Query 002270
Match_columns 944
No_of_seqs 357 out of 1615
Neff 4.0
Searched_HMMs 46136
Date Thu Mar 28 20:19:45 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/002270.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/002270hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1244 Predicted transcriptio 99.0 8.3E-11 1.8E-15 125.1 1.6 91 718-822 224-330 (336)
2 KOG0956 PHD finger protein AF1 99.0 3E-10 6.4E-15 131.8 4.0 113 720-833 7-190 (900)
3 KOG1512 PHD Zn-finger protein 98.9 2.3E-10 4.9E-15 122.5 1.0 88 719-821 259-361 (381)
4 KOG4443 Putative transcription 98.5 4.4E-08 9.6E-13 114.3 1.8 89 717-818 17-114 (694)
5 KOG4443 Putative transcription 98.4 5.5E-08 1.2E-12 113.5 -1.1 148 650-834 36-220 (694)
6 COG5141 PHD zinc finger-contai 98.4 2.2E-07 4.7E-12 105.6 3.6 60 714-773 189-261 (669)
7 KOG1473 Nucleosome remodeling 98.3 7.1E-08 1.5E-12 117.0 -1.8 208 590-830 240-486 (1414)
8 KOG4299 PHD Zn-finger protein 98.3 1.5E-07 3.3E-12 109.6 1.0 46 718-763 253-305 (613)
9 KOG1244 Predicted transcriptio 98.2 3.5E-07 7.6E-12 98.1 0.9 76 649-761 246-329 (336)
10 PF15446 zf-PHD-like: PHD/FYVE 98.2 8.7E-07 1.9E-11 89.8 3.5 82 720-801 1-142 (175)
11 KOG0955 PHD finger protein BR1 98.1 2.7E-06 6E-11 105.1 4.6 60 715-774 216-288 (1051)
12 KOG4299 PHD Zn-finger protein 98.0 2.9E-06 6.3E-11 99.3 4.0 44 718-761 47-93 (613)
13 KOG1512 PHD Zn-finger protein 98.0 1.7E-06 3.6E-11 93.5 1.3 75 647-758 277-357 (381)
14 KOG0954 PHD finger protein [Ge 98.0 2.5E-06 5.3E-11 100.9 2.7 56 716-771 269-335 (893)
15 PF00628 PHD: PHD-finger; Int 98.0 2.4E-06 5.2E-11 69.6 1.0 42 720-761 1-49 (51)
16 KOG1973 Chromatin remodeling p 98.0 2.9E-06 6.4E-11 91.9 1.8 41 720-761 223-266 (274)
17 smart00249 PHD PHD zinc finger 97.9 7.1E-06 1.5E-10 63.7 3.1 41 720-760 1-47 (47)
18 KOG4323 Polycomb-like PHD Zn-f 97.9 9.2E-06 2E-10 93.2 3.7 99 717-822 82-224 (464)
19 KOG0825 PHD Zn-finger protein 97.8 4.3E-06 9.2E-11 99.2 0.8 45 717-761 214-264 (1134)
20 COG5034 TNG2 Chromatin remodel 97.8 1.1E-05 2.3E-10 86.4 2.1 44 717-761 220-268 (271)
21 KOG0383 Predicted helicase [Ge 97.6 1.8E-05 3.8E-10 95.0 0.9 49 714-762 43-93 (696)
22 KOG0825 PHD Zn-finger protein 97.5 3.2E-05 6.9E-10 92.1 1.0 37 782-823 229-266 (1134)
23 KOG0383 Predicted helicase [Ge 97.1 0.00033 7.1E-09 84.4 4.3 69 735-820 1-91 (696)
24 PF00628 PHD: PHD-finger; Int 96.7 0.00043 9.3E-09 56.5 -0.1 48 762-821 2-49 (51)
25 smart00249 PHD PHD zinc finger 96.5 0.0021 4.5E-08 49.9 3.0 34 781-817 12-45 (47)
26 KOG0957 PHD finger protein [Ge 96.4 0.0019 4.2E-08 74.6 2.7 52 719-770 120-193 (707)
27 cd04718 BAH_plant_2 BAH, or Br 96.3 0.0022 4.7E-08 64.7 2.6 31 739-769 1-33 (148)
28 KOG1973 Chromatin remodeling p 95.7 0.0037 7.9E-08 68.2 1.1 35 780-821 229-266 (274)
29 PF13831 PHD_2: PHD-finger; PD 95.6 0.0022 4.8E-08 50.4 -1.0 34 728-761 2-36 (36)
30 KOG4323 Polycomb-like PHD Zn-f 95.4 0.0058 1.3E-07 70.9 1.1 42 720-761 170-222 (464)
31 KOG1245 Chromatin remodeling c 95.2 0.0042 9E-08 80.3 -0.7 45 717-761 1107-1156(1404)
32 KOG0957 PHD finger protein [Ge 94.9 0.0091 2E-07 69.3 1.0 42 719-760 545-595 (707)
33 COG5034 TNG2 Chromatin remodel 92.8 0.051 1.1E-06 59.1 1.7 35 781-822 232-269 (271)
34 PF07227 DUF1423: Protein of u 92.0 0.19 4.1E-06 58.5 4.9 65 754-824 123-193 (446)
35 KOG1245 Chromatin remodeling c 89.5 0.15 3.3E-06 66.5 1.5 50 762-825 1111-1160(1404)
36 KOG0955 PHD finger protein BR1 86.8 0.39 8.3E-06 61.2 2.5 36 781-823 234-269 (1051)
37 PF01429 MBD: Methyl-CpG bindi 85.9 0.69 1.5E-05 41.7 3.0 58 404-465 11-71 (77)
38 cd04718 BAH_plant_2 BAH, or Br 84.6 0.43 9.4E-06 48.6 1.2 25 792-821 1-25 (148)
39 cd01396 MeCP2_MBD MeCP2, MBD1, 82.7 1.7 3.6E-05 39.8 4.0 57 404-465 7-65 (77)
40 PF13832 zf-HC5HC2H_2: PHD-zin 80.1 0.94 2E-05 42.6 1.5 66 720-801 2-88 (110)
41 KOG1081 Transcription factor N 79.9 1.4 3.1E-05 51.9 3.2 32 715-746 86-117 (463)
42 COG5141 PHD zinc finger-contai 77.6 1.1 2.3E-05 53.0 1.3 34 780-820 207-240 (669)
43 KOG0956 PHD finger protein AF1 76.3 1.1 2.3E-05 54.7 0.9 37 779-822 18-56 (900)
44 KOG0954 PHD finger protein [Ge 75.3 1.7 3.6E-05 53.5 2.1 68 781-855 286-357 (893)
45 cd00122 MBD MeCP2, MBD1, MBD2, 75.1 4.5 9.8E-05 35.1 4.2 41 404-444 6-48 (62)
46 KOG1473 Nucleosome remodeling 74.3 0.59 1.3E-05 59.3 -1.9 45 717-761 427-477 (1414)
47 PF13831 PHD_2: PHD-finger; PD 69.3 1.1 2.5E-05 35.4 -0.7 34 781-820 2-35 (36)
48 KOG0804 Cytoplasmic Zn-finger 68.2 2.1 4.6E-05 50.1 0.9 41 717-761 174-218 (493)
49 KOG4628 Predicted E3 ubiquitin 68.0 5 0.00011 46.1 3.6 44 719-763 230-276 (348)
50 PF14446 Prok-RING_1: Prokaryo 67.0 3.1 6.7E-05 36.1 1.3 28 719-746 6-37 (54)
51 KOG1701 Focal adhesion adaptor 65.5 1.2 2.7E-05 51.7 -1.7 75 719-800 335-430 (468)
52 PF01342 SAND: SAND domain; I 62.7 1.7 3.6E-05 40.2 -1.1 33 656-689 41-74 (82)
53 PF11793 FANCL_C: FANCL C-term 58.8 6 0.00013 35.3 1.7 28 719-746 3-38 (70)
54 smart00258 SAND SAND domain. 53.5 5.9 0.00013 36.3 0.8 40 649-689 22-65 (73)
55 KOG3576 Ovo and related transc 53.1 4.9 0.00011 43.3 0.3 62 728-798 115-188 (267)
56 KOG3612 PHD Zn-finger protein 51.5 11 0.00024 45.4 2.8 45 717-761 59-106 (588)
57 PF13832 zf-HC5HC2H_2: PHD-zin 50.6 8.5 0.00019 36.2 1.4 31 717-747 54-87 (110)
58 PF05502 Dynactin_p62: Dynacti 50.4 12 0.00026 44.7 2.9 30 729-761 4-33 (483)
59 KOG2752 Uncharacterized conser 50.2 11 0.00025 42.7 2.5 22 780-801 145-167 (345)
60 KOG1701 Focal adhesion adaptor 48.9 2.4 5.1E-05 49.6 -3.0 87 719-817 275-386 (468)
61 PF15446 zf-PHD-like: PHD/FYVE 48.6 12 0.00025 39.4 2.1 34 762-801 2-35 (175)
62 PF10497 zf-4CXXC_R1: Zinc-fin 48.3 10 0.00022 36.6 1.6 38 733-770 33-81 (105)
63 KOG1246 DNA-binding protein ju 48.1 21 0.00045 45.5 4.7 49 718-766 155-207 (904)
64 PF12861 zf-Apc11: Anaphase-pr 46.6 8.2 0.00018 36.3 0.6 40 721-761 35-78 (85)
65 PF14446 Prok-RING_1: Prokaryo 46.0 11 0.00023 32.9 1.2 34 759-800 5-38 (54)
66 COG1107 Archaea-specific RecJ- 46.0 11 0.00024 45.9 1.7 24 718-741 68-91 (715)
67 PF12148 DUF3590: Protein of u 45.3 9.6 0.00021 35.9 0.9 31 608-643 55-85 (85)
68 PF13771 zf-HC5HC2H: PHD-like 43.8 13 0.00028 33.6 1.5 30 718-747 36-68 (90)
69 smart00391 MBD Methyl-CpG bind 43.2 46 0.001 30.5 4.9 37 404-440 8-47 (77)
70 PF13901 DUF4206: Domain of un 42.6 19 0.00041 38.2 2.6 37 718-761 152-196 (202)
71 KOG1829 Uncharacterized conser 41.9 15 0.00033 44.8 2.1 32 782-825 530-561 (580)
72 PF13639 zf-RING_2: Ring finge 41.6 3 6.5E-05 33.2 -2.6 40 719-761 1-44 (44)
73 PF07897 DUF1675: Protein of u 41.3 10 0.00022 42.5 0.5 40 640-679 237-283 (284)
74 COG0143 MetG Methionyl-tRNA sy 41.0 13 0.00029 45.1 1.4 37 753-800 125-172 (558)
75 PRK04023 DNA polymerase II lar 39.6 20 0.00043 46.2 2.6 41 717-768 625-672 (1121)
76 KOG1044 Actin-binding LIM Zn-f 38.7 34 0.00073 41.9 4.1 8 719-726 134-141 (670)
77 KOG1734 Predicted RING-contain 36.8 12 0.00026 41.9 0.1 48 699-746 204-262 (328)
78 KOG1632 Uncharacterized PHD Zn 34.2 22 0.00047 40.9 1.7 45 782-830 74-120 (345)
79 KOG1632 Uncharacterized PHD Zn 32.5 31 0.00066 39.7 2.5 71 729-799 74-156 (345)
80 PLN03086 PRLI-interacting fact 32.3 14 0.0003 45.1 -0.3 32 647-681 405-436 (567)
81 PRK14559 putative protein seri 32.3 31 0.00066 42.8 2.6 42 720-761 3-48 (645)
82 KOG3581 Creatine kinases [Ener 31.1 34 0.00074 38.9 2.5 52 864-915 70-125 (363)
83 KOG3970 Predicted E3 ubiquitin 31.1 26 0.00057 38.4 1.6 78 730-821 21-101 (299)
84 PF04216 FdhE: Protein involve 30.7 28 0.00061 38.5 1.7 60 717-791 171-246 (290)
85 COG1198 PriA Primosomal protei 28.9 41 0.00088 42.4 2.9 35 730-790 435-482 (730)
86 TIGR01562 FdhE formate dehydro 28.7 64 0.0014 36.7 4.1 29 717-745 183-225 (305)
87 PLN02400 cellulose synthase 28.5 60 0.0013 42.5 4.2 45 716-761 34-85 (1085)
88 cd00162 RING RING-finger (Real 28.1 18 0.00039 27.2 -0.2 41 720-761 1-42 (45)
89 PRK03564 formate dehydrogenase 27.8 56 0.0012 37.3 3.5 28 717-744 186-226 (309)
90 smart00547 ZnF_RBZ Zinc finger 27.2 38 0.00082 24.3 1.4 9 753-761 1-9 (26)
91 PF07227 DUF1423: Protein of u 26.9 44 0.00095 39.8 2.5 30 717-746 127-162 (446)
92 PHA02929 N1R/p28-like protein; 26.4 32 0.00068 37.8 1.2 44 716-761 172-223 (238)
93 PF13901 DUF4206: Domain of un 26.0 34 0.00074 36.3 1.3 20 781-800 170-189 (202)
94 PF12773 DZR: Double zinc ribb 25.9 49 0.0011 27.0 2.0 8 753-760 28-35 (50)
95 PLN02638 cellulose synthase A 25.6 62 0.0013 42.3 3.6 55 716-771 15-81 (1079)
96 PF13771 zf-HC5HC2H: PHD-like 25.4 28 0.0006 31.5 0.5 30 761-801 38-69 (90)
97 smart00184 RING Ring finger. E 25.1 16 0.00036 26.4 -0.9 39 721-760 1-39 (39)
98 KOG1080 Histone H3 (Lys4) meth 24.8 81 0.0017 41.2 4.4 53 719-771 574-639 (1005)
99 PF05687 DUF822: Plant protein 24.5 60 0.0013 33.6 2.6 24 395-434 47-70 (150)
100 PF12678 zf-rbx1: RING-H2 zinc 24.1 23 0.0005 31.7 -0.3 26 734-761 48-73 (73)
101 PF00641 zf-RanBP: Zn-finger i 23.1 33 0.00071 25.7 0.4 10 752-761 2-11 (30)
102 PLN02436 cellulose synthase A 23.0 82 0.0018 41.3 4.0 44 717-761 35-85 (1094)
103 COG1107 Archaea-specific RecJ- 22.6 73 0.0016 39.3 3.3 16 754-769 53-78 (715)
104 PRK14559 putative protein seri 21.8 73 0.0016 39.6 3.2 6 720-725 17-22 (645)
105 PLN02189 cellulose synthase 21.4 85 0.0018 41.0 3.7 54 717-771 33-98 (1040)
106 KOG2114 Vacuolar assembly/sort 21.1 38 0.00082 43.0 0.6 41 717-762 839-880 (933)
107 PF10367 Vps39_2: Vacuolar sor 20.6 70 0.0015 29.3 2.1 30 717-746 77-108 (109)
108 KOG0269 WD40 repeat-containing 20.6 41 0.00089 42.3 0.7 41 750-800 764-810 (839)
109 PTZ00399 cysteinyl-tRNA-synthe 20.0 2.5E+02 0.0053 35.2 7.1 40 393-447 517-557 (651)
No 1
>KOG1244 consensus Predicted transcription factor Requiem/NEURO-D4 [Transcription]
Probab=99.01 E-value=8.3e-11 Score=125.14 Aligned_cols=91 Identities=29% Similarity=0.723 Sum_probs=73.8
Q ss_pred CCcccccCC----------CCceeeeCCCCCcCCCccCCCC-----CCCCCCccCCccc-ccccCCCCCCCCCCCCCCCc
Q 002270 718 DDTCGICGD----------GGDLICCDGCPSTFHQSCLDIQ-----MLPPGDWHCPNCT-CKFCGLAGEDDAEGDDTTTS 781 (944)
Q Consensus 718 dd~C~VCgd----------gGdLLcCD~Cp~aFH~~CL~p~-----~vP~g~W~Cp~C~-C~iCG~~~~ds~eed~~s~~ 781 (944)
..+|-.|-. +.+|+.|..|+++-|+.||..+ .+-...|+|.+|. |.+||....+ .
T Consensus 224 n~YCDFclgdsr~nkkt~~peelvscsdcgrsghpsclqft~nm~~avk~yrwqcieck~csicgtsend---------d 294 (336)
T KOG1244|consen 224 NPYCDFCLGDSRENKKTGMPEELVSCSDCGRSGHPSCLQFTANMIAAVKTYRWQCIECKYCSICGTSEND---------D 294 (336)
T ss_pred CcccceeccccccccccCCchhhcchhhcCCCCCcchhhhhHHHHHHHHhheeeeeecceeccccCcCCC---------c
Confidence 357888842 4579999999999999999853 2556789999998 8999887654 3
Q ss_pred ceecCccchhhhhccccccccccccCCCCCccceeCccchh
Q 002270 782 ALLPCAMCEKKYHKLCMQEMDALSDNLTGLVTSFCGRKCQE 822 (944)
Q Consensus 782 ~Ll~CdqCeR~YHv~CL~p~~~~pl~~~p~~~WFCs~~Cke 822 (944)
+|++||-|++.||++||.| |+..+|++.|-| .-|.+
T Consensus 295 qllfcddcdrgyhmyclsp----pm~eppegswsc-~KOG~ 330 (336)
T KOG1244|consen 295 QLLFCDDCDRGYHMYCLSP----PMVEPPEGSWSC-HLCLE 330 (336)
T ss_pred eeEeecccCCceeeEecCC----CcCCCCCCchhH-HHHHH
Confidence 5999999999999999987 555668899998 56654
No 2
>KOG0956 consensus PHD finger protein AF10 [General function prediction only]
Probab=98.97 E-value=3e-10 Score=131.81 Aligned_cols=113 Identities=27% Similarity=0.686 Sum_probs=81.4
Q ss_pred cccccCCC-----CceeeeCC--CCCcCCCccCCCCCCCCCCccCCccc---------ccccCCCCCCCCCC--------
Q 002270 720 TCGICGDG-----GDLICCDG--CPSTFHQSCLDIQMLPPGDWHCPNCT---------CKFCGLAGEDDAEG-------- 775 (944)
Q Consensus 720 ~C~VCgdg-----GdLLcCD~--Cp~aFH~~CL~p~~vP~g~W~Cp~C~---------C~iCG~~~~ds~ee-------- 775 (944)
-|.||.|. .-|++||+ |.-+.|+.|+++..||.|+|||..|. |..|.-.+..-+..
T Consensus 7 GCCVCSDErGWaeNPLVYCDG~nCsVAVHQaCYGIvqVPtGpWfCrKCesqeraarvrCeLCP~kdGALKkTDn~GWAHV 86 (900)
T KOG0956|consen 7 GCCVCSDERGWAENPLVYCDGHNCSVAVHQACYGIVQVPTGPWFCRKCESQERAARVRCELCPHKDGALKKTDNGGWAHV 86 (900)
T ss_pred ceeeecCcCCCccCceeeecCCCceeeeehhcceeEecCCCchhhhhhhhhhhhccceeecccCcccceecccCCCceEE
Confidence 58899864 24999996 99999999999999999999999996 66664333211100
Q ss_pred -------------------------------------------CCCCCcceecCc--cchhhhhccccccccccccCCC-
Q 002270 776 -------------------------------------------DDTTTSALLPCA--MCEKKYHKLCMQEMDALSDNLT- 809 (944)
Q Consensus 776 -------------------------------------------d~~s~~~Ll~Cd--qCeR~YHv~CL~p~~~~pl~~~- 809 (944)
-....+..+.|+ .|.+.||+.|.+....++++..
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 011234567885 5999999999987776666542
Q ss_pred CCc-cceeCccchhhHHHHHhHhcc
Q 002270 810 GLV-TSFCGRKCQELSEHLQKYLGV 833 (944)
Q Consensus 810 p~~-~WFCs~~CkeI~e~LqklLgv 833 (944)
..+ .-|| .+|+.++..|.+--.+
T Consensus 167 ~~dNVKYC-GYCk~HfsKlkk~~~~ 190 (900)
T KOG0956|consen 167 ISDNVKYC-GYCKYHFSKLKKSPAI 190 (900)
T ss_pred ccccceec-hhHHHHHHHhhcCCCc
Confidence 223 3466 7999999988775443
No 3
>KOG1512 consensus PHD Zn-finger protein [General function prediction only]
Probab=98.93 E-value=2.3e-10 Score=122.49 Aligned_cols=88 Identities=22% Similarity=0.497 Sum_probs=70.9
Q ss_pred CcccccCCC---------CceeeeCCCCCcCCCccCCCCC-----CCCCCccCCccc-ccccCCCCCCCCCCCCCCCcce
Q 002270 719 DTCGICGDG---------GDLICCDGCPSTFHQSCLDIQM-----LPPGDWHCPNCT-CKFCGLAGEDDAEGDDTTTSAL 783 (944)
Q Consensus 719 d~C~VCgdg---------GdLLcCD~Cp~aFH~~CL~p~~-----vP~g~W~Cp~C~-C~iCG~~~~ds~eed~~s~~~L 783 (944)
..|.+|-++ ..|++|..|..++|++|+.++. +-...|.|..|. |.+|+.+.-++ .+
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 468888654 2499999999999999999642 455789999998 99999887543 38
Q ss_pred ecCccchhhhhccccccccccccCCCCCccceeCccch
Q 002270 784 LPCAMCEKKYHKLCMQEMDALSDNLTGLVTSFCGRKCQ 821 (944)
Q Consensus 784 l~CdqCeR~YHv~CL~p~~~~pl~~~p~~~WFCs~~Ck 821 (944)
++||.|++.||..|+.. ...|.+.|.|-..|.
T Consensus 330 ~FCD~CDRG~HT~CVGL------~~lP~G~WICD~~C~ 361 (381)
T KOG1512|consen 330 LFCDVCDRGPHTLCVGL------QDLPRGEWICDMRCR 361 (381)
T ss_pred eccccccCCCCcccccc------ccccCccchhhhHHH
Confidence 99999999999999863 234789999965564
No 4
>KOG4443 consensus Putative transcription factor HALR/MLL3, involved in embryonic development [General function prediction only]
Probab=98.48 E-value=4.4e-08 Score=114.29 Aligned_cols=89 Identities=28% Similarity=0.821 Sum_probs=69.7
Q ss_pred CCCcccccCCCC-----ceeeeCCCCCcCCCccCCCCC---CCCCCccCCccc-ccccCCCCCCCCCCCCCCCcceecCc
Q 002270 717 NDDTCGICGDGG-----DLICCDGCPSTFHQSCLDIQM---LPPGDWHCPNCT-CKFCGLAGEDDAEGDDTTTSALLPCA 787 (944)
Q Consensus 717 ndd~C~VCgdgG-----dLLcCD~Cp~aFH~~CL~p~~---vP~g~W~Cp~C~-C~iCG~~~~ds~eed~~s~~~Ll~Cd 787 (944)
...+|.+|+..| -|+.|..|...||.+|+.... +-.+-|.|+.|+ |..|+..+.. ..+++|+
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 346888997644 599999999999999998532 223459999998 9999955543 3479999
Q ss_pred cchhhhhccccccccccccCCCCCccceeCc
Q 002270 788 MCEKKYHKLCMQEMDALSDNLTGLVTSFCGR 818 (944)
Q Consensus 788 qCeR~YHv~CL~p~~~~pl~~~p~~~WFCs~ 818 (944)
.|+-.||.+|+.| +....+.+.|+|..
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 34455779999954
No 5
>KOG4443 consensus Putative transcription factor HALR/MLL3, involved in embryonic development [General function prediction only]
Probab=98.36 E-value=5.5e-08 Score=113.50 Aligned_cols=148 Identities=22% Similarity=0.509 Sum_probs=91.3
Q ss_pred cccCCCCceeeceeeeeccCCccccCceeEeecCCcchhhhhHHhhhccccccccCCccccCCCCCCCCCcccccCCC--
Q 002270 650 IHCGCCSKILTVSKFEIHAGSKLRQPFQNIYLDSGVSLLQCQIDAWNKLKESESIGFESVDVDGDDPNDDTCGICGDG-- 727 (944)
Q Consensus 650 I~C~CC~kvfS~S~FE~HAG~k~rrPy~nI~LedG~SLldCqIeawnkq~~sEk~G~~pV~~dged~ndd~C~VCgdg-- 727 (944)
..|.+|.+.+|+.+....+ .+.-|..||.++.| ..|..|+..
T Consensus 36 ~ac~~c~~~yH~~cvt~~~--------~~~~l~~gWrC~~c----------------------------rvCe~c~~~gD 79 (694)
T KOG4443|consen 36 LACSDCGQKYHPYCVTSWA--------QHAVLSGGWRCPSC----------------------------RVCEACGTTGD 79 (694)
T ss_pred hhhhhhcccCCcchhhHHH--------hHHHhcCCcccCCc----------------------------eeeeeccccCC
Confidence 4799999998887764321 11223445555544 367778744
Q ss_pred -CceeeeCCCCCcCCCccCCCC--CCCCCCccCCccc-ccccCCCCCC-C--CCC---CCC------------------C
Q 002270 728 -GDLICCDGCPSTFHQSCLDIQ--MLPPGDWHCPNCT-CKFCGLAGED-D--AEG---DDT------------------T 779 (944)
Q Consensus 728 -GdLLcCD~Cp~aFH~~CL~p~--~vP~g~W~Cp~C~-C~iCG~~~~d-s--~ee---d~~------------------s 779 (944)
..+++|+.|+-+||.+|..|+ .+|.+.|+|+.|. |..|...... . -++ ..+ .
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 459999999999999999986 5999999999997 7777643322 0 000 000 0
Q ss_pred CcceecCccchhhhhccccccccccccCCCCCccceeCccch-------hhHHHHHhHhccc
Q 002270 780 TSALLPCAMCEKKYHKLCMQEMDALSDNLTGLVTSFCGRKCQ-------ELSEHLQKYLGVK 834 (944)
Q Consensus 780 ~~~Ll~CdqCeR~YHv~CL~p~~~~pl~~~p~~~WFCs~~Ck-------eI~e~LqklLgvr 834 (944)
.-.++.|++|.+|-|..|..-.+...+...-...+-| ..|. .|...|++++-.+
T Consensus 160 ~~~~~~c~~c~rwsh~~c~~~sdd~~~q~~vD~~~~C-S~CR~es~qvKdi~~~vqe~~~~k 220 (694)
T KOG4443|consen 160 SLPMVCCSICQRWSHGGCDGISDDKYMQAQVDLQYKC-STCRGESYQVKDISDALQETWKAK 220 (694)
T ss_pred chhhHHHHHhcccccCCCCccchHHHHHHhhhhhccc-ceeehhhhhhhhHHHHHHhhcchh
Confidence 1235788999999999996643211110000112334 3554 4666777776433
No 6
>COG5141 PHD zinc finger-containing protein [General function prediction only]
Probab=98.36 E-value=2.2e-07 Score=105.58 Aligned_cols=60 Identities=40% Similarity=0.909 Sum_probs=50.0
Q ss_pred CCCCCCcccccCCCC-----ceeeeCCCCCcCCCccCCCCCCCCCCccCCccc--------ccccCCCCCCCC
Q 002270 714 DDPNDDTCGICGDGG-----DLICCDGCPSTFHQSCLDIQMLPPGDWHCPNCT--------CKFCGLAGEDDA 773 (944)
Q Consensus 714 ed~ndd~C~VCgdgG-----dLLcCD~Cp~aFH~~CL~p~~vP~g~W~Cp~C~--------C~iCG~~~~ds~ 773 (944)
+|.-++.|.+|.... -+++||+|.-+.|+.|.+++.+|+|.|+|..|. |.+|...++...
T Consensus 189 ~d~~d~~C~~c~~t~~eN~naiVfCdgC~i~VHq~CYGI~f~peG~WlCrkCi~~~~~i~~C~fCps~dGaFk 261 (669)
T COG5141 189 SDEFDDICTKCTSTHNENSNAIVFCDGCEICVHQSCYGIQFLPEGFWLCRKCIYGEYQIRCCSFCPSSDGAFK 261 (669)
T ss_pred chhhhhhhHhccccccCCcceEEEecCcchhhhhhcccceecCcchhhhhhhcccccceeEEEeccCCCCcee
Confidence 344677899997543 499999999999999999999999999999996 889976665443
No 7
>KOG1473 consensus Nucleosome remodeling factor, subunit NURF301/BPTF [Chromatin structure and dynamics; Transcription]
Probab=98.31 E-value=7.1e-08 Score=117.03 Aligned_cols=208 Identities=22% Similarity=0.359 Sum_probs=114.2
Q ss_pred eeccCCCCCCCCCCccccCCCcch--hhhhhccCceeccceEEEeeccCcceeeeeeeecCCcccCCCCceee-ceeeee
Q 002270 590 IRNSNVGPNSETDGFVPYAGKLTL--LSWLIDSGTVQLSQKVQYMNRRRTKVMLEGWITRDGIHCGCCSKILT-VSKFEI 666 (944)
Q Consensus 590 ~R~s~k~~~~~~~g~vP~~~kRTV--LswLID~G~v~~~~kV~Y~n~k~~~~lL~G~it~~GI~C~CC~kvfS-~S~FE~ 666 (944)
.|..-.+.+..+..|-|.+.+.+| .-+|||.-++++. |+-|++-++-.=. -+++ ...|-.
T Consensus 240 LrA~lr~eD~~~Thfs~~d~KdsvnI~l~liD~lTWPev--------------LrqY~ea~~~ad~---~v~~~~n~fv~ 302 (1414)
T KOG1473|consen 240 LRALLREEDRLSTHFSPLDSKDSVNIDLYLIDTLTWPEV--------------LRQYFEADKHADG---PVWDIFNPFVV 302 (1414)
T ss_pred HHHHhhhhhhcccccCccccccceeeeeehhccccHHHH--------------HHHHHHhccccCc---chhhhhccccc
Confidence 455555677888999999999876 3457888888744 4444444431000 0000 012222
Q ss_pred ccCCccccCceeEeecCCcchhhhhHH-hhhccccccccCCccccCCCCCCCCCcccccCCCCceeeeCCCCCcCCCccC
Q 002270 667 HAGSKLRQPFQNIYLDSGVSLLQCQID-AWNKLKESESIGFESVDVDGDDPNDDTCGICGDGGDLICCDGCPSTFHQSCL 745 (944)
Q Consensus 667 HAG~k~rrPy~nI~LedG~SLldCqIe-awnkq~~sEk~G~~pV~~dged~ndd~C~VCgdgGdLLcCD~Cp~aFH~~CL 745 (944)
|. -.||.-| ++-..++|.... +..-.. +. ..+..+++..-++.|.+|++.|+++||..||+.||..|+
T Consensus 303 ~~----eY~~~pv--~~klkILQ~L~Dq~l~~~s-~R----~e~~se~~~~~ddhcrf~~d~~~~lc~Et~prvvhlEcv 371 (1414)
T KOG1473|consen 303 ED----EYPYRPV--SNKLKILQFLCDQFLTVNS-LR----DEIDSEGEIEYDDHCRFCHDLGDLLCCETCPRVVHLECV 371 (1414)
T ss_pred cc----cccccch--hhhHHHHHHHHHHHHHHHH-HH----HHHhcccceeecccccccCcccceeecccCCceEEeeec
Confidence 21 1222211 122223332111 110000 00 002233455567899999999999999999999999999
Q ss_pred CCCC--CCCCCccCCcccccccCCCCCC------CCC----------CCCC---------------CCcceecCcc-chh
Q 002270 746 DIQM--LPPGDWHCPNCTCKFCGLAGED------DAE----------GDDT---------------TTSALLPCAM-CEK 791 (944)
Q Consensus 746 ~p~~--vP~g~W~Cp~C~C~iCG~~~~d------s~e----------ed~~---------------s~~~Ll~Cdq-CeR 791 (944)
.+|. +|...|.|.-|. +|...+.- ++. .+.+ -...++-|+. |.+
T Consensus 372 ~hP~~~~~s~~~e~evc~--~hkvngvvd~vl~~~K~~~~iR~~~iG~dr~gr~ywfi~rrl~Ie~~det~l~yysT~pq 449 (1414)
T KOG1473|consen 372 FHPRFAVPSAFWECEVCN--IHKVNGVVDCVLPPSKNVDSIRHTPIGRDRYGRKYWFISRRLRIEGMDETLLWYYSTCPQ 449 (1414)
T ss_pred CCccccCCCccchhhhhh--hhccCcccccccChhhcccceeccCCCcCccccchhceeeeeEEecCCCcEEEEecCcHH
Confidence 9874 888999999886 22211110 000 0000 0134566665 999
Q ss_pred hhhc-cccccccccccCCCCCccceeCccchhhHHHHHhH
Q 002270 792 KYHK-LCMQEMDALSDNLTGLVTSFCGRKCQELSEHLQKY 830 (944)
Q Consensus 792 ~YHv-~CL~p~~~~pl~~~p~~~WFCs~~CkeI~e~Lqkl 830 (944)
.||. .||.... -....+...|+|. +|-.-...|..-
T Consensus 450 ly~ll~cLd~~~--~e~~L~d~i~~~~-ee~~rqM~lT~~ 486 (1414)
T KOG1473|consen 450 LYHLLRCLDRTY--VEMYLCDGIWERR-EEIIRQMGLTEE 486 (1414)
T ss_pred HHHHHHHhchHH--HHHhhccchhhhH-HHHHHhccchhh
Confidence 9999 9998421 1122356789984 554433334333
No 8
>KOG4299 consensus PHD Zn-finger protein [General function prediction only]
Probab=98.31 E-value=1.5e-07 Score=109.62 Aligned_cols=46 Identities=52% Similarity=1.413 Sum_probs=41.3
Q ss_pred CCcccccCCCCce---eeeCCCCCcCCCccCCCC----CCCCCCccCCccccc
Q 002270 718 DDTCGICGDGGDL---ICCDGCPSTFHQSCLDIQ----MLPPGDWHCPNCTCK 763 (944)
Q Consensus 718 dd~C~VCgdgGdL---LcCD~Cp~aFH~~CL~p~----~vP~g~W~Cp~C~C~ 763 (944)
+++|..|+..|.. ||||+||.+||+.||.|| .+|.|.|+|+.|.|+
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 4599999998876 999999999999999987 489999999999853
No 9
>KOG1244 consensus Predicted transcription factor Requiem/NEURO-D4 [Transcription]
Probab=98.21 E-value=3.5e-07 Score=98.10 Aligned_cols=76 Identities=32% Similarity=0.743 Sum_probs=56.3
Q ss_pred CcccCCCCceeeceeeeeccCCcc---ccCceeEeecCCcchhhhhHHhhhccccccccCCccccCCCCCCCCCcccccC
Q 002270 649 GIHCGCCSKILTVSKFEIHAGSKL---RQPFQNIYLDSGVSLLQCQIDAWNKLKESESIGFESVDVDGDDPNDDTCGICG 725 (944)
Q Consensus 649 GI~C~CC~kvfS~S~FE~HAG~k~---rrPy~nI~LedG~SLldCqIeawnkq~~sEk~G~~pV~~dged~ndd~C~VCg 725 (944)
-|.|+-|...=|||++..-|.+.. +.-|+.| +| ..|.+|+
T Consensus 246 lvscsdcgrsghpsclqft~nm~~avk~yrwqci---------ec----------------------------k~csicg 288 (336)
T KOG1244|consen 246 LVSCSDCGRSGHPSCLQFTANMIAAVKTYRWQCI---------EC----------------------------KYCSICG 288 (336)
T ss_pred hcchhhcCCCCCcchhhhhHHHHHHHHhheeeee---------ec----------------------------ceecccc
Confidence 478999999888888655554431 2222222 22 3788887
Q ss_pred CC---CceeeeCCCCCcCCCccCCCCC--CCCCCccCCccc
Q 002270 726 DG---GDLICCDGCPSTFHQSCLDIQM--LPPGDWHCPNCT 761 (944)
Q Consensus 726 dg---GdLLcCD~Cp~aFH~~CL~p~~--vP~g~W~Cp~C~ 761 (944)
.. .+||+||.|++.||++||.|++ .|+|.|.|..|.
T Consensus 289 tsenddqllfcddcdrgyhmyclsppm~eppegswsc~KOG 329 (336)
T KOG1244|consen 289 TSENDDQLLFCDDCDRGYHMYCLSPPMVEPPEGSWSCHLCL 329 (336)
T ss_pred CcCCCceeEeecccCCceeeEecCCCcCCCCCCchhHHHHH
Confidence 53 4699999999999999999986 588999998885
No 10
>PF15446 zf-PHD-like: PHD/FYVE-zinc-finger like domain
Probab=98.20 E-value=8.7e-07 Score=89.82 Aligned_cols=82 Identities=29% Similarity=0.754 Sum_probs=59.3
Q ss_pred cccccCC------CCceeeeCCCCCcCCCccCCCCC--------CCCCC--ccCCccc---------------ccccCCC
Q 002270 720 TCGICGD------GGDLICCDGCPSTFHQSCLDIQM--------LPPGD--WHCPNCT---------------CKFCGLA 768 (944)
Q Consensus 720 ~C~VCgd------gGdLLcCD~Cp~aFH~~CL~p~~--------vP~g~--W~Cp~C~---------------C~iCG~~ 768 (944)
.|.+|+. -|.|++|.+|..+||..||++-. |.... .+|.+|. |..|...
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 35699999999999999999732 33333 6799996 8888766
Q ss_pred CCCCC---------C----------CCCC----------CCcceecCccchhhhhccccccc
Q 002270 769 GEDDA---------E----------GDDT----------TTSALLPCAMCEKKYHKLCMQEM 801 (944)
Q Consensus 769 ~~ds~---------e----------ed~~----------s~~~Ll~CdqCeR~YHv~CL~p~ 801 (944)
+.... | +|.. ..+.|+.|..|.++||+..|++.
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 54221 0 1111 12568999999999999999975
No 11
>KOG0955 consensus PHD finger protein BR140/LIN-49 [General function prediction only]
Probab=98.06 E-value=2.7e-06 Score=105.11 Aligned_cols=60 Identities=37% Similarity=0.910 Sum_probs=50.8
Q ss_pred CCCCCcccccCCCC-----ceeeeCCCCCcCCCccCCCCCCCCCCccCCccc--------ccccCCCCCCCCC
Q 002270 715 DPNDDTCGICGDGG-----DLICCDGCPSTFHQSCLDIQMLPPGDWHCPNCT--------CKFCGLAGEDDAE 774 (944)
Q Consensus 715 d~ndd~C~VCgdgG-----dLLcCD~Cp~aFH~~CL~p~~vP~g~W~Cp~C~--------C~iCG~~~~ds~e 774 (944)
...|..|.||.++. .+++||.|..++|+.|++.+.+|+|.|+|..|. |.+|...+.+..+
T Consensus 216 ~~~D~~C~iC~~~~~~n~n~ivfCD~Cnl~VHq~Cygi~~ipeg~WlCr~Cl~s~~~~v~c~~cp~~~gAFkq 288 (1051)
T KOG0955|consen 216 LEEDAVCCICLDGECQNSNVIVFCDGCNLAVHQECYGIPFIPEGQWLCRRCLQSPQRPVRCLLCPSKGGAFKQ 288 (1051)
T ss_pred cCCCccceeecccccCCCceEEEcCCCcchhhhhccCCCCCCCCcEeehhhccCcCcccceEeccCCCCccee
Confidence 45678999998753 499999999999999999999999999999996 8888776655443
No 12
>KOG4299 consensus PHD Zn-finger protein [General function prediction only]
Probab=98.04 E-value=2.9e-06 Score=99.28 Aligned_cols=44 Identities=41% Similarity=1.151 Sum_probs=37.4
Q ss_pred CCcccccCCCCceeeeCCCCCcCCCccCCCCC---CCCCCccCCccc
Q 002270 718 DDTCGICGDGGDLICCDGCPSTFHQSCLDIQM---LPPGDWHCPNCT 761 (944)
Q Consensus 718 dd~C~VCgdgGdLLcCD~Cp~aFH~~CL~p~~---vP~g~W~Cp~C~ 761 (944)
-..|.+|..+|+++||+.|+.+||..|.+++. .+.+.|-|..|.
T Consensus 47 ~ts~~~~~~~gn~~~~~~~~~s~h~~~~~~~~sp~~~~~~~~~~~~~ 93 (613)
T KOG4299|consen 47 ATSCGICKSGGNLLCCDHCPASFHLECDKPPLSPDLKGSEINCSRCP 93 (613)
T ss_pred hhhcchhhhcCCccccccCccccchhccCcccCcccccccccccCCC
Confidence 46899999999999999999999999999754 344668888875
No 13
>KOG1512 consensus PHD Zn-finger protein [General function prediction only]
Probab=98.02 E-value=1.7e-06 Score=93.51 Aligned_cols=75 Identities=25% Similarity=0.552 Sum_probs=57.5
Q ss_pred cCCcccCCCCceeeceeeeecc---CCccccCceeEeecCCcchhhhhHHhhhccccccccCCccccCCCCCCCCCcccc
Q 002270 647 RDGIHCGCCSKILTVSKFEIHA---GSKLRQPFQNIYLDSGVSLLQCQIDAWNKLKESESIGFESVDVDGDDPNDDTCGI 723 (944)
Q Consensus 647 ~~GI~C~CC~kvfS~S~FE~HA---G~k~rrPy~nI~LedG~SLldCqIeawnkq~~sEk~G~~pV~~dged~ndd~C~V 723 (944)
...|+|.-|....||++.+... +.-...||. +.+| ..|.+
T Consensus 277 ~S~I~C~~C~~~~HP~Ci~M~~elv~~~KTY~W~---------C~~C----------------------------~lC~I 319 (381)
T KOG1512|consen 277 NSWIVCKPCATRPHPYCVAMIPELVGQYKTYFWK---------CSSC----------------------------ELCRI 319 (381)
T ss_pred ccceeecccccCCCCcchhcCHHHHhHHhhcchh---------hccc----------------------------Hhhhc
Confidence 3568999999999999876542 222222322 2223 47999
Q ss_pred cCCC---CceeeeCCCCCcCCCccCCCCCCCCCCccCC
Q 002270 724 CGDG---GDLICCDGCPSTFHQSCLDIQMLPPGDWHCP 758 (944)
Q Consensus 724 Cgdg---GdLLcCD~Cp~aFH~~CL~p~~vP~g~W~Cp 758 (944)
|+.+ .++++||.|++.||++|+++..+|.|.|.|.
T Consensus 320 C~~P~~E~E~~FCD~CDRG~HT~CVGL~~lP~G~WICD 357 (381)
T KOG1512|consen 320 CLGPVIESEHLFCDVCDRGPHTLCVGLQDLPRGEWICD 357 (381)
T ss_pred cCCcccchheeccccccCCCCccccccccccCccchhh
Confidence 9875 4799999999999999999999999999996
No 14
>KOG0954 consensus PHD finger protein [General function prediction only]
Probab=98.01 E-value=2.5e-06 Score=100.88 Aligned_cols=56 Identities=32% Similarity=0.916 Sum_probs=48.8
Q ss_pred CCCCcccccCCC-----CceeeeCCCCCcCCCccCCCCCCCCCCccCCccc------ccccCCCCCC
Q 002270 716 PNDDTCGICGDG-----GDLICCDGCPSTFHQSCLDIQMLPPGDWHCPNCT------CKFCGLAGED 771 (944)
Q Consensus 716 ~ndd~C~VCgdg-----GdLLcCD~Cp~aFH~~CL~p~~vP~g~W~Cp~C~------C~iCG~~~~d 771 (944)
+++..|-||..+ .+|++||.|....|+.|.++..+|++.|.|..|. |..|...++.
T Consensus 269 dedviCDvCrspD~e~~neMVfCd~Cn~cVHqaCyGIle~p~gpWlCr~Calg~~ppCvLCPkkGGa 335 (893)
T KOG0954|consen 269 DEDVICDVCRSPDSEEANEMVFCDKCNICVHQACYGILEVPEGPWLCRTCALGIEPPCVLCPKKGGA 335 (893)
T ss_pred cccceeceecCCCccccceeEEeccchhHHHHhhhceeecCCCCeeehhccccCCCCeeeccccCCc
Confidence 477889999754 4799999999999999999999999999999997 8888766653
No 15
>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=97.96 E-value=2.4e-06 Score=69.59 Aligned_cols=42 Identities=48% Similarity=1.270 Sum_probs=35.0
Q ss_pred cccccCC---CCceeeeCCCCCcCCCccCCCCC----CCCCCccCCccc
Q 002270 720 TCGICGD---GGDLICCDGCPSTFHQSCLDIQM----LPPGDWHCPNCT 761 (944)
Q Consensus 720 ~C~VCgd---gGdLLcCD~Cp~aFH~~CL~p~~----vP~g~W~Cp~C~ 761 (944)
+|.+|+. .++||.|+.|..+||..|++++. .+...|+|+.|.
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 66799999999999999999863 344589999985
No 16
>KOG1973 consensus Chromatin remodeling protein, contains PHD Zn-finger [Chromatin structure and dynamics]
Probab=97.96 E-value=2.9e-06 Score=91.89 Aligned_cols=41 Identities=39% Similarity=1.059 Sum_probs=37.0
Q ss_pred cccccCCCCceeeeCC--CC-CcCCCccCCCCCCCCCCccCCccc
Q 002270 720 TCGICGDGGDLICCDG--CP-STFHQSCLDIQMLPPGDWHCPNCT 761 (944)
Q Consensus 720 ~C~VCgdgGdLLcCD~--Cp-~aFH~~CL~p~~vP~g~W~Cp~C~ 761 (944)
+|. |...|+|+-||. |+ .+||+.|+++...|.|.|||+.|.
T Consensus 223 ~Cn-qvsyg~Mi~CDn~~C~~eWFH~~CVGL~~~PkgkWyC~~C~ 266 (274)
T KOG1973|consen 223 ICN-QVSYGKMIGCDNPGCPIEWFHFTCVGLKTKPKGKWYCPRCK 266 (274)
T ss_pred Eec-ccccccccccCCCCCCcceEEEeccccccCCCCcccchhhh
Confidence 454 567899999998 99 899999999999999999999886
No 17
>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 KOG4323 consensus Polycomb-like PHD Zn-finger protein [General function prediction only]
Probab=97.86 E-value=9.2e-06 Score=93.25 Aligned_cols=99 Identities=19% Similarity=0.390 Sum_probs=70.7
Q ss_pred CCCcccccCC-----CCceeeeCCCCCcCCCccCCCCCCCCCCccCCccc------------------------------
Q 002270 717 NDDTCGICGD-----GGDLICCDGCPSTFHQSCLDIQMLPPGDWHCPNCT------------------------------ 761 (944)
Q Consensus 717 ndd~C~VCgd-----gGdLLcCD~Cp~aFH~~CL~p~~vP~g~W~Cp~C~------------------------------ 761 (944)
....|.+|.. +.++..|+.|..+||+.|..+.....+.|.|..|.
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 34688999999999999998766666778888775
Q ss_pred ---------ccccCCCCCCCCCCCCCCCcceecCccchhhhhccccccccccccCCCCCccceeCccchh
Q 002270 762 ---------CKFCGLAGEDDAEGDDTTTSALLPCAMCEKKYHKLCMQEMDALSDNLTGLVTSFCGRKCQE 822 (944)
Q Consensus 762 ---------C~iCG~~~~ds~eed~~s~~~Ll~CdqCeR~YHv~CL~p~~~~pl~~~p~~~WFCs~~Cke 822 (944)
|.+|+.-... ..+.|++|+.|..+||..|.++.....+-..+...|||..+|..
T Consensus 162 D~~~~~n~qc~vC~~g~~~-------~~NrmlqC~~C~~~fHq~Chqp~i~~~l~~D~~~~w~C~~C~~~ 224 (464)
T KOG4323|consen 162 DSGHKVNLQCSVCYCGGPG-------AGNRMLQCDKCRQWYHQACHQPLIKDELAGDPFYEWFCDVCNRG 224 (464)
T ss_pred CccccccceeeeeecCCcC-------ccceeeeecccccHHHHHhccCCCCHhhccCccceEeehhhccc
Confidence 3333322211 12469999999999999999986554444457789999644443
No 19
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=97.85 E-value=4.3e-06 Score=99.21 Aligned_cols=45 Identities=36% Similarity=0.951 Sum_probs=38.4
Q ss_pred CCCcccccCCCC---ceeeeCCCCCc-CCCccCCCCC--CCCCCccCCccc
Q 002270 717 NDDTCGICGDGG---DLICCDGCPST-FHQSCLDIQM--LPPGDWHCPNCT 761 (944)
Q Consensus 717 ndd~C~VCgdgG---dLLcCD~Cp~a-FH~~CL~p~~--vP~g~W~Cp~C~ 761 (944)
...-|.+|.... -||+||.|..+ ||.+||+|+. +|.+.|||+.|.
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 345699997543 39999999999 9999999975 899999999996
No 20
>COG5034 TNG2 Chromatin remodeling protein, contains PhD zinc finger [Chromatin structure and dynamics]
Probab=97.76 E-value=1.1e-05 Score=86.39 Aligned_cols=44 Identities=34% Similarity=0.998 Sum_probs=38.7
Q ss_pred CCCcccccCC--CCceeeeCC--CCC-cCCCccCCCCCCCCCCccCCccc
Q 002270 717 NDDTCGICGD--GGDLICCDG--CPS-TFHQSCLDIQMLPPGDWHCPNCT 761 (944)
Q Consensus 717 ndd~C~VCgd--gGdLLcCD~--Cp~-aFH~~CL~p~~vP~g~W~Cp~C~ 761 (944)
+.-+|+ |.. -|+|+-||+ |.+ +||+.|+++...|.|.|||+.|.
T Consensus 220 e~lYCf-CqqvSyGqMVaCDn~nCkrEWFH~~CVGLk~pPKG~WYC~eCk 268 (271)
T COG5034 220 EELYCF-CQQVSYGQMVACDNANCKREWFHLECVGLKEPPKGKWYCPECK 268 (271)
T ss_pred ceeEEE-ecccccccceecCCCCCchhheeccccccCCCCCCcEeCHHhH
Confidence 445785 875 689999996 997 99999999999999999999996
No 21
>KOG0383 consensus Predicted helicase [General function prediction only]
Probab=97.60 E-value=1.8e-05 Score=94.97 Aligned_cols=49 Identities=49% Similarity=1.298 Sum_probs=42.6
Q ss_pred CCCCCCcccccCCCCceeeeCCCCCcCCCccCCCCC--CCCCCccCCcccc
Q 002270 714 DDPNDDTCGICGDGGDLICCDGCPSTFHQSCLDIQM--LPPGDWHCPNCTC 762 (944)
Q Consensus 714 ed~ndd~C~VCgdgGdLLcCD~Cp~aFH~~CL~p~~--vP~g~W~Cp~C~C 762 (944)
++.+...|.+|+++|++|||+.|+.+||.+|++++. .|.++|.|+.|.|
T Consensus 43 ~~~~~e~c~ic~~~g~~l~c~tC~~s~h~~cl~~pl~~~p~~~~~c~Rc~~ 93 (696)
T KOG0383|consen 43 DDAEQEACRICADGGELLWCDTCPASFHASCLGPPLTPQPNGEFICPRCFC 93 (696)
T ss_pred chhhhhhhhhhcCCCcEEEeccccHHHHHHccCCCCCcCCccceeeeeecc
Confidence 355667899999999999999999999999999864 5668899998864
No 22
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=97.49 E-value=3.2e-05 Score=92.13 Aligned_cols=37 Identities=30% Similarity=0.695 Sum_probs=29.4
Q ss_pred ceecCccchhh-hhccccccccccccCCCCCccceeCccchhh
Q 002270 782 ALLPCAMCEKK-YHKLCMQEMDALSDNLTGLVTSFCGRKCQEL 823 (944)
Q Consensus 782 ~Ll~CdqCeR~-YHv~CL~p~~~~pl~~~p~~~WFCs~~CkeI 823 (944)
.|++|+.|... ||++||.+ ++...+...||| ..|..+
T Consensus 229 VLLLCDsCN~~~YH~YCLDP----dl~eiP~~eWYC-~NC~dL 266 (1134)
T KOG0825|consen 229 VLLLCDSCNKVYYHVYCLDP----DLSESPVNEWYC-TNCSLL 266 (1134)
T ss_pred hheeecccccceeeccccCc----ccccccccceec-Ccchhh
Confidence 48999999988 99999987 334456789999 577743
No 23
>KOG0383 consensus Predicted helicase [General function prediction only]
Probab=97.15 E-value=0.00033 Score=84.45 Aligned_cols=69 Identities=30% Similarity=0.772 Sum_probs=50.9
Q ss_pred CCCCcCCCccCCCCC--CCCCCccCCccc--------------------ccccCCCCCCCCCCCCCCCcceecCccchhh
Q 002270 735 GCPSTFHQSCLDIQM--LPPGDWHCPNCT--------------------CKFCGLAGEDDAEGDDTTTSALLPCAMCEKK 792 (944)
Q Consensus 735 ~Cp~aFH~~CL~p~~--vP~g~W~Cp~C~--------------------C~iCG~~~~ds~eed~~s~~~Ll~CdqCeR~ 792 (944)
.|+++||..|+.|.. -|+++|.|+.|. |.+|+.. +.++.|+.|..+
T Consensus 1 ~~~r~~~~~~~~p~~~~~~~~~~k~~~~e~~~~~~~~~~~~~~~~~~e~c~ic~~~------------g~~l~c~tC~~s 68 (696)
T KOG0383|consen 1 TCPRAYHRVCLDPKLKEEPEMDPKCPGCESSSAQVEAKDDDWDDAEQEACRICADG------------GELLWCDTCPAS 68 (696)
T ss_pred CCCcccCcCCCCcccccCCcCCccCcchhhcccccccccCCcchhhhhhhhhhcCC------------CcEEEeccccHH
Confidence 499999999999753 467899999885 4444333 346789999999
Q ss_pred hhccccccccccccCCCCCccceeCccc
Q 002270 793 YHKLCMQEMDALSDNLTGLVTSFCGRKC 820 (944)
Q Consensus 793 YHv~CL~p~~~~pl~~~p~~~WFCs~~C 820 (944)
||.+|+.+. ....+...|.|+ -|
T Consensus 69 ~h~~cl~~p----l~~~p~~~~~c~-Rc 91 (696)
T KOG0383|consen 69 FHASCLGPP----LTPQPNGEFICP-RC 91 (696)
T ss_pred HHHHccCCC----CCcCCccceeee-ee
Confidence 999999753 222344559997 66
No 24
>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=96.67 E-value=0.00043 Score=56.46 Aligned_cols=48 Identities=21% Similarity=0.708 Sum_probs=32.2
Q ss_pred ccccCCCCCCCCCCCCCCCcceecCccchhhhhccccccccccccCCCCCccceeCccch
Q 002270 762 CKFCGLAGEDDAEGDDTTTSALLPCAMCEKKYHKLCMQEMDALSDNLTGLVTSFCGRKCQ 821 (944)
Q Consensus 762 C~iCG~~~~ds~eed~~s~~~Ll~CdqCeR~YHv~CL~p~~~~pl~~~p~~~WFCs~~Ck 821 (944)
|.+|+.... ...|+.|+.|.++||..|+.+...... .+...|+|+ .|.
T Consensus 2 C~vC~~~~~---------~~~~i~C~~C~~~~H~~C~~~~~~~~~--~~~~~w~C~-~C~ 49 (51)
T PF00628_consen 2 CPVCGQSDD---------DGDMIQCDSCNRWYHQECVGPPEKAEE--IPSGDWYCP-NCR 49 (51)
T ss_dssp BTTTTSSCT---------TSSEEEBSTTSCEEETTTSTSSHSHHS--HHSSSBSSH-HHH
T ss_pred CcCCCCcCC---------CCCeEEcCCCChhhCcccCCCChhhcc--CCCCcEECc-CCc
Confidence 556776332 245899999999999999987533211 122489994 554
No 25
>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=96.37 E-value=0.0019 Score=74.62 Aligned_cols=52 Identities=29% Similarity=0.876 Sum_probs=40.7
Q ss_pred CcccccC-----CCCceeeeCCCCCcCCCccCCCC---CCCC-------CCccCCccc-------ccccCCCCC
Q 002270 719 DTCGICG-----DGGDLICCDGCPSTFHQSCLDIQ---MLPP-------GDWHCPNCT-------CKFCGLAGE 770 (944)
Q Consensus 719 d~C~VCg-----dgGdLLcCD~Cp~aFH~~CL~p~---~vP~-------g~W~Cp~C~-------C~iCG~~~~ 770 (944)
.+|.||- +.+++|-||.|+...|-.|.+.. .+|. ..|||.-|. |.+|....+
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 3899995 46789999999999999999953 2333 469999997 777864443
No 27
>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=96.34 E-value=0.0022 Score=64.69 Aligned_cols=31 Identities=39% Similarity=0.913 Sum_probs=25.3
Q ss_pred cCCCccCCCC--CCCCCCccCCcccccccCCCC
Q 002270 739 TFHQSCLDIQ--MLPPGDWHCPNCTCKFCGLAG 769 (944)
Q Consensus 739 aFH~~CL~p~--~vP~g~W~Cp~C~C~iCG~~~ 769 (944)
.||+.||.|| .+|+|+|+||.|.....+...
T Consensus 1 g~H~~CL~Ppl~~~P~g~W~Cp~C~~~~~~~~~ 33 (148)
T cd04718 1 GFHLCCLRPPLKEVPEGDWICPFCEVEKSGQSA 33 (148)
T ss_pred CcccccCCCCCCCCCCCCcCCCCCcCCCCCCcc
Confidence 5999999987 489999999999876555443
No 28
>KOG1973 consensus Chromatin remodeling protein, contains PHD Zn-finger [Chromatin structure and dynamics]
Probab=95.75 E-value=0.0037 Score=68.24 Aligned_cols=35 Identities=17% Similarity=0.510 Sum_probs=27.0
Q ss_pred CcceecCcc--ch-hhhhccccccccccccCCCCCccceeCccch
Q 002270 780 TSALLPCAM--CE-KKYHKLCMQEMDALSDNLTGLVTSFCGRKCQ 821 (944)
Q Consensus 780 ~~~Ll~Cdq--Ce-R~YHv~CL~p~~~~pl~~~p~~~WFCs~~Ck 821 (944)
.+.|+.||. |+ .|||..|+.-. ..|.+.|||+ .|.
T Consensus 229 yg~Mi~CDn~~C~~eWFH~~CVGL~------~~PkgkWyC~-~C~ 266 (274)
T KOG1973|consen 229 YGKMIGCDNPGCPIEWFHFTCVGLK------TKPKGKWYCP-RCK 266 (274)
T ss_pred cccccccCCCCCCcceEEEeccccc------cCCCCcccch-hhh
Confidence 346899987 99 99999998742 3466889997 554
No 29
>PF13831 PHD_2: PHD-finger; PDB: 2L43_A 2KU3_A.
Probab=95.56 E-value=0.0022 Score=50.40 Aligned_cols=34 Identities=41% Similarity=1.089 Sum_probs=20.5
Q ss_pred CceeeeCCCCCcCCCccCCCCCCCCC-CccCCccc
Q 002270 728 GDLICCDGCPSTFHQSCLDIQMLPPG-DWHCPNCT 761 (944)
Q Consensus 728 GdLLcCD~Cp~aFH~~CL~p~~vP~g-~W~Cp~C~ 761 (944)
..|+.|+.|.-+.|..|.+...+|.+ +|+|..|.
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 36899999999999999999888877 79998874
No 30
>KOG4323 consensus Polycomb-like PHD Zn-finger protein [General function prediction only]
Probab=95.38 E-value=0.0058 Score=70.92 Aligned_cols=42 Identities=31% Similarity=0.861 Sum_probs=34.1
Q ss_pred cccccCCC-----CceeeeCCCCCcCCCccCCCCC------CCCCCccCCccc
Q 002270 720 TCGICGDG-----GDLICCDGCPSTFHQSCLDIQM------LPPGDWHCPNCT 761 (944)
Q Consensus 720 ~C~VCgdg-----GdLLcCD~Cp~aFH~~CL~p~~------vP~g~W~Cp~C~ 761 (944)
.|.+|..+ ..||.|+.|...||+.|+.+.. -+...|||..|.
T Consensus 170 qc~vC~~g~~~~~NrmlqC~~C~~~fHq~Chqp~i~~~l~~D~~~~w~C~~C~ 222 (464)
T KOG4323|consen 170 QCSVCYCGGPGAGNRMLQCDKCRQWYHQACHQPLIKDELAGDPFYEWFCDVCN 222 (464)
T ss_pred eeeeeecCCcCccceeeeecccccHHHHHhccCCCCHhhccCccceEeehhhc
Confidence 48888643 3699999999999999999742 356789999885
No 31
>KOG1245 consensus Chromatin remodeling complex WSTF-ISWI, large subunit (contains heterochromatin localization, PHD and BROMO domains) [Chromatin structure and dynamics]
Probab=95.24 E-value=0.0042 Score=80.30 Aligned_cols=45 Identities=40% Similarity=1.055 Sum_probs=38.8
Q ss_pred CCCcccccCCC---CceeeeCCCCCcCCCccCCCC--CCCCCCccCCccc
Q 002270 717 NDDTCGICGDG---GDLICCDGCPSTFHQSCLDIQ--MLPPGDWHCPNCT 761 (944)
Q Consensus 717 ndd~C~VCgdg---GdLLcCD~Cp~aFH~~CL~p~--~vP~g~W~Cp~C~ 761 (944)
....|.+|... .+|+.|+.|..+||.+|+.|. .+|.++|+|+.|+
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 34689999643 369999999999999999974 6899999999997
No 32
>KOG0957 consensus PHD finger protein [General function prediction only]
Probab=94.95 E-value=0.0091 Score=69.33 Aligned_cols=42 Identities=38% Similarity=0.972 Sum_probs=34.2
Q ss_pred CcccccCCCC---ceeeeCCCCCcCCCccCCCCC--CCC----CCccCCcc
Q 002270 719 DTCGICGDGG---DLICCDGCPSTFHQSCLDIQM--LPP----GDWHCPNC 760 (944)
Q Consensus 719 d~C~VCgdgG---dLLcCD~Cp~aFH~~CL~p~~--vP~----g~W~Cp~C 760 (944)
-.|.||...- -|+.||.|...||+.||.||. .|. ..|+|..|
T Consensus 545 ysCgiCkks~dQHll~~CDtC~lhYHlGCL~PPLTR~Pkk~kn~gWqCsEC 595 (707)
T KOG0957|consen 545 YSCGICKKSTDQHLLTQCDTCHLHYHLGCLSPPLTRLPKKNKNFGWQCSEC 595 (707)
T ss_pred eeeeeeccchhhHHHhhcchhhceeeccccCCccccCcccccCcceeeccc
Confidence 4699997543 489999999999999999874 454 35999988
No 33
>COG5034 TNG2 Chromatin remodeling protein, contains PhD zinc finger [Chromatin structure and dynamics]
Probab=92.83 E-value=0.051 Score=59.06 Aligned_cols=35 Identities=17% Similarity=0.563 Sum_probs=27.5
Q ss_pred cceecCc--cch-hhhhccccccccccccCCCCCccceeCccchh
Q 002270 781 SALLPCA--MCE-KKYHKLCMQEMDALSDNLTGLVTSFCGRKCQE 822 (944)
Q Consensus 781 ~~Ll~Cd--qCe-R~YHv~CL~p~~~~pl~~~p~~~WFCs~~Cke 822 (944)
+.|+.|| -|. .|||..|+.- ..+|.+.||| .+|+.
T Consensus 232 GqMVaCDn~nCkrEWFH~~CVGL------k~pPKG~WYC-~eCk~ 269 (271)
T COG5034 232 GQMVACDNANCKREWFHLECVGL------KEPPKGKWYC-PECKK 269 (271)
T ss_pred ccceecCCCCCchhheecccccc------CCCCCCcEeC-HHhHh
Confidence 5689998 587 6899999864 3457899999 68875
No 34
>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=91.96 E-value=0.19 Score=58.51 Aligned_cols=65 Identities=22% Similarity=0.474 Sum_probs=42.4
Q ss_pred CccCCcccccccCCCCCCCCCCCCCCCcceecCccchhhhhcccccccccc---ccCCC---CCccceeCccchhhH
Q 002270 754 DWHCPNCTCKFCGLAGEDDAEGDDTTTSALLPCAMCEKKYHKLCMQEMDAL---SDNLT---GLVTSFCGRKCQELS 824 (944)
Q Consensus 754 ~W~Cp~C~C~iCG~~~~ds~eed~~s~~~Ll~CdqCeR~YHv~CL~p~~~~---pl~~~---p~~~WFCs~~CkeI~ 824 (944)
+=||..|-|.+|.+.+.+ ..++..+.|+.|..+.|..|.=....+ +.... ....-|+|..|....
T Consensus 123 ~gFC~~C~C~iC~kfD~~------~n~~~Wi~Cd~CgH~cH~dCALr~~~i~~G~s~~g~~g~~d~~f~C~~C~~~s 193 (446)
T PF07227_consen 123 PGFCRRCMCCICSKFDDN------KNTCSWIGCDVCGHWCHLDCALRHELIGTGPSVKGSIGTLDMQFHCRACGKTS 193 (446)
T ss_pred CCccccCCccccCCcccC------CCCeeEEeccCCCceehhhhhcccccccCCccCCCCCccCceEEEccCCCChh
Confidence 357999999999886442 345678999999999999994322211 11111 124456668888543
No 35
>KOG1245 consensus Chromatin remodeling complex WSTF-ISWI, large subunit (contains heterochromatin localization, PHD and BROMO domains) [Chromatin structure and dynamics]
Probab=89.52 E-value=0.15 Score=66.53 Aligned_cols=50 Identities=22% Similarity=0.566 Sum_probs=38.2
Q ss_pred ccccCCCCCCCCCCCCCCCcceecCccchhhhhccccccccccccCCCCCccceeCccchhhHH
Q 002270 762 CKFCGLAGEDDAEGDDTTTSALLPCAMCEKKYHKLCMQEMDALSDNLTGLVTSFCGRKCQELSE 825 (944)
Q Consensus 762 C~iCG~~~~ds~eed~~s~~~Ll~CdqCeR~YHv~CL~p~~~~pl~~~p~~~WFCs~~CkeI~e 825 (944)
|..|.....+. .|+.|+.|..+||..|+.+. +...+.+.|||+ .|..-..
T Consensus 1111 c~~cr~k~~~~---------~m~lc~~c~~~~h~~C~rp~----~~~~~~~dW~C~-~c~~e~~ 1160 (1404)
T KOG1245|consen 1111 CKVCRRKKQDE---------KMLLCDECLSGFHLFCLRPA----LSSVPPGDWMCP-SCRKEHR 1160 (1404)
T ss_pred hhhhhhcccch---------hhhhhHhhhhhHHHHhhhhh----hccCCcCCccCC-ccchhhh
Confidence 78887776542 48999999999999999973 345577889995 7765443
No 36
>KOG0955 consensus PHD finger protein BR140/LIN-49 [General function prediction only]
Probab=86.78 E-value=0.39 Score=61.17 Aligned_cols=36 Identities=19% Similarity=0.480 Sum_probs=28.3
Q ss_pred cceecCccchhhhhccccccccccccCCCCCccceeCccchhh
Q 002270 781 SALLPCAMCEKKYHKLCMQEMDALSDNLTGLVTSFCGRKCQEL 823 (944)
Q Consensus 781 ~~Ll~CdqCeR~YHv~CL~p~~~~pl~~~p~~~WFCs~~CkeI 823 (944)
+.+++||.|..++|+.|..- + ..|++.|+| ..|..-
T Consensus 234 n~ivfCD~Cnl~VHq~Cygi----~--~ipeg~WlC-r~Cl~s 269 (1051)
T KOG0955|consen 234 NVIVFCDGCNLAVHQECYGI----P--FIPEGQWLC-RRCLQS 269 (1051)
T ss_pred ceEEEcCCCcchhhhhccCC----C--CCCCCcEee-hhhccC
Confidence 56899999999999999871 1 237799999 677543
No 37
>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=85.94 E-value=0.69 Score=41.73 Aligned_cols=58 Identities=21% Similarity=0.369 Sum_probs=38.3
Q ss_pred HhcCeeeeeccCCC---CCcccceeeCCCCceeeehHHHHHHHHHHhccccccCCCCCCCCCCCC
Q 002270 404 VEAGWTIDYRPRKN---RDYLDAVYINPTGTAYWSIIKAYDALTKQLNDEEDEAKPSADGSPFTP 465 (944)
Q Consensus 404 ~~agwtid~rpr~~---r~y~d~vy~~p~g~~~wsi~kay~~~~~~~~~~~~~~~~~~~~~~~~~ 465 (944)
|-.||+...+.|.+ ..-.|..|++|.|+.+-|...-...| +.......+..+-|.|.+
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 38
>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=84.63 E-value=0.43 Score=48.57 Aligned_cols=25 Identities=16% Similarity=0.347 Sum_probs=20.4
Q ss_pred hhhccccccccccccCCCCCccceeCccch
Q 002270 792 KYHKLCMQEMDALSDNLTGLVTSFCGRKCQ 821 (944)
Q Consensus 792 ~YHv~CL~p~~~~pl~~~p~~~WFCs~~Ck 821 (944)
.||+.||.| |+..+|.+.|+|+ .|.
T Consensus 1 g~H~~CL~P----pl~~~P~g~W~Cp-~C~ 25 (148)
T cd04718 1 GFHLCCLRP----PLKEVPEGDWICP-FCE 25 (148)
T ss_pred CcccccCCC----CCCCCCCCCcCCC-CCc
Confidence 499999997 5667789999996 565
No 39
>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=82.74 E-value=1.7 Score=39.75 Aligned_cols=57 Identities=26% Similarity=0.499 Sum_probs=41.0
Q ss_pred HhcCeeeeeccCCC--CCcccceeeCCCCceeeehHHHHHHHHHHhccccccCCCCCCCCCCCC
Q 002270 404 VEAGWTIDYRPRKN--RDYLDAVYINPTGTAYWSIIKAYDALTKQLNDEEDEAKPSADGSPFTP 465 (944)
Q Consensus 404 ~~agwtid~rpr~~--r~y~d~vy~~p~g~~~wsi~kay~~~~~~~~~~~~~~~~~~~~~~~~~ 465 (944)
|-.||+....+|.+ .-..|..||+|+|+.+=|.... ...|++.. ..-+....|.|++
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 40
>PF13832 zf-HC5HC2H_2: PHD-zinc-finger like domain
Probab=80.08 E-value=0.94 Score=42.56 Aligned_cols=66 Identities=24% Similarity=0.634 Sum_probs=42.6
Q ss_pred cccccCCCCceeeeCCCCCcCCCccCCC-C----------------CCCCC--CccCCcccccccCCCCCCCCCCCCCCC
Q 002270 720 TCGICGDGGDLICCDGCPSTFHQSCLDI-Q----------------MLPPG--DWHCPNCTCKFCGLAGEDDAEGDDTTT 780 (944)
Q Consensus 720 ~C~VCgdgGdLLcCD~Cp~aFH~~CL~p-~----------------~vP~g--~W~Cp~C~C~iCG~~~~ds~eed~~s~ 780 (944)
.|.+|...|.++--..-....|..|.-. + .++.. .+. |.+|+...
T Consensus 2 ~C~lC~~~~Galk~t~~~~WvHv~Cal~~~~~~~~~~~~~~~v~~~~i~~~~~~~~-----C~iC~~~~----------- 65 (110)
T PF13832_consen 2 SCVLCPKRGGALKRTSDGQWVHVLCALWIPEVIFNNGESMEPVDISNIPPSRFKLK-----CSICGKSG----------- 65 (110)
T ss_pred ccEeCCCCCCcccCccCCcEEEeEccceeCccEEeechhcCcccceeecchhcCCc-----CcCCCCCC-----------
Confidence 5888887655555555678889988852 1 01111 222 55666553
Q ss_pred cceecCcc--chhhhhccccccc
Q 002270 781 SALLPCAM--CEKKYHKLCMQEM 801 (944)
Q Consensus 781 ~~Ll~Cdq--CeR~YHv~CL~p~ 801 (944)
+..+.|.. |...||+.|....
T Consensus 66 G~~i~C~~~~C~~~fH~~CA~~~ 88 (110)
T PF13832_consen 66 GACIKCSHPGCSTAFHPTCARKA 88 (110)
T ss_pred ceeEEcCCCCCCcCCCHHHHHHC
Confidence 34689988 9999999997653
No 41
>KOG1081 consensus Transcription factor NSD1 and related SET domain proteins [Transcription]
Probab=79.90 E-value=1.4 Score=51.95 Aligned_cols=32 Identities=25% Similarity=0.583 Sum_probs=25.3
Q ss_pred CCCCCcccccCCCCceeeeCCCCCcCCCccCC
Q 002270 715 DPNDDTCGICGDGGDLICCDGCPSTFHQSCLD 746 (944)
Q Consensus 715 d~ndd~C~VCgdgGdLLcCD~Cp~aFH~~CL~ 746 (944)
..+.++|++|.++|.+++|+.|..++|-.|..
T Consensus 86 ~~~~~~c~vc~~ggs~v~~~s~~~~~~r~c~~ 117 (463)
T KOG1081|consen 86 KIEPSECFVCFKGGSLVTCKSRIQAPHRKCKP 117 (463)
T ss_pred CCCcchhccccCCCccceeccccccccccCcC
Confidence 34678999999999999999666666666664
No 42
>COG5141 PHD zinc finger-containing protein [General function prediction only]
Probab=77.64 E-value=1.1 Score=52.98 Aligned_cols=34 Identities=29% Similarity=0.538 Sum_probs=26.5
Q ss_pred CcceecCccchhhhhccccccccccccCCCCCccceeCccc
Q 002270 780 TSALLPCAMCEKKYHKLCMQEMDALSDNLTGLVTSFCGRKC 820 (944)
Q Consensus 780 ~~~Ll~CdqCeR~YHv~CL~p~~~~pl~~~p~~~WFCs~~C 820 (944)
.+.+++|+.|+-..|..|..-. ..|++.|+| ..|
T Consensus 207 ~naiVfCdgC~i~VHq~CYGI~------f~peG~WlC-rkC 240 (669)
T COG5141 207 SNAIVFCDGCEICVHQSCYGIQ------FLPEGFWLC-RKC 240 (669)
T ss_pred cceEEEecCcchhhhhhcccce------ecCcchhhh-hhh
Confidence 4679999999999999997631 136788998 555
No 43
>KOG0956 consensus PHD finger protein AF10 [General function prediction only]
Probab=76.28 E-value=1.1 Score=54.66 Aligned_cols=37 Identities=27% Similarity=0.597 Sum_probs=28.9
Q ss_pred CCcceecCc--cchhhhhccccccccccccCCCCCccceeCccchh
Q 002270 779 TTSALLPCA--MCEKKYHKLCMQEMDALSDNLTGLVTSFCGRKCQE 822 (944)
Q Consensus 779 s~~~Ll~Cd--qCeR~YHv~CL~p~~~~pl~~~p~~~WFCs~~Cke 822 (944)
..+.|++|| .|.-+.|+.|..-. .+|.++||| ..|..
T Consensus 18 aeNPLVYCDG~nCsVAVHQaCYGIv------qVPtGpWfC-rKCes 56 (900)
T KOG0956|consen 18 AENPLVYCDGHNCSVAVHQACYGIV------QVPTGPWFC-RKCES 56 (900)
T ss_pred ccCceeeecCCCceeeeehhcceeE------ecCCCchhh-hhhhh
Confidence 346799997 69999999998642 246799999 78864
No 44
>KOG0954 consensus PHD finger protein [General function prediction only]
Probab=75.34 E-value=1.7 Score=53.48 Aligned_cols=68 Identities=18% Similarity=0.266 Sum_probs=42.1
Q ss_pred cceecCccchhhhhccccccccccccCCCCCccceeCccchhhHHHHH----hHhccccccccCccceecccCCCCCCC
Q 002270 781 SALLPCAMCEKKYHKLCMQEMDALSDNLTGLVTSFCGRKCQELSEHLQ----KYLGVKHELEAGLSWSLIHRSDEDSDT 855 (944)
Q Consensus 781 ~~Ll~CdqCeR~YHv~CL~p~~~~pl~~~p~~~WFCs~~CkeI~e~Lq----klLgvr~elEsG~SWsLLkr~d~dsdv 855 (944)
..|++|+.|.-..|+.|..-. ..|.+.|.| ..|......-. +.=|.....-++-.|..+.+.-.-+.+
T Consensus 286 neMVfCd~Cn~cVHqaCyGIl------e~p~gpWlC-r~Calg~~ppCvLCPkkGGamK~~~sgT~wAHvsCALwIPEV 357 (893)
T KOG0954|consen 286 NEMVFCDKCNICVHQACYGIL------EVPEGPWLC-RTCALGIEPPCVLCPKKGGAMKPTKSGTKWAHVSCALWIPEV 357 (893)
T ss_pred ceeEEeccchhHHHHhhhcee------ecCCCCeee-hhccccCCCCeeeccccCCcccccCCCCeeeEeeeeecccee
Confidence 569999999999999998632 236689999 56643211000 111222234567788888876544443
No 45
>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=75.08 E-value=4.5 Score=35.11 Aligned_cols=41 Identities=24% Similarity=0.339 Sum_probs=33.6
Q ss_pred HhcCeeeeeccCCC--CCcccceeeCCCCceeeehHHHHHHHH
Q 002270 404 VEAGWTIDYRPRKN--RDYLDAVYINPTGTAYWSIIKAYDALT 444 (944)
Q Consensus 404 ~~agwtid~rpr~~--r~y~d~vy~~p~g~~~wsi~kay~~~~ 444 (944)
+-.||+-..++|++ .-..|..|++|.|+..=|....-..|.
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 46
>KOG1473 consensus Nucleosome remodeling factor, subunit NURF301/BPTF [Chromatin structure and dynamics; Transcription]
Probab=74.32 E-value=0.59 Score=59.29 Aligned_cols=45 Identities=27% Similarity=0.432 Sum_probs=40.0
Q ss_pred CCCcccccCCCCceeeeCC-CCCcCCC-ccCCCC----CCCCCCccCCccc
Q 002270 717 NDDTCGICGDGGDLICCDG-CPSTFHQ-SCLDIQ----MLPPGDWHCPNCT 761 (944)
Q Consensus 717 ndd~C~VCgdgGdLLcCD~-Cp~aFH~-~CL~p~----~vP~g~W~Cp~C~ 761 (944)
+.+.|.||+..+.++||++ ||..||. .||+-+ .++++.|+|++|.
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 4467999999999999998 9999999 999942 4899999999997
No 47
>PF13831 PHD_2: PHD-finger; PDB: 2L43_A 2KU3_A.
Probab=69.27 E-value=1.1 Score=35.40 Aligned_cols=34 Identities=24% Similarity=0.548 Sum_probs=16.5
Q ss_pred cceecCccchhhhhccccccccccccCCCCCccceeCccc
Q 002270 781 SALLPCAMCEKKYHKLCMQEMDALSDNLTGLVTSFCGRKC 820 (944)
Q Consensus 781 ~~Ll~CdqCeR~YHv~CL~p~~~~pl~~~p~~~WFCs~~C 820 (944)
+.|+.|+.|.-..|..|..-... .....|+| .-|
T Consensus 2 n~ll~C~~C~v~VH~~CYGv~~~-----~~~~~W~C-~~C 35 (36)
T PF13831_consen 2 NPLLFCDNCNVAVHQSCYGVSEV-----PDGDDWLC-DRC 35 (36)
T ss_dssp CEEEE-SSS--EEEHHHHT-SS-------SS------HHH
T ss_pred CceEEeCCCCCcCChhhCCcccC-----CCCCcEEC-CcC
Confidence 35899999999999999764221 12235999 444
No 48
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=68.22 E-value=2.1 Score=50.14 Aligned_cols=41 Identities=34% Similarity=0.566 Sum_probs=27.9
Q ss_pred CCCcccccCC---CC-ceeeeCCCCCcCCCccCCCCCCCCCCccCCccc
Q 002270 717 NDDTCGICGD---GG-DLICCDGCPSTFHQSCLDIQMLPPGDWHCPNCT 761 (944)
Q Consensus 717 ndd~C~VCgd---gG-dLLcCD~Cp~aFH~~CL~p~~vP~g~W~Cp~C~ 761 (944)
..+.|.||-. .. ..|.=-.|..+||-.|+... .+-.||-|+
T Consensus 174 ELPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w----~~~scpvcR 218 (493)
T KOG0804|consen 174 ELPTCPVCLERMDSSTTGILTILCNHSFHCSCLMKW----WDSSCPVCR 218 (493)
T ss_pred cCCCcchhHhhcCccccceeeeecccccchHHHhhc----ccCcChhhh
Confidence 4678999963 22 25555679999999999642 233577665
No 49
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=68.04 E-value=5 Score=46.06 Aligned_cols=44 Identities=34% Similarity=0.736 Sum_probs=30.9
Q ss_pred CcccccCC---CCceeeeCCCCCcCCCccCCCCCCCCCCccCCccccc
Q 002270 719 DTCGICGD---GGDLICCDGCPSTFHQSCLDIQMLPPGDWHCPNCTCK 763 (944)
Q Consensus 719 d~C~VCgd---gGdLLcCD~Cp~aFH~~CL~p~~vP~g~W~Cp~C~C~ 763 (944)
+.|.||-+ .|+.|-==-|...||..|+++..... .=+||-|+|.
T Consensus 230 ~~CaIClEdY~~GdklRiLPC~H~FH~~CIDpWL~~~-r~~CPvCK~d 276 (348)
T KOG4628|consen 230 DTCAICLEDYEKGDKLRILPCSHKFHVNCIDPWLTQT-RTFCPVCKRD 276 (348)
T ss_pred ceEEEeecccccCCeeeEecCCCchhhccchhhHhhc-CccCCCCCCc
Confidence 69999975 45544335688999999999754333 2358888763
No 50
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=66.95 E-value=3.1 Score=36.13 Aligned_cols=28 Identities=32% Similarity=1.112 Sum_probs=24.9
Q ss_pred CcccccCC----CCceeeeCCCCCcCCCccCC
Q 002270 719 DTCGICGD----GGDLICCDGCPSTFHQSCLD 746 (944)
Q Consensus 719 d~C~VCgd----gGdLLcCD~Cp~aFH~~CL~ 746 (944)
..|.+|++ +++++.|..|...||-.|..
T Consensus 6 ~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~ 37 (54)
T PF14446_consen 6 CKCPVCGKKFKDGDDIVVCPECGAPYHRDCWE 37 (54)
T ss_pred ccChhhCCcccCCCCEEECCCCCCcccHHHHh
Confidence 57999984 67899999999999999985
No 51
>KOG1701 consensus Focal adhesion adaptor protein Paxillin and related LIM proteins [Signal transduction mechanisms]
Probab=65.51 E-value=1.2 Score=51.73 Aligned_cols=75 Identities=17% Similarity=0.501 Sum_probs=39.3
Q ss_pred CcccccCCC--CceeeeCCCCCcCCCccCC----------CCC-C-CCCCccCCccc-------ccccCCCCCCCCCCCC
Q 002270 719 DTCGICGDG--GDLICCDGCPSTFHQSCLD----------IQM-L-PPGDWHCPNCT-------CKFCGLAGEDDAEGDD 777 (944)
Q Consensus 719 d~C~VCgdg--GdLLcCD~Cp~aFH~~CL~----------p~~-v-P~g~W~Cp~C~-------C~iCG~~~~ds~eed~ 777 (944)
+.|.+|+.. ..+| ..|+++||..|.. ++. + ....-||-.|- |.+|+..--.....++
T Consensus 335 ekC~~Cg~~I~d~iL--rA~GkayHp~CF~Cv~C~r~ldgipFtvd~~n~v~Cv~dfh~kfAPrCs~C~~PI~P~~G~~e 412 (468)
T KOG1701|consen 335 EKCNKCGEPIMDRIL--RALGKAYHPGCFTCVVCARCLDGIPFTVDSQNNVYCVPDFHKKFAPRCSVCGNPILPRDGKDE 412 (468)
T ss_pred HHHhhhhhHHHHHHH--HhcccccCCCceEEEEeccccCCccccccCCCceeeehhhhhhcCcchhhccCCccCCCCCcc
Confidence 356677642 1222 3477788877653 111 1 12346777763 8899876543221111
Q ss_pred CCCcceecCccchhhhhcccccc
Q 002270 778 TTTSALLPCAMCEKKYHKLCMQE 800 (944)
Q Consensus 778 ~s~~~Ll~CdqCeR~YHv~CL~p 800 (944)
.+.-..=+|-||+.|..-
T Consensus 413 -----tvRvvamdr~fHv~CY~C 430 (468)
T KOG1701|consen 413 -----TVRVVAMDRDFHVNCYKC 430 (468)
T ss_pred -----eEEEEEccccccccceeh
Confidence 111112367889888764
No 52
>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=62.70 E-value=1.7 Score=40.17 Aligned_cols=33 Identities=27% Similarity=0.400 Sum_probs=25.9
Q ss_pred CceeeceeeeeccCCccccCc-eeEeecCCcchhh
Q 002270 656 SKILTVSKFEIHAGSKLRQPF-QNIYLDSGVSLLQ 689 (944)
Q Consensus 656 ~kvfS~S~FE~HAG~k~rrPy-~nI~LedG~SLld 689 (944)
.++|||++||.|+|....+.| .+|.+ +|.+|-.
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 679999999999999888888 67777 6888763
No 53
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=58.79 E-value=6 Score=35.31 Aligned_cols=28 Identities=39% Similarity=0.965 Sum_probs=11.7
Q ss_pred CcccccCC----CCc--eeeeC--CCCCcCCCccCC
Q 002270 719 DTCGICGD----GGD--LICCD--GCPSTFHQSCLD 746 (944)
Q Consensus 719 d~C~VCgd----gGd--LLcCD--~Cp~aFH~~CL~ 746 (944)
..|.||.. .++ .+.|+ .|...||..||-
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 46889963 232 58898 799999999996
No 54
>smart00258 SAND SAND domain.
Probab=53.54 E-value=5.9 Score=36.29 Aligned_cols=40 Identities=33% Similarity=0.522 Sum_probs=30.6
Q ss_pred CcccCC--C-CceeeceeeeeccCCccccCc-eeEeecCCcchhh
Q 002270 649 GIHCGC--C-SKILTVSKFEIHAGSKLRQPF-QNIYLDSGVSLLQ 689 (944)
Q Consensus 649 GI~C~C--C-~kvfS~S~FE~HAG~k~rrPy-~nI~LedG~SLld 689 (944)
||.+.| | +++|||++||.+||....+.| .+|.. +|++|..
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 578999999999999888888 45655 6777763
No 55
>KOG3576 consensus Ovo and related transcription factors [Transcription]
Probab=53.13 E-value=4.9 Score=43.32 Aligned_cols=62 Identities=27% Similarity=0.591 Sum_probs=38.4
Q ss_pred CceeeeCCCCCcC--------CCccCCCCCCCCCCccCCcccccccCCCCCCCC----CCCCCCCcceecCccchhhhhc
Q 002270 728 GDLICCDGCPSTF--------HQSCLDIQMLPPGDWHCPNCTCKFCGLAGEDDA----EGDDTTTSALLPCAMCEKKYHK 795 (944)
Q Consensus 728 GdLLcCD~Cp~aF--------H~~CL~p~~vP~g~W~Cp~C~C~iCG~~~~ds~----eed~~s~~~Ll~CdqCeR~YHv 795 (944)
++...|+.|.++| |+.|...- ....|.+||+.-.+.- ...+.+...-..|..|+++|-.
T Consensus 115 ~d~ftCrvCgK~F~lQRmlnrh~kch~~v---------kr~lct~cgkgfndtfdlkrh~rthtgvrpykc~~c~kaftq 185 (267)
T KOG3576|consen 115 QDSFTCRVCGKKFGLQRMLNRHLKCHSDV---------KRHLCTFCGKGFNDTFDLKRHTRTHTGVRPYKCSLCEKAFTQ 185 (267)
T ss_pred CCeeeeehhhhhhhHHHHHHHHhhhccHH---------HHHHHhhccCcccchhhhhhhhccccCccccchhhhhHHHHh
Confidence 5677788888877 55565421 1234677876544311 0112233445799999999999
Q ss_pred ccc
Q 002270 796 LCM 798 (944)
Q Consensus 796 ~CL 798 (944)
-|.
T Consensus 186 rcs 188 (267)
T KOG3576|consen 186 RCS 188 (267)
T ss_pred hcc
Confidence 994
No 56
>KOG3612 consensus PHD Zn-finger protein [General function prediction only]
Probab=51.55 E-value=11 Score=45.40 Aligned_cols=45 Identities=22% Similarity=0.339 Sum_probs=37.7
Q ss_pred CCCcccccCCCCceeeeCCCCCcCCCccCCCC-CCC--CCCccCCccc
Q 002270 717 NDDTCGICGDGGDLICCDGCPSTFHQSCLDIQ-MLP--PGDWHCPNCT 761 (944)
Q Consensus 717 ndd~C~VCgdgGdLLcCD~Cp~aFH~~CL~p~-~vP--~g~W~Cp~C~ 761 (944)
.+.+|+-|.-.|..+.|+.|-+.||..|+.+. ..+ ...|.|+.|.
T Consensus 59 ~d~~cfechlpg~vl~c~vc~Rs~h~~c~sp~~q~r~~s~p~~~p~p~ 106 (588)
T KOG3612|consen 59 IDPFCFECHLPGAVLKCIVCHRSFHENCQSPDPQKRNYSVPSDKPQPY 106 (588)
T ss_pred CCcccccccCCcceeeeehhhccccccccCcchhhccccccccCCccc
Confidence 45689999999999999999999999999874 233 3569999886
No 57
>PF13832 zf-HC5HC2H_2: PHD-zinc-finger like domain
Probab=50.65 E-value=8.5 Score=36.18 Aligned_cols=31 Identities=39% Similarity=0.939 Sum_probs=26.3
Q ss_pred CCCcccccCC-CCceeeeCC--CCCcCCCccCCC
Q 002270 717 NDDTCGICGD-GGDLICCDG--CPSTFHQSCLDI 747 (944)
Q Consensus 717 ndd~C~VCgd-gGdLLcCD~--Cp~aFH~~CL~p 747 (944)
....|.+|+. .|-.+-|.. |..+||+.|.-.
T Consensus 54 ~~~~C~iC~~~~G~~i~C~~~~C~~~fH~~CA~~ 87 (110)
T PF13832_consen 54 FKLKCSICGKSGGACIKCSHPGCSTAFHPTCARK 87 (110)
T ss_pred cCCcCcCCCCCCceeEEcCCCCCCcCCCHHHHHH
Confidence 3568999997 578999998 999999999853
No 58
>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=50.40 E-value=12 Score=44.70 Aligned_cols=30 Identities=27% Similarity=0.740 Sum_probs=20.3
Q ss_pred ceeeeCCCCCcCCCccCCCCCCCCCCccCCccc
Q 002270 729 DLICCDGCPSTFHQSCLDIQMLPPGDWHCPNCT 761 (944)
Q Consensus 729 dLLcCD~Cp~aFH~~CL~p~~vP~g~W~Cp~C~ 761 (944)
+|.+|..|...=...|+.. ....||||.|.
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 5777877776666666643 23468888886
No 59
>KOG2752 consensus Uncharacterized conserved protein, contains N-recognin-type Zn-finger [General function prediction only]
Probab=50.24 E-value=11 Score=42.73 Aligned_cols=22 Identities=36% Similarity=0.880 Sum_probs=18.8
Q ss_pred CcceecCccchhhhh-ccccccc
Q 002270 780 TSALLPCAMCEKKYH-KLCMQEM 801 (944)
Q Consensus 780 ~~~Ll~CdqCeR~YH-v~CL~p~ 801 (944)
...|++|..|+-||| ..|++..
T Consensus 145 e~~m~QC~iCEDWFHce~c~~~~ 167 (345)
T KOG2752|consen 145 EGEMLQCVICEDWFHCEGCMQAK 167 (345)
T ss_pred cceeeeEEeccchhcccccCccc
Confidence 467999999999999 8998753
No 60
>KOG1701 consensus Focal adhesion adaptor protein Paxillin and related LIM proteins [Signal transduction mechanisms]
Probab=48.89 E-value=2.4 Score=49.56 Aligned_cols=87 Identities=23% Similarity=0.482 Sum_probs=52.2
Q ss_pred CcccccCC--CCceeeeCCCCCcCCCccCCC---------CC--CCCCCccCCccc------ccccCCCCCCCCCCCCCC
Q 002270 719 DTCGICGD--GGDLICCDGCPSTFHQSCLDI---------QM--LPPGDWHCPNCT------CKFCGLAGEDDAEGDDTT 779 (944)
Q Consensus 719 d~C~VCgd--gGdLLcCD~Cp~aFH~~CL~p---------~~--vP~g~W~Cp~C~------C~iCG~~~~ds~eed~~s 779 (944)
.+|..|+. .|+-.-|..=++.||..|..- +. .-++.-||..|- |..|+..-.+
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-------- 346 (468)
T KOG1701|consen 275 GICAFCHKTVSGQGLAVEAMDQLFHVQCFTCRTCRRQLAGQSFYQVDGKPYCEGCYQDTLEKCNKCGEPIMD-------- 346 (468)
T ss_pred hhhhhcCCcccCcchHHHHhhhhhcccceehHhhhhhhccccccccCCcccchHHHHHHHHHHhhhhhHHHH--------
Confidence 48999986 467777777788999998852 11 223456677773 6667654322
Q ss_pred CcceecCccchhhhhcccccc------ccccccCCCCCccceeC
Q 002270 780 TSALLPCAMCEKKYHKLCMQE------MDALSDNLTGLVTSFCG 817 (944)
Q Consensus 780 ~~~Ll~CdqCeR~YHv~CL~p------~~~~pl~~~p~~~WFCs 817 (944)
.+=..|.++||..|..- .+.++.........+|-
T Consensus 347 ----~iLrA~GkayHp~CF~Cv~C~r~ldgipFtvd~~n~v~Cv 386 (468)
T KOG1701|consen 347 ----RILRALGKAYHPGCFTCVVCARCLDGIPFTVDSQNNVYCV 386 (468)
T ss_pred ----HHHHhcccccCCCceEEEEeccccCCccccccCCCceeee
Confidence 11125778899887542 23344433344555663
No 61
>PF15446 zf-PHD-like: PHD/FYVE-zinc-finger like domain
Probab=48.57 E-value=12 Score=39.36 Aligned_cols=34 Identities=35% Similarity=0.904 Sum_probs=25.6
Q ss_pred ccccCCCCCCCCCCCCCCCcceecCccchhhhhccccccc
Q 002270 762 CKFCGLAGEDDAEGDDTTTSALLPCAMCEKKYHKLCMQEM 801 (944)
Q Consensus 762 C~iCG~~~~ds~eed~~s~~~Ll~CdqCeR~YHv~CL~p~ 801 (944)
|..|+..+.+ ..-+.|+.|..|.-.||..||.+.
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 5667655432 234679999999999999999864
No 62
>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=48.29 E-value=10 Score=36.62 Aligned_cols=38 Identities=37% Similarity=1.085 Sum_probs=24.5
Q ss_pred eCCCCCcCCCccCCC-------CCCCCCCccCCccc----ccccCCCCC
Q 002270 733 CDGCPSTFHQSCLDI-------QMLPPGDWHCPNCT----CKFCGLAGE 770 (944)
Q Consensus 733 CD~Cp~aFH~~CL~p-------~~vP~g~W~Cp~C~----C~iCG~~~~ 770 (944)
|..|...|-..||-. +...+.+|.||.|+ |.+|.....
T Consensus 33 C~~~~~~fC~~CL~~ryge~~~ev~~~~~W~CP~CrgiCnCs~Crrk~g 81 (105)
T PF10497_consen 33 CRGCRGKFCGGCLRNRYGENVEEVLEDPNWKCPKCRGICNCSFCRRKRG 81 (105)
T ss_pred CccCcceehHhHHHHHHhhhHHHHhcCCceECCCCCCeeCCHhhhccCC
Confidence 334466676677642 12456789999998 777765543
No 63
>KOG1246 consensus DNA-binding protein jumonji/RBP2/SMCY, contains JmjC domain [General function prediction only]
Probab=48.07 E-value=21 Score=45.54 Aligned_cols=49 Identities=35% Similarity=0.931 Sum_probs=39.4
Q ss_pred CCcccccCCCC--ceeeeCCCCCcCCCccCCCC--CCCCCCccCCcccccccC
Q 002270 718 DDTCGICGDGG--DLICCDGCPSTFHQSCLDIQ--MLPPGDWHCPNCTCKFCG 766 (944)
Q Consensus 718 dd~C~VCgdgG--dLLcCD~Cp~aFH~~CL~p~--~vP~g~W~Cp~C~C~iCG 766 (944)
...|..|..+. .++.|+.|...||.+|+.++ .++.++|.|+.|....|.
T Consensus 155 ~~~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 207 (904)
T KOG1246|consen 155 YPQCNTCSKGKEEKLLLCDSCDDSYHTYCLRPPLTRVPDGDWRCPKCIPTPES 207 (904)
T ss_pred chhhhccccCCCccceecccccCcccccccCCCCCcCCcCcccCCcccccccC
Confidence 35788897655 34499999999999999974 588999999999876554
No 64
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=46.63 E-value=8.2 Score=36.34 Aligned_cols=40 Identities=30% Similarity=0.685 Sum_probs=24.2
Q ss_pred ccccCCCCc---eeeeCCCCCcCCCccCCCCC-CCCCCccCCccc
Q 002270 721 CGICGDGGD---LICCDGCPSTFHQSCLDIQM-LPPGDWHCPNCT 761 (944)
Q Consensus 721 C~VCgdgGd---LLcCD~Cp~aFH~~CL~p~~-vP~g~W~Cp~C~ 761 (944)
|..|.-+|+ ++.+ .|...||..|+..-. .....=.||.|+
T Consensus 35 Cp~Ck~Pgd~Cplv~g-~C~H~FH~hCI~kWl~~~~~~~~CPmCR 78 (85)
T PF12861_consen 35 CPDCKFPGDDCPLVWG-KCSHNFHMHCILKWLSTQSSKGQCPMCR 78 (85)
T ss_pred CCCccCCCCCCceeec-cCccHHHHHHHHHHHccccCCCCCCCcC
Confidence 334444454 4444 499999999997421 122344788886
No 65
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=46.05 E-value=11 Score=32.89 Aligned_cols=34 Identities=29% Similarity=0.860 Sum_probs=25.6
Q ss_pred cccccccCCCCCCCCCCCCCCCcceecCccchhhhhcccccc
Q 002270 759 NCTCKFCGLAGEDDAEGDDTTTSALLPCAMCEKKYHKLCMQE 800 (944)
Q Consensus 759 ~C~C~iCG~~~~ds~eed~~s~~~Ll~CdqCeR~YHv~CL~p 800 (944)
.+.|..|+..-.+. ..++.|..|...||-.|...
T Consensus 5 ~~~C~~Cg~~~~~~--------dDiVvCp~CgapyHR~C~~~ 38 (54)
T PF14446_consen 5 GCKCPVCGKKFKDG--------DDIVVCPECGAPYHRDCWEK 38 (54)
T ss_pred CccChhhCCcccCC--------CCEEECCCCCCcccHHHHhh
Confidence 35678888776321 24799999999999999764
No 66
>COG1107 Archaea-specific RecJ-like exonuclease, contains DnaJ-type Zn finger domain [DNA replication, recombination, and repair]
Probab=46.04 E-value=11 Score=45.91 Aligned_cols=24 Identities=38% Similarity=0.839 Sum_probs=17.9
Q ss_pred CCcccccCCCCceeeeCCCCCcCC
Q 002270 718 DDTCGICGDGGDLICCDGCPSTFH 741 (944)
Q Consensus 718 dd~C~VCgdgGdLLcCD~Cp~aFH 741 (944)
-+.|..|+..|+.+.|+.|+..++
T Consensus 68 ~~~c~~c~G~gkv~~c~~cG~~~~ 91 (715)
T COG1107 68 YDTCPECGGTGKVLTCDICGDIIV 91 (715)
T ss_pred EeecccCCCceeEEeeccccceec
Confidence 356777887888888888877665
No 67
>PF12148 DUF3590: Protein of unknown function (DUF3590); InterPro: IPR021991 This domain is found in eukaryotes, and is typically between 83 and 97 amino acids in length. It is found in association with PF00097 from PFAM, PF02182 from PFAM, PF00628 from PFAM, PF00240 from PFAM. There are two conserved sequence motifs: RAR and NYN. The domain is part of the protein NIRF which has zinc finger and ubiquitinating domains. The function of this domain is likely to be mainly structural, however this has not been confirmed. ; PDB: 3DB4_A 3ASK_A 3DB3_A 2L3R_A.
Probab=45.29 E-value=9.6 Score=35.89 Aligned_cols=31 Identities=19% Similarity=0.217 Sum_probs=18.4
Q ss_pred CCCcchhhhhhccCceeccceEEEeeccCcceeeee
Q 002270 608 AGKLTLLSWLIDSGTVQLSQKVQYMNRRRTKVMLEG 643 (944)
Q Consensus 608 ~~kRTVLswLID~G~v~~~~kV~Y~n~k~~~~lL~G 643 (944)
+++||+|.| ..+..+.++|+||+.+++..+|
T Consensus 55 pRARt~l~w-----~~L~VG~~VMvNYN~d~P~erG 85 (85)
T PF12148_consen 55 PRARTILKW-----DELKVGQVVMVNYNVDEPKERG 85 (85)
T ss_dssp E---SBE-G-----GG--TT-EEEEEE-TTSTTS--
T ss_pred ceeeEeccH-----HhCCcccEEEEecCCCCcccCc
Confidence 578999999 7888999999999988876655
No 68
>PF13771 zf-HC5HC2H: PHD-like zinc-binding domain
Probab=43.83 E-value=13 Score=33.61 Aligned_cols=30 Identities=33% Similarity=0.808 Sum_probs=26.1
Q ss_pred CCcccccCCC-CceeeeCC--CCCcCCCccCCC
Q 002270 718 DDTCGICGDG-GDLICCDG--CPSTFHQSCLDI 747 (944)
Q Consensus 718 dd~C~VCgdg-GdLLcCD~--Cp~aFH~~CL~p 747 (944)
...|.+|+.. |-.+-|.. |...||..|.--
T Consensus 36 ~~~C~~C~~~~Ga~i~C~~~~C~~~fH~~CA~~ 68 (90)
T PF13771_consen 36 KLKCSICKKKGGACIGCSHPGCSRSFHVPCARK 68 (90)
T ss_pred CCCCcCCCCCCCeEEEEeCCCCCcEEChHHHcc
Confidence 4589999998 99999985 999999999863
No 69
>smart00391 MBD Methyl-CpG binding domain. Methyl-CpG binding domain, also known as the TAM (TTF-IIP5, ARBP, MeCP1) domain
Probab=43.16 E-value=46 Score=30.51 Aligned_cols=37 Identities=27% Similarity=0.504 Sum_probs=28.9
Q ss_pred HhcCeeeeeccCCC---CCcccceeeCCCCceeeehHHHH
Q 002270 404 VEAGWTIDYRPRKN---RDYLDAVYINPTGTAYWSIIKAY 440 (944)
Q Consensus 404 ~~agwtid~rpr~~---r~y~d~vy~~p~g~~~wsi~kay 440 (944)
|-.||+=..+.|+. +.=.|.+|++|.|+..=|.-..-
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 70
>PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=42.64 E-value=19 Score=38.19 Aligned_cols=37 Identities=35% Similarity=0.907 Sum_probs=28.2
Q ss_pred CCcccccCCCC--------ceeeeCCCCCcCCCccCCCCCCCCCCccCCccc
Q 002270 718 DDTCGICGDGG--------DLICCDGCPSTFHQSCLDIQMLPPGDWHCPNCT 761 (944)
Q Consensus 718 dd~C~VCgdgG--------dLLcCD~Cp~aFH~~CL~p~~vP~g~W~Cp~C~ 761 (944)
...|.+|.+.+ ...-|..|...||..|... -.||.|.
T Consensus 152 GfiCe~C~~~~~IfPF~~~~~~~C~~C~~v~H~~C~~~-------~~CpkC~ 196 (202)
T PF13901_consen 152 GFICEICNSDDIIFPFQIDTTVRCPKCKSVFHKSCFRK-------KSCPKCA 196 (202)
T ss_pred CCCCccCCCCCCCCCCCCCCeeeCCcCccccchhhcCC-------CCCCCcH
Confidence 35788998643 4788999999999999963 2288774
No 71
>KOG1829 consensus Uncharacterized conserved protein, contains C1, PH and RUN domains [Signal transduction mechanisms]
Probab=41.90 E-value=15 Score=44.78 Aligned_cols=32 Identities=22% Similarity=0.643 Sum_probs=23.4
Q ss_pred ceecCccchhhhhccccccccccccCCCCCccceeCccchhhHH
Q 002270 782 ALLPCAMCEKKYHKLCMQEMDALSDNLTGLVTSFCGRKCQELSE 825 (944)
Q Consensus 782 ~Ll~CdqCeR~YHv~CL~p~~~~pl~~~p~~~WFCs~~CkeI~e 825 (944)
....|..|...||..|+.... -||..|.++..
T Consensus 530 ~~~rC~~C~avfH~~C~~r~s------------~~CPrC~R~q~ 561 (580)
T KOG1829|consen 530 NTRRCSTCLAVFHKKCLRRKS------------PCCPRCERRQK 561 (580)
T ss_pred cceeHHHHHHHHHHHHHhccC------------CCCCchHHHHH
Confidence 357999999999999987521 22468877654
No 72
>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=41.59 E-value=3 Score=33.25 Aligned_cols=40 Identities=33% Similarity=0.806 Sum_probs=24.2
Q ss_pred CcccccCC----CCceeeeCCCCCcCCCccCCCCCCCCCCccCCccc
Q 002270 719 DTCGICGD----GGDLICCDGCPSTFHQSCLDIQMLPPGDWHCPNCT 761 (944)
Q Consensus 719 d~C~VCgd----gGdLLcCD~Cp~aFH~~CL~p~~vP~g~W~Cp~C~ 761 (944)
|.|.||.+ +..++... |...||..|+.....- ...||.|+
T Consensus 1 d~C~IC~~~~~~~~~~~~l~-C~H~fh~~Ci~~~~~~--~~~CP~CR 44 (44)
T PF13639_consen 1 DECPICLEEFEDGEKVVKLP-CGHVFHRSCIKEWLKR--NNSCPVCR 44 (44)
T ss_dssp -CETTTTCBHHTTSCEEEET-TSEEEEHHHHHHHHHH--SSB-TTTH
T ss_pred CCCcCCChhhcCCCeEEEcc-CCCeeCHHHHHHHHHh--CCcCCccC
Confidence 46888975 23344444 9999999999742111 13788774
No 73
>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=41.25 E-value=10 Score=42.54 Aligned_cols=40 Identities=33% Similarity=0.714 Sum_probs=31.4
Q ss_pred eeeeeeecCC------cccCCCCceeeceeeeeccCCc-cccCceeE
Q 002270 640 MLEGWITRDG------IHCGCCSKILTVSKFEIHAGSK-LRQPFQNI 679 (944)
Q Consensus 640 lL~G~it~~G------I~C~CC~kvfS~S~FE~HAG~k-~rrPy~nI 679 (944)
-++|+.++-+ |+|.|=...|+|.+|-.|||.. ...|..+|
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 3567666552 8999999999999999999976 45666665
No 74
>COG0143 MetG Methionyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=41.05 E-value=13 Score=45.08 Aligned_cols=37 Identities=19% Similarity=0.501 Sum_probs=25.7
Q ss_pred CCccCCccc-----------ccccCCCCCCCCCCCCCCCcceecCccchhhhhcccccc
Q 002270 753 GDWHCPNCT-----------CKFCGLAGEDDAEGDDTTTSALLPCAMCEKKYHKLCMQE 800 (944)
Q Consensus 753 g~W~Cp~C~-----------C~iCG~~~~ds~eed~~s~~~Ll~CdqCeR~YHv~CL~p 800 (944)
..|||+.|. |..|+-..... =.|+.|++.|++.+|..
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 77776433221 27999999999988643
No 75
>PRK04023 DNA polymerase II large subunit; Validated
Probab=39.61 E-value=20 Score=46.20 Aligned_cols=41 Identities=27% Similarity=0.709 Sum_probs=29.3
Q ss_pred CCCcccccCCCCceeeeCCCCCcCCCccCCCCCCCCCCccCCccc-------ccccCCC
Q 002270 717 NDDTCGICGDGGDLICCDGCPSTFHQSCLDIQMLPPGDWHCPNCT-------CKFCGLA 768 (944)
Q Consensus 717 ndd~C~VCgdgGdLLcCD~Cp~aFH~~CL~p~~vP~g~W~Cp~C~-------C~iCG~~ 768 (944)
....|..|+.......|..|+.. +...|+||.|. |..|+..
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 45689999988777888888763 33457888886 6666543
No 76
>KOG1044 consensus Actin-binding LIM Zn-finger protein Limatin involved in axon guidance [Signal transduction mechanisms; Cytoskeleton]
Probab=38.67 E-value=34 Score=41.87 Aligned_cols=8 Identities=50% Similarity=1.302 Sum_probs=5.6
Q ss_pred CcccccCC
Q 002270 719 DTCGICGD 726 (944)
Q Consensus 719 d~C~VCgd 726 (944)
..|..|+.
T Consensus 134 s~cagc~~ 141 (670)
T KOG1044|consen 134 STCAGCGE 141 (670)
T ss_pred ccccchhh
Confidence 46888864
No 77
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=36.79 E-value=12 Score=41.91 Aligned_cols=48 Identities=25% Similarity=0.531 Sum_probs=28.6
Q ss_pred ccccccCCcccc-CCCCCCCCCcccccCCCC------c----eeeeCCCCCcCCCccCC
Q 002270 699 KESESIGFESVD-VDGDDPNDDTCGICGDGG------D----LICCDGCPSTFHQSCLD 746 (944)
Q Consensus 699 ~~sEk~G~~pV~-~dged~ndd~C~VCgdgG------d----LLcCD~Cp~aFH~~CL~ 746 (944)
..+...|+...+ ....+.++..|.||+..= + -+.=-.|...||.+|+.
T Consensus 204 ~mAs~iGfYs~~glPtkhl~d~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIr 262 (328)
T KOG1734|consen 204 YMASTIGFYSPSGLPTKHLSDSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIR 262 (328)
T ss_pred HHHHHhcccCCCCCCCCCCCcchhHhhcchheeecchhhhhhhheeeecccchHHHhhh
Confidence 344455665422 123456788999998521 1 11112489999999985
No 78
>KOG1632 consensus Uncharacterized PHD Zn-finger protein [General function prediction only]
Probab=34.23 E-value=22 Score=40.85 Aligned_cols=45 Identities=20% Similarity=0.527 Sum_probs=34.4
Q ss_pred ceecCccchhhhhccc--cccccccccCCCCCccceeCccchhhHHHHHhH
Q 002270 782 ALLPCAMCEKKYHKLC--MQEMDALSDNLTGLVTSFCGRKCQELSEHLQKY 830 (944)
Q Consensus 782 ~Ll~CdqCeR~YHv~C--L~p~~~~pl~~~p~~~WFCs~~CkeI~e~Lqkl 830 (944)
.+..|+.|..+||..| +.. ......+...|+| ..|......++..
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 4689999999999999 553 2334445688999 8999888777665
No 79
>KOG1632 consensus Uncharacterized PHD Zn-finger protein [General function prediction only]
Probab=32.50 E-value=31 Score=39.68 Aligned_cols=71 Identities=15% Similarity=0.222 Sum_probs=43.1
Q ss_pred ceeeeCCCCCcCCCcc--CCCCC---CCCCCccCCcccccccCCCCCCCC----C---CCCCCCcceecCccchhhhhcc
Q 002270 729 DLICCDGCPSTFHQSC--LDIQM---LPPGDWHCPNCTCKFCGLAGEDDA----E---GDDTTTSALLPCAMCEKKYHKL 796 (944)
Q Consensus 729 dLLcCD~Cp~aFH~~C--L~p~~---vP~g~W~Cp~C~C~iCG~~~~ds~----e---ed~~s~~~Ll~CdqCeR~YHv~ 796 (944)
.++-|+.|..+||..| ++++. .+...|+|..|.+..=+....+.. . ....+...-+-+..|..++|..
T Consensus 74 ~~~~cd~C~~~~~~ec~~v~~~~~e~p~~~~~~c~~c~~~~~~~~~~~~l~~~~~~~~~~~~s~s~~~~~~~~~~~~~~~ 153 (345)
T KOG1632|consen 74 LMEQCDLCEDWYHGECWEVGTAEKEAPKEDPKVCDECKEAQDGMSESDGLSCVCRQDDSELLSPSFYFGKRGCQFWVKLQ 153 (345)
T ss_pred hhhccccccccccccccccCchhhcCCccccccccccchhhhhhhhhccceeecccccccccccccccCCccccccccch
Confidence 6899999999999999 88752 445679999998543332221100 0 0011112224556667777777
Q ss_pred ccc
Q 002270 797 CMQ 799 (944)
Q Consensus 797 CL~ 799 (944)
|+.
T Consensus 154 ~~~ 156 (345)
T KOG1632|consen 154 KLG 156 (345)
T ss_pred hhh
Confidence 754
No 80
>PLN03086 PRLI-interacting factor K; Provisional
Probab=32.31 E-value=14 Score=45.07 Aligned_cols=32 Identities=16% Similarity=0.375 Sum_probs=23.8
Q ss_pred cCCcccCCCCceeeceeeeeccCCccccCceeEee
Q 002270 647 RDGIHCGCCSKILTVSKFEIHAGSKLRQPFQNIYL 681 (944)
Q Consensus 647 ~~GI~C~CC~kvfS~S~FE~HAG~k~rrPy~nI~L 681 (944)
.+-+.|+-|...+....|+.|.. .++|.+|.+
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 34468999999999999998864 355666644
No 81
>PRK14559 putative protein serine/threonine phosphatase; Provisional
Probab=32.28 E-value=31 Score=42.81 Aligned_cols=42 Identities=26% Similarity=0.707 Sum_probs=22.2
Q ss_pred cccccCC--CCceeeeCCCCCcCC-CccCCC-CCCCCCCccCCccc
Q 002270 720 TCGICGD--GGDLICCDGCPSTFH-QSCLDI-QMLPPGDWHCPNCT 761 (944)
Q Consensus 720 ~C~VCgd--gGdLLcCD~Cp~aFH-~~CL~p-~~vP~g~W~Cp~C~ 761 (944)
.|..|+. .....+|..|+...- ..|... ..+|.+.-||+.|-
T Consensus 3 ~Cp~Cg~~n~~~akFC~~CG~~l~~~~Cp~CG~~~~~~~~fC~~CG 48 (645)
T PRK14559 3 ICPQCQFENPNNNRFCQKCGTSLTHKPCPQCGTEVPVDEAHCPNCG 48 (645)
T ss_pred cCCCCCCcCCCCCccccccCCCCCCCcCCCCCCCCCcccccccccC
Confidence 5777764 345667777766542 334332 12444444555553
No 82
>KOG3581 consensus Creatine kinases [Energy production and conversion]
Probab=31.15 E-value=34 Score=38.89 Aligned_cols=52 Identities=23% Similarity=0.289 Sum_probs=44.4
Q ss_pred hhccchhhHhHHhhhhhcCcccccCC-C---CCcccceecccCCCCCCcccccceE
Q 002270 864 VECNSKLAVALNVMDECFLPIVDRRS-G---INLIHNVLYNSGSNFNRLNYSGFYT 915 (944)
Q Consensus 864 vE~nSKLAvALsIm~ECFdPIiD~rS-G---rDLIp~MVYn~GSnfkRldF~GfYt 915 (944)
+-++.+.+.|-++|-..|+|||...- | .+.-|.+.++....|..+|+.|.|.
T Consensus 70 VG~yApD~EaY~vFadLFDpiIedyH~Gf~p~~~qp~tdlg~~~~~~~ldpd~~yi 125 (363)
T KOG3581|consen 70 VGVYAPDAEAYTVFADLFDPIIEDYHGGFKPTDKQPATDLGKTKEFGGLDPDGKYI 125 (363)
T ss_pred cceecCcHHHHHHHHHHhchHHHHHhcCCCccccCCCccCCcccccCCCCCCCcee
Confidence 34568889999999999999988654 3 5778999999889999999999996
No 83
>KOG3970 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=31.11 E-value=26 Score=38.40 Aligned_cols=78 Identities=24% Similarity=0.484 Sum_probs=41.4
Q ss_pred eeeeCCCCCcCCCccCCCCC--CCCCCccCCcccccccCCCCCCCCCCCCCCCcceecCccchhhhhccccccccc-ccc
Q 002270 730 LICCDGCPSTFHQSCLDIQM--LPPGDWHCPNCTCKFCGLAGEDDAEGDDTTTSALLPCAMCEKKYHKLCMQEMDA-LSD 806 (944)
Q Consensus 730 LLcCD~Cp~aFH~~CL~p~~--vP~g~W~Cp~C~C~iCG~~~~ds~eed~~s~~~Ll~CdqCeR~YHv~CL~p~~~-~pl 806 (944)
.-.|..|--+-|+.|+.... .-...-|=|.|. .|+.+-.. .|. .--.|..-||..|+..... .|-
T Consensus 21 VNVCEhClV~nHpkCiVQSYLqWL~DsDY~pNC~--LC~t~La~---gdt-------~RLvCyhlfHW~ClneraA~lPa 88 (299)
T KOG3970|consen 21 VNVCEHCLVANHPKCIVQSYLQWLQDSDYNPNCR--LCNTPLAS---GDT-------TRLVCYHLFHWKCLNERAANLPA 88 (299)
T ss_pred hhHHHHHHhccCchhhHHHHHHHHhhcCCCCCCc--eeCCcccc---Ccc-------eeehhhhhHHHHHhhHHHhhCCC
Confidence 34577788888999996311 111112344443 66655432 111 1125788899999986432 232
Q ss_pred CCCCCccceeCccch
Q 002270 807 NLTGLVTSFCGRKCQ 821 (944)
Q Consensus 807 ~~~p~~~WFCs~~Ck 821 (944)
+..| ....|+ .|.
T Consensus 89 nTAP-aGyqCP-~Cs 101 (299)
T KOG3970|consen 89 NTAP-AGYQCP-CCS 101 (299)
T ss_pred cCCC-CcccCC-CCC
Confidence 2222 345674 554
No 84
>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=30.70 E-value=28 Score=38.49 Aligned_cols=60 Identities=20% Similarity=0.608 Sum_probs=26.0
Q ss_pred CCCcccccCC----------C--C-ceeeeCCCCCcCCCccCCCCCCCCCCccCCcccccccCCCCCCCC---CCCCCCC
Q 002270 717 NDDTCGICGD----------G--G-DLICCDGCPSTFHQSCLDIQMLPPGDWHCPNCTCKFCGLAGEDDA---EGDDTTT 780 (944)
Q Consensus 717 ndd~C~VCgd----------g--G-dLLcCD~Cp~aFH~~CL~p~~vP~g~W~Cp~C~C~iCG~~~~ds~---eed~~s~ 780 (944)
+...|.|||. + | ..+.|..|...+|..=+ .||.| |......- ..+....
T Consensus 171 ~~g~CPvCGs~P~~s~l~~~~~~G~R~L~Cs~C~t~W~~~R~----------~Cp~C-----g~~~~~~l~~~~~e~~~~ 235 (290)
T PF04216_consen 171 QRGYCPVCGSPPVLSVLRGGEREGKRYLHCSLCGTEWRFVRI----------KCPYC-----GNTDHEKLEYFTVEGEPA 235 (290)
T ss_dssp T-SS-TTT---EEEEEEE------EEEEEETTT--EEE--TT----------S-TTT--------SS-EEE--------S
T ss_pred cCCcCCCCCCcCceEEEecCCCCccEEEEcCCCCCeeeecCC----------CCcCC-----CCCCCcceeeEecCCCCc
Confidence 3469999983 1 3 58889999877775433 25544 44332210 0122234
Q ss_pred cceecCccchh
Q 002270 781 SALLPCAMCEK 791 (944)
Q Consensus 781 ~~Ll~CdqCeR 791 (944)
..+..|+.|..
T Consensus 236 ~rve~C~~C~~ 246 (290)
T PF04216_consen 236 YRVEVCESCGS 246 (290)
T ss_dssp EEEEEETTTTE
T ss_pred EEEEECCcccc
Confidence 56789999963
No 85
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=28.94 E-value=41 Score=42.36 Aligned_cols=35 Identities=34% Similarity=1.013 Sum_probs=0.0
Q ss_pred eeeeCCCCCcCCCccCCCCCCCCCCccCCccc-------------ccccCCCCCCCCCCCCCCCcceecCccch
Q 002270 730 LICCDGCPSTFHQSCLDIQMLPPGDWHCPNCT-------------CKFCGLAGEDDAEGDDTTTSALLPCAMCE 790 (944)
Q Consensus 730 LLcCD~Cp~aFH~~CL~p~~vP~g~W~Cp~C~-------------C~iCG~~~~ds~eed~~s~~~Ll~CdqCe 790 (944)
++.|..|+-.+- ||+|. |+.||....-.. .|..|+
T Consensus 435 ~l~C~~Cg~v~~---------------Cp~Cd~~lt~H~~~~~L~CH~Cg~~~~~p~-----------~Cp~Cg 482 (730)
T COG1198 435 LLLCRDCGYIAE---------------CPNCDSPLTLHKATGQLRCHYCGYQEPIPQ-----------SCPECG 482 (730)
T ss_pred eeecccCCCccc---------------CCCCCcceEEecCCCeeEeCCCCCCCCCCC-----------CCCCCC
No 86
>TIGR01562 FdhE formate dehydrogenase accessory protein FdhE. The only sequence scoring between trusted and noise is that from Aquifex aeolicus, which shows certain structural differences from the proteobacterial forms in the alignment. However it is notable that A. aeolicus also has a sequence scoring above trusted to the alpha subunit of formate dehydrogenase (TIGR01553).
Probab=28.67 E-value=64 Score=36.71 Aligned_cols=29 Identities=21% Similarity=0.585 Sum_probs=18.8
Q ss_pred CCCcccccCCC--------------CceeeeCCCCCcCCCccC
Q 002270 717 NDDTCGICGDG--------------GDLICCDGCPSTFHQSCL 745 (944)
Q Consensus 717 ndd~C~VCgdg--------------GdLLcCD~Cp~aFH~~CL 745 (944)
+...|.|||.. ...+.|..|...+|..=+
T Consensus 183 ~~~~CPvCGs~P~~s~~~~~~~~~G~RyL~CslC~teW~~~R~ 225 (305)
T TIGR01562 183 SRTLCPACGSPPVASMVRQGGKETGLRYLSCSLCATEWHYVRV 225 (305)
T ss_pred CCCcCCCCCChhhhhhhcccCCCCCceEEEcCCCCCcccccCc
Confidence 45599999741 137777777776665433
No 87
>PLN02400 cellulose synthase
Probab=28.46 E-value=60 Score=42.47 Aligned_cols=45 Identities=31% Similarity=0.839 Sum_probs=33.3
Q ss_pred CCCCcccccCCC------C-ceeeeCCCCCcCCCccCCCCCCCCCCccCCccc
Q 002270 716 PNDDTCGICGDG------G-DLICCDGCPSTFHQSCLDIQMLPPGDWHCPNCT 761 (944)
Q Consensus 716 ~ndd~C~VCgdg------G-dLLcCD~Cp~aFH~~CL~p~~vP~g~W~Cp~C~ 761 (944)
.+..+|.||+|. | -.+-|..|.-.---.|..- ...+|.=.||.|.
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 356799999863 3 3899999976666677743 3567778899997
No 88
>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=28.13 E-value=18 Score=27.23 Aligned_cols=41 Identities=29% Similarity=0.655 Sum_probs=25.6
Q ss_pred cccccCCCC-ceeeeCCCCCcCCCccCCCCCCCCCCccCCccc
Q 002270 720 TCGICGDGG-DLICCDGCPSTFHQSCLDIQMLPPGDWHCPNCT 761 (944)
Q Consensus 720 ~C~VCgdgG-dLLcCD~Cp~aFH~~CL~p~~vP~g~W~Cp~C~ 761 (944)
.|.+|.+.- +.+.-..|...||..|+.... ..+...||.|.
T Consensus 1 ~C~iC~~~~~~~~~~~~C~H~~c~~C~~~~~-~~~~~~Cp~C~ 42 (45)
T cd00162 1 ECPICLEEFREPVVLLPCGHVFCRSCIDKWL-KSGKNTCPLCR 42 (45)
T ss_pred CCCcCchhhhCceEecCCCChhcHHHHHHHH-HhCcCCCCCCC
Confidence 377787653 444455689999999986321 11445677664
No 89
>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=27.82 E-value=56 Score=37.27 Aligned_cols=28 Identities=25% Similarity=0.611 Sum_probs=18.6
Q ss_pred CCCcccccCCC-------------CceeeeCCCCCcCCCcc
Q 002270 717 NDDTCGICGDG-------------GDLICCDGCPSTFHQSC 744 (944)
Q Consensus 717 ndd~C~VCgdg-------------GdLLcCD~Cp~aFH~~C 744 (944)
+...|.|||.. ...+.|..|...+|..=
T Consensus 186 ~~~~CPvCGs~P~~s~v~~~~~~G~RyL~CslC~teW~~~R 226 (309)
T PRK03564 186 QRQFCPVCGSMPVSSVVQIGTTQGLRYLHCNLCESEWHVVR 226 (309)
T ss_pred CCCCCCCCCCcchhheeeccCCCCceEEEcCCCCCcccccC
Confidence 56799999842 23777777776666443
No 90
>smart00547 ZnF_RBZ Zinc finger domain. Zinc finger domain in Ran-binding proteins (RanBPs), and other proteins. In RanBPs, this domain binds RanGDP.
Probab=27.17 E-value=38 Score=24.33 Aligned_cols=9 Identities=78% Similarity=2.169 Sum_probs=7.1
Q ss_pred CCccCCccc
Q 002270 753 GDWHCPNCT 761 (944)
Q Consensus 753 g~W~Cp~C~ 761 (944)
++|.|+.|.
T Consensus 1 g~W~C~~C~ 9 (26)
T smart00547 1 GDWECPACT 9 (26)
T ss_pred CcccCCCCC
Confidence 579999884
No 91
>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=26.92 E-value=44 Score=39.80 Aligned_cols=30 Identities=30% Similarity=0.514 Sum_probs=23.3
Q ss_pred CCCcccccCCC------CceeeeCCCCCcCCCccCC
Q 002270 717 NDDTCGICGDG------GDLICCDGCPSTFHQSCLD 746 (944)
Q Consensus 717 ndd~C~VCgdg------GdLLcCD~Cp~aFH~~CL~ 746 (944)
+...|.+|... --.+-||.|..+-|..|.-
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 45678888642 2489999999999999984
No 92
>PHA02929 N1R/p28-like protein; Provisional
Probab=26.38 E-value=32 Score=37.84 Aligned_cols=44 Identities=30% Similarity=0.639 Sum_probs=27.3
Q ss_pred CCCCcccccCCCC-c-------eeeeCCCCCcCCCccCCCCCCCCCCccCCccc
Q 002270 716 PNDDTCGICGDGG-D-------LICCDGCPSTFHQSCLDIQMLPPGDWHCPNCT 761 (944)
Q Consensus 716 ~ndd~C~VCgdgG-d-------LLcCD~Cp~aFH~~CL~p~~vP~g~W~Cp~C~ 761 (944)
..+..|.+|.+.- + +..=..|...||..|+..... ..-.||.|+
T Consensus 172 ~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~--~~~tCPlCR 223 (238)
T PHA02929 172 SKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKK--EKNTCPVCR 223 (238)
T ss_pred CCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHh--cCCCCCCCC
Confidence 3467899998641 1 122246889999999964211 122577776
No 93
>PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=25.96 E-value=34 Score=36.26 Aligned_cols=20 Identities=25% Similarity=0.836 Sum_probs=17.0
Q ss_pred cceecCccchhhhhcccccc
Q 002270 781 SALLPCAMCEKKYHKLCMQE 800 (944)
Q Consensus 781 ~~Ll~CdqCeR~YHv~CL~p 800 (944)
.....|..|...||..|...
T Consensus 170 ~~~~~C~~C~~v~H~~C~~~ 189 (202)
T PF13901_consen 170 DTTVRCPKCKSVFHKSCFRK 189 (202)
T ss_pred CCeeeCCcCccccchhhcCC
Confidence 34689999999999999873
No 94
>PF12773 DZR: Double zinc ribbon
Probab=25.88 E-value=49 Score=27.05 Aligned_cols=8 Identities=50% Similarity=1.232 Sum_probs=4.2
Q ss_pred CCccCCcc
Q 002270 753 GDWHCPNC 760 (944)
Q Consensus 753 g~W~Cp~C 760 (944)
..++|+.|
T Consensus 28 ~~~~C~~C 35 (50)
T PF12773_consen 28 SKKICPNC 35 (50)
T ss_pred CCCCCcCC
Confidence 34556555
No 95
>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=25.59 E-value=62 Score=42.32 Aligned_cols=55 Identities=29% Similarity=0.665 Sum_probs=37.9
Q ss_pred CCCCcccccCCC------C-ceeeeCCCCCcCCCccCCCCCCCCCCccCCccc-----ccccCCCCCC
Q 002270 716 PNDDTCGICGDG------G-DLICCDGCPSTFHQSCLDIQMLPPGDWHCPNCT-----CKFCGLAGED 771 (944)
Q Consensus 716 ~ndd~C~VCgdg------G-dLLcCD~Cp~aFH~~CL~p~~vP~g~W~Cp~C~-----C~iCG~~~~d 771 (944)
.+...|.||+|. | -.+-|..|.=...-.|+.- +..+|.=.||.|. ++-|..-..|
T Consensus 15 ~~~qiCqICGD~vg~~~~Ge~FVAC~eC~FPVCrpCYEY-Er~eG~q~CPqCktrYkr~kgsprv~gD 81 (1079)
T PLN02638 15 GGGQVCQICGDNVGKTVDGEPFVACDVCAFPVCRPCYEY-ERKDGNQSCPQCKTKYKRHKGSPAILGD 81 (1079)
T ss_pred cCCceeeecccccCcCCCCCEEEEeccCCCccccchhhh-hhhcCCccCCccCCchhhhcCCCCcCcc
Confidence 356799999963 3 3889999976666677743 3566778899997 5545544444
No 96
>PF13771 zf-HC5HC2H: PHD-like zinc-binding domain
Probab=25.38 E-value=28 Score=31.48 Aligned_cols=30 Identities=27% Similarity=0.837 Sum_probs=21.5
Q ss_pred cccccCCCCCCCCCCCCCCCcceecCcc--chhhhhccccccc
Q 002270 761 TCKFCGLAGEDDAEGDDTTTSALLPCAM--CEKKYHKLCMQEM 801 (944)
Q Consensus 761 ~C~iCG~~~~ds~eed~~s~~~Ll~Cdq--CeR~YHv~CL~p~ 801 (944)
.|.+|+... +..+.|.. |.+.||+.|....
T Consensus 38 ~C~~C~~~~-----------Ga~i~C~~~~C~~~fH~~CA~~~ 69 (90)
T PF13771_consen 38 KCSICKKKG-----------GACIGCSHPGCSRSFHVPCARKA 69 (90)
T ss_pred CCcCCCCCC-----------CeEEEEeCCCCCcEEChHHHccC
Confidence 366776662 23578864 9999999997754
No 97
>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=25.12 E-value=16 Score=26.39 Aligned_cols=39 Identities=31% Similarity=0.611 Sum_probs=23.4
Q ss_pred ccccCCCCceeeeCCCCCcCCCccCCCCCCCCCCccCCcc
Q 002270 721 CGICGDGGDLICCDGCPSTFHQSCLDIQMLPPGDWHCPNC 760 (944)
Q Consensus 721 C~VCgdgGdLLcCD~Cp~aFH~~CL~p~~vP~g~W~Cp~C 760 (944)
|.+|.+......-..|...||..|+..... .+...||.|
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 567776655444556888899888863211 233346654
No 98
>KOG1080 consensus Histone H3 (Lys4) methyltransferase complex, subunit SET1 and related methyltransferases [Chromatin structure and dynamics; Transcription]
Probab=24.75 E-value=81 Score=41.20 Aligned_cols=53 Identities=28% Similarity=0.797 Sum_probs=39.9
Q ss_pred CcccccCCCC-----ceeeeCCCCCcCCCccCCCCCCCC-CCccCCccc-------ccccCCCCCC
Q 002270 719 DTCGICGDGG-----DLICCDGCPSTFHQSCLDIQMLPP-GDWHCPNCT-------CKFCGLAGED 771 (944)
Q Consensus 719 d~C~VCgdgG-----dLLcCD~Cp~aFH~~CL~p~~vP~-g~W~Cp~C~-------C~iCG~~~~d 771 (944)
+.|.+|.+.. ..+.|+.|...-|..|++....+. -.|.|..|. |..|-.++..
T Consensus 574 ~~c~~~~~~~~~~~n~~~~~~~~~~~~~s~~~g~~~~~~~~~~~~~~~~~~~~~r~~~l~~~~g~a 639 (1005)
T KOG1080|consen 574 ERCAVCRDDEDWEKNVSIICDRCTRSVHSECYGNLKSYDGTSWVCDSCETLDIKRSCCLCPVKGGA 639 (1005)
T ss_pred ccccccccccccccceeeeeccccccCCCcccccCCCCCCCcchhhccccccCCchhhhccccCcc
Confidence 5799998643 488899999999999999765444 469999997 4455555443
No 99
>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=24.53 E-value=60 Score=33.57 Aligned_cols=24 Identities=42% Similarity=0.872 Sum_probs=19.1
Q ss_pred HHHHHHHHHHhcCeeeeeccCCCCCcccceeeCCCCceee
Q 002270 395 LRERIRGMLVEAGWTIDYRPRKNRDYLDAVYINPTGTAYW 434 (944)
Q Consensus 395 ~~~~i~~~l~~agwtid~rpr~~r~y~d~vy~~p~g~~~w 434 (944)
+-|-++.+-.+|||+|+ |+||+|=
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 100
>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=24.12 E-value=23 Score=31.73 Aligned_cols=26 Identities=27% Similarity=0.704 Sum_probs=16.5
Q ss_pred CCCCCcCCCccCCCCCCCCCCccCCccc
Q 002270 734 DGCPSTFHQSCLDIQMLPPGDWHCPNCT 761 (944)
Q Consensus 734 D~Cp~aFH~~CL~p~~vP~g~W~Cp~C~ 761 (944)
..|...||..|+..-. .....||.|+
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 1122688774
No 101
>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=23.06 E-value=33 Score=25.71 Aligned_cols=10 Identities=70% Similarity=1.982 Sum_probs=8.2
Q ss_pred CCCccCCccc
Q 002270 752 PGDWHCPNCT 761 (944)
Q Consensus 752 ~g~W~Cp~C~ 761 (944)
.++|.|+.|.
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 4789999886
No 102
>PLN02436 cellulose synthase A
Probab=22.96 E-value=82 Score=41.30 Aligned_cols=44 Identities=32% Similarity=0.906 Sum_probs=32.7
Q ss_pred CCCcccccCCC------C-ceeeeCCCCCcCCCccCCCCCCCCCCccCCccc
Q 002270 717 NDDTCGICGDG------G-DLICCDGCPSTFHQSCLDIQMLPPGDWHCPNCT 761 (944)
Q Consensus 717 ndd~C~VCgdg------G-dLLcCD~Cp~aFH~~CL~p~~vP~g~W~Cp~C~ 761 (944)
+...|.||+|. | -.+-|..|.=...-.|+.- ...+|.=.||.|.
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 55699999863 3 3889999977666677743 3566778899997
No 103
>COG1107 Archaea-specific RecJ-like exonuclease, contains DnaJ-type Zn finger domain [DNA replication, recombination, and repair]
Probab=22.62 E-value=73 Score=39.32 Aligned_cols=16 Identities=44% Similarity=1.225 Sum_probs=10.5
Q ss_pred CccCCccc----------ccccCCCC
Q 002270 754 DWHCPNCT----------CKFCGLAG 769 (944)
Q Consensus 754 ~W~Cp~C~----------C~iCG~~~ 769 (944)
.-.|+.|. |..|+-.+
T Consensus 53 ~~pc~~c~gkG~V~v~~~c~~c~G~g 78 (715)
T COG1107 53 EIPCPKCRGKGTVTVYDTCPECGGTG 78 (715)
T ss_pred CCCCCeeccceeEEEEeecccCCCce
Confidence 45688886 77775544
No 104
>PRK14559 putative protein serine/threonine phosphatase; Provisional
Probab=21.83 E-value=73 Score=39.65 Aligned_cols=6 Identities=50% Similarity=1.348 Sum_probs=2.6
Q ss_pred cccccC
Q 002270 720 TCGICG 725 (944)
Q Consensus 720 ~C~VCg 725 (944)
+|..|+
T Consensus 17 FC~~CG 22 (645)
T PRK14559 17 FCQKCG 22 (645)
T ss_pred cccccC
Confidence 444443
No 105
>PLN02189 cellulose synthase
Probab=21.42 E-value=85 Score=41.02 Aligned_cols=54 Identities=28% Similarity=0.675 Sum_probs=36.7
Q ss_pred CCCcccccCCC------C-ceeeeCCCCCcCCCccCCCCCCCCCCccCCccc-----ccccCCCCCC
Q 002270 717 NDDTCGICGDG------G-DLICCDGCPSTFHQSCLDIQMLPPGDWHCPNCT-----CKFCGLAGED 771 (944)
Q Consensus 717 ndd~C~VCgdg------G-dLLcCD~Cp~aFH~~CL~p~~vP~g~W~Cp~C~-----C~iCG~~~~d 771 (944)
+...|.+|+|. | -.+-|..|.=.-.-.|+.- ...+|.=.||.|. +..|.....+
T Consensus 33 ~~~~C~iCgd~vg~~~~g~~fvaC~~C~fpvCr~Cyey-er~eg~q~CpqCkt~Y~r~kgs~~v~gd 98 (1040)
T PLN02189 33 DGQVCEICGDEIGLTVDGDLFVACNECGFPVCRPCYEY-ERREGTQNCPQCKTRYKRLKGSPRVEGD 98 (1040)
T ss_pred cCccccccccccCcCCCCCEEEeeccCCCccccchhhh-hhhcCCccCcccCCchhhccCCCCcCCc
Confidence 56799999863 2 3888999976666677743 3566778899997 4445444433
No 106
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=21.05 E-value=38 Score=43.04 Aligned_cols=41 Identities=29% Similarity=0.670 Sum_probs=32.6
Q ss_pred CCCcccccCCCCceeeeC-CCCCcCCCccCCCCCCCCCCccCCcccc
Q 002270 717 NDDTCGICGDGGDLICCD-GCPSTFHQSCLDIQMLPPGDWHCPNCTC 762 (944)
Q Consensus 717 ndd~C~VCgdgGdLLcCD-~Cp~aFH~~CL~p~~vP~g~W~Cp~C~C 762 (944)
....|..|...=++..-. .|..+||+.|+. +++--||.|.-
T Consensus 839 q~skCs~C~~~LdlP~VhF~CgHsyHqhC~e-----~~~~~CP~C~~ 880 (933)
T KOG2114|consen 839 QVSKCSACEGTLDLPFVHFLCGHSYHQHCLE-----DKEDKCPKCLP 880 (933)
T ss_pred eeeeecccCCccccceeeeecccHHHHHhhc-----cCcccCCccch
Confidence 345899999877776666 499999999997 56677998863
No 107
>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=20.64 E-value=70 Score=29.27 Aligned_cols=30 Identities=23% Similarity=0.691 Sum_probs=20.0
Q ss_pred CCCcccccCCC--CceeeeCCCCCcCCCccCC
Q 002270 717 NDDTCGICGDG--GDLICCDGCPSTFHQSCLD 746 (944)
Q Consensus 717 ndd~C~VCgdg--GdLLcCD~Cp~aFH~~CL~ 746 (944)
.+..|.+|+.. .....---|+..||..|..
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 35689999862 2333333466899999974
No 108
>KOG0269 consensus WD40 repeat-containing protein [Function unknown]
Probab=20.61 E-value=41 Score=42.29 Aligned_cols=41 Identities=22% Similarity=0.616 Sum_probs=30.5
Q ss_pred CCCCCccCCccc------ccccCCCCCCCCCCCCCCCcceecCccchhhhhcccccc
Q 002270 750 LPPGDWHCPNCT------CKFCGLAGEDDAEGDDTTTSALLPCAMCEKKYHKLCMQE 800 (944)
Q Consensus 750 vP~g~W~Cp~C~------C~iCG~~~~ds~eed~~s~~~Ll~CdqCeR~YHv~CL~p 800 (944)
+-.+.|+|..|. |.+|+..-. +..+.|.+|+..=|..|+..
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 334449999886 888864432 34689999999999999874
No 109
>PTZ00399 cysteinyl-tRNA-synthetase; Provisional
Probab=20.04 E-value=2.5e+02 Score=35.19 Aligned_cols=40 Identities=23% Similarity=0.530 Sum_probs=28.7
Q ss_pred HHHHHHHHH-HHHhcCeeeeeccCCCCCcccceeeCCCCceeeehHHHHHHHHHHh
Q 002270 393 QKLRERIRG-MLVEAGWTIDYRPRKNRDYLDAVYINPTGTAYWSIIKAYDALTKQL 447 (944)
Q Consensus 393 q~~~~~i~~-~l~~agwtid~rpr~~r~y~d~vy~~p~g~~~wsi~kay~~~~~~~ 447 (944)
=.+.|+||+ .|.+.|+.|+=+ |.|++.|...-+ +.|+++.
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 567777876543 3454443
Done!