~~~lp~~i-~ 809 (902)
-....+..+.|+ .|.++||+.|.+-.+.++++. .
T Consensus 87 VCALYIPEVrFgNV~TMEPIiLq~VP~dRfnKtCYIC~E~GrpnkA~~GACMtCNKs~CkqaFHVTCAQ~~GLLCEE~gn 166 (900)
T KOG0956|consen 87 VCALYIPEVRFGNVHTMEPIILQDVPHDRFNKTCYICNEEGRPNKAAKGACMTCNKSGCKQAFHVTCAQRAGLLCEEEGN 166 (900)
T ss_pred EEEeeccceeecccccccceeeccCchhhhcceeeeecccCCccccccccceecccccchhhhhhhHhhhhccceecccc
Confidence 001234567886 899999999998777677655 2
Q ss_pred CCc-ceeeCCcchhhHHHHHhHhcc
Q 002597 810 GLV-TSFCGRKCQELSEHLQKYLGV 833 (902)
Q Consensus 810 ps~-~WFCs~~C~eI~e~LqkLVGv 833 (902)
..+ .-|| ..|+.+|.+|.+-..+
T Consensus 167 ~~dNVKYC-GYCk~HfsKlkk~~~~ 190 (900)
T KOG0956|consen 167 ISDNVKYC-GYCKYHFSKLKKSPAI 190 (900)
T ss_pred ccccceec-hhHHHHHHHhhcCCCc
Confidence 233 3455 6999999999876554
No 2
>KOG1244 consensus Predicted transcription factor Requiem/NEURO-D4 [Transcription]
Probab=99.00 E-value=9.3e-11 Score=124.23 Aligned_cols=91 Identities=27% Similarity=0.695 Sum_probs=73.0
Q ss_pred CCCcCcccC----------CCCCeeeeCCCCCCCCCcccCCC-----CCCCCCCCCCccc-ccccCCCCCCCCCCCCCCC
Q 002597 717 NDDTCGICG----------DGGDLICCDGCPSTFHQSCLDIQ-----MLPPGDWHCPNCT-CKFCGLAGEDDAEGDDTTT 780 (902)
Q Consensus 717 ndd~C~VCg----------dGGeLLcCD~CpraFH~~CLg~~-----~vPeg~W~Cp~C~-C~~Cg~~~~d~~~ed~~s~ 780 (902)
...+|..|- .+.+|+.|..|+++-|+.||... .|-..-|+|..|+ |.+||....+
T Consensus 223 Pn~YCDFclgdsr~nkkt~~peelvscsdcgrsghpsclqft~nm~~avk~yrwqcieck~csicgtsend--------- 293 (336)
T KOG1244|consen 223 PNPYCDFCLGDSRENKKTGMPEELVSCSDCGRSGHPSCLQFTANMIAAVKTYRWQCIECKYCSICGTSEND--------- 293 (336)
T ss_pred CCcccceeccccccccccCCchhhcchhhcCCCCCcchhhhhHHHHHHHHhheeeeeecceeccccCcCCC---------
Confidence 346888883 24679999999999999999843 2455789999998 8888876643
Q ss_pred cceeeCCcchhhhhccccccccccccccCCCcceeeCCcch
Q 002597 781 SALLPCAMCEKKYHKLCMQEMDALSDNLTGLVTSFCGRKCQ 821 (902)
Q Consensus 781 ~~LL~CdqCer~YHv~CL~p~~~lp~~i~ps~~WFCs~~C~ 821 (902)
..+++|+-|+++||++||.| ++..+|++.|-| .-|-
T Consensus 294 dqllfcddcdrgyhmyclsp----pm~eppegswsc-~KOG 329 (336)
T KOG1244|consen 294 DQLLFCDDCDRGYHMYCLSP----PMVEPPEGSWSC-HLCL 329 (336)
T ss_pred ceeEeecccCCceeeEecCC----CcCCCCCCchhH-HHHH
Confidence 35999999999999999987 666778899998 3443
No 3
>KOG1512 consensus PHD Zn-finger protein [General function prediction only]
Probab=98.90 E-value=3.7e-10 Score=120.36 Aligned_cols=89 Identities=22% Similarity=0.510 Sum_probs=71.6
Q ss_pred CcCcccCCC---------CCeeeeCCCCCCCCCcccCCC-----CCCCCCCCCCccc-ccccCCCCCCCCCCCCCCCcce
Q 002597 719 DTCGICGDG---------GDLICCDGCPSTFHQSCLDIQ-----MLPPGDWHCPNCT-CKFCGLAGEDDAEGDDTTTSAL 783 (902)
Q Consensus 719 d~C~VCgdG---------GeLLcCD~CpraFH~~CLg~~-----~vPeg~W~Cp~C~-C~~Cg~~~~d~~~ed~~s~~~L 783 (902)
..|.+|-++ ..+|+|..|..++|++|+.++ ++-...|.|..|. |.+|+.+..++ .+
T Consensus 259 ~~~~~~~~~~~~~~~~r~~S~I~C~~C~~~~HP~Ci~M~~elv~~~KTY~W~C~~C~lC~IC~~P~~E~---------E~ 329 (381)
T KOG1512|consen 259 NERKHFWDIQTNIIQSRRNSWIVCKPCATRPHPYCVAMIPELVGQYKTYFWKCSSCELCRICLGPVIES---------EH 329 (381)
T ss_pred hhhhhhhcchhhhhhhhhccceeecccccCCCCcchhcCHHHHhHHhhcchhhcccHhhhccCCcccch---------he
Confidence 478888654 349999999999999999864 2445789999998 99999887643 38
Q ss_pred eeCCcchhhhhccccccccccccccCCCcceeeCCcchh
Q 002597 784 LPCAMCEKKYHKLCMQEMDALSDNLTGLVTSFCGRKCQE 822 (902)
Q Consensus 784 L~CdqCer~YHv~CL~p~~~lp~~i~ps~~WFCs~~C~e 822 (902)
++||.|+++||..|..- ...|.+.|+|-..|..
T Consensus 330 ~FCD~CDRG~HT~CVGL------~~lP~G~WICD~~C~~ 362 (381)
T KOG1512|consen 330 LFCDVCDRGPHTLCVGL------QDLPRGEWICDMRCRE 362 (381)
T ss_pred eccccccCCCCcccccc------ccccCccchhhhHHHH
Confidence 99999999999999863 2347799999766653
No 4
>COG5141 PHD zinc finger-containing protein [General function prediction only]
Probab=98.52 E-value=4.5e-08 Score=110.47 Aligned_cols=59 Identities=41% Similarity=0.932 Sum_probs=50.1
Q ss_pred CCCCCcCcccCCC-----CCeeeeCCCCCCCCCcccCCCCCCCCCCCCCccc--------ccccCCCCCCCC
Q 002597 715 DPNDDTCGICGDG-----GDLICCDGCPSTFHQSCLDIQMLPPGDWHCPNCT--------CKFCGLAGEDDA 773 (902)
Q Consensus 715 d~ndd~C~VCgdG-----GeLLcCD~CpraFH~~CLg~~~vPeg~W~Cp~C~--------C~~Cg~~~~d~~ 773 (902)
+.-++.|.+|... .-+++||+|..+.|+.|.+++.+|+|.|+|..|. |.+|....+...
T Consensus 190 d~~d~~C~~c~~t~~eN~naiVfCdgC~i~VHq~CYGI~f~peG~WlCrkCi~~~~~i~~C~fCps~dGaFk 261 (669)
T COG5141 190 DEFDDICTKCTSTHNENSNAIVFCDGCEICVHQSCYGIQFLPEGFWLCRKCIYGEYQIRCCSFCPSSDGAFK 261 (669)
T ss_pred hhhhhhhHhccccccCCcceEEEecCcchhhhhhcccceecCcchhhhhhhcccccceeEEEeccCCCCcee
Confidence 4457789999754 3499999999999999999999999999999996 899987766544
No 5
>KOG4443 consensus Putative transcription factor HALR/MLL3, involved in embryonic development [General function prediction only]
Probab=98.41 E-value=5.9e-08 Score=112.70 Aligned_cols=89 Identities=28% Similarity=0.821 Sum_probs=70.2
Q ss_pred CCCcCcccCCC-----CCeeeeCCCCCCCCCcccCCCC---CCCCCCCCCccc-ccccCCCCCCCCCCCCCCCcceeeCC
Q 002597 717 NDDTCGICGDG-----GDLICCDGCPSTFHQSCLDIQM---LPPGDWHCPNCT-CKFCGLAGEDDAEGDDTTTSALLPCA 787 (902)
Q Consensus 717 ndd~C~VCgdG-----GeLLcCD~CpraFH~~CLg~~~---vPeg~W~Cp~C~-C~~Cg~~~~d~~~ed~~s~~~LL~Cd 787 (902)
...+|.+|+.. |-|+.|..|...||.+|+.... +-.+.|.|+.|+ |..|+..+.+ ..+++|+
T Consensus 17 ~~~mc~l~~s~G~~~ag~m~ac~~c~~~yH~~cvt~~~~~~~l~~gWrC~~crvCe~c~~~gD~---------~kf~~Ck 87 (694)
T KOG4443|consen 17 VCLMCPLCGSSGKGRAGRLLACSDCGQKYHPYCVTSWAQHAVLSGGWRCPSCRVCEACGTTGDP---------KKFLLCK 87 (694)
T ss_pred hhhhhhhhccccccccCcchhhhhhcccCCcchhhHHHhHHHhcCCcccCCceeeeeccccCCc---------ccccccc
Confidence 34688899764 4599999999999999998531 223459999998 9999855533 4589999
Q ss_pred cchhhhhccccccccccccccCCCcceeeCC
Q 002597 788 MCEKKYHKLCMQEMDALSDNLTGLVTSFCGR 818 (902)
Q Consensus 788 qCer~YHv~CL~p~~~lp~~i~ps~~WFCs~ 818 (902)
.|+-.||.+|+.| +....+.+.|+|..
T Consensus 88 ~cDvsyh~yc~~P----~~~~v~sg~~~ckk 114 (694)
T KOG4443|consen 88 RCDVSYHCYCQKP----PNDKVPSGPWLCKK 114 (694)
T ss_pred cccccccccccCC----ccccccCcccccHH
Confidence 9999999999987 44556788999975
No 6
>KOG4299 consensus PHD Zn-finger protein [General function prediction only]
Probab=98.27 E-value=2.1e-07 Score=107.89 Aligned_cols=46 Identities=52% Similarity=1.413 Sum_probs=41.0
Q ss_pred CCcCcccCCCCCe---eeeCCCCCCCCCcccCCC----CCCCCCCCCCccccc
Q 002597 718 DDTCGICGDGGDL---ICCDGCPSTFHQSCLDIQ----MLPPGDWHCPNCTCK 763 (902)
Q Consensus 718 dd~C~VCgdGGeL---LcCD~CpraFH~~CLg~~----~vPeg~W~Cp~C~C~ 763 (902)
.++|..|+..|.. ||||+||.+||+.||.|| .+|.+.|+|+.|.|.
T Consensus 253 ~~fCsaCn~~~~F~~~i~CD~Cp~sFH~~CLePPl~~eniP~g~W~C~ec~~k 305 (613)
T KOG4299|consen 253 EDFCSACNGSGLFNDIICCDGCPRSFHQTCLEPPLEPENIPPGSWFCPECKIK 305 (613)
T ss_pred HHHHHHhCCccccccceeecCCchHHHHhhcCCCCCcccCCCCccccCCCeee
Confidence 4599999988876 999999999999999986 478999999999864
No 7
>KOG1473 consensus Nucleosome remodeling factor, subunit NURF301/BPTF [Chromatin structure and dynamics; Transcription]
Probab=98.20 E-value=2.1e-07 Score=112.52 Aligned_cols=146 Identities=25% Similarity=0.528 Sum_probs=85.8
Q ss_pred eeccCCCCCCCCCCccccCCCcch--hhhhhccCcccccceEEEeeccccceeeeeeeecCCcccCCCCceeecccceec
Q 002597 590 IRNSNVGPNSETDGFVPYAGKLTL--LSWLIDSGTVQLSQKVQYMNRRRTKVMLEGWITRDGIHCGCCSKILTVSKFEIH 667 (902)
Q Consensus 590 ~R~S~k~~~~~~~g~vP~~~krTV--LSwLID~G~V~~~~kV~Y~n~k~~kvlLeG~It~dGI~C~CC~kvfSpSeFE~H 667 (902)
.|..-...+-.+++|-|.+.+.+| .-+|||.-+|++ +|+-|++.++-.=.---..| ..|..|
T Consensus 240 LrA~lr~eD~~~Thfs~~d~KdsvnI~l~liD~lTWPe--------------vLrqY~ea~~~ad~~v~~~~--n~fv~~ 303 (1414)
T KOG1473|consen 240 LRALLREEDRLSTHFSPLDSKDSVNIDLYLIDTLTWPE--------------VLRQYFEADKHADGPVWDIF--NPFVVE 303 (1414)
T ss_pred HHHHhhhhhhcccccCccccccceeeeeehhccccHHH--------------HHHHHHHhccccCcchhhhh--cccccc
Confidence 566666677888999999999876 336789988874 34555554441000000011 122222
Q ss_pred cCCccccCceeEeecCCcchhhhhHHhhhccccccccCCcccCCCCCCCCCCcCcccCCCCCeeeeCCCCCCCCCcccCC
Q 002597 668 AGSKLRQPFQNIYLDSGVSLLQCQIDAWNKLKESESIGFESVDVDGDDPNDDTCGICGDGGDLICCDGCPSTFHQSCLDI 747 (902)
Q Consensus 668 AGsk~rrPy~nI~LedG~SLldCqIeAwnkqe~sEk~g~~~V~~dged~ndd~C~VCgdGGeLLcCD~CpraFH~~CLg~ 747 (902)
. -.||.-| +.-.-++|........-.... ..+..+++..-++.|.+|.+.|+++||..||+.||..|+.+
T Consensus 304 ~----eY~~~pv--~~klkILQ~L~Dq~l~~~s~R----~e~~se~~~~~ddhcrf~~d~~~~lc~Et~prvvhlEcv~h 373 (1414)
T KOG1473|consen 304 D----EYPYRPV--SNKLKILQFLCDQFLTVNSLR----DEIDSEGEIEYDDHCRFCHDLGDLLCCETCPRVVHLECVFH 373 (1414)
T ss_pred c----cccccch--hhhHHHHHHHHHHHHHHHHHH----HHHhcccceeecccccccCcccceeecccCCceEEeeecCC
Confidence 1 1222222 122233432211110000000 00122344556789999999999999999999999999997
Q ss_pred C--CCCCCCCCCCccc
Q 002597 748 Q--MLPPGDWHCPNCT 761 (902)
Q Consensus 748 ~--~vPeg~W~Cp~C~ 761 (902)
+ .+|...|.|.-|.
T Consensus 374 P~~~~~s~~~e~evc~ 389 (1414)
T KOG1473|consen 374 PRFAVPSAFWECEVCN 389 (1414)
T ss_pred ccccCCCccchhhhhh
Confidence 6 4788999999886
No 8
>KOG0955 consensus PHD finger protein BR140/LIN-49 [General function prediction only]
Probab=98.18 E-value=1.1e-06 Score=107.86 Aligned_cols=59 Identities=37% Similarity=0.923 Sum_probs=50.8
Q ss_pred CCCCCcCcccCCC-----CCeeeeCCCCCCCCCcccCCCCCCCCCCCCCccc--------ccccCCCCCCCC
Q 002597 715 DPNDDTCGICGDG-----GDLICCDGCPSTFHQSCLDIQMLPPGDWHCPNCT--------CKFCGLAGEDDA 773 (902)
Q Consensus 715 d~ndd~C~VCgdG-----GeLLcCD~CpraFH~~CLg~~~vPeg~W~Cp~C~--------C~~Cg~~~~d~~ 773 (902)
...|..|.||.++ ..+|+||.|..++|+.|++++.+|+|.|+|..|. |.+|...+++..
T Consensus 216 ~~~D~~C~iC~~~~~~n~n~ivfCD~Cnl~VHq~Cygi~~ipeg~WlCr~Cl~s~~~~v~c~~cp~~~gAFk 287 (1051)
T KOG0955|consen 216 LEEDAVCCICLDGECQNSNVIVFCDGCNLAVHQECYGIPFIPEGQWLCRRCLQSPQRPVRCLLCPSKGGAFK 287 (1051)
T ss_pred cCCCccceeecccccCCCceEEEcCCCcchhhhhccCCCCCCCCcEeehhhccCcCcccceEeccCCCCcce
Confidence 4567899999875 3599999999999999999999999999999996 888887766544
No 9
>KOG1244 consensus Predicted transcription factor Requiem/NEURO-D4 [Transcription]
Probab=98.17 E-value=4.6e-07 Score=96.82 Aligned_cols=79 Identities=28% Similarity=0.723 Sum_probs=56.2
Q ss_pred CCcccCCCCceeecccceeccCCcc-ccCceeEeecCCcchhhhhHHhhhccccccccCCcccCCCCCCCCCCcCcccCC
Q 002597 648 DGIHCGCCSKILTVSKFEIHAGSKL-RQPFQNIYLDSGVSLLQCQIDAWNKLKESESIGFESVDVDGDDPNDDTCGICGD 726 (902)
Q Consensus 648 dGI~C~CC~kvfSpSeFE~HAGsk~-rrPy~nI~LedG~SLldCqIeAwnkqe~sEk~g~~~V~~dged~ndd~C~VCgd 726 (902)
+-|.|+-|...=|||++..-|.|.. -+-|. |.+.+| ..|.+|+.
T Consensus 245 elvscsdcgrsghpsclqft~nm~~avk~yr-------wqciec----------------------------k~csicgt 289 (336)
T KOG1244|consen 245 ELVSCSDCGRSGHPSCLQFTANMIAAVKTYR-------WQCIEC----------------------------KYCSICGT 289 (336)
T ss_pred hhcchhhcCCCCCcchhhhhHHHHHHHHhhe-------eeeeec----------------------------ceeccccC
Confidence 4578999998888887655444431 11111 111122 47889985
Q ss_pred C---CCeeeeCCCCCCCCCcccCCCC--CCCCCCCCCccc
Q 002597 727 G---GDLICCDGCPSTFHQSCLDIQM--LPPGDWHCPNCT 761 (902)
Q Consensus 727 G---GeLLcCD~CpraFH~~CLg~~~--vPeg~W~Cp~C~ 761 (902)
. .+||+||.|+++||++||.|++ .|+|.|.|..|.
T Consensus 290 senddqllfcddcdrgyhmyclsppm~eppegswsc~KOG 329 (336)
T KOG1244|consen 290 SENDDQLLFCDDCDRGYHMYCLSPPMVEPPEGSWSCHLCL 329 (336)
T ss_pred cCCCceeEeecccCCceeeEecCCCcCCCCCCchhHHHHH
Confidence 4 4699999999999999999875 688999998775
No 10
>KOG1512 consensus PHD Zn-finger protein [General function prediction only]
Probab=98.17 E-value=4.3e-07 Score=97.53 Aligned_cols=74 Identities=26% Similarity=0.551 Sum_probs=57.7
Q ss_pred CCcccCCCCceeecccceecc---CCccccCceeEeecCCcchhhhhHHhhhccccccccCCcccCCCCCCCCCCcCccc
Q 002597 648 DGIHCGCCSKILTVSKFEIHA---GSKLRQPFQNIYLDSGVSLLQCQIDAWNKLKESESIGFESVDVDGDDPNDDTCGIC 724 (902)
Q Consensus 648 dGI~C~CC~kvfSpSeFE~HA---Gsk~rrPy~nI~LedG~SLldCqIeAwnkqe~sEk~g~~~V~~dged~ndd~C~VC 724 (902)
..|+|.-|....||++.++.. +.-...|| ++.+| ..|.+|
T Consensus 278 S~I~C~~C~~~~HP~Ci~M~~elv~~~KTY~W---------~C~~C----------------------------~lC~IC 320 (381)
T KOG1512|consen 278 SWIVCKPCATRPHPYCVAMIPELVGQYKTYFW---------KCSSC----------------------------ELCRIC 320 (381)
T ss_pred cceeecccccCCCCcchhcCHHHHhHHhhcch---------hhccc----------------------------Hhhhcc
Confidence 468999999999999986643 22222222 23333 478999
Q ss_pred CCC---CCeeeeCCCCCCCCCcccCCCCCCCCCCCCC
Q 002597 725 GDG---GDLICCDGCPSTFHQSCLDIQMLPPGDWHCP 758 (902)
Q Consensus 725 gdG---GeLLcCD~CpraFH~~CLg~~~vPeg~W~Cp 758 (902)
+.+ .++++||.|+++||++|+++..+|.|.|.|.
T Consensus 321 ~~P~~E~E~~FCD~CDRG~HT~CVGL~~lP~G~WICD 357 (381)
T KOG1512|consen 321 LGPVIESEHLFCDVCDRGPHTLCVGLQDLPRGEWICD 357 (381)
T ss_pred CCcccchheeccccccCCCCccccccccccCccchhh
Confidence 875 5799999999999999999999999999996
No 11
>KOG0954 consensus PHD finger protein [General function prediction only]
Probab=98.07 E-value=1.5e-06 Score=102.10 Aligned_cols=87 Identities=28% Similarity=0.679 Sum_probs=67.7
Q ss_pred CCCCcCcccCCC-----CCeeeeCCCCCCCCCcccCCCCCCCCCCCCCccc------ccccCCCCCCCCCCCCCCCccee
Q 002597 716 PNDDTCGICGDG-----GDLICCDGCPSTFHQSCLDIQMLPPGDWHCPNCT------CKFCGLAGEDDAEGDDTTTSALL 784 (902)
Q Consensus 716 ~ndd~C~VCgdG-----GeLLcCD~CpraFH~~CLg~~~vPeg~W~Cp~C~------C~~Cg~~~~d~~~ed~~s~~~LL 784 (902)
+++..|.||..+ .+|++||.|....|+.|+++..+|++.|.|..|. |.+|...++........+.+..+
T Consensus 269 dedviCDvCrspD~e~~neMVfCd~Cn~cVHqaCyGIle~p~gpWlCr~Calg~~ppCvLCPkkGGamK~~~sgT~wAHv 348 (893)
T KOG0954|consen 269 DEDVICDVCRSPDSEEANEMVFCDKCNICVHQACYGILEVPEGPWLCRTCALGIEPPCVLCPKKGGAMKPTKSGTKWAHV 348 (893)
T ss_pred cccceeceecCCCccccceeEEeccchhHHHHhhhceeecCCCCeeehhccccCCCCeeeccccCCcccccCCCCeeeEe
Confidence 477899999754 5799999999999999999999999999999997 99999988876644444555566
Q ss_pred eCCcchhhhhcccccccc
Q 002597 785 PCAMCEKKYHKLCMQEMD 802 (902)
Q Consensus 785 ~CdqCer~YHv~CL~p~~ 802 (902)
.|..---..-+.|+.-|.
T Consensus 349 sCALwIPEVsie~~ekme 366 (893)
T KOG0954|consen 349 SCALWIPEVSIECPEKME 366 (893)
T ss_pred eeeeccceeeccCHhhcC
Confidence 666544444556655443
No 12
>PF15446 zf-PHD-like: PHD/FYVE-zinc-finger like domain
Probab=97.99 E-value=4.3e-06 Score=84.56 Aligned_cols=82 Identities=29% Similarity=0.744 Sum_probs=58.4
Q ss_pred cCcccCC------CCCeeeeCCCCCCCCCcccCCCC--------CCCCC--CCCCccc---------------ccccCCC
Q 002597 720 TCGICGD------GGDLICCDGCPSTFHQSCLDIQM--------LPPGD--WHCPNCT---------------CKFCGLA 768 (902)
Q Consensus 720 ~C~VCgd------GGeLLcCD~CpraFH~~CLg~~~--------vPeg~--W~Cp~C~---------------C~~Cg~~ 768 (902)
.|.+|+. -|.||+|.+|-.+||..||++-. |.... .+|.+|. |..|...
T Consensus 1 ~C~~C~~~g~~~~kG~Lv~CQGCs~sYHk~CLG~Rs~ReHlVTKVg~d~FVLQCr~Cig~~~kKD~~aP~~~~C~~C~~~ 80 (175)
T PF15446_consen 1 TCDTCGYEGDDRNKGPLVYCQGCSSSYHKACLGPRSQREHLVTKVGDDDFVLQCRRCIGIAHKKDPRAPHHGMCQQCKKP 80 (175)
T ss_pred CcccccCCCCCccCCCeEEcCccChHHHhhhcCCccccceeeEEEcCCceEEechhhcChhhcccCCCCCCCcccccCCC
Confidence 4778843 26799999999999999999732 22222 7899986 8888766
Q ss_pred CCCCC-------------------CCCCC----------CCcceeeCCcchhhhhccccccc
Q 002597 769 GEDDA-------------------EGDDT----------TTSALLPCAMCEKKYHKLCMQEM 801 (902)
Q Consensus 769 ~~d~~-------------------~ed~~----------s~~~LL~CdqCer~YHv~CL~p~ 801 (902)
+.... ..|.. ..+.|+.|..|.++||...|++.
T Consensus 81 G~~c~pfr~r~T~kQEe~~ReeNgG~DPit~Vd~~lvnN~~nVLFRC~~C~RawH~~HLP~~ 142 (175)
T PF15446_consen 81 GPSCKPFRPRKTPKQEEKLREENGGVDPITPVDPELVNNPDNVLFRCTSCHRAWHFEHLPPP 142 (175)
T ss_pred CCCCcccCCCCCcHHHHHHHHHcCCCCCCccCCHHHccChhheEEecCCccceeehhhCCCC
Confidence 53311 01111 12568999999999999999874
No 13
>KOG1973 consensus Chromatin remodeling protein, contains PHD Zn-finger [Chromatin structure and dynamics]
Probab=97.99 E-value=2.3e-06 Score=92.07 Aligned_cols=38 Identities=39% Similarity=1.044 Sum_probs=35.1
Q ss_pred cCCCCCeeeeCC--CC-CCCCCcccCCCCCCCCCCCCCccc
Q 002597 724 CGDGGDLICCDG--CP-STFHQSCLDIQMLPPGDWHCPNCT 761 (902)
Q Consensus 724 CgdGGeLLcCD~--Cp-raFH~~CLg~~~vPeg~W~Cp~C~ 761 (902)
|...|+||-||. |+ .+||+.|+++...|.|.|||+.|.
T Consensus 226 qvsyg~Mi~CDn~~C~~eWFH~~CVGL~~~PkgkWyC~~C~ 266 (274)
T KOG1973|consen 226 QVSYGKMIGCDNPGCPIEWFHFTCVGLKTKPKGKWYCPRCK 266 (274)
T ss_pred ccccccccccCCCCCCcceEEEeccccccCCCCcccchhhh
Confidence 456899999998 99 899999999999999999999887
No 14
>KOG4299 consensus PHD Zn-finger protein [General function prediction only]
Probab=97.97 E-value=3.7e-06 Score=97.92 Aligned_cols=44 Identities=41% Similarity=1.151 Sum_probs=36.8
Q ss_pred CCcCcccCCCCCeeeeCCCCCCCCCcccCCCC---CCCCCCCCCccc
Q 002597 718 DDTCGICGDGGDLICCDGCPSTFHQSCLDIQM---LPPGDWHCPNCT 761 (902)
Q Consensus 718 dd~C~VCgdGGeLLcCD~CpraFH~~CLg~~~---vPeg~W~Cp~C~ 761 (902)
-..|.+|..+|+++||+.|+.+||..|.+++. .+.+.|-|..|.
T Consensus 47 ~ts~~~~~~~gn~~~~~~~~~s~h~~~~~~~~sp~~~~~~~~~~~~~ 93 (613)
T KOG4299|consen 47 ATSCGICKSGGNLLCCDHCPASFHLECDKPPLSPDLKGSEINCSRCP 93 (613)
T ss_pred hhhcchhhhcCCccccccCccccchhccCcccCcccccccccccCCC
Confidence 46899999999999999999999999998643 344668887774
No 15
>COG5034 TNG2 Chromatin remodeling protein, contains PhD zinc finger [Chromatin structure and dynamics]
Probab=97.97 E-value=2.7e-06 Score=90.39 Aligned_cols=46 Identities=33% Similarity=0.962 Sum_probs=40.2
Q ss_pred CCCCCcCcccCC--CCCeeeeCC--CCC-CCCCcccCCCCCCCCCCCCCccc
Q 002597 715 DPNDDTCGICGD--GGDLICCDG--CPS-TFHQSCLDIQMLPPGDWHCPNCT 761 (902)
Q Consensus 715 d~ndd~C~VCgd--GGeLLcCD~--Cpr-aFH~~CLg~~~vPeg~W~Cp~C~ 761 (902)
..+..+|+ |.+ -|+||-||+ |.+ +||..|+++...|.|.|||+.|+
T Consensus 218 e~e~lYCf-CqqvSyGqMVaCDn~nCkrEWFH~~CVGLk~pPKG~WYC~eCk 268 (271)
T COG5034 218 EGEELYCF-CQQVSYGQMVACDNANCKREWFHLECVGLKEPPKGKWYCPECK 268 (271)
T ss_pred cCceeEEE-ecccccccceecCCCCCchhheeccccccCCCCCCcEeCHHhH
Confidence 34567885 986 489999996 997 99999999999999999999996
No 16
>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 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=97.94 E-value=2.2e-06 Score=69.29 Aligned_cols=42 Identities=48% Similarity=1.270 Sum_probs=34.9
Q ss_pred cCcccCC---CCCeeeeCCCCCCCCCcccCCCC----CCCCCCCCCccc
Q 002597 720 TCGICGD---GGDLICCDGCPSTFHQSCLDIQM----LPPGDWHCPNCT 761 (902)
Q Consensus 720 ~C~VCgd---GGeLLcCD~CpraFH~~CLg~~~----vPeg~W~Cp~C~ 761 (902)
+|.+|+. .++||.|+.|..+||..|++++. .+...|+|+.|.
T Consensus 1 ~C~vC~~~~~~~~~i~C~~C~~~~H~~C~~~~~~~~~~~~~~w~C~~C~ 49 (51)
T PF00628_consen 1 YCPVCGQSDDDGDMIQCDSCNRWYHQECVGPPEKAEEIPSGDWYCPNCR 49 (51)
T ss_dssp EBTTTTSSCTTSSEEEBSTTSCEEETTTSTSSHSHHSHHSSSBSSHHHH
T ss_pred eCcCCCCcCCCCCeEEcCCCChhhCcccCCCChhhccCCCCcEECcCCc
Confidence 4788876 57899999999999999999863 344589999986
No 18
>KOG4443 consensus Putative transcription factor HALR/MLL3, involved in embryonic development [General function prediction only]
Probab=97.93 E-value=1.3e-06 Score=101.89 Aligned_cols=115 Identities=22% Similarity=0.561 Sum_probs=76.9
Q ss_pred cccCCCCceeecccceeccCCccccCceeEeecCCcchhhhhHHhhhccccccccCCcccCCCCCCCCCCcCcccCC---
Q 002597 650 IHCGCCSKILTVSKFEIHAGSKLRQPFQNIYLDSGVSLLQCQIDAWNKLKESESIGFESVDVDGDDPNDDTCGICGD--- 726 (902)
Q Consensus 650 I~C~CC~kvfSpSeFE~HAGsk~rrPy~nI~LedG~SLldCqIeAwnkqe~sEk~g~~~V~~dged~ndd~C~VCgd--- 726 (902)
..|.+|.+.+|+.+....+- +.-+..||.++.| ..|..|+.
T Consensus 36 ~ac~~c~~~yH~~cvt~~~~--------~~~l~~gWrC~~c----------------------------rvCe~c~~~gD 79 (694)
T KOG4443|consen 36 LACSDCGQKYHPYCVTSWAQ--------HAVLSGGWRCPSC----------------------------RVCEACGTTGD 79 (694)
T ss_pred hhhhhhcccCCcchhhHHHh--------HHHhcCCcccCCc----------------------------eeeeeccccCC
Confidence 47999999988877643211 1123345555544 46778874
Q ss_pred CCCeeeeCCCCCCCCCcccCCC--CCCCCCCCCCccc-ccccCCCCCC--------CCCCCC-CC---------------
Q 002597 727 GGDLICCDGCPSTFHQSCLDIQ--MLPPGDWHCPNCT-CKFCGLAGED--------DAEGDD-TT--------------- 779 (902)
Q Consensus 727 GGeLLcCD~CpraFH~~CLg~~--~vPeg~W~Cp~C~-C~~Cg~~~~d--------~~~ed~-~s--------------- 779 (902)
...+++|+.|+.+||.+|..|+ .+|.+.|+|+.|. |..|...... ..+... .+
T Consensus 80 ~~kf~~Ck~cDvsyh~yc~~P~~~~v~sg~~~ckk~~~c~qc~~~lpg~s~~~~~~~~~~~~c~s~~~cPvc~~~Y~~~e 159 (694)
T KOG4443|consen 80 PKKFLLCKRCDVSYHCYCQKPPNDKVPSGPWLCKKCTRCRQCDSTLPGLSLDLQEGYLQCAPCASLSYCPVCLIVYQDSE 159 (694)
T ss_pred cccccccccccccccccccCCccccccCcccccHHHHhhhhccccccccchhhhccCcccccccccccCchHHHhhhhcc
Confidence 4569999999999999999985 5899999999996 7777643221 000000 00
Q ss_pred CcceeeCCcchhhhhcccccc
Q 002597 780 TSALLPCAMCEKKYHKLCMQE 800 (902)
Q Consensus 780 ~~~LL~CdqCer~YHv~CL~p 800 (902)
.-.++.|++|.++-|..|..-
T Consensus 160 ~~~~~~c~~c~rwsh~~c~~~ 180 (694)
T KOG4443|consen 160 SLPMVCCSICQRWSHGGCDGI 180 (694)
T ss_pred chhhHHHHHhcccccCCCCcc
Confidence 112477889999999999764
No 19
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=97.85 E-value=4.7e-06 Score=98.45 Aligned_cols=45 Identities=36% Similarity=0.951 Sum_probs=38.5
Q ss_pred CCCcCcccCCCC---CeeeeCCCCCC-CCCcccCCCC--CCCCCCCCCccc
Q 002597 717 NDDTCGICGDGG---DLICCDGCPST-FHQSCLDIQM--LPPGDWHCPNCT 761 (902)
Q Consensus 717 ndd~C~VCgdGG---eLLcCD~Cpra-FH~~CLg~~~--vPeg~W~Cp~C~ 761 (902)
...-|.+|...+ -||+||.|..+ ||.+||+|+. +|.+.|||++|.
T Consensus 214 E~~~C~IC~~~DpEdVLLLCDsCN~~~YH~YCLDPdl~eiP~~eWYC~NC~ 264 (1134)
T KOG0825|consen 214 EEVKCDICTVHDPEDVLLLCDSCNKVYYHVYCLDPDLSESPVNEWYCTNCS 264 (1134)
T ss_pred ccccceeeccCChHHhheeecccccceeeccccCcccccccccceecCcch
Confidence 345799997543 49999999999 9999999864 899999999996
No 20
>KOG4323 consensus Polycomb-like PHD Zn-finger protein [General function prediction only]
Probab=97.77 E-value=1.8e-05 Score=90.32 Aligned_cols=104 Identities=19% Similarity=0.423 Sum_probs=72.9
Q ss_pred CCCcCcccCC-----CCCeeeeCCCCCCCCCcccCCCCCCCCCCCCCccc------------------------------
Q 002597 717 NDDTCGICGD-----GGDLICCDGCPSTFHQSCLDIQMLPPGDWHCPNCT------------------------------ 761 (902)
Q Consensus 717 ndd~C~VCgd-----GGeLLcCD~CpraFH~~CLg~~~vPeg~W~Cp~C~------------------------------ 761 (902)
....|.+|.. +.++..|+.|.++||+.|.-+.....+.|.|..|.
T Consensus 82 ~e~~~nv~~s~~~~p~~e~~~~~r~~~~~~q~~~i~~~~~~~~~~~~~c~~~~~~~~g~a~K~g~~a~~~l~y~~~~l~w 161 (464)
T KOG4323|consen 82 SELNPNVLTSETVLPENEKVICGRCKSGYHQGCNIPRFPSLDIGESTECVFPIFSQEGGALKKGRLARPSLPYPEASLDW 161 (464)
T ss_pred cccCCcccccccccCchhhhhhhhhccCcccccCccCcCcCCccccccccccccccccccccccccccccccCccccccc
Confidence 3456778864 35688999999999999987655555678887765
Q ss_pred ---------ccccCCCCCCCCCCCCCCCcceeeCCcchhhhhccccccccccccccCCCcceeeCCcchhhHHHHH
Q 002597 762 ---------CKFCGLAGEDDAEGDDTTTSALLPCAMCEKKYHKLCMQEMDALSDNLTGLVTSFCGRKCQELSEHLQ 828 (902)
Q Consensus 762 ---------C~~Cg~~~~d~~~ed~~s~~~LL~CdqCer~YHv~CL~p~~~lp~~i~ps~~WFCs~~C~eI~e~Lq 828 (902)
|.+|...... ..+.|+.|+.|..+||+.|.++.....+...+...|||. .|..=.+.+.
T Consensus 162 D~~~~~n~qc~vC~~g~~~-------~~NrmlqC~~C~~~fHq~Chqp~i~~~l~~D~~~~w~C~-~C~~~~~~~~ 229 (464)
T KOG4323|consen 162 DSGHKVNLQCSVCYCGGPG-------AGNRMLQCDKCRQWYHQACHQPLIKDELAGDPFYEWFCD-VCNRGPKKVP 229 (464)
T ss_pred CccccccceeeeeecCCcC-------ccceeeeecccccHHHHHhccCCCCHhhccCccceEeeh-hhccchhhcc
Confidence 3333322211 124799999999999999999876666666678899996 4444333333
No 21
>KOG0383 consensus Predicted helicase [General function prediction only]
Probab=97.57 E-value=1.8e-05 Score=94.28 Aligned_cols=50 Identities=48% Similarity=1.268 Sum_probs=42.9
Q ss_pred CCCCCCcCcccCCCCCeeeeCCCCCCCCCcccCCCC--CCCCCCCCCccccc
Q 002597 714 DDPNDDTCGICGDGGDLICCDGCPSTFHQSCLDIQM--LPPGDWHCPNCTCK 763 (902)
Q Consensus 714 ed~ndd~C~VCgdGGeLLcCD~CpraFH~~CLg~~~--vPeg~W~Cp~C~C~ 763 (902)
++.+...|.+|+++|++||||.|+.+||.+|++++. .|.++|.|+.|.|.
T Consensus 43 ~~~~~e~c~ic~~~g~~l~c~tC~~s~h~~cl~~pl~~~p~~~~~c~Rc~~p 94 (696)
T KOG0383|consen 43 DDAEQEACRICADGGELLWCDTCPASFHASCLGPPLTPQPNGEFICPRCFCP 94 (696)
T ss_pred chhhhhhhhhhcCCCcEEEeccccHHHHHHccCCCCCcCCccceeeeeeccC
Confidence 355677999999999999999999999999998764 56678999988653
No 22
>KOG0383 consensus Predicted helicase [General function prediction only]
Probab=97.35 E-value=0.00013 Score=87.18 Aligned_cols=82 Identities=29% Similarity=0.671 Sum_probs=56.0
Q ss_pred CCCCCCCCcccCCC--CCCCCCCCCCccc--------------------ccccCCCCCCCCCCCCCCCcceeeCCcchhh
Q 002597 735 GCPSTFHQSCLDIQ--MLPPGDWHCPNCT--------------------CKFCGLAGEDDAEGDDTTTSALLPCAMCEKK 792 (902)
Q Consensus 735 ~CpraFH~~CLg~~--~vPeg~W~Cp~C~--------------------C~~Cg~~~~d~~~ed~~s~~~LL~CdqCer~ 792 (902)
.|+++||..|+.+. .-|+++|.||.|. |.+|+. .+.++.|+.|..+
T Consensus 1 ~~~r~~~~~~~~p~~~~~~~~~~k~~~~e~~~~~~~~~~~~~~~~~~e~c~ic~~------------~g~~l~c~tC~~s 68 (696)
T KOG0383|consen 1 TCPRAYHRVCLDPKLKEEPEMDPKCPGCESSSAQVEAKDDDWDDAEQEACRICAD------------GGELLWCDTCPAS 68 (696)
T ss_pred CCCcccCcCCCCcccccCCcCCccCcchhhcccccccccCCcchhhhhhhhhhcC------------CCcEEEeccccHH
Confidence 48999999999864 3457899999885 333332 2457889999999
Q ss_pred hhccccccccccccccCCCcceeeCCcch--hhHHHHHhHhcc
Q 002597 793 YHKLCMQEMDALSDNLTGLVTSFCGRKCQ--ELSEHLQKYLGV 833 (902)
Q Consensus 793 YHv~CL~p~~~lp~~i~ps~~WFCs~~C~--eI~e~LqkLVGv 833 (902)
||..|+.+. ....+...|.|+ .|. ......+.++++
T Consensus 69 ~h~~cl~~p----l~~~p~~~~~c~-Rc~~p~~~~k~~~il~~ 106 (696)
T KOG0383|consen 69 FHASCLGPP----LTPQPNGEFICP-RCFCPKNAGKIEKILGW 106 (696)
T ss_pred HHHHccCCC----CCcCCccceeee-eeccCCCccccccccee
Confidence 999999762 222344459998 552 222244555554
No 23
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=97.20 E-value=0.00012 Score=87.08 Aligned_cols=36 Identities=28% Similarity=0.669 Sum_probs=28.5
Q ss_pred ceeeCCcchhh-hhccccccccccccccCCCcceeeCCcchh
Q 002597 782 ALLPCAMCEKK-YHKLCMQEMDALSDNLTGLVTSFCGRKCQE 822 (902)
Q Consensus 782 ~LL~CdqCer~-YHv~CL~p~~~lp~~i~ps~~WFCs~~C~e 822 (902)
.||+|+.|... ||.+||.+ ++...+...|+|. .|..
T Consensus 229 VLLLCDsCN~~~YH~YCLDP----dl~eiP~~eWYC~-NC~d 265 (1134)
T KOG0825|consen 229 VLLLCDSCNKVYYHVYCLDP----DLSESPVNEWYCT-NCSL 265 (1134)
T ss_pred hheeecccccceeeccccCc----ccccccccceecC-cchh
Confidence 48999999999 99999987 3344567889995 6664
No 24
>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 KOG0957 consensus PHD finger protein [General function prediction only]
Probab=96.49 E-value=0.0017 Score=74.77 Aligned_cols=52 Identities=29% Similarity=0.876 Sum_probs=40.5
Q ss_pred CcCcccC-----CCCCeeeeCCCCCCCCCcccCCC---CCCC-------CCCCCCccc-------ccccCCCCC
Q 002597 719 DTCGICG-----DGGDLICCDGCPSTFHQSCLDIQ---MLPP-------GDWHCPNCT-------CKFCGLAGE 770 (902)
Q Consensus 719 d~C~VCg-----dGGeLLcCD~CpraFH~~CLg~~---~vPe-------g~W~Cp~C~-------C~~Cg~~~~ 770 (902)
.+|.||- +.|++|-||.|+...|..|++.. ++|. ..|||.-|. |.+|....+
T Consensus 120 ~iCcVClg~rs~da~ei~qCd~CGi~VHEgCYGv~dn~si~s~~s~~stepWfCeaC~~Gvs~P~CElCPn~~G 193 (707)
T KOG0957|consen 120 VICCVCLGQRSVDAGEILQCDKCGINVHEGCYGVLDNVSIPSGSSDCSTEPWFCEACLYGVSLPHCELCPNRFG 193 (707)
T ss_pred eEEEEeecCccccccceeeccccCceecccccccccccccCCCCccCCCCchhhhhHhcCCCCCccccCCCcCC
Confidence 3899994 46899999999999999999953 2332 469999997 777765443
No 26
>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=96.35 E-value=0.0012 Score=53.49 Aligned_cols=45 Identities=20% Similarity=0.637 Sum_probs=30.8
Q ss_pred ccccCCCCCCCCCCCCCCCcceeeCCcchhhhhccccccccccccccCCCcceeeC
Q 002597 762 CKFCGLAGEDDAEGDDTTTSALLPCAMCEKKYHKLCMQEMDALSDNLTGLVTSFCG 817 (902)
Q Consensus 762 C~~Cg~~~~d~~~ed~~s~~~LL~CdqCer~YHv~CL~p~~~lp~~i~ps~~WFCs 817 (902)
|.+|+.... ...++.|+.|..+||..|+.+....... ....|+|+
T Consensus 2 C~vC~~~~~---------~~~~i~C~~C~~~~H~~C~~~~~~~~~~--~~~~w~C~ 46 (51)
T PF00628_consen 2 CPVCGQSDD---------DGDMIQCDSCNRWYHQECVGPPEKAEEI--PSGDWYCP 46 (51)
T ss_dssp BTTTTSSCT---------TSSEEEBSTTSCEEETTTSTSSHSHHSH--HSSSBSSH
T ss_pred CcCCCCcCC---------CCCeEEcCCCChhhCcccCCCChhhccC--CCCcEECc
Confidence 557776332 2458999999999999999875332222 22389995
No 27
>PF13831 PHD_2: PHD-finger; PDB: 2L43_A 2KU3_A.
Probab=95.99 E-value=0.001 Score=52.02 Aligned_cols=34 Identities=41% Similarity=1.089 Sum_probs=20.3
Q ss_pred CCeeeeCCCCCCCCCcccCCCCCCCC-CCCCCccc
Q 002597 728 GDLICCDGCPSTFHQSCLDIQMLPPG-DWHCPNCT 761 (902)
Q Consensus 728 GeLLcCD~CpraFH~~CLg~~~vPeg-~W~Cp~C~ 761 (902)
..||.|+.|.-++|..|.++..+|.+ +|+|..|.
T Consensus 2 n~ll~C~~C~v~VH~~CYGv~~~~~~~~W~C~~C~ 36 (36)
T PF13831_consen 2 NPLLFCDNCNVAVHQSCYGVSEVPDGDDWLCDRCE 36 (36)
T ss_dssp CEEEE-SSS--EEEHHHHT-SS--SS-----HHH-
T ss_pred CceEEeCCCCCcCChhhCCcccCCCCCcEECCcCC
Confidence 46899999999999999999888876 79998774
No 28
>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=95.95 E-value=0.0045 Score=62.11 Aligned_cols=30 Identities=40% Similarity=0.938 Sum_probs=24.7
Q ss_pred CCCCcccCCC--CCCCCCCCCCcccccccCCC
Q 002597 739 TFHQSCLDIQ--MLPPGDWHCPNCTCKFCGLA 768 (902)
Q Consensus 739 aFH~~CLg~~--~vPeg~W~Cp~C~C~~Cg~~ 768 (902)
+||+.||.|+ .+|+|+|+||.|.....+..
T Consensus 1 g~H~~CL~Ppl~~~P~g~W~Cp~C~~~~~~~~ 32 (148)
T cd04718 1 GFHLCCLRPPLKEVPEGDWICPFCEVEKSGQS 32 (148)
T ss_pred CcccccCCCCCCCCCCCCcCCCCCcCCCCCCc
Confidence 5999999986 58999999999986555444
No 29
>KOG1245 consensus Chromatin remodeling complex WSTF-ISWI, large subunit (contains heterochromatin localization, PHD and BROMO domains) [Chromatin structure and dynamics]
Probab=95.09 E-value=0.0049 Score=79.17 Aligned_cols=45 Identities=40% Similarity=1.067 Sum_probs=38.6
Q ss_pred CCCcCcccCC---CCCeeeeCCCCCCCCCcccCC--CCCCCCCCCCCccc
Q 002597 717 NDDTCGICGD---GGDLICCDGCPSTFHQSCLDI--QMLPPGDWHCPNCT 761 (902)
Q Consensus 717 ndd~C~VCgd---GGeLLcCD~CpraFH~~CLg~--~~vPeg~W~Cp~C~ 761 (902)
....|.+|.. ...|+.|+.|..+||.+|+.+ ..+|.++|+||.|+
T Consensus 1107 ~~~~c~~cr~k~~~~~m~lc~~c~~~~h~~C~rp~~~~~~~~dW~C~~c~ 1156 (1404)
T KOG1245|consen 1107 VNALCKVCRRKKQDEKMLLCDECLSGFHLFCLRPALSSVPPGDWMCPSCR 1156 (1404)
T ss_pred chhhhhhhhhcccchhhhhhHhhhhhHHHHhhhhhhccCCcCCccCCccc
Confidence 3468999964 346999999999999999986 46899999999997
No 30
>KOG4323 consensus Polycomb-like PHD Zn-finger protein [General function prediction only]
Probab=95.02 E-value=0.008 Score=69.40 Aligned_cols=43 Identities=30% Similarity=0.810 Sum_probs=34.2
Q ss_pred CcCcccCCC-----CCeeeeCCCCCCCCCcccCCCC------CCCCCCCCCccc
Q 002597 719 DTCGICGDG-----GDLICCDGCPSTFHQSCLDIQM------LPPGDWHCPNCT 761 (902)
Q Consensus 719 d~C~VCgdG-----GeLLcCD~CpraFH~~CLg~~~------vPeg~W~Cp~C~ 761 (902)
..|.+|..+ ..||.|+.|..+||+.|..+.. -|...|||..|.
T Consensus 169 ~qc~vC~~g~~~~~NrmlqC~~C~~~fHq~Chqp~i~~~l~~D~~~~w~C~~C~ 222 (464)
T KOG4323|consen 169 LQCSVCYCGGPGAGNRMLQCDKCRQWYHQACHQPLIKDELAGDPFYEWFCDVCN 222 (464)
T ss_pred ceeeeeecCCcCccceeeeecccccHHHHHhccCCCCHhhccCccceEeehhhc
Confidence 348898643 4699999999999999998642 355789998886
No 31
>KOG1973 consensus Chromatin remodeling protein, contains PHD Zn-finger [Chromatin structure and dynamics]
Probab=94.99 E-value=0.0089 Score=64.84 Aligned_cols=36 Identities=19% Similarity=0.412 Sum_probs=27.1
Q ss_pred cceeeCCc--ch-hhhhccccccccccccccCCCcceeeCCcchh
Q 002597 781 SALLPCAM--CE-KKYHKLCMQEMDALSDNLTGLVTSFCGRKCQE 822 (902)
Q Consensus 781 ~~LL~Cdq--Ce-r~YHv~CL~p~~~lp~~i~ps~~WFCs~~C~e 822 (902)
+.|+.||. |+ .|||..|+.- ...|.+.|||+.++..
T Consensus 230 g~Mi~CDn~~C~~eWFH~~CVGL------~~~PkgkWyC~~C~~~ 268 (274)
T KOG1973|consen 230 GKMIGCDNPGCPIEWFHFTCVGL------KTKPKGKWYCPRCKAE 268 (274)
T ss_pred ccccccCCCCCCcceEEEecccc------ccCCCCcccchhhhhh
Confidence 45889986 99 9999999964 2346788999854443
No 32
>KOG0957 consensus PHD finger protein [General function prediction only]
Probab=93.89 E-value=0.021 Score=66.12 Aligned_cols=44 Identities=36% Similarity=0.945 Sum_probs=34.8
Q ss_pred CCcCcccCCCC---CeeeeCCCCCCCCCcccCCCC--CCC----CCCCCCccc
Q 002597 718 DDTCGICGDGG---DLICCDGCPSTFHQSCLDIQM--LPP----GDWHCPNCT 761 (902)
Q Consensus 718 dd~C~VCgdGG---eLLcCD~CpraFH~~CLg~~~--vPe----g~W~Cp~C~ 761 (902)
...|.||...- -|+.||.|...||+.||.||. .|. ..|+|..|.
T Consensus 544 ~ysCgiCkks~dQHll~~CDtC~lhYHlGCL~PPLTR~Pkk~kn~gWqCsECd 596 (707)
T KOG0957|consen 544 NYSCGICKKSTDQHLLTQCDTCHLHYHLGCLSPPLTRLPKKNKNFGWQCSECD 596 (707)
T ss_pred ceeeeeeccchhhHHHhhcchhhceeeccccCCccccCcccccCcceeecccc
Confidence 35799997543 389999999999999999864 343 359999883
No 33
>PF07227 DUF1423: Protein of unknown function (DUF1423); InterPro: IPR004082 A total of 715 potential protein-coding genes have been identified in the nucleotide sequence of Arabidopsis thaliana chromosome 5, with an average gene density of 1 gene per 4001 bp []. Amongst the gene products is a well-conserved family of 130.7kDa proteins that share no sequence similarity with any other known proteins, other than in plants. The sequences are characterised by an N-terminal domain of variable length, a central cysteine-rich region and a relatively acidic C-terminal domain. The sequences may possess a PHD finger.
Probab=89.40 E-value=0.33 Score=56.24 Aligned_cols=66 Identities=23% Similarity=0.510 Sum_probs=44.9
Q ss_pred CCCCCcccccccCCCCCCCCCCCCCCCcceeeCCcchhhhhcccccccccc---ccc---cCCCcceeeCCcchhhHH
Q 002597 754 DWHCPNCTCKFCGLAGEDDAEGDDTTTSALLPCAMCEKKYHKLCMQEMDAL---SDN---LTGLVTSFCGRKCQELSE 825 (902)
Q Consensus 754 ~W~Cp~C~C~~Cg~~~~d~~~ed~~s~~~LL~CdqCer~YHv~CL~p~~~l---p~~---i~ps~~WFCs~~C~eI~e 825 (902)
+=||..|.|.+|...+.+ .++...+.|+.|.++.|..|.=....+ +.. ....+.-|+|..|....+
T Consensus 123 ~gFC~~C~C~iC~kfD~~------~n~~~Wi~Cd~CgH~cH~dCALr~~~i~~G~s~~g~~g~~d~~f~C~~C~~~se 194 (446)
T PF07227_consen 123 PGFCRRCMCCICSKFDDN------KNTCSWIGCDVCGHWCHLDCALRHELIGTGPSVKGSIGTLDMQFHCRACGKTSE 194 (446)
T ss_pred CCccccCCccccCCcccC------CCCeeEEeccCCCceehhhhhcccccccCCccCCCCCccCceEEEccCCCChhh
Confidence 358999999999875432 245568999999999999995332211 111 112466888899986543
No 34
>PF01429 MBD: Methyl-CpG binding domain; InterPro: IPR001739 Methylation at CpG dinucleotide, the most common DNA modification in eukaryotes, has been correlated with gene silencing associated with various phenomena such as genomic imprinting, transposon and chromosome X inactivation, differentiation, and cancer. Effects of DNA methylation are mediated through proteins which bind to symmetrically methylated CpGs. Such proteins contain a specific domain of ~70 residues, the methyl-CpG-binding domain (MBD), which is linked to additional domains associated with chromatin, such as the bromodomain, the AT hook motif,the SET domain, or the PHD finger. MBD-containing proteins appear to act as structural proteins, which recruit a variety of histone deacetylase (HDAC) complexes and chromatin remodelling factors, leading to chromatin compaction and, consequently, to transcriptional repression. The MBD of MeCP2, MBD1, MBD2, MBD4 and BAZ2 mediates binding to DNA, in case of MeCP2, MBD1 and MBD2 preferentially to methylated CpG. In case of human MBD3 and SETDB1 the MBD has been shown to mediate protein-protein interactions [, ]. The MBD folds into an alpha/beta sandwich structure comprising a layer of twisted beta sheet, backed by another layer formed by the alpha1 helix and a hairpin loop at the C terminus. These layers are both amphipathic, with the alpha1 helix and the beta sheet lying parallel and the hydrophobic faces tightly packed against each other. The beta sheet is composed of two long inner strands (beta2 and beta3) sandwiched by two shorter outer strands (beta1 and beta4) [].; GO: 0003677 DNA binding, 0005634 nucleus; PDB: 2KY8_A 1UB1_A 1D9N_A 1IG4_A 1QK9_A 3C2I_A.
Probab=86.96 E-value=0.56 Score=42.03 Aligned_cols=58 Identities=21% Similarity=0.369 Sum_probs=38.3
Q ss_pred HhcCeeeeeccCCC---CCcccceeeCCCCceeeehHHHHHHHHHHhccccccCCCCCCCCCCCC
Q 002597 404 VEAGWTIDYRPRKN---RDYLDAVYINPTGTAYWSIIKAYDALTKQLNDEEDEAKPSADGSPFTP 465 (902)
Q Consensus 404 ~~agwtid~rpr~~---r~y~davyi~p~g~~ywsi~kay~~~~~~~~~~~~~~~~~~~~~~~~~ 465 (902)
|-.||+...+.|.+ ..-.|..|++|.|+.+-|...-...| +.......+..+-|.|.+
T Consensus 11 Lp~GW~re~~~R~~g~~~~~~dv~Y~sP~Gk~~RS~~eV~~yL----~~~~~~~~l~~~~F~F~~ 71 (77)
T PF01429_consen 11 LPDGWKREVVVRKSGSSAGKKDVYYYSPCGKRFRSKKEVVRYL----KENPSEHDLKPENFSFSK 71 (77)
T ss_dssp STTT-EEEEEESSSSTTTTSEEEEEEETTSEEESSHHHHHHHH----TTSS---SS-CTTBBTTT
T ss_pred CCCCCEEEEEEecCCCcCCceEEEEECCCCCEEeCHHHHHHHH----HhCCCcccCCHhHCCCCC
Confidence 56799999998874 35799999999999999987765555 322222223334566653
No 35
>COG5034 TNG2 Chromatin remodeling protein, contains PhD zinc finger [Chromatin structure and dynamics]
Probab=86.93 E-value=0.36 Score=52.54 Aligned_cols=36 Identities=17% Similarity=0.550 Sum_probs=27.3
Q ss_pred cceeeCC--cchh-hhhccccccccccccccCCCcceeeCCcchhh
Q 002597 781 SALLPCA--MCEK-KYHKLCMQEMDALSDNLTGLVTSFCGRKCQEL 823 (902)
Q Consensus 781 ~~LL~Cd--qCer-~YHv~CL~p~~~lp~~i~ps~~WFCs~~C~eI 823 (902)
+.|+-|| .|.+ |||..|+.- ..+|.+.|+| .+|...
T Consensus 232 GqMVaCDn~nCkrEWFH~~CVGL------k~pPKG~WYC-~eCk~~ 270 (271)
T COG5034 232 GQMVACDNANCKREWFHLECVGL------KEPPKGKWYC-PECKKA 270 (271)
T ss_pred ccceecCCCCCchhheecccccc------CCCCCCcEeC-HHhHhc
Confidence 4589998 7864 689999863 4467899999 688653
No 36
>KOG1245 consensus Chromatin remodeling complex WSTF-ISWI, large subunit (contains heterochromatin localization, PHD and BROMO domains) [Chromatin structure and dynamics]
Probab=86.47 E-value=0.28 Score=63.79 Aligned_cols=50 Identities=22% Similarity=0.578 Sum_probs=37.1
Q ss_pred ccccCCCCCCCCCCCCCCCcceeeCCcchhhhhccccccccccccccCCCcceeeCCcchhhHH
Q 002597 762 CKFCGLAGEDDAEGDDTTTSALLPCAMCEKKYHKLCMQEMDALSDNLTGLVTSFCGRKCQELSE 825 (902)
Q Consensus 762 C~~Cg~~~~d~~~ed~~s~~~LL~CdqCer~YHv~CL~p~~~lp~~i~ps~~WFCs~~C~eI~e 825 (902)
|.+|....... .++.|+.|..+||..|+++ .....+.+.|||+ .|..-..
T Consensus 1111 c~~cr~k~~~~---------~m~lc~~c~~~~h~~C~rp----~~~~~~~~dW~C~-~c~~e~~ 1160 (1404)
T KOG1245|consen 1111 CKVCRRKKQDE---------KMLLCDECLSGFHLFCLRP----ALSSVPPGDWMCP-SCRKEHR 1160 (1404)
T ss_pred hhhhhhcccch---------hhhhhHhhhhhHHHHhhhh----hhccCCcCCccCC-ccchhhh
Confidence 77887776542 4899999999999999998 3344566789996 5654443
No 37
>KOG0955 consensus PHD finger protein BR140/LIN-49 [General function prediction only]
Probab=84.92 E-value=0.6 Score=59.15 Aligned_cols=35 Identities=20% Similarity=0.512 Sum_probs=27.3
Q ss_pred CcceeeCCcchhhhhccccccccccccccCCCcceeeCCcch
Q 002597 780 TSALLPCAMCEKKYHKLCMQEMDALSDNLTGLVTSFCGRKCQ 821 (902)
Q Consensus 780 ~~~LL~CdqCer~YHv~CL~p~~~lp~~i~ps~~WFCs~~C~ 821 (902)
.+.+++||.|..++|+.|..- + -.+++.|+| ..|.
T Consensus 233 ~n~ivfCD~Cnl~VHq~Cygi----~--~ipeg~WlC-r~Cl 267 (1051)
T KOG0955|consen 233 SNVIVFCDGCNLAVHQECYGI----P--FIPEGQWLC-RRCL 267 (1051)
T ss_pred CceEEEcCCCcchhhhhccCC----C--CCCCCcEee-hhhc
Confidence 356899999999999999972 2 236788998 5554
No 38
>KOG1473 consensus Nucleosome remodeling factor, subunit NURF301/BPTF [Chromatin structure and dynamics; Transcription]
Probab=84.62 E-value=0.2 Score=62.94 Aligned_cols=45 Identities=27% Similarity=0.432 Sum_probs=39.8
Q ss_pred CCCcCcccCCCCCeeeeCC-CCCCCCC-cccCCC----CCCCCCCCCCccc
Q 002597 717 NDDTCGICGDGGDLICCDG-CPSTFHQ-SCLDIQ----MLPPGDWHCPNCT 761 (902)
Q Consensus 717 ndd~C~VCgdGGeLLcCD~-CpraFH~-~CLg~~----~vPeg~W~Cp~C~ 761 (902)
+.+.|.||+..+.++||++ ||..||. .||+.. .++++.|+|+.|.
T Consensus 427 i~rrl~Ie~~det~l~yysT~pqly~ll~cLd~~~~e~~L~d~i~~~~ee~ 477 (1414)
T KOG1473|consen 427 ISRRLRIEGMDETLLWYYSTCPQLYHLLRCLDRTYVEMYLCDGIWERREEI 477 (1414)
T ss_pred eeeeeEEecCCCcEEEEecCcHHHHHHHHHhchHHHHHhhccchhhhHHHH
Confidence 4567999999999999998 9999999 999942 4789999999997
No 39
>PF13832 zf-HC5HC2H_2: PHD-zinc-finger like domain
Probab=84.15 E-value=0.71 Score=43.06 Aligned_cols=66 Identities=24% Similarity=0.628 Sum_probs=42.8
Q ss_pred cCcccCCCCCeeeeCCCCCCCCCcccCC-C----------------CCCCC--CCCCCcccccccCCCCCCCCCCCCCCC
Q 002597 720 TCGICGDGGDLICCDGCPSTFHQSCLDI-Q----------------MLPPG--DWHCPNCTCKFCGLAGEDDAEGDDTTT 780 (902)
Q Consensus 720 ~C~VCgdGGeLLcCD~CpraFH~~CLg~-~----------------~vPeg--~W~Cp~C~C~~Cg~~~~d~~~ed~~s~ 780 (902)
.|.+|...|.++--..-..+.|..|.-. + .++.. .+. |.+|+...+
T Consensus 2 ~C~lC~~~~Galk~t~~~~WvHv~Cal~~~~~~~~~~~~~~~v~~~~i~~~~~~~~-----C~iC~~~~G---------- 66 (110)
T PF13832_consen 2 SCVLCPKRGGALKRTSDGQWVHVLCALWIPEVIFNNGESMEPVDISNIPPSRFKLK-----CSICGKSGG---------- 66 (110)
T ss_pred ccEeCCCCCCcccCccCCcEEEeEccceeCccEEeechhcCcccceeecchhcCCc-----CcCCCCCCc----------
Confidence 5888886655554445678889988752 1 01111 222 557766532
Q ss_pred cceeeCCc--chhhhhccccccc
Q 002597 781 SALLPCAM--CEKKYHKLCMQEM 801 (902)
Q Consensus 781 ~~LL~Cdq--Cer~YHv~CL~p~ 801 (902)
..+.|.. |...||+.|....
T Consensus 67 -~~i~C~~~~C~~~fH~~CA~~~ 88 (110)
T PF13832_consen 67 -ACIKCSHPGCSTAFHPTCARKA 88 (110)
T ss_pred -eeEEcCCCCCCcCCCHHHHHHC
Confidence 3689987 9999999998753
No 40
>cd01396 MeCP2_MBD MeCP2, MBD1, MBD2, MBD3, and MBD4 are members of a protein family that share the methyl-CpG-binding domain (MBD). The MBD, consists of about 70 residues and is defined as the minimal region required for binding to methylated DNA by a methyl-CpG-binding protein which binds specifically to methylated DNA. The MBD can recognize a single symmetrically methylated CpG either as naked DNA or within chromatin. MeCP2, MBD1 and MBD2 (and likely MBD3) form complexes with histone deacetylase and are involved in histone deacetylase-dependent repression of transcription. MBD4 is an endonuclease that forms a complex with the DNA mismatch-repair protein MLH1.
Probab=83.83 E-value=1.4 Score=39.94 Aligned_cols=57 Identities=26% Similarity=0.499 Sum_probs=41.1
Q ss_pred HhcCeeeeeccCCC--CCcccceeeCCCCceeeehHHHHHHHHHHhccccccCCCCCCCCCCCC
Q 002597 404 VEAGWTIDYRPRKN--RDYLDAVYINPTGTAYWSIIKAYDALTKQLNDEEDEAKPSADGSPFTP 465 (902)
Q Consensus 404 ~~agwtid~rpr~~--r~y~davyi~p~g~~ywsi~kay~~~~~~~~~~~~~~~~~~~~~~~~~ 465 (902)
|-.||+....+|.+ .-..|..||+|+|+.+=|.... ...|++.. ..-+....|.|++
T Consensus 7 lp~GW~r~~~~R~~gs~~k~DvyY~sP~Gkk~RS~~ev----~~yL~~~~-~~~~~~~~FdF~~ 65 (77)
T cd01396 7 LPPGWKRELVPRKSGSAGKFDVYYISPTGKKFRSKVEL----ARYLEKNG-PTSLDLSDFDFTV 65 (77)
T ss_pred CCCCCEEEEEEecCCCCCcceEEEECCCCCEEECHHHH----HHHHHhCC-CCCCcHhHcccCC
Confidence 56899999999998 8899999999999988776544 34444432 2223445577764
No 41
>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=83.39 E-value=0.53 Score=47.71 Aligned_cols=23 Identities=13% Similarity=0.187 Sum_probs=19.3
Q ss_pred hhhccccccccccccccCCCcceeeCC
Q 002597 792 KYHKLCMQEMDALSDNLTGLVTSFCGR 818 (902)
Q Consensus 792 ~YHv~CL~p~~~lp~~i~ps~~WFCs~ 818 (902)
+||..||.| |+...|.+.|+||.
T Consensus 1 g~H~~CL~P----pl~~~P~g~W~Cp~ 23 (148)
T cd04718 1 GFHLCCLRP----PLKEVPEGDWICPF 23 (148)
T ss_pred CcccccCCC----CCCCCCCCCcCCCC
Confidence 599999998 56677889999974
No 42
>KOG1081 consensus Transcription factor NSD1 and related SET domain proteins [Transcription]
Probab=81.86 E-value=1.1 Score=52.34 Aligned_cols=45 Identities=27% Similarity=0.605 Sum_probs=33.3
Q ss_pred CCCCCcCcccCCCCCeeeeCCCCCCCCCcccCCCCCCCCCCCCCcc
Q 002597 715 DPNDDTCGICGDGGDLICCDGCPSTFHQSCLDIQMLPPGDWHCPNC 760 (902)
Q Consensus 715 d~ndd~C~VCgdGGeLLcCD~CpraFH~~CLg~~~vPeg~W~Cp~C 760 (902)
..+.++|++|.++|.+++|+.|..++|-.|.... .|...|.|..|
T Consensus 86 ~~~~~~c~vc~~ggs~v~~~s~~~~~~r~c~~~~-~~~c~~~~~d~ 130 (463)
T KOG1081|consen 86 KIEPSECFVCFKGGSLVTCKSRIQAPHRKCKPAQ-LEKCSKRCTDC 130 (463)
T ss_pred CCCcchhccccCCCccceeccccccccccCcCcc-CcccccCCcce
Confidence 3466899999999999999988888888887543 34455555444
No 43
>KOG0956 consensus PHD finger protein AF10 [General function prediction only]
Probab=78.45 E-value=0.97 Score=54.78 Aligned_cols=47 Identities=26% Similarity=0.512 Sum_probs=33.9
Q ss_pred ccccCCCCCCCCCCCCCCCcceeeCC--cchhhhhccccccccccccccCCCcceeeCCcchh
Q 002597 762 CKFCGLAGEDDAEGDDTTTSALLPCA--MCEKKYHKLCMQEMDALSDNLTGLVTSFCGRKCQE 822 (902)
Q Consensus 762 C~~Cg~~~~d~~~ed~~s~~~LL~Cd--qCer~YHv~CL~p~~~lp~~i~ps~~WFCs~~C~e 822 (902)
|.+|-...+| ..+.|+.|| .|.-+.|+.|..- ...|.+.||| +.|..
T Consensus 8 CCVCSDErGW-------aeNPLVYCDG~nCsVAVHQaCYGI------vqVPtGpWfC-rKCes 56 (900)
T KOG0956|consen 8 CCVCSDERGW-------AENPLVYCDGHNCSVAVHQACYGI------VQVPTGPWFC-RKCES 56 (900)
T ss_pred eeeecCcCCC-------ccCceeeecCCCceeeeehhccee------EecCCCchhh-hhhhh
Confidence 3456555444 336799998 8999999999864 2347799999 67763
No 44
>cd00122 MBD MeCP2, MBD1, MBD2, MBD3, MBD4, CLLD8-like, and BAZ2A-like proteins constitute a family of proteins that share the methyl-CpG-binding domain (MBD). The MBD consists of about 70 residues and is defined as the minimal region required for binding to methylated DNA by a methyl-CpG-binding protein which binds specifically to methylated DNA. The MBD can recognize a single symmetrically methylated CpG either as naked DNA or within chromatin. MeCP2, MBD1 and MBD2 (and likely MBD3) form complexes with histone deacetylase and are involved in histone deacetylase-dependent repression of transcription. MBD4 is an endonuclease that forms a complex with the DNA mismatch-repair protein MLH1. The MBDs present in putative chromatin remodelling subunit, BAZ2A, and putative histone methyltransferase, CLLD8, represent two phylogenetically distinct groups within the MBD protein family.
Probab=76.51 E-value=4 Score=35.24 Aligned_cols=41 Identities=24% Similarity=0.339 Sum_probs=33.6
Q ss_pred HhcCeeeeeccCCC--CCcccceeeCCCCceeeehHHHHHHHH
Q 002597 404 VEAGWTIDYRPRKN--RDYLDAVYINPTGTAYWSIIKAYDALT 444 (902)
Q Consensus 404 ~~agwtid~rpr~~--r~y~davyi~p~g~~ywsi~kay~~~~ 444 (902)
+-.||+-..++|++ .-..|..|++|.|+..=|..-.-..|.
T Consensus 6 ~p~GW~R~~~~r~~g~~~k~dv~Y~sP~Gk~~Rs~~ev~~yL~ 48 (62)
T cd00122 6 LPPGWKRELVIRKSGSAGKGDVYYYSPCGKKLRSKPEVARYLE 48 (62)
T ss_pred CCCCeEEEEEEcCCCCCCcceEEEECCCCceecCHHHHHHHHH
Confidence 36799999999998 899999999999998877665544443
No 45
>KOG0954 consensus PHD finger protein [General function prediction only]
Probab=75.42 E-value=1.9 Score=52.86 Aligned_cols=47 Identities=19% Similarity=0.531 Sum_probs=33.2
Q ss_pred ccccCCCCCCCCCCCCCCCcceeeCCcchhhhhccccccccccccccCCCcceeeCCcchh
Q 002597 762 CKFCGLAGEDDAEGDDTTTSALLPCAMCEKKYHKLCMQEMDALSDNLTGLVTSFCGRKCQE 822 (902)
Q Consensus 762 C~~Cg~~~~d~~~ed~~s~~~LL~CdqCer~YHv~CL~p~~~lp~~i~ps~~WFCs~~C~e 822 (902)
|.+|..++.+. .+.|++|+.|--..|+.|..-. ..|.+.|.| ..|..
T Consensus 274 CDvCrspD~e~-------~neMVfCd~Cn~cVHqaCyGIl------e~p~gpWlC-r~Cal 320 (893)
T KOG0954|consen 274 CDVCRSPDSEE-------ANEMVFCDKCNICVHQACYGIL------EVPEGPWLC-RTCAL 320 (893)
T ss_pred eceecCCCccc-------cceeEEeccchhHHHHhhhcee------ecCCCCeee-hhccc
Confidence 66777765432 2569999999999999998641 235688998 45543
No 46
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=74.05 E-value=1.8 Score=50.56 Aligned_cols=41 Identities=34% Similarity=0.535 Sum_probs=27.9
Q ss_pred CCCcCcccCC---C-CCeeeeCCCCCCCCCcccCCCCCCCCCCCCCccc
Q 002597 717 NDDTCGICGD---G-GDLICCDGCPSTFHQSCLDIQMLPPGDWHCPNCT 761 (902)
Q Consensus 717 ndd~C~VCgd---G-GeLLcCD~CpraFH~~CLg~~~vPeg~W~Cp~C~ 761 (902)
..+.|.||-. . -..|.=--|..+||..|+.. ..+-.||-|+
T Consensus 174 ELPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~----w~~~scpvcR 218 (493)
T KOG0804|consen 174 ELPTCPVCLERMDSSTTGILTILCNHSFHCSCLMK----WWDSSCPVCR 218 (493)
T ss_pred cCCCcchhHhhcCccccceeeeecccccchHHHhh----cccCcChhhh
Confidence 4578999952 2 22455556899999999964 2445677766
No 47
>KOG1701 consensus Focal adhesion adaptor protein Paxillin and related LIM proteins [Signal transduction mechanisms]
Probab=73.92 E-value=0.73 Score=53.25 Aligned_cols=74 Identities=18% Similarity=0.469 Sum_probs=38.2
Q ss_pred cCcccCCC--CCeeeeCCCCCCCCCcccC----------CCCC--CCCCCCCCccc-------ccccCCCCCCCCCCCCC
Q 002597 720 TCGICGDG--GDLICCDGCPSTFHQSCLD----------IQML--PPGDWHCPNCT-------CKFCGLAGEDDAEGDDT 778 (902)
Q Consensus 720 ~C~VCgdG--GeLLcCD~CpraFH~~CLg----------~~~v--Peg~W~Cp~C~-------C~~Cg~~~~d~~~ed~~ 778 (902)
.|.+|+.. +.+| -.|+.+||..|.. ++.+ ....-||-.|- |.+|+.+--.....+
T Consensus 336 kC~~Cg~~I~d~iL--rA~GkayHp~CF~Cv~C~r~ldgipFtvd~~n~v~Cv~dfh~kfAPrCs~C~~PI~P~~G~~-- 411 (468)
T KOG1701|consen 336 KCNKCGEPIMDRIL--RALGKAYHPGCFTCVVCARCLDGIPFTVDSQNNVYCVPDFHKKFAPRCSVCGNPILPRDGKD-- 411 (468)
T ss_pred HHhhhhhHHHHHHH--HhcccccCCCceEEEEeccccCCccccccCCCceeeehhhhhhcCcchhhccCCccCCCCCc--
Confidence 46666542 1222 2467777776643 1111 12446776663 888987654322111
Q ss_pred CCcceeeCCcchhhhhcccccc
Q 002597 779 TTSALLPCAMCEKKYHKLCMQE 800 (902)
Q Consensus 779 s~~~LL~CdqCer~YHv~CL~p 800 (902)
. .+.--.-++.||+.|..-
T Consensus 412 -e--tvRvvamdr~fHv~CY~C 430 (468)
T KOG1701|consen 412 -E--TVRVVAMDRDFHVNCYKC 430 (468)
T ss_pred -c--eEEEEEccccccccceeh
Confidence 1 122223478899999764
No 48
>COG5141 PHD zinc finger-containing protein [General function prediction only]
Probab=73.36 E-value=1.7 Score=51.15 Aligned_cols=32 Identities=22% Similarity=0.330 Sum_probs=24.4
Q ss_pred CCcceeeCCcchhhhhccccccccccccccCCCcceee
Q 002597 779 TTSALLPCAMCEKKYHKLCMQEMDALSDNLTGLVTSFC 816 (902)
Q Consensus 779 s~~~LL~CdqCer~YHv~CL~p~~~lp~~i~ps~~WFC 816 (902)
+.+.+++|+.|+-+.|+.|..-. . .|++.|+|
T Consensus 206 N~naiVfCdgC~i~VHq~CYGI~-f-----~peG~WlC 237 (669)
T COG5141 206 NSNAIVFCDGCEICVHQSCYGIQ-F-----LPEGFWLC 237 (669)
T ss_pred CcceEEEecCcchhhhhhcccce-e-----cCcchhhh
Confidence 34579999999999999998631 1 25677887
No 49
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=72.81 E-value=1.9 Score=37.20 Aligned_cols=28 Identities=32% Similarity=1.112 Sum_probs=25.1
Q ss_pred CcCcccCC----CCCeeeeCCCCCCCCCcccC
Q 002597 719 DTCGICGD----GGDLICCDGCPSTFHQSCLD 746 (902)
Q Consensus 719 d~C~VCgd----GGeLLcCD~CpraFH~~CLg 746 (902)
..|.+|++ +++++.|..|...||-.|+.
T Consensus 6 ~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~ 37 (54)
T PF14446_consen 6 CKCPVCGKKFKDGDDIVVCPECGAPYHRDCWE 37 (54)
T ss_pred ccChhhCCcccCCCCEEECCCCCCcccHHHHh
Confidence 57999985 68899999999999999995
No 50
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=68.79 E-value=4.7 Score=45.95 Aligned_cols=45 Identities=33% Similarity=0.727 Sum_probs=31.5
Q ss_pred CcCcccCC---CCCeeeeCCCCCCCCCcccCCCCCCCCCCCCCcccccc
Q 002597 719 DTCGICGD---GGDLICCDGCPSTFHQSCLDIQMLPPGDWHCPNCTCKF 764 (902)
Q Consensus 719 d~C~VCgd---GGeLLcCD~CpraFH~~CLg~~~vPeg~W~Cp~C~C~~ 764 (902)
+.|.||-+ .|+.|-==-|...||..|+++..... -=+||-|+|.+
T Consensus 230 ~~CaIClEdY~~GdklRiLPC~H~FH~~CIDpWL~~~-r~~CPvCK~di 277 (348)
T KOG4628|consen 230 DTCAICLEDYEKGDKLRILPCSHKFHVNCIDPWLTQT-RTFCPVCKRDI 277 (348)
T ss_pred ceEEEeecccccCCeeeEecCCCchhhccchhhHhhc-CccCCCCCCcC
Confidence 79999975 35543334589999999999754333 24688888643
No 51
>PF01342 SAND: SAND domain; InterPro: IPR000770 The SAND domain (named after Sp100, AIRE-1, NucP41/75, DEAF-1) is a conserved ~80 residue region found in a number of nuclear proteins, many of which function in chromatin-dependent transcriptional control. These include proteins linked to various human diseases, such as the Sp100 (Speckled protein 100 kDa), NUDR (Nuclear DEAF-1 related), GMEB (Glucocorticoid Modulatory Element Binding) proteins and AIRE-1 (Autoimmune regulator 1) proteins. Proteins containing the SAND domain have a modular structure; the SAND domain can be associated with a number of other modules, including the bromodomain, the PHD finger and the MYND finger. Because no SAND domain has been found in yeast, it is thought that the SAND domain could be restricted to animal phyla. Many SAND domain-containing proteins, including NUDR, DEAF-1 (Deformed epidermal autoregulatory factor-1) and GMEB, have been shown to bind DNA sequences specifically. The SAND domain has been proposed to mediate the DNA binding activity of these proteins [, ]. The resolution of the 3D structure of the SAND domain from Sp100b has revealed that it consists of a novel alpha/beta fold. The SAND domain adopts a compact fold consisting of a strongly twisted, five-stranded antiparallel beta-sheet with four alpha-helices packing against one side of the beta-sheet. The opposite side of the beta-sheet is solvent exposed. The beta-sheet and alpha-helical parts of the structure form two distinct regions. Multiple hydrophobic residues pack between these regions to form a structural core. A conserved KDWK sequence motif is found within the alpha-helical, positively charged surface patch. The DNA binding surface has been mapped to the alpha-helical region encompassing the KDWK motif [].; GO: 0003677 DNA binding, 0005634 nucleus; PDB: 1OQJ_B 1UFN_A 1H5P_A.
Probab=68.72 E-value=1.3 Score=40.63 Aligned_cols=33 Identities=27% Similarity=0.400 Sum_probs=25.8
Q ss_pred CceeecccceeccCCccccCc-eeEeecCCcchhh
Q 002597 656 SKILTVSKFEIHAGSKLRQPF-QNIYLDSGVSLLQ 689 (902)
Q Consensus 656 ~kvfSpSeFE~HAGsk~rrPy-~nI~LedG~SLld 689 (902)
..+|||++||.|+|......| .+|.+ .|.+|-.
T Consensus 41 g~~~TP~eFE~~~G~~~sK~WK~SIr~-~g~~L~~ 74 (82)
T PF01342_consen 41 GRWFTPSEFERHGGKGSSKDWKRSIRC-GGEPLGK 74 (82)
T ss_dssp TEEE-HHHHHHHHTTCTCS-HHHHSEE-TTEEHHH
T ss_pred CcEECHHHHHhhcCcccCCCCCccEEE-CCEEHHH
Confidence 679999999999999888778 67776 7888763
No 52
>smart00258 SAND SAND domain.
Probab=61.51 E-value=4.4 Score=36.93 Aligned_cols=40 Identities=33% Similarity=0.522 Sum_probs=30.4
Q ss_pred CcccCC--C-CceeecccceeccCCccccCc-eeEeecCCcchhh
Q 002597 649 GIHCGC--C-SKILTVSKFEIHAGSKLRQPF-QNIYLDSGVSLLQ 689 (902)
Q Consensus 649 GI~C~C--C-~kvfSpSeFE~HAGsk~rrPy-~nI~LedG~SLld 689 (902)
||.+.| | +++|||++||.+||......| .+|.. +|++|..
T Consensus 22 G~~~kCI~~~~~~~TP~eFe~~~g~~~~K~WK~sIR~-~g~~Lr~ 65 (73)
T smart00258 22 GISVKCIQYEDKWFTPKEFEIEGGKGKSKDWKRSIRC-GGSSLRT 65 (73)
T ss_pred CcccCCccCCCEEEChHHHHhhcCCcccCCcchheeE-CCccHHH
Confidence 555555 3 579999999999999888888 45654 6777763
No 53
>PF15446 zf-PHD-like: PHD/FYVE-zinc-finger like domain
Probab=58.54 E-value=6.8 Score=40.83 Aligned_cols=34 Identities=35% Similarity=0.904 Sum_probs=26.2
Q ss_pred ccccCCCCCCCCCCCCCCCcceeeCCcchhhhhccccccc
Q 002597 762 CKFCGLAGEDDAEGDDTTTSALLPCAMCEKKYHKLCMQEM 801 (902)
Q Consensus 762 C~~Cg~~~~d~~~ed~~s~~~LL~CdqCer~YHv~CL~p~ 801 (902)
|..|+..+.+ ...+.|+.|..|..+||..||.+.
T Consensus 2 C~~C~~~g~~------~~kG~Lv~CQGCs~sYHk~CLG~R 35 (175)
T PF15446_consen 2 CDTCGYEGDD------RNKGPLVYCQGCSSSYHKACLGPR 35 (175)
T ss_pred cccccCCCCC------ccCCCeEEcCccChHHHhhhcCCc
Confidence 6677765432 235679999999999999999874
No 54
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=55.82 E-value=5.5 Score=35.34 Aligned_cols=28 Identities=39% Similarity=0.965 Sum_probs=11.6
Q ss_pred CcCcccCC----CCC--eeeeC--CCCCCCCCcccC
Q 002597 719 DTCGICGD----GGD--LICCD--GCPSTFHQSCLD 746 (902)
Q Consensus 719 d~C~VCgd----GGe--LLcCD--~CpraFH~~CLg 746 (902)
..|.||.. .++ .+.|+ .|...||..||-
T Consensus 3 ~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~ 38 (70)
T PF11793_consen 3 LECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLS 38 (70)
T ss_dssp -S-SSS--SS-TT-----B--S-TT----B-SGGGH
T ss_pred CCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHH
Confidence 57889964 232 57898 799999999996
No 55
>PF13831 PHD_2: PHD-finger; PDB: 2L43_A 2KU3_A.
Probab=51.51 E-value=6.1 Score=31.18 Aligned_cols=31 Identities=23% Similarity=0.451 Sum_probs=15.2
Q ss_pred cceeeCCcchhhhhccccccccccccccCCCcceee
Q 002597 781 SALLPCAMCEKKYHKLCMQEMDALSDNLTGLVTSFC 816 (902)
Q Consensus 781 ~~LL~CdqCer~YHv~CL~p~~~lp~~i~ps~~WFC 816 (902)
+.|+.|+.|.-..|..|..-... +....|+|
T Consensus 2 n~ll~C~~C~v~VH~~CYGv~~~-----~~~~~W~C 32 (36)
T PF13831_consen 2 NPLLFCDNCNVAVHQSCYGVSEV-----PDGDDWLC 32 (36)
T ss_dssp CEEEE-SSS--EEEHHHHT-SS-------SS-----
T ss_pred CceEEeCCCCCcCChhhCCcccC-----CCCCcEEC
Confidence 35899999999999999864211 12235998
No 56
>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=49.59 E-value=13 Score=44.06 Aligned_cols=30 Identities=27% Similarity=0.740 Sum_probs=19.8
Q ss_pred CeeeeCCCCCCCCCcccCCCCCCCCCCCCCccc
Q 002597 729 DLICCDGCPSTFHQSCLDIQMLPPGDWHCPNCT 761 (902)
Q Consensus 729 eLLcCD~CpraFH~~CLg~~~vPeg~W~Cp~C~ 761 (902)
+|.+|..|...-...|+.. ....||||.|.
T Consensus 4 ~L~fC~~C~~irc~~c~~~---Ei~~~yCp~CL 33 (483)
T PF05502_consen 4 ELYFCEHCHKIRCPRCVSE---EIDSYYCPNCL 33 (483)
T ss_pred cceecccccccCChhhccc---ccceeECcccc
Confidence 4677777766666667653 23458888885
No 57
>PF07897 DUF1675: Protein of unknown function (DUF1675); InterPro: IPR012463 The members of this family are sequences derived from hypothetical plant proteins of unknown function. One member of this family (Q9SFV5 from SWISSPROT) is annotated as a putative RNA-binding protein, but no evidence was found to support this.
Probab=48.81 E-value=7.8 Score=43.17 Aligned_cols=40 Identities=30% Similarity=0.651 Sum_probs=31.1
Q ss_pred eeeeeeecC------CcccCCCCceeecccceeccCCc-cccCceeE
Q 002597 640 MLEGWITRD------GIHCGCCSKILTVSKFEIHAGSK-LRQPFQNI 679 (902)
Q Consensus 640 lLeG~It~d------GI~C~CC~kvfSpSeFE~HAGsk-~rrPy~nI 679 (902)
-++|+.++- -|+|.|=...|+|.+|..|||.. ...|-.+|
T Consensus 237 ~i~g~ly~y~~~~~v~i~c~chg~~~~~~efv~h~~~~~~~~p~~hi 283 (284)
T PF07897_consen 237 RIEGFLYKYGKGEEVRIVCVCHGSFLSPAEFVKHAGGGDVANPLRHI 283 (284)
T ss_pred eeeEEEEEecCCCeEEEEEEecCCCCCHHHHHHhcCCCCcCCchhcc
Confidence 367755544 28999999999999999999986 46676665
No 58
>PF13832 zf-HC5HC2H_2: PHD-zinc-finger like domain
Probab=48.44 E-value=10 Score=35.46 Aligned_cols=30 Identities=40% Similarity=0.994 Sum_probs=26.0
Q ss_pred CCCcCcccCC-CCCeeeeCC--CCCCCCCcccC
Q 002597 717 NDDTCGICGD-GGDLICCDG--CPSTFHQSCLD 746 (902)
Q Consensus 717 ndd~C~VCgd-GGeLLcCD~--CpraFH~~CLg 746 (902)
....|.+|+. .|-.+-|.. |..+||..|.-
T Consensus 54 ~~~~C~iC~~~~G~~i~C~~~~C~~~fH~~CA~ 86 (110)
T PF13832_consen 54 FKLKCSICGKSGGACIKCSHPGCSTAFHPTCAR 86 (110)
T ss_pred cCCcCcCCCCCCceeEEcCCCCCCcCCCHHHHH
Confidence 3578999997 588999998 99999999985
No 59
>PF13639 zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C 1IYM_A 2EP4_A 2ECT_A 2JRJ_A 2ECN_A 2ECM_A 3NG2_A 2EA6_A ....
Probab=48.41 E-value=2.1 Score=33.93 Aligned_cols=40 Identities=30% Similarity=0.756 Sum_probs=24.6
Q ss_pred CcCcccCCC----CCeeeeCCCCCCCCCcccCCCCCCCCCCCCCccc
Q 002597 719 DTCGICGDG----GDLICCDGCPSTFHQSCLDIQMLPPGDWHCPNCT 761 (902)
Q Consensus 719 d~C~VCgdG----GeLLcCD~CpraFH~~CLg~~~vPeg~W~Cp~C~ 761 (902)
|.|.||.+. ..++... |...||..|+.... .....||.|+
T Consensus 1 d~C~IC~~~~~~~~~~~~l~-C~H~fh~~Ci~~~~--~~~~~CP~CR 44 (44)
T PF13639_consen 1 DECPICLEEFEDGEKVVKLP-CGHVFHRSCIKEWL--KRNNSCPVCR 44 (44)
T ss_dssp -CETTTTCBHHTTSCEEEET-TSEEEEHHHHHHHH--HHSSB-TTTH
T ss_pred CCCcCCChhhcCCCeEEEcc-CCCeeCHHHHHHHH--HhCCcCCccC
Confidence 468899752 3455444 99999999986421 1123788774
No 60
>PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=47.86 E-value=14 Score=38.77 Aligned_cols=36 Identities=36% Similarity=0.932 Sum_probs=28.2
Q ss_pred CcCcccCCC--------CCeeeeCCCCCCCCCcccCCCCCCCCCCCCCccc
Q 002597 719 DTCGICGDG--------GDLICCDGCPSTFHQSCLDIQMLPPGDWHCPNCT 761 (902)
Q Consensus 719 d~C~VCgdG--------GeLLcCD~CpraFH~~CLg~~~vPeg~W~Cp~C~ 761 (902)
.+|.+|.+. .....|..|...||..|... -.||.|.
T Consensus 153 fiCe~C~~~~~IfPF~~~~~~~C~~C~~v~H~~C~~~-------~~CpkC~ 196 (202)
T PF13901_consen 153 FICEICNSDDIIFPFQIDTTVRCPKCKSVFHKSCFRK-------KSCPKCA 196 (202)
T ss_pred CCCccCCCCCCCCCCCCCCeeeCCcCccccchhhcCC-------CCCCCcH
Confidence 589999864 35789999999999999962 2388774
No 61
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=47.44 E-value=12 Score=32.48 Aligned_cols=33 Identities=30% Similarity=0.882 Sum_probs=25.5
Q ss_pred ccccccCCCCCCCCCCCCCCCcceeeCCcchhhhhcccccc
Q 002597 760 CTCKFCGLAGEDDAEGDDTTTSALLPCAMCEKKYHKLCMQE 800 (902)
Q Consensus 760 C~C~~Cg~~~~d~~~ed~~s~~~LL~CdqCer~YHv~CL~p 800 (902)
+.|.+|+..-.+. ..++.|..|...||-.|...
T Consensus 6 ~~C~~Cg~~~~~~--------dDiVvCp~CgapyHR~C~~~ 38 (54)
T PF14446_consen 6 CKCPVCGKKFKDG--------DDIVVCPECGAPYHRDCWEK 38 (54)
T ss_pred ccChhhCCcccCC--------CCEEECCCCCCcccHHHHhh
Confidence 5678888776321 24799999999999999865
No 62
>smart00391 MBD Methyl-CpG binding domain. Methyl-CpG binding domain, also known as the TAM (TTF-IIP5, ARBP, MeCP1) domain
Probab=45.91 E-value=40 Score=30.72 Aligned_cols=37 Identities=27% Similarity=0.504 Sum_probs=28.9
Q ss_pred HhcCeeeeeccCCC---CCcccceeeCCCCceeeehHHHH
Q 002597 404 VEAGWTIDYRPRKN---RDYLDAVYINPTGTAYWSIIKAY 440 (902)
Q Consensus 404 ~~agwtid~rpr~~---r~y~davyi~p~g~~ywsi~kay 440 (902)
|-.||+=..+.|+. +.=.|.+|++|.|+..=|.-..-
T Consensus 8 lp~GW~R~~~~r~~g~~~~~~dV~Y~sP~GkklRs~~ev~ 47 (77)
T smart00391 8 LPCGWRRETKQRKSGRSAGKFDVYYISPCGKKLRSKSELA 47 (77)
T ss_pred CCCCcEEEEEEecCCCCCCcccEEEECCCCCeeeCHHHHH
Confidence 56799999988873 45689999999999886654433
No 63
>KOG3612 consensus PHD Zn-finger protein [General function prediction only]
Probab=45.21 E-value=16 Score=43.89 Aligned_cols=46 Identities=22% Similarity=0.325 Sum_probs=37.7
Q ss_pred CCCCcCcccCCCCCeeeeCCCCCCCCCcccCCC-CCC--CCCCCCCccc
Q 002597 716 PNDDTCGICGDGGDLICCDGCPSTFHQSCLDIQ-MLP--PGDWHCPNCT 761 (902)
Q Consensus 716 ~ndd~C~VCgdGGeLLcCD~CpraFH~~CLg~~-~vP--eg~W~Cp~C~ 761 (902)
..+.+|+-|.-+|..+.|+.|-+.||..|+.+. ..+ ...|.|+.|.
T Consensus 58 N~d~~cfechlpg~vl~c~vc~Rs~h~~c~sp~~q~r~~s~p~~~p~p~ 106 (588)
T KOG3612|consen 58 NIDPFCFECHLPGAVLKCIVCHRSFHENCQSPDPQKRNYSVPSDKPQPY 106 (588)
T ss_pred CCCcccccccCCcceeeeehhhccccccccCcchhhccccccccCCccc
Confidence 345689999999999999999999999999763 233 3569999886
No 64
>PLN03086 PRLI-interacting factor K; Provisional
Probab=43.27 E-value=9.4 Score=46.14 Aligned_cols=32 Identities=16% Similarity=0.375 Sum_probs=24.3
Q ss_pred cCCcccCCCCceeecccceeccCCccccCceeEee
Q 002597 647 RDGIHCGCCSKILTVSKFEIHAGSKLRQPFQNIYL 681 (902)
Q Consensus 647 ~dGI~C~CC~kvfSpSeFE~HAGsk~rrPy~nI~L 681 (902)
.+-+.|+.|...+....|+.|.. .++|.+|..
T Consensus 405 ~~~V~C~NC~~~i~l~~l~lHe~---~C~r~~V~C 436 (567)
T PLN03086 405 VDTVECRNCKHYIPSRSIALHEA---YCSRHNVVC 436 (567)
T ss_pred CCeEECCCCCCccchhHHHHHHh---hCCCcceeC
Confidence 34568999999999999999875 356666644
No 65
>KOG1246 consensus DNA-binding protein jumonji/RBP2/SMCY, contains JmjC domain [General function prediction only]
Probab=42.88 E-value=28 Score=44.07 Aligned_cols=49 Identities=35% Similarity=0.931 Sum_probs=38.7
Q ss_pred CCcCcccCCCC--CeeeeCCCCCCCCCcccCCC--CCCCCCCCCCcccccccC
Q 002597 718 DDTCGICGDGG--DLICCDGCPSTFHQSCLDIQ--MLPPGDWHCPNCTCKFCG 766 (902)
Q Consensus 718 dd~C~VCgdGG--eLLcCD~CpraFH~~CLg~~--~vPeg~W~Cp~C~C~~Cg 766 (902)
...|..|..+. .++.|+.|...||.+|+.++ .++.++|.|+.|...-|.
T Consensus 155 ~~~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 207 (904)
T KOG1246|consen 155 YPQCNTCSKGKEEKLLLCDSCDDSYHTYCLRPPLTRVPDGDWRCPKCIPTPES 207 (904)
T ss_pred chhhhccccCCCccceecccccCcccccccCCCCCcCCcCcccCCcccccccC
Confidence 35788887654 34499999999999999864 578899999999865444
No 66
>PF10497 zf-4CXXC_R1: Zinc-finger domain of monoamine-oxidase A repressor R1; InterPro: IPR018866 R1 is a transcription factor repressor that inhibits monoamine oxidase A gene expression. This domain is a four-CXXC zinc finger putative DNA-binding domain found at the C-terminal end of R1. The domain carries 12 cysteines of which four pairs are of the CXXC type [].
Probab=42.05 E-value=15 Score=35.31 Aligned_cols=37 Identities=35% Similarity=1.011 Sum_probs=22.9
Q ss_pred CCCCCCCCCcccCC-------CCCCCCCCCCCccc----ccccCCCCC
Q 002597 734 DGCPSTFHQSCLDI-------QMLPPGDWHCPNCT----CKFCGLAGE 770 (902)
Q Consensus 734 D~CpraFH~~CLg~-------~~vPeg~W~Cp~C~----C~~Cg~~~~ 770 (902)
..|...|-..||-. +.+....|.||.|+ |.+|....+
T Consensus 34 ~~~~~~fC~~CL~~ryge~~~ev~~~~~W~CP~CrgiCnCs~Crrk~g 81 (105)
T PF10497_consen 34 RGCRGKFCGGCLRNRYGENVEEVLEDPNWKCPKCRGICNCSFCRRKRG 81 (105)
T ss_pred ccCcceehHhHHHHHHhhhHHHHhcCCceECCCCCCeeCCHhhhccCC
Confidence 33466666666541 12456789999987 667765543
No 67
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=41.46 E-value=11 Score=35.28 Aligned_cols=31 Identities=26% Similarity=0.606 Sum_probs=20.2
Q ss_pred eeeeCCCCCCCCCcccCCC-CCCCCCCCCCccc
Q 002597 730 LICCDGCPSTFHQSCLDIQ-MLPPGDWHCPNCT 761 (902)
Q Consensus 730 LLcCD~CpraFH~~CLg~~-~vPeg~W~Cp~C~ 761 (902)
++.+ .|...||..|+..- ..+...=.||.|+
T Consensus 47 lv~g-~C~H~FH~hCI~kWl~~~~~~~~CPmCR 78 (85)
T PF12861_consen 47 LVWG-KCSHNFHMHCILKWLSTQSSKGQCPMCR 78 (85)
T ss_pred eeec-cCccHHHHHHHHHHHccccCCCCCCCcC
Confidence 4444 49999999998632 1122345788876
No 68
>PF13771 zf-HC5HC2H: PHD-like zinc-binding domain
Probab=40.91 E-value=15 Score=32.97 Aligned_cols=29 Identities=34% Similarity=0.859 Sum_probs=25.7
Q ss_pred CCcCcccCCC-CCeeeeCC--CCCCCCCcccC
Q 002597 718 DDTCGICGDG-GDLICCDG--CPSTFHQSCLD 746 (902)
Q Consensus 718 dd~C~VCgdG-GeLLcCD~--CpraFH~~CLg 746 (902)
...|.+|+.. |-.|-|.. |...||..|.-
T Consensus 36 ~~~C~~C~~~~Ga~i~C~~~~C~~~fH~~CA~ 67 (90)
T PF13771_consen 36 KLKCSICKKKGGACIGCSHPGCSRSFHVPCAR 67 (90)
T ss_pred CCCCcCCCCCCCeEEEEeCCCCCcEEChHHHc
Confidence 4689999998 99999985 99999999985
No 69
>KOG3576 consensus Ovo and related transcription factors [Transcription]
Probab=39.50 E-value=10 Score=40.75 Aligned_cols=63 Identities=27% Similarity=0.552 Sum_probs=37.4
Q ss_pred CCeeeeCCCCCCC--------CCcccCCCCCCCCCCCCCcccccccCCCCCCCC-C---CCCCCCcceeeCCcchhhhhc
Q 002597 728 GDLICCDGCPSTF--------HQSCLDIQMLPPGDWHCPNCTCKFCGLAGEDDA-E---GDDTTTSALLPCAMCEKKYHK 795 (902)
Q Consensus 728 GeLLcCD~CpraF--------H~~CLg~~~vPeg~W~Cp~C~C~~Cg~~~~d~~-~---ed~~s~~~LL~CdqCer~YHv 795 (902)
++...|+.|.++| |..|... .. ...|.+||+.-.+.- - ..+-+.-.-..|..|+++|-+
T Consensus 115 ~d~ftCrvCgK~F~lQRmlnrh~kch~~----vk-----r~lct~cgkgfndtfdlkrh~rthtgvrpykc~~c~kaftq 185 (267)
T KOG3576|consen 115 QDSFTCRVCGKKFGLQRMLNRHLKCHSD----VK-----RHLCTFCGKGFNDTFDLKRHTRTHTGVRPYKCSLCEKAFTQ 185 (267)
T ss_pred CCeeeeehhhhhhhHHHHHHHHhhhccH----HH-----HHHHhhccCcccchhhhhhhhccccCccccchhhhhHHHHh
Confidence 5677788888877 4445432 11 223667887543311 0 011233345889999999999
Q ss_pred cccc
Q 002597 796 LCMQ 799 (902)
Q Consensus 796 ~CL~ 799 (902)
.|--
T Consensus 186 rcsl 189 (267)
T KOG3576|consen 186 RCSL 189 (267)
T ss_pred hccH
Confidence 9953
No 70
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=37.55 E-value=12 Score=41.77 Aligned_cols=47 Identities=26% Similarity=0.547 Sum_probs=28.2
Q ss_pred cccccCCcccCC-CCCCCCCCcCcccCCC------CC----eeeeCCCCCCCCCcccC
Q 002597 700 ESESIGFESVDV-DGDDPNDDTCGICGDG------GD----LICCDGCPSTFHQSCLD 746 (902)
Q Consensus 700 ~sEk~g~~~V~~-dged~ndd~C~VCgdG------Ge----LLcCD~CpraFH~~CLg 746 (902)
.+...|+...+. -....+|..|.||+.. .+ -+.=-.|...||.+|..
T Consensus 205 mAs~iGfYs~~glPtkhl~d~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIr 262 (328)
T KOG1734|consen 205 MASTIGFYSPSGLPTKHLSDSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIR 262 (328)
T ss_pred HHHHhcccCCCCCCCCCCCcchhHhhcchheeecchhhhhhhheeeecccchHHHhhh
Confidence 344556654321 1245678899999852 11 11222589999999985
No 71
>KOG2752 consensus Uncharacterized conserved protein, contains N-recognin-type Zn-finger [General function prediction only]
Probab=34.74 E-value=27 Score=39.73 Aligned_cols=22 Identities=36% Similarity=0.880 Sum_probs=18.6
Q ss_pred CcceeeCCcchhhhh-ccccccc
Q 002597 780 TSALLPCAMCEKKYH-KLCMQEM 801 (902)
Q Consensus 780 ~~~LL~CdqCer~YH-v~CL~p~ 801 (902)
...|++|-.|+-||| ..|++..
T Consensus 145 e~~m~QC~iCEDWFHce~c~~~~ 167 (345)
T KOG2752|consen 145 EGEMLQCVICEDWFHCEGCMQAK 167 (345)
T ss_pred cceeeeEEeccchhcccccCccc
Confidence 357999999999999 8998753
No 72
>COG0143 MetG Methionyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=34.31 E-value=17 Score=43.90 Aligned_cols=37 Identities=19% Similarity=0.501 Sum_probs=25.2
Q ss_pred CCCCCCccc-----------ccccCCCCCCCCCCCCCCCcceeeCCcchhhhhcccccc
Q 002597 753 GDWHCPNCT-----------CKFCGLAGEDDAEGDDTTTSALLPCAMCEKKYHKLCMQE 800 (902)
Q Consensus 753 g~W~Cp~C~-----------C~~Cg~~~~d~~~ed~~s~~~LL~CdqCer~YHv~CL~p 800 (902)
..|||+.|. |..|+...... -.|+.|++.|++.+|..
T Consensus 125 ~~~Yc~~~e~fl~dr~v~g~cp~cg~~~arG-----------D~Ce~Cg~~~~P~~l~~ 172 (558)
T COG0143 125 EGLYCVSCERFLPDRYVEGTCPKCGGEDARG-----------DQCENCGRTLDPTELIN 172 (558)
T ss_pred eeeEcccccccccchheeccCCCcCccccCc-----------chhhhccCcCCchhcCC
Confidence 348888885 77776433211 36999999999988643
No 73
>COG1107 Archaea-specific RecJ-like exonuclease, contains DnaJ-type Zn finger domain [DNA replication, recombination, and repair]
Probab=34.03 E-value=21 Score=43.47 Aligned_cols=35 Identities=34% Similarity=0.786 Sum_probs=25.7
Q ss_pred CCcCcccCCCCCeeeeCCCCCCCCCcccCCCCCCCCCCCCCccc
Q 002597 718 DDTCGICGDGGDLICCDGCPSTFHQSCLDIQMLPPGDWHCPNCT 761 (902)
Q Consensus 718 dd~C~VCgdGGeLLcCD~CpraFH~~CLg~~~vPeg~W~Cp~C~ 761 (902)
.+.|..|+..|..+.|+.|+..++. ..+..|+.|.
T Consensus 68 ~~~c~~c~G~gkv~~c~~cG~~~~~---------~~~~lc~~c~ 102 (715)
T COG1107 68 YDTCPECGGTGKVLTCDICGDIIVP---------WEEGLCPECR 102 (715)
T ss_pred EeecccCCCceeEEeeccccceecC---------cccccChhHh
Confidence 4678888888889999999887652 2223788886
No 74
>KOG1044 consensus Actin-binding LIM Zn-finger protein Limatin involved in axon guidance [Signal transduction mechanisms; Cytoskeleton]
Probab=32.78 E-value=58 Score=39.79 Aligned_cols=8 Identities=50% Similarity=1.302 Sum_probs=5.5
Q ss_pred CcCcccCC
Q 002597 719 DTCGICGD 726 (902)
Q Consensus 719 d~C~VCgd 726 (902)
..|.-|+.
T Consensus 134 s~cagc~~ 141 (670)
T KOG1044|consen 134 STCAGCGE 141 (670)
T ss_pred ccccchhh
Confidence 46878864
No 75
>KOG1829 consensus Uncharacterized conserved protein, contains C1, PH and RUN domains [Signal transduction mechanisms]
Probab=32.63 E-value=25 Score=42.78 Aligned_cols=33 Identities=24% Similarity=0.647 Sum_probs=24.4
Q ss_pred ceeeCCcchhhhhccccccccccccccCCCcceeeCCcchhhHHH
Q 002597 782 ALLPCAMCEKKYHKLCMQEMDALSDNLTGLVTSFCGRKCQELSEH 826 (902)
Q Consensus 782 ~LL~CdqCer~YHv~CL~p~~~lp~~i~ps~~WFCs~~C~eI~e~ 826 (902)
....|..|...||..|+... --||+.|.++...
T Consensus 530 ~~~rC~~C~avfH~~C~~r~------------s~~CPrC~R~q~r 562 (580)
T KOG1829|consen 530 NTRRCSTCLAVFHKKCLRRK------------SPCCPRCERRQKR 562 (580)
T ss_pred cceeHHHHHHHHHHHHHhcc------------CCCCCchHHHHHH
Confidence 35789999999999999752 1235678877653
No 76
>KOG1952 consensus Transcription factor NF-X1, contains NFX-type Zn2+-binding and R3H domains [Transcription]
Probab=32.11 E-value=16 Score=45.80 Aligned_cols=43 Identities=28% Similarity=0.811 Sum_probs=32.8
Q ss_pred CcCcccCC----CCCeeeeCCCCCCCCCcccCCC-----CCCCCCCCCCccc
Q 002597 719 DTCGICGD----GGDLICCDGCPSTFHQSCLDIQ-----MLPPGDWHCPNCT 761 (902)
Q Consensus 719 d~C~VCgd----GGeLLcCD~CpraFH~~CLg~~-----~vPeg~W~Cp~C~ 761 (902)
..|.||.+ ...+--|..|...||+.|+.-. ..-...|-||.|.
T Consensus 192 yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cq 243 (950)
T KOG1952|consen 192 YECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQ 243 (950)
T ss_pred eEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCccc
Confidence 46999975 3458889999999999998631 2223569999997
No 77
>KOG0269 consensus WD40 repeat-containing protein [Function unknown]
Probab=31.57 E-value=20 Score=44.60 Aligned_cols=41 Identities=22% Similarity=0.616 Sum_probs=31.2
Q ss_pred CCCCCCCCCccc------ccccCCCCCCCCCCCCCCCcceeeCCcchhhhhcccccc
Q 002597 750 LPPGDWHCPNCT------CKFCGLAGEDDAEGDDTTTSALLPCAMCEKKYHKLCMQE 800 (902)
Q Consensus 750 vPeg~W~Cp~C~------C~~Cg~~~~d~~~ed~~s~~~LL~CdqCer~YHv~CL~p 800 (902)
+-...|+|..|. |.+|...-. +..+.|.+|++.=|..|+..
T Consensus 764 ~~~~~~~c~rc~s~a~~~CtVC~~vi~----------G~~~~c~~C~H~gH~sh~~s 810 (839)
T KOG0269|consen 764 VLTKLWQCDRCESRASAKCTVCDLVIR----------GVDVWCQVCGHGGHDSHLKS 810 (839)
T ss_pred ccccceeechHHHHhhcCceeecceee----------eeEeecccccccccHHHHHH
Confidence 334459999986 778865532 34688999999999999986
No 78
>KOG1701 consensus Focal adhesion adaptor protein Paxillin and related LIM proteins [Signal transduction mechanisms]
Probab=31.30 E-value=6 Score=46.17 Aligned_cols=86 Identities=23% Similarity=0.523 Sum_probs=50.7
Q ss_pred CcCcccCCC--CCeeeeCCCCCCCCCcccCC---------CC--CCCCCCCCCccc------ccccCCCCCCCCCCCCCC
Q 002597 719 DTCGICGDG--GDLICCDGCPSTFHQSCLDI---------QM--LPPGDWHCPNCT------CKFCGLAGEDDAEGDDTT 779 (902)
Q Consensus 719 d~C~VCgdG--GeLLcCD~CpraFH~~CLg~---------~~--vPeg~W~Cp~C~------C~~Cg~~~~d~~~ed~~s 779 (902)
.+|.-|+.+ |+-.-|..=++.||..|..- +. .-++.-||..|- |..|+..-.+.
T Consensus 275 ~iC~~C~K~V~g~~~ac~Am~~~fHv~CFtC~~C~r~L~Gq~FY~v~~k~~CE~cyq~tlekC~~Cg~~I~d~------- 347 (468)
T KOG1701|consen 275 GICAFCHKTVSGQGLAVEAMDQLFHVQCFTCRTCRRQLAGQSFYQVDGKPYCEGCYQDTLEKCNKCGEPIMDR------- 347 (468)
T ss_pred hhhhhcCCcccCcchHHHHhhhhhcccceehHhhhhhhccccccccCCcccchHHHHHHHHHHhhhhhHHHHH-------
Confidence 389999864 66666777788999988651 00 123456777773 77776553221
Q ss_pred CcceeeCCcchhhhhcccccc------ccccccccCCCcceee
Q 002597 780 TSALLPCAMCEKKYHKLCMQE------MDALSDNLTGLVTSFC 816 (902)
Q Consensus 780 ~~~LL~CdqCer~YHv~CL~p------~~~lp~~i~ps~~WFC 816 (902)
| =.-|+++||..|..- .+.++........-+|
T Consensus 348 ---i--LrA~GkayHp~CF~Cv~C~r~ldgipFtvd~~n~v~C 385 (468)
T KOG1701|consen 348 ---I--LRALGKAYHPGCFTCVVCARCLDGIPFTVDSQNNVYC 385 (468)
T ss_pred ---H--HHhcccccCCCceEEEEeccccCCccccccCCCceee
Confidence 1 135677888777542 2334444334445555
No 79
>PRK04023 DNA polymerase II large subunit; Validated
Probab=31.17 E-value=33 Score=44.11 Aligned_cols=41 Identities=27% Similarity=0.709 Sum_probs=27.9
Q ss_pred CCCcCcccCCCCCeeeeCCCCCCCCCcccCCCCCCCCCCCCCccc-------ccccCCC
Q 002597 717 NDDTCGICGDGGDLICCDGCPSTFHQSCLDIQMLPPGDWHCPNCT-------CKFCGLA 768 (902)
Q Consensus 717 ndd~C~VCgdGGeLLcCD~CpraFH~~CLg~~~vPeg~W~Cp~C~-------C~~Cg~~ 768 (902)
....|.-|+.......|..|+.. +...|+||.|. |.-|+..
T Consensus 625 g~RfCpsCG~~t~~frCP~CG~~-----------Te~i~fCP~CG~~~~~y~CPKCG~E 672 (1121)
T PRK04023 625 GRRKCPSCGKETFYRRCPFCGTH-----------TEPVYRCPRCGIEVEEDECEKCGRE 672 (1121)
T ss_pred cCccCCCCCCcCCcccCCCCCCC-----------CCcceeCccccCcCCCCcCCCCCCC
Confidence 45689999988777788888753 23347777775 5556543
No 80
>PF13771 zf-HC5HC2H: PHD-like zinc-binding domain
Probab=30.65 E-value=25 Score=31.55 Aligned_cols=30 Identities=27% Similarity=0.800 Sum_probs=21.8
Q ss_pred cccccCCCCCCCCCCCCCCCcceeeCC--cchhhhhccccccc
Q 002597 761 TCKFCGLAGEDDAEGDDTTTSALLPCA--MCEKKYHKLCMQEM 801 (902)
Q Consensus 761 ~C~~Cg~~~~d~~~ed~~s~~~LL~Cd--qCer~YHv~CL~p~ 801 (902)
.|.+|+...+ ..+.|. .|...||+.|....
T Consensus 38 ~C~~C~~~~G-----------a~i~C~~~~C~~~fH~~CA~~~ 69 (90)
T PF13771_consen 38 KCSICKKKGG-----------ACIGCSHPGCSRSFHVPCARKA 69 (90)
T ss_pred CCcCCCCCCC-----------eEEEEeCCCCCcEEChHHHccC
Confidence 3667776622 257886 59999999998764
No 81
>KOG1632 consensus Uncharacterized PHD Zn-finger protein [General function prediction only]
Probab=29.93 E-value=35 Score=39.01 Aligned_cols=36 Identities=19% Similarity=0.392 Sum_probs=29.2
Q ss_pred CeeeeCCCCCCCCCcc--cCCCC---CCCCCCCCCcccccc
Q 002597 729 DLICCDGCPSTFHQSC--LDIQM---LPPGDWHCPNCTCKF 764 (902)
Q Consensus 729 eLLcCD~CpraFH~~C--Lg~~~---vPeg~W~Cp~C~C~~ 764 (902)
.++-|+.|..+||..| ++++. .+...|+|..|.+..
T Consensus 74 ~~~~cd~C~~~~~~ec~~v~~~~~e~p~~~~~~c~~c~~~~ 114 (345)
T KOG1632|consen 74 LMEQCDLCEDWYHGECWEVGTAEKEAPKEDPKVCDECKEAQ 114 (345)
T ss_pred hhhccccccccccccccccCchhhcCCccccccccccchhh
Confidence 6899999999999999 88642 345679999998654
No 82
>PRK14559 putative protein serine/threonine phosphatase; Provisional
Probab=28.62 E-value=39 Score=41.69 Aligned_cols=43 Identities=26% Similarity=0.711 Sum_probs=0.0
Q ss_pred eeeeCCCCCCCCCcccCCCCCCCCCCCCCccc-------ccccCCCCCCCCCCCCCCCcceeeCCcchhh
Q 002597 730 LICCDGCPSTFHQSCLDIQMLPPGDWHCPNCT-------CKFCGLAGEDDAEGDDTTTSALLPCAMCEKK 792 (902)
Q Consensus 730 LLcCD~CpraFH~~CLg~~~vPeg~W~Cp~C~-------C~~Cg~~~~d~~~ed~~s~~~LL~CdqCer~ 792 (902)
|+.|..|... +|.+.-||+.|- |..||..-.... -+|..|+..
T Consensus 1 M~~Cp~Cg~~----------n~~~akFC~~CG~~l~~~~Cp~CG~~~~~~~----------~fC~~CG~~ 50 (645)
T PRK14559 1 MLICPQCQFE----------NPNNNRFCQKCGTSLTHKPCPQCGTEVPVDE----------AHCPNCGAE 50 (645)
T ss_pred CCcCCCCCCc----------CCCCCccccccCCCCCCCcCCCCCCCCCccc----------ccccccCCc
No 83
>cd00162 RING RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in mediating protein-protein interactions; identified in a proteins with a wide range of functions such as viral replication, signal transduction, and development; has two variants, the C3HC4-type and a C3H2C3-type (RING-H2 finger), which have different cysteine/histidine pattern; a subset of RINGs are associated with B-Boxes (C-X2-H-X7-C-X7-C-X2-C-H-X2-H)
Probab=28.50 E-value=19 Score=26.88 Aligned_cols=40 Identities=30% Similarity=0.672 Sum_probs=25.4
Q ss_pred CcccCCCC-CeeeeCCCCCCCCCcccCCCCCCCCCCCCCccc
Q 002597 721 CGICGDGG-DLICCDGCPSTFHQSCLDIQMLPPGDWHCPNCT 761 (902)
Q Consensus 721 C~VCgdGG-eLLcCD~CpraFH~~CLg~~~vPeg~W~Cp~C~ 761 (902)
|.+|.+.- +.+....|...||..|+.... ..+...||.|.
T Consensus 2 C~iC~~~~~~~~~~~~C~H~~c~~C~~~~~-~~~~~~Cp~C~ 42 (45)
T cd00162 2 CPICLEEFREPVVLLPCGHVFCRSCIDKWL-KSGKNTCPLCR 42 (45)
T ss_pred CCcCchhhhCceEecCCCChhcHHHHHHHH-HhCcCCCCCCC
Confidence 77787653 444455689999999986321 11456677664
No 84
>PLN02400 cellulose synthase
Probab=27.27 E-value=60 Score=42.20 Aligned_cols=45 Identities=29% Similarity=0.791 Sum_probs=35.1
Q ss_pred CCCCcCcccCCC-------CCeeeeCCCCCCCCCcccCCCCCCCCCCCCCccc
Q 002597 716 PNDDTCGICGDG-------GDLICCDGCPSTFHQSCLDIQMLPPGDWHCPNCT 761 (902)
Q Consensus 716 ~ndd~C~VCgdG-------GeLLcCD~CpraFH~~CLg~~~vPeg~W~Cp~C~ 761 (902)
.+..+|.+|+|. .-.+-|..|.-..--.|+.- +.-+|.=.||+|+
T Consensus 34 ~~gqiCqICGD~VG~t~dGe~FVAC~eCaFPVCRpCYEY-ERkeGnq~CPQCk 85 (1085)
T PLN02400 34 LNGQICQICGDDVGVTETGDVFVACNECAFPVCRPCYEY-ERKDGTQCCPQCK 85 (1085)
T ss_pred cCCceeeecccccCcCCCCCEEEEEccCCCccccchhhe-ecccCCccCcccC
Confidence 355699999973 34899999987777788854 3677889999997
No 85
>KOG1632 consensus Uncharacterized PHD Zn-finger protein [General function prediction only]
Probab=26.92 E-value=34 Score=39.05 Aligned_cols=45 Identities=20% Similarity=0.527 Sum_probs=34.1
Q ss_pred ceeeCCcchhhhhccc--cccccccccccCCCcceeeCCcchhhHHHHHhH
Q 002597 782 ALLPCAMCEKKYHKLC--MQEMDALSDNLTGLVTSFCGRKCQELSEHLQKY 830 (902)
Q Consensus 782 ~LL~CdqCer~YHv~C--L~p~~~lp~~i~ps~~WFCs~~C~eI~e~LqkL 830 (902)
.+..|+.|..+||..| +.. .....++...|+| ..|......++..
T Consensus 74 ~~~~cd~C~~~~~~ec~~v~~---~~~e~p~~~~~~c-~~c~~~~~~~~~~ 120 (345)
T KOG1632|consen 74 LMEQCDLCEDWYHGECWEVGT---AEKEAPKEDPKVC-DECKEAQDGMSES 120 (345)
T ss_pred hhhccccccccccccccccCc---hhhcCCccccccc-cccchhhhhhhhh
Confidence 3678999999999999 653 2334445678999 8999888777654
No 86
>PF12678 zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766 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 domain constitutes a conserved region found in proteins that participate in diverse functions relevant to chromosome metabolism and cell cycle control [].The domain contains 8 cysteine/ histidine residues which are proposed to be the conserved residues involved in zinc binding.; PDB: 4A0C_D 4A0L_I 4A0K_B 2ECL_A 1LDK_C 3RTR_F 3DQV_Y 1U6G_B 1LDJ_B 2HYE_D ....
Probab=25.79 E-value=15 Score=32.65 Aligned_cols=26 Identities=27% Similarity=0.704 Sum_probs=16.7
Q ss_pred CCCCCCCCCcccCCCCCCCCCCCCCccc
Q 002597 734 DGCPSTFHQSCLDIQMLPPGDWHCPNCT 761 (902)
Q Consensus 734 D~CpraFH~~CLg~~~vPeg~W~Cp~C~ 761 (902)
..|...||..|+..-. .....||.|+
T Consensus 48 ~~C~H~FH~~Ci~~Wl--~~~~~CP~CR 73 (73)
T PF12678_consen 48 GPCGHIFHFHCISQWL--KQNNTCPLCR 73 (73)
T ss_dssp ETTSEEEEHHHHHHHH--TTSSB-TTSS
T ss_pred cccCCCEEHHHHHHHH--hcCCcCCCCC
Confidence 4599999999996321 2223788774
No 87
>PF05687 DUF822: Plant protein of unknown function (DUF822); InterPro: IPR008540 This group of proteins contains members of the BZR1/LAT61 family of plant transcriptional repressors involved in controlling the response to Brassinosteroids (BRs). BRs are plant hormones that play essential roles in growth and development. BZR1 binds directly to DNA repressing the synthesis of genes involved in BR synthesis. Phosphorylation of BZR1 by BIN1 targets BZR1 to the 20S proteosome, while dephosphorylation leads to nuclear accumulation of BZR1 [].
Probab=25.64 E-value=56 Score=33.63 Aligned_cols=24 Identities=42% Similarity=0.872 Sum_probs=19.0
Q ss_pred HHHHHHHHHHhcCeeeeeccCCCCCcccceeeCCCCceee
Q 002597 395 LRERIRGMLVEAGWTIDYRPRKNRDYLDAVYINPTGTAYW 434 (902)
Q Consensus 395 ~r~~i~~~l~~agwtid~rpr~~r~y~davyi~p~g~~yw 434 (902)
+-|-++.+-.+|||+|+ |+||+|=
T Consensus 47 ~NeVLkALc~eAGw~Ve----------------~DGTtyr 70 (150)
T PF05687_consen 47 NNEVLKALCREAGWTVE----------------PDGTTYR 70 (150)
T ss_pred HHHHHHHHHHhCCEEEc----------------cCCCeec
Confidence 45667777789999864 8999986
No 88
>smart00547 ZnF_RBZ Zinc finger domain. Zinc finger domain in Ran-binding proteins (RanBPs), and other proteins. In RanBPs, this domain binds RanGDP.
Probab=25.57 E-value=43 Score=23.90 Aligned_cols=9 Identities=78% Similarity=2.169 Sum_probs=7.0
Q ss_pred CCCCCCccc
Q 002597 753 GDWHCPNCT 761 (902)
Q Consensus 753 g~W~Cp~C~ 761 (902)
++|.|+.|.
T Consensus 1 g~W~C~~C~ 9 (26)
T smart00547 1 GDWECPACT 9 (26)
T ss_pred CcccCCCCC
Confidence 579999875
No 89
>PF07227 DUF1423: Protein of unknown function (DUF1423); InterPro: IPR004082 A total of 715 potential protein-coding genes have been identified in the nucleotide sequence of Arabidopsis thaliana chromosome 5, with an average gene density of 1 gene per 4001 bp []. Amongst the gene products is a well-conserved family of 130.7kDa proteins that share no sequence similarity with any other known proteins, other than in plants. The sequences are characterised by an N-terminal domain of variable length, a central cysteine-rich region and a relatively acidic C-terminal domain. The sequences may possess a PHD finger.
Probab=25.31 E-value=46 Score=39.41 Aligned_cols=30 Identities=30% Similarity=0.514 Sum_probs=23.1
Q ss_pred CCCcCcccCCC------CCeeeeCCCCCCCCCcccC
Q 002597 717 NDDTCGICGDG------GDLICCDGCPSTFHQSCLD 746 (902)
Q Consensus 717 ndd~C~VCgdG------GeLLcCD~CpraFH~~CLg 746 (902)
+...|.+|..- --.|-||.|..+-|..|.-
T Consensus 127 ~~C~C~iC~kfD~~~n~~~Wi~Cd~CgH~cH~dCAL 162 (446)
T PF07227_consen 127 RRCMCCICSKFDDNKNTCSWIGCDVCGHWCHLDCAL 162 (446)
T ss_pred ccCCccccCCcccCCCCeeEEeccCCCceehhhhhc
Confidence 34678888642 2489999999999999963
No 90
>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=25.28 E-value=65 Score=41.91 Aligned_cols=45 Identities=31% Similarity=0.866 Sum_probs=35.3
Q ss_pred CCCCcCcccCCC------C-CeeeeCCCCCCCCCcccCCCCCCCCCCCCCccc
Q 002597 716 PNDDTCGICGDG------G-DLICCDGCPSTFHQSCLDIQMLPPGDWHCPNCT 761 (902)
Q Consensus 716 ~ndd~C~VCgdG------G-eLLcCD~CpraFH~~CLg~~~vPeg~W~Cp~C~ 761 (902)
.+..+|.+|+|. | -.+-|..|.=.....|+.- +..+|.=.||+|.
T Consensus 15 ~~~qiCqICGD~vg~~~~Ge~FVAC~eC~FPVCrpCYEY-Er~eG~q~CPqCk 66 (1079)
T PLN02638 15 GGGQVCQICGDNVGKTVDGEPFVACDVCAFPVCRPCYEY-ERKDGNQSCPQCK 66 (1079)
T ss_pred cCCceeeecccccCcCCCCCEEEEeccCCCccccchhhh-hhhcCCccCCccC
Confidence 355699999973 3 4899999987777888853 4678889999997
No 91
>smart00184 RING Ring finger. E3 ubiquitin-protein ligase activity is intrinsic to the RING domain of c-Cbl and is likely to be a general function of this domain; Various RING fingers exhibit binding activity towards E2 ubiquitin-conjugating enzymes (Ubc' s)
Probab=24.96 E-value=18 Score=26.03 Aligned_cols=39 Identities=31% Similarity=0.611 Sum_probs=23.2
Q ss_pred CcccCCCCCeeeeCCCCCCCCCcccCCCCCCCCCCCCCcc
Q 002597 721 CGICGDGGDLICCDGCPSTFHQSCLDIQMLPPGDWHCPNC 760 (902)
Q Consensus 721 C~VCgdGGeLLcCD~CpraFH~~CLg~~~vPeg~W~Cp~C 760 (902)
|.+|.+......-..|...||..|+..... .+...||.|
T Consensus 1 C~iC~~~~~~~~~~~C~H~~c~~C~~~~~~-~~~~~CP~C 39 (39)
T smart00184 1 CPICLEELKDPVVLPCGHTFCRSCIRKWLK-SGNNTCPIC 39 (39)
T ss_pred CCcCccCCCCcEEecCCChHHHHHHHHHHH-hCcCCCCCC
Confidence 567776654444456888899999863211 233446654
No 92
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=23.56 E-value=37 Score=38.84 Aligned_cols=44 Identities=20% Similarity=0.559 Sum_probs=24.5
Q ss_pred CCCCcCcccCCC---CCeeeeCCCCCCCCCcccCCCCCCCCCCCCCccc
Q 002597 716 PNDDTCGICGDG---GDLICCDGCPSTFHQSCLDIQMLPPGDWHCPNCT 761 (902)
Q Consensus 716 ~ndd~C~VCgdG---GeLLcCD~CpraFH~~CLg~~~vPeg~W~Cp~C~ 761 (902)
.++..|+.|+++ ..-..|..|...|-.+|-.. +-+.--.||.|.
T Consensus 328 ~~~~~Cf~C~~~~~~~~~y~C~~Ck~~FCldCDv~--iHesLh~CpgCe 374 (378)
T KOG2807|consen 328 NGSRFCFACQGELLSSGRYRCESCKNVFCLDCDVF--IHESLHNCPGCE 374 (378)
T ss_pred CCCcceeeeccccCCCCcEEchhccceeeccchHH--HHhhhhcCCCcC
Confidence 455679999543 34556666666555555332 223334566665
No 93
>PLN02436 cellulose synthase A
Probab=23.44 E-value=75 Score=41.39 Aligned_cols=44 Identities=30% Similarity=0.850 Sum_probs=34.5
Q ss_pred CCCcCcccCCC-------CCeeeeCCCCCCCCCcccCCCCCCCCCCCCCccc
Q 002597 717 NDDTCGICGDG-------GDLICCDGCPSTFHQSCLDIQMLPPGDWHCPNCT 761 (902)
Q Consensus 717 ndd~C~VCgdG-------GeLLcCD~CpraFH~~CLg~~~vPeg~W~Cp~C~ 761 (902)
+..+|.+|+|. .-.+-|..|.-.....|+.- +..+|.=.||+|.
T Consensus 35 ~~~iCqICGD~Vg~t~dGe~FVACn~C~fpvCr~Cyey-er~eg~~~Cpqck 85 (1094)
T PLN02436 35 SGQTCQICGDEIELTVDGEPFVACNECAFPVCRPCYEY-ERREGNQACPQCK 85 (1094)
T ss_pred CCccccccccccCcCCCCCEEEeeccCCCccccchhhh-hhhcCCccCcccC
Confidence 45699999973 34889999988777888853 3567889999997
No 94
>PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=22.89 E-value=46 Score=35.05 Aligned_cols=19 Identities=26% Similarity=0.871 Sum_probs=16.6
Q ss_pred ceeeCCcchhhhhcccccc
Q 002597 782 ALLPCAMCEKKYHKLCMQE 800 (902)
Q Consensus 782 ~LL~CdqCer~YHv~CL~p 800 (902)
....|..|..-||..|...
T Consensus 171 ~~~~C~~C~~v~H~~C~~~ 189 (202)
T PF13901_consen 171 TTVRCPKCKSVFHKSCFRK 189 (202)
T ss_pred CeeeCCcCccccchhhcCC
Confidence 4689999999999999973
No 95
>PF12773 DZR: Double zinc ribbon
Probab=22.10 E-value=68 Score=26.06 Aligned_cols=8 Identities=50% Similarity=1.232 Sum_probs=4.1
Q ss_pred CCCCCCcc
Q 002597 753 GDWHCPNC 760 (902)
Q Consensus 753 g~W~Cp~C 760 (902)
..++|+.|
T Consensus 28 ~~~~C~~C 35 (50)
T PF12773_consen 28 SKKICPNC 35 (50)
T ss_pred CCCCCcCC
Confidence 34555544
No 96
>PHA02929 N1R/p28-like protein; Provisional
Probab=22.10 E-value=43 Score=36.61 Aligned_cols=44 Identities=27% Similarity=0.635 Sum_probs=27.6
Q ss_pred CCCCcCcccCCCC---C-----eeeeCCCCCCCCCcccCCCCCCCCCCCCCccc
Q 002597 716 PNDDTCGICGDGG---D-----LICCDGCPSTFHQSCLDIQMLPPGDWHCPNCT 761 (902)
Q Consensus 716 ~ndd~C~VCgdGG---e-----LLcCD~CpraFH~~CLg~~~vPeg~W~Cp~C~ 761 (902)
..+..|.+|.+.- + +..-..|...||..|+.... ...-.||.|+
T Consensus 172 ~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl--~~~~tCPlCR 223 (238)
T PHA02929 172 SKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWK--KEKNTCPVCR 223 (238)
T ss_pred CCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHH--hcCCCCCCCC
Confidence 3467899998741 1 12234689999999996421 1223577776
No 97
>KOG1080 consensus Histone H3 (Lys4) methyltransferase complex, subunit SET1 and related methyltransferases [Chromatin structure and dynamics; Transcription]
Probab=21.63 E-value=99 Score=40.20 Aligned_cols=54 Identities=28% Similarity=0.765 Sum_probs=40.4
Q ss_pred CcCcccCCC-----CCeeeeCCCCCCCCCcccCCCCCCC-CCCCCCccc-------ccccCCCCCCC
Q 002597 719 DTCGICGDG-----GDLICCDGCPSTFHQSCLDIQMLPP-GDWHCPNCT-------CKFCGLAGEDD 772 (902)
Q Consensus 719 d~C~VCgdG-----GeLLcCD~CpraFH~~CLg~~~vPe-g~W~Cp~C~-------C~~Cg~~~~d~ 772 (902)
+.|.+|.+. ...+.|+.|...-|..|++....+. ..|.|..|. |..|...+.+.
T Consensus 574 ~~c~~~~~~~~~~~n~~~~~~~~~~~~~s~~~g~~~~~~~~~~~~~~~~~~~~~r~~~l~~~~g~al 640 (1005)
T KOG1080|consen 574 ERCAVCRDDEDWEKNVSIICDRCTRSVHSECYGNLKSYDGTSWVCDSCETLDIKRSCCLCPVKGGAL 640 (1005)
T ss_pred ccccccccccccccceeeeeccccccCCCcccccCCCCCCCcchhhccccccCCchhhhccccCccc
Confidence 579999863 3488899999999999999754443 469999886 44565555543
No 98
>PF10367 Vps39_2: Vacuolar sorting protein 39 domain 2; InterPro: IPR019453 This entry represents a domain found in the vacuolar sorting protein Vps39 and transforming growth factor beta receptor-associated protein Trap1. Vps39, a component of the C-Vps complex, is thought to be required for the fusion of endosomes and other types of transport intermediates with the vacuole [, ]. In Saccharomyces cerevisiae (Baker's yeast), Vps39 has been shown to stimulate nucleotide exchange []. Trap1 plays a role in the TGF-beta/activin signaling pathway. It associates with inactive heteromeric TGF-beta and activin receptor complexes, mainly through the type II receptor, and is released upon activation of signaling [, ]. The precise function of this domain has not been characterised In Vps39 this domain is involved in localisation and in mediating the interactions with Vps11 [].
Probab=21.38 E-value=65 Score=29.25 Aligned_cols=30 Identities=23% Similarity=0.691 Sum_probs=19.8
Q ss_pred CCCcCcccCCC--CCeeeeCCCCCCCCCcccC
Q 002597 717 NDDTCGICGDG--GDLICCDGCPSTFHQSCLD 746 (902)
Q Consensus 717 ndd~C~VCgdG--GeLLcCD~CpraFH~~CLg 746 (902)
.+..|.+|+.. ...+.---|+..||..|..
T Consensus 77 ~~~~C~vC~k~l~~~~f~~~p~~~v~H~~C~~ 108 (109)
T PF10367_consen 77 ESTKCSVCGKPLGNSVFVVFPCGHVVHYSCIK 108 (109)
T ss_pred CCCCccCcCCcCCCceEEEeCCCeEEeccccc
Confidence 35689999863 2333233456899999974
No 99
>KOG1169 consensus Diacylglycerol kinase [Lipid transport and metabolism; Signal transduction mechanisms]
Probab=21.08 E-value=39 Score=41.53 Aligned_cols=77 Identities=27% Similarity=0.611 Sum_probs=45.3
Q ss_pred CCcCcccCCC-CCeeeeCCCCCCCCCcccCCCC---------------CCCCCCCCCccc---ccccCCCCCCCCCCCCC
Q 002597 718 DDTCGICGDG-GDLICCDGCPSTFHQSCLDIQM---------------LPPGDWHCPNCT---CKFCGLAGEDDAEGDDT 778 (902)
Q Consensus 718 dd~C~VCgdG-GeLLcCD~CpraFH~~CLg~~~---------------vPeg~W~Cp~C~---C~~Cg~~~~d~~~ed~~ 778 (902)
...|.+|+.+ ...++|+.|+...|..|+.... +-...|.+-.+. |..|..... ..
T Consensus 116 ~~~c~~~~~~~~~g~~C~~C~~~vh~~C~~~~~~~~~~~~~~~~~r~~v~~~~~~~~~~~~~~~~~~~~~~~------~~ 189 (634)
T KOG1169|consen 116 PKSCGSCGVGIKQGLCCDWCGRTVHERCVRRADPECQCKCDLGRLRKIVLDHPWVKGNAGEAKCDQCLKSVK------AD 189 (634)
T ss_pred cccccchhhcccCceeeccccchHHHHHHhhcCcccccccccccccceeecCcccccccCCccchhhhcccc------cc
Confidence 3455556655 5689999999999999996321 011224444442 222222111 01
Q ss_pred CCcceeeCCcchhhhhcccccc
Q 002597 779 TTSALLPCAMCEKKYHKLCMQE 800 (902)
Q Consensus 779 s~~~LL~CdqCer~YHv~CL~p 800 (902)
.......|..|-..+|..|...
T Consensus 190 ~~~~~~~c~~~~~~~h~~~~~~ 211 (634)
T KOG1169|consen 190 QGLTGPRCGWCQIRVHDKCKSE 211 (634)
T ss_pred ccccccccceeeeeeecchHHH
Confidence 1223578999999999999654
No 100
>PLN02189 cellulose synthase
Probab=21.05 E-value=87 Score=40.68 Aligned_cols=45 Identities=27% Similarity=0.774 Sum_probs=34.7
Q ss_pred CCCCcCcccCCC-------CCeeeeCCCCCCCCCcccCCCCCCCCCCCCCccc
Q 002597 716 PNDDTCGICGDG-------GDLICCDGCPSTFHQSCLDIQMLPPGDWHCPNCT 761 (902)
Q Consensus 716 ~ndd~C~VCgdG-------GeLLcCD~CpraFH~~CLg~~~vPeg~W~Cp~C~ 761 (902)
.+...|.+|+|. .-.+-|..|.-.....|+.- +..+|.=.||+|.
T Consensus 32 ~~~~~C~iCgd~vg~~~~g~~fvaC~~C~fpvCr~Cyey-er~eg~q~CpqCk 83 (1040)
T PLN02189 32 LDGQVCEICGDEIGLTVDGDLFVACNECGFPVCRPCYEY-ERREGTQNCPQCK 83 (1040)
T ss_pred ccCccccccccccCcCCCCCEEEeeccCCCccccchhhh-hhhcCCccCcccC
Confidence 355699999863 34889999987777788843 3577889999997
No 101
>PTZ00399 cysteinyl-tRNA-synthetase; Provisional
Probab=20.93 E-value=2.3e+02 Score=35.15 Aligned_cols=40 Identities=23% Similarity=0.530 Sum_probs=28.7
Q ss_pred HHHHHHHHH-HHHhcCeeeeeccCCCCCcccceeeCCCCceeeehHHHHHHHHHHh
Q 002597 393 QKLRERIRG-MLVEAGWTIDYRPRKNRDYLDAVYINPTGTAYWSIIKAYDALTKQL 447 (902)
Q Consensus 393 q~~r~~i~~-~l~~agwtid~rpr~~r~y~davyi~p~g~~ywsi~kay~~~~~~~ 447 (902)
=.+.|+||+ .|.+.|+.|+=+ |.|++.|...-+ +.|+++.
T Consensus 517 ~~~~D~iRd~~L~~~Gi~l~D~--------------~~g~~~~~~~~~-~~~~~~~ 557 (651)
T PTZ00399 517 LQLCDKLRDEWLPNLGIRIEDK--------------PDGPSVWKLDDK-EELQREK 557 (651)
T ss_pred HHHHHHHHHHHHHHCCCEEEEc--------------CCCceEEEECCH-HHHHHHH
Confidence 356899999 699999999866 567777876533 3454443
No 102
>PF04216 FdhE: Protein involved in formate dehydrogenase formation; InterPro: IPR006452 This family of sequences describe an accessory protein required for the assembly of formate dehydrogenase of certain proteobacteria although not present in the final complex []. The exact nature of the function of FdhE in the assembly of the complex is unknown, but considering the presence of selenocysteine, molybdopterin, iron-sulphur clusters and cytochrome b556, it is likely to be involved in the insertion of cofactors. ; GO: 0005737 cytoplasm; PDB: 2FIY_B.
Probab=20.92 E-value=48 Score=36.40 Aligned_cols=60 Identities=22% Similarity=0.665 Sum_probs=25.2
Q ss_pred CCCcCcccCC----------C--C-CeeeeCCCCCCCCCcccCCCCCCCCCCCCCcccccccCCCCCCCCC---CCCCCC
Q 002597 717 NDDTCGICGD----------G--G-DLICCDGCPSTFHQSCLDIQMLPPGDWHCPNCTCKFCGLAGEDDAE---GDDTTT 780 (902)
Q Consensus 717 ndd~C~VCgd----------G--G-eLLcCD~CpraFH~~CLg~~~vPeg~W~Cp~C~C~~Cg~~~~d~~~---ed~~s~ 780 (902)
+...|.|||. + | ..+.|..|...+|..=+ .|| +||........ .+....
T Consensus 171 ~~g~CPvCGs~P~~s~l~~~~~~G~R~L~Cs~C~t~W~~~R~----------~Cp-----~Cg~~~~~~l~~~~~e~~~~ 235 (290)
T PF04216_consen 171 QRGYCPVCGSPPVLSVLRGGEREGKRYLHCSLCGTEWRFVRI----------KCP-----YCGNTDHEKLEYFTVEGEPA 235 (290)
T ss_dssp T-SS-TTT---EEEEEEE------EEEEEETTT--EEE--TT----------S-T-----TT---SS-EEE--------S
T ss_pred cCCcCCCCCCcCceEEEecCCCCccEEEEcCCCCCeeeecCC----------CCc-----CCCCCCCcceeeEecCCCCc
Confidence 3469999984 1 3 58888888877764322 254 55544322110 112223
Q ss_pred cceeeCCcchh
Q 002597 781 SALLPCAMCEK 791 (902)
Q Consensus 781 ~~LL~CdqCer 791 (902)
-.+..|+.|..
T Consensus 236 ~rve~C~~C~~ 246 (290)
T PF04216_consen 236 YRVEVCESCGS 246 (290)
T ss_dssp EEEEEETTTTE
T ss_pred EEEEECCcccc
Confidence 46778998853
No 103
>PHA02862 5L protein; Provisional
Probab=20.77 E-value=25 Score=36.17 Aligned_cols=30 Identities=30% Similarity=0.669 Sum_probs=20.2
Q ss_pred CCcCcccCCCCC----eeeeCCCCCCCCCcccCC
Q 002597 718 DDTCGICGDGGD----LICCDGCPSTFHQSCLDI 747 (902)
Q Consensus 718 dd~C~VCgdGGe----LLcCD~CpraFH~~CLg~ 747 (902)
++.|.+|.++++ -=.|.+-.+..|+.||..
T Consensus 2 ~diCWIC~~~~~e~~~PC~C~GS~K~VHq~CL~~ 35 (156)
T PHA02862 2 SDICWICNDVCDERNNFCGCNEEYKVVHIKCMQL 35 (156)
T ss_pred CCEEEEecCcCCCCcccccccCcchhHHHHHHHH
Confidence 367888876543 223556678889999864
No 104
>PF00641 zf-RanBP: Zn-finger in Ran binding protein and others; InterPro: IPR001876 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 zinc finger domain found in RanBP2 proteins. Ran is an evolutionary conserved member of the Ras superfamily that regulates all receptor-mediated transport between the nucleus and the cytoplasm. Ran binding protein 2 (RanBP2) is a 358kDa nucleoporin located on the cytoplasmic side of the nuclear pore complex which plays a role in nuclear protein import []. RanBP2 contains multiple zinc fingers which mediate binding to RanGDP []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 2D9G_A 2EBR_A 2WX0_C 2WX1_C 2WWZ_C 3GJ6_B 2LK0_A 2LK1_A 3GJ5_B 3GJ8_B ....
Probab=20.14 E-value=35 Score=25.46 Aligned_cols=10 Identities=70% Similarity=1.982 Sum_probs=8.1
Q ss_pred CCCCCCCccc
Q 002597 752 PGDWHCPNCT 761 (902)
Q Consensus 752 eg~W~Cp~C~ 761 (902)
.++|.|+.|.
T Consensus 2 ~g~W~C~~C~ 11 (30)
T PF00641_consen 2 EGDWKCPSCT 11 (30)
T ss_dssp SSSEEETTTT
T ss_pred CcCccCCCCc
Confidence 4789998886
No 105
>cd01397 HAT_MBD Methyl-CpG binding domains (MBD) present in putative chromatin remodelling factor such as BAZ2A; BAZ2A contains a MBD, DDT, PHD-type zinc finger and Bromo domain suggesting that BAZ2A might be associated with histone acetyltransferase (HAT) activity. The Drosophila melanogaster toutatis protein, a putative subunit of the chromatin-remodeling complex, and other such proteins in this group share a similar domain architecture with BAZ2A, as does the Caenorhabditis elegans flectin homolog.
Probab=20.02 E-value=1.3e+02 Score=27.63 Aligned_cols=59 Identities=24% Similarity=0.322 Sum_probs=41.4
Q ss_pred HhcCeeeeeccCC--CCCcccceeeCCCCceeeehHHHHHHHHHHhccccccCCCCCCCCCCC-CCc
Q 002597 404 VEAGWTIDYRPRK--NRDYLDAVYINPTGTAYWSIIKAYDALTKQLNDEEDEAKPSADGSPFT-PLP 467 (902)
Q Consensus 404 ~~agwtid~rpr~--~r~y~davyi~p~g~~ywsi~kay~~~~~~~~~~~~~~~~~~~~~~~~-~i~ 467 (902)
|..||+=..+.|. ++---|-.|.+|.|+..=|.-..-..|.++- ..-...+-|.|+ .++
T Consensus 6 l~~GW~Re~vir~~~~~~~~dV~Y~aPcGKklRs~~ev~~yL~~~~-----~~~Lt~dnFsF~~~~~ 67 (73)
T cd01397 6 LELGWRRETRIRGLGGRIQGEVAYYAPCGKKLRQYPEVIKYLSKNG-----ISLLSRENFSFSARAP 67 (73)
T ss_pred CCCCceeEEEeccCCCCccceEEEECCCCcccccHHHHHHHHHhCC-----ccCccHhHccccCCcc
Confidence 5689999999887 5788899999999998877666555554422 122334567775 444
Done!