Query 003510
Match_columns 814
No_of_seqs 625 out of 2787
Neff 7.8
Searched_HMMs 46136
Date Fri Mar 29 00:48:32 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/003510.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/003510hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1080 Histone H3 (Lys4) meth 100.0 3E-65 6.5E-70 602.2 26.2 506 255-790 480-1005(1005)
2 KOG0956 PHD finger protein AF1 100.0 4.2E-40 9.1E-45 359.8 5.0 168 351-532 6-182 (900)
3 KOG0954 PHD finger protein [Ge 100.0 4E-39 8.6E-44 355.5 6.5 208 301-534 232-440 (893)
4 COG5141 PHD zinc finger-contai 100.0 2.2E-38 4.8E-43 334.8 6.1 192 335-537 177-369 (669)
5 KOG4442 Clathrin coat binding 100.0 1.1E-36 2.4E-41 337.7 14.7 164 635-799 105-269 (729)
6 KOG0955 PHD finger protein BR1 100.0 2.6E-36 5.5E-41 356.9 8.7 178 349-533 218-396 (1051)
7 KOG0957 PHD finger protein [Ge 100.0 2.6E-31 5.7E-36 281.7 5.5 169 351-534 120-302 (707)
8 KOG1079 Transcriptional repres 99.9 7.3E-28 1.6E-32 265.8 9.8 167 601-772 532-713 (739)
9 PF13832 zf-HC5HC2H_2: PHD-zin 99.9 2.7E-25 5.9E-30 204.3 6.5 109 408-530 2-110 (110)
10 cd05834 HDGF_related The PWWP 99.9 2.4E-24 5.1E-29 185.4 8.0 81 35-124 2-82 (83)
11 cd05836 N_Pac_NP60 The PWWP do 99.9 2.1E-24 4.6E-29 187.2 7.3 86 36-126 1-86 (86)
12 cd05840 SPBC215_ISWI_like The 99.9 1.8E-23 3.9E-28 183.8 6.6 88 36-124 1-92 (93)
13 cd05838 WHSC1_related The PWWP 99.9 3E-23 6.6E-28 183.7 7.8 91 36-127 1-93 (95)
14 KOG1082 Histone H3 (Lys9) meth 99.9 3E-23 6.5E-28 229.6 8.1 160 635-794 161-358 (364)
15 cd05835 Dnmt3b_related The PWW 99.9 8.1E-23 1.8E-27 178.2 6.4 84 36-125 1-86 (87)
16 smart00317 SET SET (Su(var)3-9 99.9 9.7E-22 2.1E-26 181.7 13.7 115 652-767 2-116 (116)
17 cd05841 BS69_related The PWWP 99.9 1.3E-22 2.7E-27 172.2 6.9 75 36-124 7-82 (83)
18 cd05162 PWWP The PWWP domain, 99.9 1.9E-22 4.1E-27 177.1 8.1 86 36-124 1-86 (87)
19 PF00855 PWWP: PWWP domain; I 99.8 8.4E-22 1.8E-26 172.9 3.9 84 36-125 1-86 (86)
20 smart00293 PWWP domain with co 99.8 7.5E-21 1.6E-25 155.7 6.4 63 36-99 1-63 (63)
21 KOG1085 Predicted methyltransf 99.8 9.5E-20 2E-24 182.8 9.9 121 649-770 255-379 (392)
22 cd05837 MSH6_like The PWWP dom 99.8 1.4E-19 3E-24 165.0 8.1 67 35-101 2-70 (110)
23 KOG1083 Putative transcription 99.8 2.4E-20 5.2E-25 213.8 3.5 133 639-773 1166-1299(1306)
24 cd06080 MUM1_like Mutated mela 99.7 7.5E-18 1.6E-22 142.3 5.8 76 36-123 1-77 (80)
25 cd05839 BR140_related The PWWP 99.7 1.7E-17 3.7E-22 148.7 7.6 88 36-123 1-105 (111)
26 PF05964 FYRN: F/Y-rich N-term 99.7 9.3E-18 2E-22 132.2 4.9 54 184-237 1-54 (54)
27 PF13771 zf-HC5HC2H: PHD-like 99.6 1.5E-16 3.2E-21 140.9 4.2 88 429-531 1-90 (90)
28 PF05965 FYRC: F/Y rich C-term 99.6 2.8E-16 6E-21 137.5 4.6 80 244-328 3-84 (86)
29 smart00542 FYRC "FY-rich" doma 99.6 4.4E-16 9.5E-21 135.4 5.6 80 246-330 1-82 (86)
30 COG2940 Proteins containing SE 99.6 2E-16 4.4E-21 182.0 1.3 140 649-790 331-480 (480)
31 KOG1141 Predicted histone meth 99.5 1.2E-14 2.7E-19 163.1 6.4 76 714-789 1179-1261(1262)
32 KOG1904 Transcription coactiva 99.5 1.7E-14 3.6E-19 160.3 6.8 89 33-128 10-100 (496)
33 PF00856 SET: SET domain; Int 99.4 1.8E-13 3.9E-18 133.2 7.5 108 661-768 1-162 (162)
34 smart00541 FYRN "FY-rich" doma 99.4 3.6E-13 7.8E-18 100.6 4.4 41 195-235 2-42 (44)
35 PF13831 PHD_2: PHD-finger; PD 99.2 4.7E-12 1E-16 90.5 0.5 36 364-399 1-36 (36)
36 KOG2589 Histone tail methylase 98.9 1.2E-09 2.7E-14 114.3 5.7 115 659-781 136-251 (453)
37 KOG1081 Transcription factor N 98.8 1E-09 2.2E-14 124.3 1.9 125 665-796 319-443 (463)
38 PF00628 PHD: PHD-finger; Int 97.7 1.1E-05 2.4E-10 63.0 0.6 45 352-399 1-49 (51)
39 smart00249 PHD PHD zinc finger 97.6 5E-05 1.1E-09 57.7 3.2 45 352-398 1-47 (47)
40 KOG2461 Transcription factor B 97.6 6.1E-05 1.3E-09 83.8 4.7 110 648-771 26-146 (396)
41 KOG4323 Polycomb-like PHD Zn-f 97.2 0.00033 7.2E-09 78.0 4.4 117 350-495 83-203 (464)
42 KOG4323 Polycomb-like PHD Zn-f 97.0 0.00043 9.4E-09 77.1 3.2 52 351-402 169-225 (464)
43 KOG1084 Transcription factor T 97.0 0.00037 8E-09 77.4 2.2 114 376-497 192-306 (375)
44 PF15446 zf-PHD-like: PHD/FYVE 96.8 0.001 2.2E-08 63.8 3.8 69 352-420 1-85 (175)
45 KOG1081 Transcription factor N 96.8 0.00052 1.1E-08 78.4 2.2 56 33-98 133-188 (463)
46 KOG1244 Predicted transcriptio 96.6 0.00088 1.9E-08 68.3 1.8 50 349-401 280-331 (336)
47 KOG1512 PHD Zn-finger protein 96.5 0.0007 1.5E-08 69.4 0.1 58 336-396 300-357 (381)
48 smart00508 PostSET Cysteine-ri 96.3 0.0019 4.1E-08 42.4 1.4 19 775-793 2-20 (26)
49 KOG0825 PHD Zn-finger protein 94.7 0.015 3.3E-07 67.4 1.8 49 349-400 214-265 (1134)
50 KOG4299 PHD Zn-finger protein 94.1 0.018 3.9E-07 66.0 0.8 48 351-401 254-305 (613)
51 COG5034 TNG2 Chromatin remodel 93.0 0.064 1.4E-06 54.9 2.5 52 344-400 215-269 (271)
52 PF14446 Prok-RING_1: Prokaryo 92.9 0.067 1.5E-06 41.8 1.9 33 349-382 4-36 (54)
53 KOG1973 Chromatin remodeling p 92.8 0.061 1.3E-06 57.6 2.2 37 365-402 230-269 (274)
54 PF08169 RBB1NT: RBB1NT (NUC16 92.3 0.23 5E-06 43.7 4.7 85 38-132 8-94 (96)
55 PF11717 Tudor-knot: RNA bindi 91.7 0.19 4.2E-06 39.8 3.3 52 36-96 1-54 (55)
56 smart00249 PHD PHD zinc finger 90.7 0.14 2.9E-06 38.4 1.5 30 464-495 1-32 (47)
57 smart00743 Agenet Tudor-like d 90.0 0.38 8.3E-06 38.8 3.7 53 35-99 2-57 (61)
58 smart00333 TUDOR Tudor domain. 89.4 0.5 1.1E-05 37.4 3.9 54 35-100 2-55 (57)
59 KOG1141 Predicted histone meth 88.5 0.45 9.7E-06 56.1 4.1 57 636-692 785-841 (1262)
60 KOG0383 Predicted helicase [Ge 88.4 0.2 4.4E-06 59.5 1.3 49 346-400 43-93 (696)
61 PF15057 DUF4537: Domain of un 87.2 0.79 1.7E-05 42.9 4.3 72 19-100 41-114 (124)
62 PF00628 PHD: PHD-finger; Int 85.4 0.41 8.9E-06 37.0 1.2 29 465-495 2-32 (51)
63 KOG0957 PHD finger protein [Ge 84.8 0.71 1.5E-05 51.5 3.0 48 349-398 543-595 (707)
64 KOG1473 Nucleosome remodeling 84.0 0.95 2.1E-05 55.4 3.8 110 351-493 345-458 (1414)
65 PF07649 C1_3: C1-like domain; 83.3 0.5 1.1E-05 32.4 0.7 28 352-381 2-29 (30)
66 KOG1044 Actin-binding LIM Zn-f 83.1 0.46 9.9E-06 54.1 0.7 38 457-498 187-225 (670)
67 KOG1512 PHD Zn-finger protein 82.7 0.75 1.6E-05 47.8 2.0 49 351-399 259-315 (381)
68 KOG2084 Predicted histone tail 82.1 2.1 4.5E-05 49.5 5.7 40 727-770 208-248 (482)
69 cd04508 TUDOR Tudor domains ar 80.9 1.8 4E-05 32.8 3.2 47 39-97 1-48 (48)
70 PF00130 C1_1: Phorbol esters/ 80.2 1.7 3.7E-05 33.9 2.9 36 350-385 11-46 (53)
71 KOG1973 Chromatin remodeling p 79.8 0.82 1.8E-05 49.0 1.2 29 464-492 221-250 (274)
72 PF03107 C1_2: C1 domain; Int 77.8 1.6 3.4E-05 30.0 1.7 28 352-381 2-29 (30)
73 cd00029 C1 Protein kinase C co 77.7 1.1 2.4E-05 34.2 1.1 34 351-384 12-45 (50)
74 PF11793 FANCL_C: FANCL C-term 76.7 1.7 3.7E-05 36.3 2.0 33 351-383 3-38 (70)
75 KOG1245 Chromatin remodeling c 75.6 0.74 1.6E-05 59.5 -0.7 50 350-402 1108-1159(1404)
76 KOG1244 Predicted transcriptio 71.5 2.3 4.9E-05 44.2 1.8 50 351-400 225-283 (336)
77 KOG1337 N-methyltransferase [G 71.2 2.8 6E-05 48.8 2.7 40 727-769 239-278 (472)
78 smart00109 C1 Protein kinase C 70.1 1.9 4.1E-05 32.6 0.7 33 350-383 11-43 (49)
79 PF02318 FYVE_2: FYVE-type zin 66.9 4.5 9.8E-05 37.5 2.6 49 350-400 54-102 (118)
80 PF05502 Dynactin_p62: Dynacti 65.0 4.6 9.9E-05 46.9 2.7 82 366-470 4-94 (483)
81 PF14569 zf-UDP: Zinc-binding 62.3 3.5 7.6E-05 34.7 0.8 49 350-400 9-59 (80)
82 PHA02862 5L protein; Provision 61.1 3.1 6.8E-05 39.3 0.4 50 351-416 3-52 (156)
83 PF11764 N-SET: COMPASS (Compl 60.1 2.2 4.8E-05 42.2 -0.8 16 557-572 78-93 (167)
84 PF13901 DUF4206: Domain of un 59.8 6.1 0.00013 40.4 2.3 42 351-400 153-197 (202)
85 COG5475 Uncharacterized small 56.2 26 0.00056 27.6 4.5 51 35-100 4-56 (60)
86 KOG4443 Putative transcription 55.5 5.8 0.00013 46.4 1.4 46 351-399 69-116 (694)
87 COG5034 TNG2 Chromatin remodel 55.3 9.1 0.0002 39.7 2.6 40 453-492 211-252 (271)
88 PF08746 zf-RING-like: RING-li 54.8 5.7 0.00012 29.8 0.8 30 465-494 1-30 (43)
89 PF14446 Prok-RING_1: Prokaryo 53.8 11 0.00023 29.8 2.2 35 463-499 6-43 (54)
90 cd04718 BAH_plant_2 BAH, or Br 53.6 8.7 0.00019 36.9 2.0 26 376-402 1-28 (148)
91 KOG4443 Putative transcription 53.1 5.2 0.00011 46.8 0.5 48 351-399 19-69 (694)
92 PF12906 RINGv: RING-variant d 51.7 4.9 0.00011 30.8 -0.0 30 353-383 1-33 (47)
93 PF10447 EXOSC1: Exosome compo 51.1 11 0.00024 32.5 2.1 13 34-46 67-79 (82)
94 KOG2041 WD40 repeat protein [G 51.0 11 0.00024 44.4 2.7 75 335-414 1103-1182(1189)
95 PLN00104 MYST -like histone ac 50.4 21 0.00046 40.6 4.7 60 32-96 50-112 (450)
96 PF07649 C1_3: C1-like domain; 49.7 7.9 0.00017 26.4 0.8 27 464-492 2-30 (30)
97 PF09926 DUF2158: Uncharacteri 49.6 33 0.00071 27.0 4.3 41 36-86 1-41 (53)
98 KOG3799 Rab3 effector RIM1 and 49.5 8.2 0.00018 35.9 1.1 52 348-400 63-115 (169)
99 PLN02400 cellulose synthase 49.0 14 0.00031 46.2 3.3 50 350-401 36-87 (1085)
100 cd04712 BAH_DCM_I BAH, or Brom 48.7 17 0.00037 34.3 3.2 49 33-86 3-60 (130)
101 KOG0955 PHD finger protein BR1 45.7 16 0.00035 45.9 3.1 64 36-99 943-1025(1051)
102 PLN02638 cellulose synthase A 42.8 17 0.00038 45.5 2.8 50 350-401 17-68 (1079)
103 PLN02436 cellulose synthase A 41.8 19 0.00041 45.1 2.9 50 350-401 36-87 (1094)
104 PF07227 DUF1423: Protein of u 41.6 13 0.00027 42.0 1.3 13 424-436 152-164 (446)
105 PF10080 DUF2318: Predicted me 40.4 13 0.00028 33.5 0.9 33 351-383 36-68 (102)
106 COG5194 APC11 Component of SCF 40.3 9.8 0.00021 32.2 0.1 32 463-494 21-65 (88)
107 PF13639 zf-RING_2: Ring finge 39.3 14 0.0003 27.5 0.8 31 351-383 1-31 (44)
108 PF11781 RRN7: RNA polymerase 39.1 21 0.00045 25.7 1.6 26 351-376 9-34 (36)
109 smart00744 RINGv The RING-vari 38.3 13 0.00029 28.6 0.6 31 352-383 1-34 (49)
110 smart00547 ZnF_RBZ Zinc finger 37.5 19 0.0004 23.5 1.1 23 392-414 2-24 (26)
111 KOG0825 PHD Zn-finger protein 36.9 15 0.00033 43.7 1.0 30 463-494 216-248 (1134)
112 PF08666 SAF: SAF domain; Int 36.5 22 0.00048 28.4 1.7 16 750-765 3-18 (63)
113 PLN02915 cellulose synthase A 36.1 21 0.00045 44.6 2.0 49 350-400 15-65 (1044)
114 PLN02195 cellulose synthase A 34.6 23 0.00049 44.0 2.0 48 351-400 7-56 (977)
115 PF05641 Agenet: Agenet domain 34.3 41 0.00088 27.8 2.9 52 36-99 1-64 (68)
116 PLN02189 cellulose synthase 34.1 23 0.00051 44.2 2.0 50 350-401 34-85 (1040)
117 PF12773 DZR: Double zinc ribb 33.1 36 0.00077 26.0 2.2 38 367-412 12-49 (50)
118 PF11793 FANCL_C: FANCL C-term 32.2 20 0.00043 29.9 0.7 32 463-494 3-39 (70)
119 KOG0954 PHD finger protein [Ge 31.8 29 0.00063 41.3 2.2 34 464-499 325-359 (893)
120 cd04370 BAH BAH, or Bromo Adja 31.3 52 0.0011 29.9 3.5 43 34-84 2-48 (123)
121 PF00641 zf-RanBP: Zn-finger i 31.0 14 0.00031 25.1 -0.3 24 391-414 3-26 (30)
122 PF07227 DUF1423: Protein of u 31.0 35 0.00076 38.6 2.6 31 352-382 130-161 (446)
123 PF12861 zf-Apc11: Anaphase-pr 29.8 27 0.00059 30.3 1.2 34 349-383 20-62 (85)
124 PF13771 zf-HC5HC2H: PHD-like 29.8 42 0.00092 29.0 2.5 35 406-440 36-73 (90)
125 KOG0782 Predicted diacylglycer 29.8 15 0.00033 42.1 -0.5 20 367-386 199-218 (1004)
126 PF02452 PemK: PemK-like prote 29.7 93 0.002 27.6 4.8 68 37-104 1-88 (110)
127 KOG0696 Serine/threonine prote 29.6 22 0.00047 39.8 0.6 85 349-442 55-162 (683)
128 KOG3409 Exosomal 3'-5' exoribo 29.6 32 0.00069 33.7 1.7 14 33-46 120-133 (193)
129 KOG0383 Predicted helicase [Ge 29.6 28 0.00062 41.9 1.7 31 463-496 48-78 (696)
130 KOG4299 PHD Zn-finger protein 29.2 19 0.00042 42.1 0.2 46 350-400 47-94 (613)
131 PF11302 DUF3104: Protein of u 27.9 1.4E+02 0.003 25.3 4.9 57 36-97 6-69 (75)
132 PF13832 zf-HC5HC2H_2: PHD-zin 27.8 34 0.00073 31.0 1.5 29 350-382 55-85 (110)
133 smart00109 C1 Protein kinase C 26.7 33 0.00071 25.6 1.0 32 463-496 12-46 (49)
134 KOG2807 RNA polymerase II tran 24.5 42 0.00092 36.2 1.7 88 387-494 271-362 (378)
135 PF10367 Vps39_2: Vacuolar sor 24.4 54 0.0012 29.2 2.2 31 349-382 77-107 (109)
136 PF04810 zf-Sec23_Sec24: Sec23 23.8 43 0.00093 24.6 1.1 31 367-400 2-32 (40)
137 cd05791 S1_CSL4 S1_CSL4: CSL4, 23.5 48 0.001 29.2 1.6 16 35-50 60-75 (92)
138 KOG4477 RING1 interactor RYBP 23.5 38 0.00082 33.4 1.0 32 390-421 22-53 (228)
139 PF10367 Vps39_2: Vacuolar sor 23.4 33 0.00071 30.7 0.6 31 463-494 79-109 (109)
140 PF09465 LBR_tudor: Lamin-B re 22.8 1.2E+02 0.0026 24.1 3.4 25 34-58 4-29 (55)
141 cd04721 BAH_plant_1 BAH, or Br 22.8 86 0.0019 29.6 3.3 52 33-92 5-58 (130)
142 cd00029 C1 Protein kinase C co 22.7 47 0.001 25.0 1.2 32 463-496 12-47 (50)
143 COG5175 MOT2 Transcriptional r 22.6 28 0.00061 37.5 -0.1 51 346-400 10-61 (480)
144 KOG2752 Uncharacterized conser 22.2 1E+02 0.0023 33.2 4.0 113 351-497 56-169 (345)
145 KOG1844 PHD Zn-finger proteins 21.9 53 0.0011 38.5 2.0 49 351-401 87-135 (508)
146 PF08274 PhnA_Zn_Ribbon: PhnA 21.6 42 0.0009 23.2 0.6 24 351-374 3-26 (30)
147 KOG3268 Predicted E3 ubiquitin 21.4 25 0.00055 34.3 -0.6 36 348-383 163-200 (234)
No 1
>KOG1080 consensus Histone H3 (Lys4) methyltransferase complex, subunit SET1 and related methyltransferases [Chromatin structure and dynamics; Transcription]
Probab=100.00 E-value=3e-65 Score=602.17 Aligned_cols=506 Identities=35% Similarity=0.624 Sum_probs=379.7
Q ss_pred CceecCChhHHHHHHHHHHHhhccCCCCccccccccccccccCccccCCCcHHHHHHHhhcCCCCCCCchhhhhccc-cc
Q 003510 255 EQFTGSTPSTCWSKICMKIREGQNNTSDDFSAEGAAEKISESGSDMFGFSNPEVMKLILGLTKSRPTSKSSLCKLTS-KY 333 (814)
Q Consensus 255 ~~~~~~s~~~~W~~i~k~i~~~~~~~~~~~~~~~~~~~~~~sG~~~FGls~p~v~~li~~Lp~a~~~~k~~~~k~~~-~~ 333 (814)
..+-..++..+|...+....+.....+..... .....-++..+|++........+........-+....++-.. ..
T Consensus 480 ~~~~~~~~~~~~k~~~~e~~k~~~~~~~~~k~---~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~p~s~~~~~~~s~~~~ 556 (1005)
T KOG1080|consen 480 RVFHMLRYSVKKKKFLSEWERHTGATAKIWKD---SSRVKDELLPLPKWVESRGRSIMNTYNSEKPKSIVLMGKTSVQRM 556 (1005)
T ss_pred eeecccCcchhhhhcccchhhhhccccccccc---ccccccccccchhhhhhccccccccccccCCcchhhhccchhhhh
Confidence 34778889999999988887766665433222 112234666777777777655566555555544444443333 23
Q ss_pred cCCCCCCCCccccccCCCccccccCCcccCCCceEEccccccccccccccccccCCCCceeeccccCCCCCCCCCceecC
Q 003510 334 RDLPGGYRPVRVDWKDLDKCSVCHMDEEYQNNLFLQCDKCRMMVHARCYGELEPVNGVLWLCNLCRPGAPEPPPPCCLCP 413 (814)
Q Consensus 334 ~~lp~~~~~~~~~~~~~~~C~VC~~~~~~~~n~iv~C~~C~~~vH~~CYg~~~~~~~~~W~C~~C~~~~~~~~~~C~lC~ 413 (814)
+..+..+.+....|.+.+.|.+|.+.+.+..|.++.|+.|+..||+.|||...++.+..|+|+.|... .....|+||+
T Consensus 557 ~~~~~~~~~~~l~~~~t~~c~~~~~~~~~~~n~~~~~~~~~~~~~s~~~g~~~~~~~~~~~~~~~~~~--~~~r~~~l~~ 634 (1005)
T KOG1080|consen 557 LLELIEKREPRLSKWTTERCAVCRDDEDWEKNVSIICDRCTRSVHSECYGNLKSYDGTSWVCDSCETL--DIKRSCCLCP 634 (1005)
T ss_pred cCcccccchhhhcCCCcccccccccccccccceeeeeccccccCCCcccccCCCCCCCcchhhccccc--cCCchhhhcc
Confidence 44455566677777777899999999999999999999999999999999999999999999999964 4457899999
Q ss_pred CCCCCceecCCCcchhhhhhccccceEEccCCCcccccccccchhcccCccceeeCCccceeEecCCCCcCcccchhhHh
Q 003510 414 VVGGAMKPTTDGRWAHLACAIWIPETCLTDVKRMEPIDGLNRVSKDRWKLLCSICGVSYGACIQCSNTTCRVAYHPLCAR 493 (814)
Q Consensus 414 ~~~Galk~t~~~~WvH~~Ca~~~pe~~~~~~~~~~~v~~~~~~~~~~~~~~C~~C~~~~Ga~iqC~~~~C~~~fH~~CA~ 493 (814)
.+||||++++.|+|+|+-||.|.|++.+.++..|+|..++..++...+...|.+ .|.|.||. .|...||.+||.
T Consensus 635 ~~g~al~p~d~gr~~~~e~a~~~~e~~~~~~~~~~p~~~~~~~p~~~~~~~~~~----~~~~~~~~--~~~~~~~~~~a~ 708 (1005)
T KOG1080|consen 635 VKGGALKPTDEGRWVHVECAWFRPEVCLASPERMEPAVGTFKIPALSFLKICFI----HGSCRQCC--KCETGSHAMCAS 708 (1005)
T ss_pred ccCcccCCCCccchhhhhchhccccccCCCccCCCCcccccccCccchhhhccc----cccccccc--hhhhcceehhhc
Confidence 999999999999999999999999999999999999999999999998888888 68899998 999999999999
Q ss_pred hcCceEEeeccccc----------------cccccCCCcccccccccccccccCCCCcchhhhhhhhhhhhccccCCCCC
Q 003510 494 AAGLCVELEDEDRL----------------NLLSLDEDDEDQCIRLLSFCKKHKQPLNDRLAVDERLVQVTRRCCDYIPP 557 (814)
Q Consensus 494 ~~g~~~~~~~~~~~----------------~~~~~~~~~~~~~~~~~~~C~~H~~~~~~~~~~~~~~~~~~~~~s~~~p~ 557 (814)
.+|+.++...-... .++.++........+..+++.+|+....... +.. .++.+
T Consensus 709 ~~~~~~~~~~l~~~~~~~~~~~~~~~~~~d~~l~~~~~~~~~~~~~~~~~k~~~~~g~~~~-~~~---------~~~~~- 777 (1005)
T KOG1080|consen 709 RAGYIMEAVSLEEVSQQTTSYVKEDGPGPDSVLKVNTPSGKFGAENLSQNKKSRTDGVRLV-LTY---------KEYAP- 777 (1005)
T ss_pred CccChhhhhhhhhhhhhhhhhhhhccCCcccceeecCccccccccchhhhhhccccccccc-ccc---------ccccc-
Confidence 99987654321111 0111111111111222233333332111100 000 11112
Q ss_pred CCCCcccccCccccc--ccCCCCchhHHHHhhcccccccCCcccccccccCCCCCCCCCcccccccccccccccCCCCcc
Q 003510 558 SNPSGCARSEPYNYF--GRRGRKEPEALAAASLKRLFVENQPYLVGGYCQNGLSGNTLPSIRVIGSKFSFSLHRDAPNFL 635 (814)
Q Consensus 558 ~npsGcaRsEp~~~~--~rr~rk~p~~~~~a~~kr~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 635 (814)
-+.-|+|.+|++.+ ....+..+...+.+..+++..++.++..++..++.+.... +..+..++.+ -..+...
T Consensus 778 -~~~~~~~~~~~~~~~~~s~~~~~~~~r~~~~~~~~~~~s~~~~~s~~~s~~~s~~~----rl~q~rl~a~--~~~~~~~ 850 (1005)
T KOG1080|consen 778 -LREIKSRAEPLNRIDFSSEARCRSESRSDNSKSPLAEESESDITSGGSSHDLSAEE----RLNQFRLSAS--FTASFIL 850 (1005)
T ss_pred -cccchhcccCCcccCccccccccchhhcccccccccccccccccccccccchhHHh----hhHHHHhhhh--ccccccc
Confidence 22346777887653 2223333344455556677777888777666666543211 1111111111 1223456
Q ss_pred chhhhhHHHhhcccee-EEEEEecccCeeEEeeecCCCCCeEEeecCcccCHhHHhhhHHHHhhcccCCceeEEEcCCce
Q 003510 636 SMADKYKHMKETFRKR-LAFGKSGIHGFGIFAKHPHRAGDMVIEYTGELVRPSIADRREHFIYNSLVGAGTYMFRIDDER 714 (814)
Q Consensus 636 ~~~~~~~~l~~~~~~~-~~v~~s~~~G~GvfA~~~i~~G~~I~ey~Gevi~~~~~~~r~~~~~~~~~~~~~y~~~~~~~~ 714 (814)
.+++.++.++..++++ |.|++|.||||||||+++|.+||||+||+||+|++.+++.||.+ |......++|+|++|++.
T Consensus 851 ~~~~~~~~~~~~~rkk~~~F~~s~iH~wglfa~~~i~~~dmViEY~Ge~vR~~iad~RE~~-Y~~~gi~~sYlfrid~~~ 929 (1005)
T KOG1080|consen 851 DEAEVLRYNQLKFRKKYVKFGRSGIHGWGLFAMENIAAGDMVIEYRGELVRSSIADLREAR-YERMGIGDSYLFRIDDEV 929 (1005)
T ss_pred chHHHHHHHHHhhhhhhhccccccccccceeeccCccccceEEEeeceehhhhHHHHHHHH-HhccCcccceeeecccce
Confidence 7788888888888755 99999999999999999999999999999999999999999985 777655789999999999
Q ss_pred EEeccccCCccccccCCCCCCeeEEEEEECCeeEEEEEEcCCCCCCCeeeEeCCCCCCCCCeeeeeCCCCCccccC
Q 003510 715 VIDATRAGSIAHLINHSCEPNCYSRVISVNGDEHIIIFAKRDIKQWEELTYDYRFFSIDEQLACYCGFPRCRGVVN 790 (814)
Q Consensus 715 ~iDa~~~gn~aRfiNHSC~PN~~~~~~~~~~~~~i~i~A~rdI~~GEELt~dY~~~~~~~~~~C~Cg~~~Cr~~~~ 790 (814)
|||||.+||+||||||||+|||+++++.|+|..+|+|||.|+|.+||||||||.|+.++++++|+||+++|||+||
T Consensus 930 ViDAtk~gniAr~InHsC~PNCyakvi~V~g~~~IvIyakr~I~~~EElTYDYkF~~e~~kipClCgap~Crg~~n 1005 (1005)
T KOG1080|consen 930 VVDATKKGNIARFINHSCNPNCYAKVITVEGDKRIVIYSKRDIAAGEELTYDYKFPTEDDKIPCLCGAPNCRGFLN 1005 (1005)
T ss_pred EEeccccCchhheeecccCCCceeeEEEecCeeEEEEEEecccccCceeeeeccccccccccccccCCCccccccC
Confidence 9999999999999999999999999999999999999999999999999999999999999999999999999987
No 2
>KOG0956 consensus PHD finger protein AF10 [General function prediction only]
Probab=100.00 E-value=4.2e-40 Score=359.80 Aligned_cols=168 Identities=37% Similarity=0.831 Sum_probs=152.8
Q ss_pred CccccccCCcccCCCceEEccc--cccccccccccccccCCCCceeeccccCCCCCCCCCceecCCCCCCceecCCCcch
Q 003510 351 DKCSVCHMDEEYQNNLFLQCDK--CRMMVHARCYGELEPVNGVLWLCNLCRPGAPEPPPPCCLCPVVGGAMKPTTDGRWA 428 (814)
Q Consensus 351 ~~C~VC~~~~~~~~n~iv~C~~--C~~~vH~~CYg~~~~~~~~~W~C~~C~~~~~~~~~~C~lC~~~~Galk~t~~~~Wv 428 (814)
.-|+||-+...|..|+||+||+ |.++|||.||||..+|.| +|||++|+.......+.|.|||.++||||+|++|.|+
T Consensus 6 GGCCVCSDErGWaeNPLVYCDG~nCsVAVHQaCYGIvqVPtG-pWfCrKCesqeraarvrCeLCP~kdGALKkTDn~GWA 84 (900)
T KOG0956|consen 6 GGCCVCSDERGWAENPLVYCDGHNCSVAVHQACYGIVQVPTG-PWFCRKCESQERAARVRCELCPHKDGALKKTDNGGWA 84 (900)
T ss_pred cceeeecCcCCCccCceeeecCCCceeeeehhcceeEecCCC-chhhhhhhhhhhhccceeecccCcccceecccCCCce
Confidence 3699999988999999999995 999999999999999988 9999999987666678999999999999999999999
Q ss_pred hhhhhccccceEEccCCCcccccccccchhcccCccceeeCC-------ccceeEecCCCCcCcccchhhHhhcCceEEe
Q 003510 429 HLACAIWIPETCLTDVKRMEPIDGLNRVSKDRWKLLCSICGV-------SYGACIQCSNTTCRVAYHPLCARAAGLCVEL 501 (814)
Q Consensus 429 H~~Ca~~~pe~~~~~~~~~~~v~~~~~~~~~~~~~~C~~C~~-------~~Ga~iqC~~~~C~~~fH~~CA~~~g~~~~~ 501 (814)
||+|||+||||.|.++..||||. +..+|.+||+.+|+||+. ..|||++|...+|+++|||+||+++|+..|.
T Consensus 85 HVVCALYIPEVrFgNV~TMEPIi-Lq~VP~dRfnKtCYIC~E~GrpnkA~~GACMtCNKs~CkqaFHVTCAQ~~GLLCEE 163 (900)
T KOG0956|consen 85 HVVCALYIPEVRFGNVHTMEPII-LQDVPHDRFNKTCYICNEEGRPNKAAKGACMTCNKSGCKQAFHVTCAQRAGLLCEE 163 (900)
T ss_pred EEEEEeeccceeeccccccccee-eccCchhhhcceeeeecccCCccccccccceecccccchhhhhhhHhhhhccceec
Confidence 99999999999999999999998 999999999999999985 4799999999999999999999999999886
Q ss_pred eccccccccccCCCcccccccccccccccCC
Q 003510 502 EDEDRLNLLSLDEDDEDQCIRLLSFCKKHKQ 532 (814)
Q Consensus 502 ~~~~~~~~~~~~~~~~~~~~~~~~~C~~H~~ 532 (814)
+.. ...++++--||+.|..
T Consensus 164 ~gn------------~~dNVKYCGYCk~Hfs 182 (900)
T KOG0956|consen 164 EGN------------ISDNVKYCGYCKYHFS 182 (900)
T ss_pred ccc------------ccccceechhHHHHHH
Confidence 532 1234566779999954
No 3
>KOG0954 consensus PHD finger protein [General function prediction only]
Probab=100.00 E-value=4e-39 Score=355.47 Aligned_cols=208 Identities=38% Similarity=0.831 Sum_probs=173.8
Q ss_pred cCCCcHHHHHHHhhcCCCCCCCchhhhhccccccCCCCCCCCccccccCCCccccccCCcccCCCceEEccccccccccc
Q 003510 301 FGFSNPEVMKLILGLTKSRPTSKSSLCKLTSKYRDLPGGYRPVRVDWKDLDKCSVCHMDEEYQNNLFLQCDKCRMMVHAR 380 (814)
Q Consensus 301 FGls~p~v~~li~~Lp~a~~~~k~~~~k~~~~~~~lp~~~~~~~~~~~~~~~C~VC~~~~~~~~n~iv~C~~C~~~vH~~ 380 (814)
|-+...+..++|+.|.. .|-| +.......++..+ +..+++..|+||..+++++.|+||+||.|++.|||.
T Consensus 232 ~~l~~~~~eRiieelE~--~c~k---qi~~~l~~eeglg-----ie~dedviCDvCrspD~e~~neMVfCd~Cn~cVHqa 301 (893)
T KOG0954|consen 232 LELDEGTFERIIEELER--RCKK---QINHALETEEGLG-----IEYDEDVICDVCRSPDSEEANEMVFCDKCNICVHQA 301 (893)
T ss_pred cccchHHHHHHHHHHHH--HHHH---HHHhhhhhcccce-----eeccccceeceecCCCccccceeEEeccchhHHHHh
Confidence 34556666777777652 2211 2222232344443 445678999999999999999999999999999999
Q ss_pred cccccccCCCCceeeccccCCCCCCCCCceecCCCCCCceecCCC-cchhhhhhccccceEEccCCCcccccccccchhc
Q 003510 381 CYGELEPVNGVLWLCNLCRPGAPEPPPPCCLCPVVGGAMKPTTDG-RWAHLACAIWIPETCLTDVKRMEPIDGLNRVSKD 459 (814)
Q Consensus 381 CYg~~~~~~~~~W~C~~C~~~~~~~~~~C~lC~~~~Galk~t~~~-~WvH~~Ca~~~pe~~~~~~~~~~~v~~~~~~~~~ 459 (814)
|||+...|++ +|+|+.|..+ ..+.|+|||.+||+||++..| +|+|+.||||+||++|.+++.|+||..++.|+..
T Consensus 302 CyGIle~p~g-pWlCr~Calg---~~ppCvLCPkkGGamK~~~sgT~wAHvsCALwIPEVsie~~ekmePItkfs~Ipes 377 (893)
T KOG0954|consen 302 CYGILEVPEG-PWLCRTCALG---IEPPCVLCPKKGGAMKPTKSGTKWAHVSCALWIPEVSIECPEKMEPITKFSHIPES 377 (893)
T ss_pred hhceeecCCC-Ceeehhcccc---CCCCeeeccccCCcccccCCCCeeeEeeeeeccceeeccCHhhcCcccccCCCcHH
Confidence 9999998886 9999999987 468999999999999999866 6999999999999999999999999999999999
Q ss_pred ccCccceeeCCccceeEecCCCCcCcccchhhHhhcCceEEeeccccccccccCCCcccccccccccccccCCCC
Q 003510 460 RWKLLCSICGVSYGACIQCSNTTCRVAYHPLCARAAGLCVELEDEDRLNLLSLDEDDEDQCIRLLSFCKKHKQPL 534 (814)
Q Consensus 460 ~~~~~C~~C~~~~Ga~iqC~~~~C~~~fH~~CA~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~H~~~~ 534 (814)
||.+.|.+|+.+.||||||+...|.++||++||+.+|+.|++.... .+.+.+..||.+|..-.
T Consensus 378 RwslvC~LCk~k~GACIqCs~k~C~t~fHv~CA~~aG~~~~~~~~~------------~D~v~~~s~c~khs~~~ 440 (893)
T KOG0954|consen 378 RWSLVCNLCKVKSGACIQCSNKTCRTAFHVTCAFEAGLEMKTILKE------------NDEVKFKSYCSKHSDHR 440 (893)
T ss_pred HHHHHHHHhcccCcceEEecccchhhhccchhhhhcCCeeeeeecc------------CCchhheeecccccccc
Confidence 9999999999999999999999999999999999999998866432 12256888999987643
No 4
>COG5141 PHD zinc finger-containing protein [General function prediction only]
Probab=100.00 E-value=2.2e-38 Score=334.82 Aligned_cols=192 Identities=36% Similarity=0.705 Sum_probs=169.2
Q ss_pred CCCCC-CCCccccccCCCccccccCCcccCCCceEEccccccccccccccccccCCCCceeeccccCCCCCCCCCceecC
Q 003510 335 DLPGG-YRPVRVDWKDLDKCSVCHMDEEYQNNLFLQCDKCRMMVHARCYGELEPVNGVLWLCNLCRPGAPEPPPPCCLCP 413 (814)
Q Consensus 335 ~lp~~-~~~~~~~~~~~~~C~VC~~~~~~~~n~iv~C~~C~~~vH~~CYg~~~~~~~~~W~C~~C~~~~~~~~~~C~lC~ 413 (814)
.+|.. |+|++++..-+..|.||.+.+.++.|.||+||+|.++|||+|||+...|+| .|+|++|..+.. ...-|.+||
T Consensus 177 ~lp~k~vepi~~~d~~d~~C~~c~~t~~eN~naiVfCdgC~i~VHq~CYGI~f~peG-~WlCrkCi~~~~-~i~~C~fCp 254 (669)
T COG5141 177 GLPDKHVEPIEPSDEFDDICTKCTSTHNENSNAIVFCDGCEICVHQSCYGIQFLPEG-FWLCRKCIYGEY-QIRCCSFCP 254 (669)
T ss_pred cCccccccccCCchhhhhhhHhccccccCCcceEEEecCcchhhhhhcccceecCcc-hhhhhhhccccc-ceeEEEecc
Confidence 46744 888888776678999999999988999999999999999999999998888 999999998653 344599999
Q ss_pred CCCCCceecCCCcchhhhhhccccceEEccCCCcccccccccchhcccCccceeeCCccceeEecCCCCcCcccchhhHh
Q 003510 414 VVGGAMKPTTDGRWAHLACAIWIPETCLTDVKRMEPIDGLNRVSKDRWKLLCSICGVSYGACIQCSNTTCRVAYHPLCAR 493 (814)
Q Consensus 414 ~~~Galk~t~~~~WvH~~Ca~~~pe~~~~~~~~~~~v~~~~~~~~~~~~~~C~~C~~~~Ga~iqC~~~~C~~~fH~~CA~ 493 (814)
..+||+|.|.+|+|+|++||+|+||+.|.+...|+||+||..++..||++.|.||+...|+||||++.+|.++||++||+
T Consensus 255 s~dGaFkqT~dgrW~H~iCA~~~pelsF~~l~~~dpI~~i~sVs~srwkl~C~iCk~~~GtcIqCs~~nC~~aYHVtCAr 334 (669)
T COG5141 255 SSDGAFKQTSDGRWGHVICAMFNPELSFGHLLSKDPIDNIASVSSSRWKLGCLICKEFGGTCIQCSYFNCTRAYHVTCAR 334 (669)
T ss_pred CCCCceeeccCCchHhHhHHHhcchhccccccccchhhhhcccchhhHhheeeEEcccCcceeeecccchhhhhhhhhhh
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hcCceEEeeccccccccccCCCcccccccccccccccCCCCcch
Q 003510 494 AAGLCVELEDEDRLNLLSLDEDDEDQCIRLLSFCKKHKQPLNDR 537 (814)
Q Consensus 494 ~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~H~~~~~~~ 537 (814)
++|+++.-. ..-++..+++....||++|.++.-.+
T Consensus 335 rag~f~~~~---------~s~n~~s~~id~e~~c~kh~p~gy~~ 369 (669)
T COG5141 335 RAGYFDLNI---------YSHNGISYCIDHEPLCRKHYPLGYGR 369 (669)
T ss_pred hcchhhhhh---------hcccccceeecchhhhcCCCCcchhc
Confidence 999986411 11223355667778999999876444
No 5
>KOG4442 consensus Clathrin coat binding protein/Huntingtin interacting protein HIP1, involved in regulation of endocytosis [Intracellular trafficking, secretion, and vesicular transport]
Probab=100.00 E-value=1.1e-36 Score=337.69 Aligned_cols=164 Identities=27% Similarity=0.484 Sum_probs=152.4
Q ss_pred cchhhhhHHHhhccceeEEEEEecccCeeEEeeecCCCCCeEEeecCcccCHhHHhhhHHHHhhcccCCceeEEEcCCce
Q 003510 635 LSMADKYKHMKETFRKRLAFGKSGIHGFGIFAKHPHRAGDMVIEYTGELVRPSIADRREHFIYNSLVGAGTYMFRIDDER 714 (814)
Q Consensus 635 ~~~~~~~~~l~~~~~~~~~v~~s~~~G~GvfA~~~i~~G~~I~ey~Gevi~~~~~~~r~~~~~~~~~~~~~y~~~~~~~~ 714 (814)
+-..|+|+..|+.--..++|+.+..+||||.|.++|++|+||+||.||||+..++..|... |+.....+.|+|.+..+.
T Consensus 105 cg~~C~NQRFQkkqyA~vevF~Te~KG~GLRA~~dI~~g~FI~EY~GEVI~~~Ef~kR~~~-Y~~d~~kh~Yfm~L~~~e 183 (729)
T KOG4442|consen 105 CGVYCKNQRFQKKQYAKVEVFLTEKKGCGLRAEEDIPKGQFILEYIGEVIEEKEFEKRVKR-YAKDGIKHYYFMALQGGE 183 (729)
T ss_pred ccccccchhhhhhccCceeEEEecCcccceeeccccCCCcEEeeeccccccHHHHHHHHHH-HHhcCCceEEEEEecCCc
Confidence 3457889999888778999999999999999999999999999999999999999999985 888888899999999999
Q ss_pred EEeccccCCccccccCCCCCCeeEEEEEECCeeEEEEEEcCCCCCCCeeeEeCCCCCCC-CCeeeeeCCCCCccccCCCh
Q 003510 715 VIDATRAGSIAHLINHSCEPNCYSRVISVNGDEHIIIFAKRDIKQWEELTYDYRFFSID-EQLACYCGFPRCRGVVNDTE 793 (814)
Q Consensus 715 ~iDa~~~gn~aRfiNHSC~PN~~~~~~~~~~~~~i~i~A~rdI~~GEELt~dY~~~~~~-~~~~C~Cg~~~Cr~~~~~~~ 793 (814)
+||||.+||+||||||||+|||+++.|+|.+..+|+|||.|.|.+||||||||+|+..+ +.++|+||+++|+|||++..
T Consensus 184 ~IDAT~KGnlaRFiNHSC~PNa~~~KWtV~~~lRvGiFakk~I~~GEEITFDYqf~rYGr~AQ~CyCgeanC~G~IGgk~ 263 (729)
T KOG4442|consen 184 YIDATKKGNLARFINHSCDPNAEVQKWTVPDELRVGIFAKKVIKPGEEITFDYQFDRYGRDAQPCYCGEANCRGWIGGKP 263 (729)
T ss_pred eecccccCcHHHhhcCCCCCCceeeeeeeCCeeEEEEeEecccCCCceeeEecccccccccccccccCCcccccccCCCC
Confidence 99999999999999999999999999999999999999999999999999999998766 68999999999999999996
Q ss_pred hHHHHh
Q 003510 794 AEEQVA 799 (814)
Q Consensus 794 ~~~~~~ 799 (814)
.++..+
T Consensus 264 q~da~~ 269 (729)
T KOG4442|consen 264 QTDASS 269 (729)
T ss_pred cccccc
Confidence 654433
No 6
>KOG0955 consensus PHD finger protein BR140/LIN-49 [General function prediction only]
Probab=100.00 E-value=2.6e-36 Score=356.85 Aligned_cols=178 Identities=42% Similarity=0.902 Sum_probs=158.7
Q ss_pred CCCccccccCCcccCCCceEEccccccccccccccccccCCCCceeeccccCCCCCCCCCceecCCCCCCceecCCCcch
Q 003510 349 DLDKCSVCHMDEEYQNNLFLQCDKCRMMVHARCYGELEPVNGVLWLCNLCRPGAPEPPPPCCLCPVVGGAMKPTTDGRWA 428 (814)
Q Consensus 349 ~~~~C~VC~~~~~~~~n~iv~C~~C~~~vH~~CYg~~~~~~~~~W~C~~C~~~~~~~~~~C~lC~~~~Galk~t~~~~Wv 428 (814)
.+.+|+||.+.+..+.|.||+||+|+++|||+|||++.+|+| .|+|++|..... ....|.|||.++||+|+|.+|+|+
T Consensus 218 ~D~~C~iC~~~~~~n~n~ivfCD~Cnl~VHq~Cygi~~ipeg-~WlCr~Cl~s~~-~~v~c~~cp~~~gAFkqt~dgrw~ 295 (1051)
T KOG0955|consen 218 EDAVCCICLDGECQNSNVIVFCDGCNLAVHQECYGIPFIPEG-QWLCRRCLQSPQ-RPVRCLLCPSKGGAFKQTDDGRWA 295 (1051)
T ss_pred CCccceeecccccCCCceEEEcCCCcchhhhhccCCCCCCCC-cEeehhhccCcC-cccceEeccCCCCcceeccCCcee
Confidence 457999999999999999999999999999999998888887 999999997543 347999999999999999999999
Q ss_pred hhhhhccccceEEccCCCcccccccccchhcccCccceeeCCcc-ceeEecCCCCcCcccchhhHhhcCceEEeeccccc
Q 003510 429 HLACAIWIPETCLTDVKRMEPIDGLNRVSKDRWKLLCSICGVSY-GACIQCSNTTCRVAYHPLCARAAGLCVELEDEDRL 507 (814)
Q Consensus 429 H~~Ca~~~pe~~~~~~~~~~~v~~~~~~~~~~~~~~C~~C~~~~-Ga~iqC~~~~C~~~fH~~CA~~~g~~~~~~~~~~~ 507 (814)
|++||+|+||+.|.+...++||.+++.|+..||++.|.+|++.. |+||||+..+|.++||++||+++|++|.+....
T Consensus 296 Hv~caiwipev~F~nt~~~E~I~~i~~i~~aRwkL~cy~cK~~~~gaciqcs~~~c~~a~hvtca~~agl~m~~~~~~-- 373 (1051)
T KOG0955|consen 296 HVVCAIWIPEVSFANTVFLEPIDSIENIPPARWKLTCYICKQKGLGACIQCSKANCYTAFHVTCARRAGLYMKSNTVK-- 373 (1051)
T ss_pred eeehhhcccccccccchhhccccchhcCcHhhhhceeeeeccCCCCcceecchhhhhhhhhhhhHhhcCceEeecccc--
Confidence 99999999999999999999999999999999999999999988 999999999999999999999999999844221
Q ss_pred cccccCCCcccccccccccccccCCC
Q 003510 508 NLLSLDEDDEDQCIRLLSFCKKHKQP 533 (814)
Q Consensus 508 ~~~~~~~~~~~~~~~~~~~C~~H~~~ 533 (814)
....++-.+.+...+||++|.++
T Consensus 374 ---~~s~~~~s~~v~~~syC~~H~pp 396 (1051)
T KOG0955|consen 374 ---ELSKNGTSQSVNKISYCDKHTPP 396 (1051)
T ss_pred ---cccccccccccceeeeccCCCCc
Confidence 11122223446788999999998
No 7
>KOG0957 consensus PHD finger protein [General function prediction only]
Probab=99.97 E-value=2.6e-31 Score=281.73 Aligned_cols=169 Identities=34% Similarity=0.717 Sum_probs=146.7
Q ss_pred CccccccCCcccCCCceEEccccccccccccccccc---cCC------CCceeeccccCCCCCCCCCceecCCCCCCcee
Q 003510 351 DKCSVCHMDEEYQNNLFLQCDKCRMMVHARCYGELE---PVN------GVLWLCNLCRPGAPEPPPPCCLCPVVGGAMKP 421 (814)
Q Consensus 351 ~~C~VC~~~~~~~~n~iv~C~~C~~~vH~~CYg~~~---~~~------~~~W~C~~C~~~~~~~~~~C~lC~~~~Galk~ 421 (814)
..|+||++..+.+-|.||+||+|++.||..|||+.. ++. ..+|||+.|.++.. .+.|.|||.++|++|.
T Consensus 120 ~iCcVClg~rs~da~ei~qCd~CGi~VHEgCYGv~dn~si~s~~s~~stepWfCeaC~~Gvs--~P~CElCPn~~GifKe 197 (707)
T KOG0957|consen 120 VICCVCLGQRSVDAGEILQCDKCGINVHEGCYGVLDNVSIPSGSSDCSTEPWFCEACLYGVS--LPHCELCPNRFGIFKE 197 (707)
T ss_pred eEEEEeecCccccccceeeccccCceecccccccccccccCCCCccCCCCchhhhhHhcCCC--CCccccCCCcCCcccc
Confidence 599999999888889999999999999999999852 111 14799999999875 5899999999999999
Q ss_pred cCCCcchhhhhhccccceEEccCCCcccccccccchhcccC-ccceeeCC----ccceeEecCCCCcCcccchhhHhhcC
Q 003510 422 TTDGRWAHLACAIWIPETCLTDVKRMEPIDGLNRVSKDRWK-LLCSICGV----SYGACIQCSNTTCRVAYHPLCARAAG 496 (814)
Q Consensus 422 t~~~~WvH~~Ca~~~pe~~~~~~~~~~~v~~~~~~~~~~~~-~~C~~C~~----~~Ga~iqC~~~~C~~~fH~~CA~~~g 496 (814)
|+-|+|||++|||++|+|.|.....+.+|. +..+....|. ..|+.|.. +.|.||.|..+.|..+|||+||+.+|
T Consensus 198 tDigrWvH~iCALYvpGVafg~~~~l~~Vt-l~em~ysk~Gak~Cs~Ced~~fARtGvci~CdaGMCk~YfHVTCAQk~G 276 (707)
T KOG0957|consen 198 TDIGRWVHAICALYVPGVAFGQTHTLCGVT-LEEMDYSKFGAKTCSACEDKIFARTGVCIRCDAGMCKEYFHVTCAQKLG 276 (707)
T ss_pred cchhhHHHHHHHhhcCcccccccccccccc-HHHhhhhhhccchhccccchhhhhcceeeeccchhhhhhhhhhHHhhhc
Confidence 999999999999999999999999999998 6666555554 78999986 58999999999999999999999999
Q ss_pred ceEEeeccccccccccCCCcccccccccccccccCCCC
Q 003510 497 LCVELEDEDRLNLLSLDEDDEDQCIRLLSFCKKHKQPL 534 (814)
Q Consensus 497 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~H~~~~ 534 (814)
+.++..+++. ....+.+||++|....
T Consensus 277 lLvea~~e~D------------iAdpfya~CK~Ht~r~ 302 (707)
T KOG0957|consen 277 LLVEATDEND------------IADPFYAFCKKHTNRD 302 (707)
T ss_pred ceeecccccc------------chhhHHHHHHhhcchh
Confidence 9988665433 3356889999998754
No 8
>KOG1079 consensus Transcriptional repressor EZH1 [Transcription]
Probab=99.94 E-value=7.3e-28 Score=265.84 Aligned_cols=167 Identities=32% Similarity=0.568 Sum_probs=146.5
Q ss_pred cccccCCCCCCC--CCcccccccccccccccCCC-Ccc------------chhhhhHHHhhccceeEEEEEecccCeeEE
Q 003510 601 GGYCQNGLSGNT--LPSIRVIGSKFSFSLHRDAP-NFL------------SMADKYKHMKETFRKRLAFGKSGIHGFGIF 665 (814)
Q Consensus 601 ~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~-~~~------------~~~~~~~~l~~~~~~~~~v~~s~~~G~Gvf 665 (814)
...|+++|+||. .+|+..++.+|+... +|- .++ ..+|+|..|+++.++++.++.|.+.|||||
T Consensus 532 ~~dC~nrF~GC~Ck~QC~tkqCpC~~A~r--ECdPd~Cl~cg~~~~~d~~~~~C~N~~l~~~~qkr~llapSdVaGwGlF 609 (739)
T KOG1079|consen 532 SPDCRNRFPGCRCKAQCNTKQCPCYLAVR--ECDPDVCLMCGNVDHFDSSKISCKNTNLQRGEQKRVLLAPSDVAGWGLF 609 (739)
T ss_pred CHHHHhcCCCCCcccccccCcCchhhhcc--ccCchHHhccCcccccccCccccccchhhhhhhcceeechhhcccccee
Confidence 346889999874 566777777776433 322 222 237899999999999999999999999999
Q ss_pred eeecCCCCCeEEeecCcccCHhHHhhhHHHHhhcccCCceeEEEcCCceEEeccccCCccccccCCCCCCeeEEEEEECC
Q 003510 666 AKHPHRAGDMVIEYTGELVRPSIADRREHFIYNSLVGAGTYMFRIDDERVIDATRAGSIAHLINHSCEPNCYSRVISVNG 745 (814)
Q Consensus 666 A~~~i~~G~~I~ey~Gevi~~~~~~~r~~~~~~~~~~~~~y~~~~~~~~~iDa~~~gn~aRfiNHSC~PN~~~~~~~~~~ 745 (814)
+++.+.+++||.||+||+|+..+||+|.+ +|+.. ..+|+|.+.++++|||+++||.+||+|||-+|||++.+++|.|
T Consensus 610 lKe~v~KnefisEY~GE~IS~dEADrRGk-iYDr~--~cSflFnln~dyviDs~rkGnk~rFANHS~nPNCYAkvm~V~G 686 (739)
T KOG1079|consen 610 LKESVSKNEFISEYTGEIISHDEADRRGK-IYDRY--MCSFLFNLNNDYVIDSTRKGNKIRFANHSFNPNCYAKVMMVAG 686 (739)
T ss_pred eccccCCCceeeeecceeccchhhhhccc-ccccc--cceeeeeccccceEeeeeecchhhhccCCCCCCcEEEEEEecC
Confidence 99999999999999999999999999999 57653 4689999999999999999999999999999999999999999
Q ss_pred eeEEEEEEcCCCCCCCeeeEeCCCCCC
Q 003510 746 DEHIIIFAKRDIKQWEELTYDYRFFSI 772 (814)
Q Consensus 746 ~~~i~i~A~rdI~~GEELt~dY~~~~~ 772 (814)
..+|.|||+|.|.+||||||||++.-+
T Consensus 687 dhRIGifAkRaIeagEELffDYrYs~~ 713 (739)
T KOG1079|consen 687 DHRIGIFAKRAIEAGEELFFDYRYSPE 713 (739)
T ss_pred CcceeeeehhhcccCceeeeeeccCcc
Confidence 999999999999999999999998644
No 9
>PF13832 zf-HC5HC2H_2: PHD-zinc-finger like domain
Probab=99.91 E-value=2.7e-25 Score=204.34 Aligned_cols=109 Identities=50% Similarity=1.122 Sum_probs=101.7
Q ss_pred CceecCCCCCCceecCCCcchhhhhhccccceEEccCCCcccccccccchhcccCccceeeCCccceeEecCCCCcCccc
Q 003510 408 PCCLCPVVGGAMKPTTDGRWAHLACAIWIPETCLTDVKRMEPIDGLNRVSKDRWKLLCSICGVSYGACIQCSNTTCRVAY 487 (814)
Q Consensus 408 ~C~lC~~~~Galk~t~~~~WvH~~Ca~~~pe~~~~~~~~~~~v~~~~~~~~~~~~~~C~~C~~~~Ga~iqC~~~~C~~~f 487 (814)
.|+|||..+||||+|.++.|||++||+|+|++.|.+...|++++ ++.++++++++.|.+|+++.|++|+|..++|.++|
T Consensus 2 ~C~lC~~~~Galk~t~~~~WvHv~Cal~~~~~~~~~~~~~~~v~-~~~i~~~~~~~~C~iC~~~~G~~i~C~~~~C~~~f 80 (110)
T PF13832_consen 2 SCVLCPKRGGALKRTSDGQWVHVLCALWIPEVIFNNGESMEPVD-ISNIPPSRFKLKCSICGKSGGACIKCSHPGCSTAF 80 (110)
T ss_pred ccEeCCCCCCcccCccCCcEEEeEccceeCccEEeechhcCccc-ceeecchhcCCcCcCCCCCCceeEEcCCCCCCcCC
Confidence 69999999999999999999999999999999999999999999 99999999999999999999999999999999999
Q ss_pred chhhHhhcCceEEeeccccccccccCCCccccccccccccccc
Q 003510 488 HPLCARAAGLCVELEDEDRLNLLSLDEDDEDQCIRLLSFCKKH 530 (814)
Q Consensus 488 H~~CA~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~H 530 (814)
||+||+.+|+.++++..+. ..++.+||++|
T Consensus 81 H~~CA~~~g~~~~~~~~~~-------------~~~~~~~C~~H 110 (110)
T PF13832_consen 81 HPTCARKAGLYFEIENEED-------------NVQFIAYCPKH 110 (110)
T ss_pred CHHHHHHCCCeEEeeecCC-------------CceEEEECCCC
Confidence 9999999999998775422 35689999999
No 10
>cd05834 HDGF_related The PWWP domain is an essential part of the Hepatoma Derived Growth Factor (HDGF) family of proteins, and is necessary for DNA binding by HDGF. This family of endogenous nuclear-targeted mitogens includes HRP (HDGF-related proteins 1, 2, 3, 4, or HPR1, HPR2, HPR3, HPR4, respectively) and lens epithelium-derived growth factor, LEDGF. Members of the HDGF family have been linked to human diseases, and HDGF is a prognostic factor in several types of cancer. The PWWP domain, named for a conserved Pro-Trp-Trp-Pro motif, is a small domain consisting of 100-150 amino acids. The PWWP domain is found in numerous proteins that are involved in cell division, growth and differentiation. Most PWWP-domain proteins seem to be nuclear, often DNA-binding, proteins that function as transcription factors regulating a variety of developmental processes.
Probab=99.90 E-value=2.4e-24 Score=185.44 Aligned_cols=81 Identities=27% Similarity=0.515 Sum_probs=73.0
Q ss_pred CCCCCCEEEEeeCCCCCCCceeeCCCCcCccccccccCCCCcEEEEEeCCCCEEEEeCCCccccccchhccccccCChHH
Q 003510 35 ELEPGDIIWAKLTGHAMWPAIVVDESLIGDYKGLNKISGGRSIPVQFFGTHDFARINVKQVISFLKGLLSSFHLKCKKPR 114 (814)
Q Consensus 35 ~f~~GdlVwaK~~GyPwWPa~V~~~~~~~~~~~~~~~~~~~~~~V~FFg~~~~awv~~~~l~~f~~~~~~~~~~~~k~~~ 114 (814)
+|++||||||||+|||||||+|+++... +...+.|+|+|||++++|||++++|+||+++ ..++..+++++.
T Consensus 2 ~f~~GdlVwaK~kGyp~WPa~I~~~~~~--------~~~~~~~~V~FfGt~~~a~v~~~~l~pf~~~-~~~~~~~~k~k~ 72 (83)
T cd05834 2 QFKAGDLVFAKVKGYPAWPARVDEPEDW--------KPPGKKYPVYFFGTHETAFLKPEDLFPYTEN-KKKFGKPKKRKG 72 (83)
T ss_pred CCCCCCEEEEecCCCCCCCEEEeccccc--------CCCCCEEEEEEeCCCCEeEECHHHceecccc-hhhhccccchHH
Confidence 6999999999999999999999997543 3445779999999999999999999999997 777888889999
Q ss_pred HHHHHHHHHH
Q 003510 115 FTQSLEEAKV 124 (814)
Q Consensus 115 ~~~A~~ea~~ 124 (814)
|++||+|+++
T Consensus 73 F~~Av~eie~ 82 (83)
T cd05834 73 FNEAVWEIEK 82 (83)
T ss_pred HHHHHHHHhh
Confidence 9999999975
No 11
>cd05836 N_Pac_NP60 The PWWP domain is an essential part of the cytokine-like nuclear factor n-pac protein, or NP60, which enhances the activity of MAP2K4 and MAP2K6 kinases to phosphorylate p38-alpha. In a variety of cell lines, NP60 has been shown to localize to the nucleus. In addition to the PWWP domain, NP60 also contains an AT-hook and a C-terminal NAD-binding domain. The PWWP domain, named for a conserved Pro-Trp-Trp-Pro motif, is a small domain consisting of 100-150 amino acids. The PWWP domain is found in numerous proteins that are involved in cell division, growth and differentiation. Most PWWP-domain proteins seem to be nuclear, often DNA-binding proteins, that function as transcription factors regulating a variety of developmental processes.
Probab=99.90 E-value=2.1e-24 Score=187.20 Aligned_cols=86 Identities=24% Similarity=0.474 Sum_probs=73.8
Q ss_pred CCCCCEEEEeeCCCCCCCceeeCCCCcCccccccccCCCCcEEEEEeCCCCEEEEeCCCccccccchhccccccCChHHH
Q 003510 36 LEPGDIIWAKLTGHAMWPAIVVDESLIGDYKGLNKISGGRSIPVQFFGTHDFARINVKQVISFLKGLLSSFHLKCKKPRF 115 (814)
Q Consensus 36 f~~GdlVwaK~~GyPwWPa~V~~~~~~~~~~~~~~~~~~~~~~V~FFg~~~~awv~~~~l~~f~~~~~~~~~~~~k~~~~ 115 (814)
|++||||||||+|||||||+|+++.. ...+.+.+.+.++|+|||+++||||..++|+||+++ .+.+...+|.+.|
T Consensus 1 f~~GDlVwaK~~g~P~WPa~V~~~~~----~~~~~~~~~~~~~V~FFG~~~~~wv~~~~l~pF~~~-~~~~~~~~k~~~F 75 (86)
T cd05836 1 LKLGDLVWAKMKGFPPWPGRIVKPPK----DLKKPRGKAKCFFVFFFGSENHAWIKEENIKPYHEH-KEEMIKLNKGARF 75 (86)
T ss_pred CCCCCEEEEeCCCCCCCCEEEechhh----hcccccCCCCeEEEEEeCCCCEEEECHHhCeechhh-HHHHhcccchHHH
Confidence 78999999999999999999998643 222333345889999999999999999999999996 7777778889999
Q ss_pred HHHHHHHHHHH
Q 003510 116 TQSLEEAKVYL 126 (814)
Q Consensus 116 ~~A~~ea~~~~ 126 (814)
++||+|+++++
T Consensus 76 ~~Av~~ie~~~ 86 (86)
T cd05836 76 QQAVDAIEEYI 86 (86)
T ss_pred HHHHHHHHHhC
Confidence 99999999873
No 12
>cd05840 SPBC215_ISWI_like The PWWP domain is a component of the S. pombe hypothetical protein SPBC215, as well as ISWI complex protein 4. The ISWI (imitation switch) proteins are ATPases responsible for chromatin remodeling in eukaryotes, and SPBC215 is proposed to also bind chromatin. The PWWP domain, named for a conserved Pro-Trp-Trp-Pro motif, is a small domain consisting of 100-150 amino acids. The PWWP domain is found in numerous proteins that are involved in cell division, growth and differentiation. Most PWWP-domain proteins seem to be nuclear, often DNA-binding, proteins that function as transcription factors regulating a variety of developmental processes.
Probab=99.88 E-value=1.8e-23 Score=183.79 Aligned_cols=88 Identities=32% Similarity=0.528 Sum_probs=76.6
Q ss_pred CCCCCEEEEeeCCCCCCCceeeCCCCcCccccc--cccCCCCcEEEEEeCCCCEEEEeCCCccccccchhccccccC--C
Q 003510 36 LEPGDIIWAKLTGHAMWPAIVVDESLIGDYKGL--NKISGGRSIPVQFFGTHDFARINVKQVISFLKGLLSSFHLKC--K 111 (814)
Q Consensus 36 f~~GdlVwaK~~GyPwWPa~V~~~~~~~~~~~~--~~~~~~~~~~V~FFg~~~~awv~~~~l~~f~~~~~~~~~~~~--k 111 (814)
|++||||||||+|||||||+|++++.++. ..+ +.+.+.+.|+|+|||+++||||.+++|+||+++.++.+..+. |
T Consensus 1 f~~GDlVwaK~~GyPwWPA~V~~~~~~p~-~~l~~~~~~~~~~~~V~FFg~~~~~Wv~~~~l~pl~~~~~~~~l~~~~~k 79 (93)
T cd05840 1 FQPGDRVLAKVKGFPAWPAIVVPEEMLPD-SVLKGKKKKNKRTYPVMFFPDGDYYWVPNKDLKPLTEEKIAKFLKKPKRK 79 (93)
T ss_pred CCCCCEEEEeCCCCCCCCEEECChHHCCH-HHHhcccCCCCCeEEEEEeCCCcEEEEChhhcccCCHHHHHHHhhcCCCC
Confidence 78999999999999999999999988877 455 455677999999999999999999999999987788877654 5
Q ss_pred hHHHHHHHHHHHH
Q 003510 112 KPRFTQSLEEAKV 124 (814)
Q Consensus 112 ~~~~~~A~~ea~~ 124 (814)
.+.+.+|++.|.+
T Consensus 80 ~k~l~~ay~~A~~ 92 (93)
T cd05840 80 DKELIKAYKAAKD 92 (93)
T ss_pred CHHHHHHHHHhcC
Confidence 5889999998853
No 13
>cd05838 WHSC1_related The PWWP domain was first identified in the WHSC1 (Wolf-Hirschhorn syndrome candidate 1) protein, a protein implicated in Wolf-Hirschhorn syndrome (WHS). When translocated, WHSC1 plays a role in lymphoid multiple myeloma (MM) disease, also known as plasmacytoma. WHCS1 proteins typically contain two copies of the PWWP domain. The PWWP domain, named for a conserved Pro-Trp-Trp-Pro motif, is a small domain consisting of 100-150 amino acids. The PWWP domain is found in numerous proteins that are involved in cell division, growth and differentiation. Most PWWP-domain proteins seem to be nuclear, often DNA-binding, proteins that function as transcription factors regulating a variety of developmental processes.
Probab=99.88 E-value=3e-23 Score=183.67 Aligned_cols=91 Identities=30% Similarity=0.412 Sum_probs=74.8
Q ss_pred CCCCCEEEEeeCCCCCCCceeeCCCCcCccccccccCCCCcEEEEEeCCCCEEEEeCCCccccccchhcccc--ccCChH
Q 003510 36 LEPGDIIWAKLTGHAMWPAIVVDESLIGDYKGLNKISGGRSIPVQFFGTHDFARINVKQVISFLKGLLSSFH--LKCKKP 113 (814)
Q Consensus 36 f~~GdlVwaK~~GyPwWPa~V~~~~~~~~~~~~~~~~~~~~~~V~FFg~~~~awv~~~~l~~f~~~~~~~~~--~~~k~~ 113 (814)
+..||||||||+|||||||+|+++..+++ .....+++.+.++|+|||+++|+||.+++|+||.++...... ++++.+
T Consensus 1 ~~~GdlVWaK~~g~pwWPa~V~~~~~~p~-~~~~~~~~~~~~~V~Ffgs~~y~Wv~~~~l~pf~e~~~~~~~~~~~~~~~ 79 (95)
T cd05838 1 PLYGDIVWAKLGNFRWWPAIICDPREVPP-NIQVLRHCIGEFCVMFFGTHDYYWVHRGRVFPYQEGDKGFKEQTKSYLAK 79 (95)
T ss_pred CCcCCEEEEECCCCCCCCeEEcChhhcCh-hHhhccCCCCeEEEEEeCCCCEEEeccccccchhhhhhhhhhhhhhhhHH
Confidence 35799999999999999999999887776 333444556889999999999999999999999987433222 235679
Q ss_pred HHHHHHHHHHHHHH
Q 003510 114 RFTQSLEEAKVYLS 127 (814)
Q Consensus 114 ~~~~A~~ea~~~~~ 127 (814)
.|++||+||.+++.
T Consensus 80 ~f~~AleEA~~~~~ 93 (95)
T cd05838 80 RFRKALEEASLAFK 93 (95)
T ss_pred HHHHHHHHHHHHhh
Confidence 99999999999875
No 14
>KOG1082 consensus Histone H3 (Lys9) methyltransferase SUV39H1/Clr4, required for transcriptional silencing [Chromatin structure and dynamics; Transcription]
Probab=99.88 E-value=3e-23 Score=229.57 Aligned_cols=160 Identities=29% Similarity=0.427 Sum_probs=129.6
Q ss_pred cchhhhhHHHhhccceeEEEEEecccCeeEEeeecCCCCCeEEeecCcccCHhHHhhhHHH-HhhcccCCceeE------
Q 003510 635 LSMADKYKHMKETFRKRLAFGKSGIHGFGIFAKHPHRAGDMVIEYTGELVRPSIADRREHF-IYNSLVGAGTYM------ 707 (814)
Q Consensus 635 ~~~~~~~~~l~~~~~~~~~v~~s~~~G~GvfA~~~i~~G~~I~ey~Gevi~~~~~~~r~~~-~~~~~~~~~~y~------ 707 (814)
+...|.+|.+|.+++.+|+|.+++.+||||++.+.|++|++|+||+||+++..+++.+... .|........+.
T Consensus 161 C~~~C~nRv~q~g~~~~leIfrt~~kGwgvRs~~~I~~G~fvcEyaGe~~t~~e~~~~~~~~~~~~~~~~~~~~~~~~~~ 240 (364)
T KOG1082|consen 161 CHPDCANRVVQKGLQFHLEVFRTPEKGWGVRTLDPIPAGEFVCEYAGEVLTSEEAQRRTHLREYLDDDCDAYSIADREWV 240 (364)
T ss_pred CCCcCcchhhccccccceEEEecCCceeeecccccccCCCeeEEEeeEecChHHhhhccccccccccccccchhhhcccc
Confidence 4567899999999999999999999999999999999999999999999999999877321 111111111111
Q ss_pred ---------------EEcCCceEEeccccCCccccccCCCCCCeeEEEEEECCe----eEEEEEEcCCCCCCCeeeEeCC
Q 003510 708 ---------------FRIDDERVIDATRAGSIAHLINHSCEPNCYSRVISVNGD----EHIIIFAKRDIKQWEELTYDYR 768 (814)
Q Consensus 708 ---------------~~~~~~~~iDa~~~gn~aRfiNHSC~PN~~~~~~~~~~~----~~i~i~A~rdI~~GEELt~dY~ 768 (814)
-.....+.|||...||++|||||||.||+.+..+..++. .+|+|||+++|.+|||||+||+
T Consensus 241 ~~~~~~~~~~~~~~~~~~~~~~~ida~~~GNv~RfinHSC~PN~~~~~v~~~~~~~~~~~i~ffa~~~I~p~~ELT~dYg 320 (364)
T KOG1082|consen 241 DESPVGNTFVAPSLPGGPGRELLIDAKPHGNVARFINHSCSPNLLYQAVFQDEFVLLYLRIGFFALRDISPGEELTLDYG 320 (364)
T ss_pred ccccccccccccccccCCCcceEEchhhcccccccccCCCCccceeeeeeecCCccchheeeeeeccccCCCcccchhhc
Confidence 112467799999999999999999999999988877643 5899999999999999999999
Q ss_pred CCCC------------CCCeeeeeCCCCCccccCCChh
Q 003510 769 FFSI------------DEQLACYCGFPRCRGVVNDTEA 794 (814)
Q Consensus 769 ~~~~------------~~~~~C~Cg~~~Cr~~~~~~~~ 794 (814)
.... ..+..|.||+.+||+.+.....
T Consensus 321 ~~~~~~~~~~~~~~~~~~~~~c~c~~~~cr~~~~~~~~ 358 (364)
T KOG1082|consen 321 KAYKLLVQDGANIYTPVMKKNCNCGLEKCRGLLGSAPC 358 (364)
T ss_pred ccccccccccccccccccchhhcCCCHHhCcccCCCcc
Confidence 6532 2467899999999998876543
No 15
>cd05835 Dnmt3b_related The PWWP domain is an essential component of DNA methyltransferase 3 B (Dnmt3b) which is responsible for establishing DNA methylation patterns during embryogenesis and gametogenesis. In tumorigenesis, DNA methylation by Dnmt3b is known to play a role in the inactivation of tumor suppressor genes. In addition, a point mutation in the PWWP domain of Dnmt3b has been identified in patients with ICF syndrome (immunodeficiency, centromeric instability, and facial anomalies), a rare autosomal recessive disorder characterized by hypomethylation of classical satellite DNA. The PWWP domain, named for a conserved Pro-Trp-Trp-Pro motif, is a small domain consisting of 100-150 amino acids. The PWWP domain is found in numerous proteins that are involved in cell division, growth and differentiation. Most PWWP-domain proteins seem to be nuclear, often DNA-binding, proteins that function as transcription factors regulating a variety of developmental processes.
Probab=99.87 E-value=8.1e-23 Score=178.23 Aligned_cols=84 Identities=24% Similarity=0.451 Sum_probs=71.1
Q ss_pred CCCCCEEEEeeCCCCCCCceeeCCCCcCccccccccCCCCcEEEEEeCCCCEEEEeCCCccccccchhccc--cccCChH
Q 003510 36 LEPGDIIWAKLTGHAMWPAIVVDESLIGDYKGLNKISGGRSIPVQFFGTHDFARINVKQVISFLKGLLSSF--HLKCKKP 113 (814)
Q Consensus 36 f~~GdlVwaK~~GyPwWPa~V~~~~~~~~~~~~~~~~~~~~~~V~FFg~~~~awv~~~~l~~f~~~~~~~~--~~~~k~~ 113 (814)
|.+||||||||+|||||||+|++++.... .+...+.++|+|||+++++||.+++|+||.++ .+.| ..++|+.
T Consensus 1 f~vGDlVWaK~kg~pwWP~~V~~~~~~~~-----~~~~~~~~~V~fFGs~~~a~v~~~~l~pf~e~-~~~f~~~~~~k~~ 74 (87)
T cd05835 1 FNVGDLVWGKIKGFPWWPGRVVSITVTSK-----RPPVVGMRWVTWFGSGTFSEVSVDKLSPFSEF-FKAFSRYNRKKKG 74 (87)
T ss_pred CCCCCEEEEecCCCCCCCeEEechhhccc-----ccCCCCeEEEEEeCCCCEeEECHHHCcChhHh-HHHHhhhhhhhhH
Confidence 78999999999999999999999765432 14556889999999999999999999999996 5553 3456779
Q ss_pred HHHHHHHHHHHH
Q 003510 114 RFTQSLEEAKVY 125 (814)
Q Consensus 114 ~~~~A~~ea~~~ 125 (814)
.|++||+||.+.
T Consensus 75 ~f~~Ai~eA~e~ 86 (87)
T cd05835 75 LYKKAIYEALEV 86 (87)
T ss_pred HHHHHHHHHHHc
Confidence 999999999874
No 16
>smart00317 SET SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain. Putative methyl transferase, based on outlier plant homologues
Probab=99.87 E-value=9.7e-22 Score=181.72 Aligned_cols=115 Identities=45% Similarity=0.712 Sum_probs=100.4
Q ss_pred EEEEEecccCeeEEeeecCCCCCeEEeecCcccCHhHHhhhHHHHhhcccCCceeEEEcCCceEEeccccCCccccccCC
Q 003510 652 LAFGKSGIHGFGIFAKHPHRAGDMVIEYTGELVRPSIADRREHFIYNSLVGAGTYMFRIDDERVIDATRAGSIAHLINHS 731 (814)
Q Consensus 652 ~~v~~s~~~G~GvfA~~~i~~G~~I~ey~Gevi~~~~~~~r~~~~~~~~~~~~~y~~~~~~~~~iDa~~~gn~aRfiNHS 731 (814)
+++.+++++|+||||+++|++|++|++|.|.++....+..+... +........|+|......+||+...||++||||||
T Consensus 2 ~~~~~~~~~G~gl~a~~~i~~g~~i~~~~g~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~id~~~~~~~~~~iNHs 80 (116)
T smart00317 2 LEVFKSPGKGWGVRATEDIPKGEFIGEYVGEIITSEEAEERSKA-YDTDGADSFYLFEIDSDLCIDARRKGNIARFINHS 80 (116)
T ss_pred cEEEecCCCcEEEEECCccCCCCEEEEEEeEEECHHHHHHHHHH-HHhcCCCCEEEEECCCCEEEeCCccCcHHHeeCCC
Confidence 56777889999999999999999999999999998887776542 33322225789998888999999999999999999
Q ss_pred CCCCeeEEEEEECCeeEEEEEEcCCCCCCCeeeEeC
Q 003510 732 CEPNCYSRVISVNGDEHIIIFAKRDIKQWEELTYDY 767 (814)
Q Consensus 732 C~PN~~~~~~~~~~~~~i~i~A~rdI~~GEELt~dY 767 (814)
|.|||.+..+..++..++.++|+|||++|||||+||
T Consensus 81 c~pN~~~~~~~~~~~~~~~~~a~r~I~~GeEi~i~Y 116 (116)
T smart00317 81 CEPNCELLFVEVNGDSRIVIFALRDIKPGEELTIDY 116 (116)
T ss_pred CCCCEEEEEEEECCCcEEEEEECCCcCCCCEEeecC
Confidence 999999998888777789999999999999999999
No 17
>cd05841 BS69_related The PWWP domain is part of BS69 protein, a nuclear protein that specifically binds adenoviral E1A and Epstein-Barr viral EBNA2 proteins, suppressing their transactivation functions. BS69 is a multi-domain protein, containing bromo, PHD, PWWP, and MYND domains. The specific role of the PWWP domain within BS69 is not clearly identified, but BS69 functions in chromatin remodeling, consistent with other PWWP-containing proteins. The PWWP domain, named for a conserved Pro-Trp-Trp-Pro motif, is a small domain consisting of 100-150 amino acids. The PWWP domain is found in numerous proteins that are involved in cell division, growth and differentiation. Most PWWP-domain proteins seem to be nuclear, often DNA-binding, proteins that function as transcription factors regulating a variety of developmental processes.
Probab=99.87 E-value=1.3e-22 Score=172.16 Aligned_cols=75 Identities=28% Similarity=0.582 Sum_probs=67.3
Q ss_pred CCCCCEEEEeeCCCCCCCceeeCCCCcCccccccccCCCCcEEEEEeC-CCCEEEEeCCCccccccchhccccccCChHH
Q 003510 36 LEPGDIIWAKLTGHAMWPAIVVDESLIGDYKGLNKISGGRSIPVQFFG-THDFARINVKQVISFLKGLLSSFHLKCKKPR 114 (814)
Q Consensus 36 f~~GdlVwaK~~GyPwWPa~V~~~~~~~~~~~~~~~~~~~~~~V~FFg-~~~~awv~~~~l~~f~~~~~~~~~~~~k~~~ 114 (814)
++|||||||||+|||||||+|++++ .+.|+|+||| ++++|||+.++|+||+++ +.++.+++|++.
T Consensus 7 ~~p~dLVwAK~kGyp~WPAkV~~~~-------------~~~~~V~FFG~t~~~a~v~~~~i~~~~~~-~~~~~~~~k~~~ 72 (83)
T cd05841 7 RPPHELVWAKLKGFPYWPAKVMRVE-------------DNQVDVRFFGGQHDRAWIPSNNIQPISTE-IPQQLVKKRSRG 72 (83)
T ss_pred CCCCCEEEEeCCCCCCCCEEEeecC-------------CCeEEEEEcCCCCCeEEEehHHeeehhhh-hhhhccccccHH
Confidence 6899999999999999999998753 1459999999 999999999999999987 656777888899
Q ss_pred HHHHHHHHHH
Q 003510 115 FTQSLEEAKV 124 (814)
Q Consensus 115 ~~~A~~ea~~ 124 (814)
|++||+||+.
T Consensus 73 f~~A~~Eie~ 82 (83)
T cd05841 73 FNKAMDELEL 82 (83)
T ss_pred HHHHHHHHHh
Confidence 9999999975
No 18
>cd05162 PWWP The PWWP domain, named for a conserved Pro-Trp-Trp-Pro motif, is a small domain consisting of 100-150 amino acids. The PWWP domain is found in numerous proteins that are involved in cell division, growth and differentiation. Most PWWP-domain proteins seem to be nuclear, often DNA-binding, proteins that function as transcription factors regulating a variety of developmental processes. The function of the PWWP domain is still not known precisely; however, based on the fact that other regions of PWWP-domain proteins are responsible for nuclear localization and DNA-binding, is likely that the PWWP domain acts as a site for protein-protein binding interactions, influencing chromatin remodeling and thereby regulating transcriptional processes. Some PWWP-domain proteins have been linked to cancer or other diseases; some are known to function as growth factors.
Probab=99.87 E-value=1.9e-22 Score=177.13 Aligned_cols=86 Identities=30% Similarity=0.543 Sum_probs=74.7
Q ss_pred CCCCCEEEEeeCCCCCCCceeeCCCCcCccccccccCCCCcEEEEEeCCCCEEEEeCCCccccccchhccccccCChHHH
Q 003510 36 LEPGDIIWAKLTGHAMWPAIVVDESLIGDYKGLNKISGGRSIPVQFFGTHDFARINVKQVISFLKGLLSSFHLKCKKPRF 115 (814)
Q Consensus 36 f~~GdlVwaK~~GyPwWPa~V~~~~~~~~~~~~~~~~~~~~~~V~FFg~~~~awv~~~~l~~f~~~~~~~~~~~~k~~~~ 115 (814)
|++||||||||+|||||||+|+++...+.. . ..+...+.++|+|||+++|+||+.++|.||.++... ...++|++.|
T Consensus 1 f~~GdlVwaK~~g~pwWPa~V~~~~~~~~~-~-~~~~~~~~~~V~Ffg~~~~~wv~~~~l~pf~~~~~~-~~~~~k~~~f 77 (87)
T cd05162 1 FRPGDLVWAKMKGYPWWPALVVDPPKDSKK-A-KKKAKEGKVLVLFFGDKTFAWVGAERLKPFTEHKES-EAKQSKRKGF 77 (87)
T ss_pred CCCCCEEEEeCCCCCCCCEEEccccccchh-h-hccCCCCEEEEEEeCCCcEEEeCccceeeccchHHh-hccCCccHHH
Confidence 789999999999999999999998877652 2 334566889999999999999999999999998544 6667788999
Q ss_pred HHHHHHHHH
Q 003510 116 TQSLEEAKV 124 (814)
Q Consensus 116 ~~A~~ea~~ 124 (814)
++||+||.+
T Consensus 78 ~~A~~eA~~ 86 (87)
T cd05162 78 KKAYDEALE 86 (87)
T ss_pred HHHHHHHHh
Confidence 999999976
No 19
>PF00855 PWWP: PWWP domain; InterPro: IPR000313 Upon characterisation of WHSC1, a gene mapping to the Wolf-Hirschhornsyndrome critical region and at its C terminus similar to the Drosophila melanogaster ASH1/trithorax group proteins, a novel protein domain designated PWWP domain was identified []. The PWWP domain is named after a conserved Pro-Trp-Trp-Pro motif. It is present in proteins of nuclear origin and plays a role in cell growth and differentiation. Due to its position, the composition of amino acids close to the PWWP motif and the pattern of other domains present it has been suggested that the domain is involved in protein-protein interactions [].; PDB: 3LYI_B 2L89_A 2NLU_A 1RI0_A 1KHC_A 3QKJ_C 2DAQ_A 1N27_A 3PFS_B 3QJ6_A ....
Probab=99.84 E-value=8.4e-22 Score=172.92 Aligned_cols=84 Identities=32% Similarity=0.579 Sum_probs=71.6
Q ss_pred CCCCCEEEEeeCCCCCCCceeeCCCCcCccccccccCCCCcEEEEEeCCCCEEEEeCCCccccccchhcccccc--CChH
Q 003510 36 LEPGDIIWAKLTGHAMWPAIVVDESLIGDYKGLNKISGGRSIPVQFFGTHDFARINVKQVISFLKGLLSSFHLK--CKKP 113 (814)
Q Consensus 36 f~~GdlVwaK~~GyPwWPa~V~~~~~~~~~~~~~~~~~~~~~~V~FFg~~~~awv~~~~l~~f~~~~~~~~~~~--~k~~ 113 (814)
|++||||||||+|||||||+|++++.... .+...+.++|+|||+++++||+.++|.||.+. .+.+..+ ++++
T Consensus 1 f~~GdlVWaK~~g~pwWPa~V~~~~~~~~-----~~~~~~~~~V~Ffg~~~~~wv~~~~i~~f~~~-~~~~~~~~~~k~~ 74 (86)
T PF00855_consen 1 FRPGDLVWAKLKGYPWWPARVCDPDEKSK-----KKRKDGHVLVRFFGDNDYAWVKPSNIKPFSEF-KEKLKKKKKKKRK 74 (86)
T ss_dssp -STTEEEEEEETTSEEEEEEEEECCHCTS-----CSSSSTEEEEEETTTTEEEEEEGGGEEECCHH-HHHHHHHHHHHSH
T ss_pred CCCCCEEEEEeCCCCCCceEEeecccccc-----cCCCCCEEEEEecCCCCEEEECHHHhhChhhh-HHHHHHhhccchH
Confidence 78999999999999999999999864433 35667889999999999999999999999954 6666654 5669
Q ss_pred HHHHHHHHHHHH
Q 003510 114 RFTQSLEEAKVY 125 (814)
Q Consensus 114 ~~~~A~~ea~~~ 125 (814)
.|++||+||+++
T Consensus 75 ~~~~Ai~eA~~~ 86 (86)
T PF00855_consen 75 SFRKAIEEAEEA 86 (86)
T ss_dssp HHHHHHHHHHHH
T ss_pred HHHHHHHHHHhC
Confidence 999999999875
No 20
>smart00293 PWWP domain with conserved PWWP motif. conservation of Pro-Trp-Trp-Pro residues
Probab=99.83 E-value=7.5e-21 Score=155.69 Aligned_cols=63 Identities=33% Similarity=0.636 Sum_probs=56.3
Q ss_pred CCCCCEEEEeeCCCCCCCceeeCCCCcCccccccccCCCCcEEEEEeCCCCEEEEeCCCccccc
Q 003510 36 LEPGDIIWAKLTGHAMWPAIVVDESLIGDYKGLNKISGGRSIPVQFFGTHDFARINVKQVISFL 99 (814)
Q Consensus 36 f~~GdlVwaK~~GyPwWPa~V~~~~~~~~~~~~~~~~~~~~~~V~FFg~~~~awv~~~~l~~f~ 99 (814)
|++||||||||+|||||||+|++++..+. ...+.++..+.|+|+|||+++||||++++|+||+
T Consensus 1 f~~GdlVwaK~~G~p~WPa~V~~~~~~~~-~~~~~~~~~~~~~V~Ffg~~~~awv~~~~l~p~~ 63 (63)
T smart00293 1 FKPGDLVWAKMKGFPWWPALVVSPKETPD-NIRKRKRFENLYPVLFFGDKDTAWISSSKLFPLT 63 (63)
T ss_pred CCCCCEEEEECCCCCCCCeEEcCcccCCh-hHhhccCCCCEEEEEEeCCCCEEEECccceeeCC
Confidence 78999999999999999999999987766 3445566778999999999999999999999985
No 21
>KOG1085 consensus Predicted methyltransferase (contains a SET domain) [General function prediction only]
Probab=99.80 E-value=9.5e-20 Score=182.76 Aligned_cols=121 Identities=37% Similarity=0.529 Sum_probs=108.9
Q ss_pred ceeEEEEEecccCeeEEeeecCCCCCeEEeecCcccCHhHHhhhHHHHhhcccCCceeEEEcC---CceEEeccc-cCCc
Q 003510 649 RKRLAFGKSGIHGFGIFAKHPHRAGDMVIEYTGELVRPSIADRREHFIYNSLVGAGTYMFRID---DERVIDATR-AGSI 724 (814)
Q Consensus 649 ~~~~~v~~s~~~G~GvfA~~~i~~G~~I~ey~Gevi~~~~~~~r~~~~~~~~~~~~~y~~~~~---~~~~iDa~~-~gn~ 724 (814)
...+.+..-.++|+||+|++.+++|+||.||.|.+|.-.++..|+.+ |......++|||.+. ..++||||. .+-+
T Consensus 255 ~egl~~~~~dgKGRGv~a~~~F~rgdFVVEY~Gdliei~eAk~rE~~-Ya~De~~GcYMYyF~h~sk~yCiDAT~et~~l 333 (392)
T KOG1085|consen 255 NEGLLEVYKDGKGRGVRAKVNFERGDFVVEYRGDLIEISEAKVREEQ-YANDEEIGCYMYYFEHNSKKYCIDATKETPWL 333 (392)
T ss_pred ccceeEEeeccccceeEeecccccCceEEEEecceeeechHHHHHHH-hccCcccceEEEeeeccCeeeeeecccccccc
Confidence 34566666677999999999999999999999999999999999995 777788889888764 578999998 5568
Q ss_pred cccccCCCCCCeeEEEEEECCeeEEEEEEcCCCCCCCeeeEeCCCC
Q 003510 725 AHLINHSCEPNCYSRVISVNGDEHIIIFAKRDIKQWEELTYDYRFF 770 (814)
Q Consensus 725 aRfiNHSC~PN~~~~~~~~~~~~~i~i~A~rdI~~GEELt~dY~~~ 770 (814)
+|+||||-.+||..+++.+++.+|++++|.|||++||||+||||.-
T Consensus 334 GRLINHS~~gNl~TKvv~Idg~pHLiLvA~rdIa~GEELlYDYGDR 379 (392)
T KOG1085|consen 334 GRLINHSVRGNLKTKVVEIDGSPHLILVARRDIAQGEELLYDYGDR 379 (392)
T ss_pred hhhhcccccCcceeeEEEecCCceEEEEeccccccchhhhhhcccc
Confidence 9999999999999999999999999999999999999999999864
No 22
>cd05837 MSH6_like The PWWP domain is present in MSH6, a mismatch repair protein homologous to bacterial MutS. The PWWP domain of histone-lysine N-methyltransferase, also known as Nuclear SET domain-containing protein 3, is also included. Mutations in MSH6 have been linked to increased cancer susceptibility, particularly in hereditary nonpolyposis colorectal cancer in humans. The role of the PWWP domain in MSH6 is not clear; MSH6 orthologs found in S. cerevisiae, Caenorhabditis elegans and Arabidopsis thaliana lack the PWWP domain. Histone methyltransferases (HMTases) induce the posttranslational methylation of lysine residues in histones and play a role in apoptosis. In the HMTase Whistle, the PWWP domain is necessary for HMTase activity. The PWWP domain, named for a conserved Pro-Trp-Trp-Pro motif, is a small domain consisting of 100-150 amino acids. The PWWP domain is found in numerous proteins that are involved in cell division, growth and differentiation. Most PWWP-domain pro
Probab=99.79 E-value=1.4e-19 Score=165.03 Aligned_cols=67 Identities=33% Similarity=0.662 Sum_probs=56.1
Q ss_pred CCCCCCEEEEeeCCCCCCCceeeCCCCcCccc-cccccCCCCcEEEEEeCCC-CEEEEeCCCccccccc
Q 003510 35 ELEPGDIIWAKLTGHAMWPAIVVDESLIGDYK-GLNKISGGRSIPVQFFGTH-DFARINVKQVISFLKG 101 (814)
Q Consensus 35 ~f~~GdlVwaK~~GyPwWPa~V~~~~~~~~~~-~~~~~~~~~~~~V~FFg~~-~~awv~~~~l~~f~~~ 101 (814)
.|.+||||||||+|||||||+|++++..+... ....++..+.|+|+|||++ +||||+.++|.||++.
T Consensus 2 ~~~~GdlVWaK~~g~PwWPa~V~~~~~~~~~~~~~~~~~~~~~~~V~FFG~~~~~aWv~~~~l~pf~~~ 70 (110)
T cd05837 2 KYQVGDLVWAKVSGYPWWPCMVCSDPLLGTYTKTKRNKRKPRQYHVQFFGDNPERAWISEKSLKPFKGS 70 (110)
T ss_pred CCCCCCEEEEeCCCCCCCCEEEecccccchhhhhhhccCCCCeEEEEEcCCCCCEEEecHHHccccCCc
Confidence 59999999999999999999999876665422 1233456688999999985 8999999999999975
No 23
>KOG1083 consensus Putative transcription factor ASH1/LIN-59 [Transcription]
Probab=99.79 E-value=2.4e-20 Score=213.84 Aligned_cols=133 Identities=35% Similarity=0.568 Sum_probs=116.7
Q ss_pred hhhHHHhh-ccceeEEEEEecccCeeEEeeecCCCCCeEEeecCcccCHhHHhhhHHHHhhcccCCceeEEEcCCceEEe
Q 003510 639 DKYKHMKE-TFRKRLAFGKSGIHGFGIFAKHPHRAGDMVIEYTGELVRPSIADRREHFIYNSLVGAGTYMFRIDDERVID 717 (814)
Q Consensus 639 ~~~~~l~~-~~~~~~~v~~s~~~G~GvfA~~~i~~G~~I~ey~Gevi~~~~~~~r~~~~~~~~~~~~~y~~~~~~~~~iD 717 (814)
|.++.|++ +.-..|.+.+.+..||||.|.++|++|+||+||+|+||...+.+.+-.-+|- ...+.|...++.+.+||
T Consensus 1166 c~nqrm~r~e~cp~L~v~~gp~~G~~v~tk~PikagtfI~EYvGeVit~ke~e~~mmtl~~--~d~~~~cL~I~p~l~id 1243 (1306)
T KOG1083|consen 1166 CSNQRMQRHEECPPLEVFRGPKKGWGVRTKEPIKAGTFIMEYVGEVITEKEFEPRMMTLYH--NDDDHYCLVIDPGLFID 1243 (1306)
T ss_pred hhhHHhhhhccCCCcceeccCCCCccccccccccccchHHHHHHHHHHHHhhcccccccCC--CCCcccccccCccccCC
Confidence 56666654 5668999999999999999999999999999999999998877666221222 23468999999999999
Q ss_pred ccccCCccccccCCCCCCeeEEEEEECCeeEEEEEEcCCCCCCCeeeEeCCCCCCC
Q 003510 718 ATRAGSIAHLINHSCEPNCYSRVISVNGDEHIIIFAKRDIKQWEELTYDYRFFSID 773 (814)
Q Consensus 718 a~~~gn~aRfiNHSC~PN~~~~~~~~~~~~~i~i~A~rdI~~GEELt~dY~~~~~~ 773 (814)
+.++||.+|||||||.|||.++.|.++|..||++||+|||.+||||||||+|....
T Consensus 1244 ~~R~~n~~RfinhscKPNc~~qkwSVNG~~Rv~L~A~rDi~kGEELtYDYN~ks~~ 1299 (1306)
T KOG1083|consen 1244 IPRMGNGARFINHSCKPNCEMQKWSVNGEYRVGLFALRDLPKGEELTYDYNFKSFN 1299 (1306)
T ss_pred hhhccccccccccccCCCCccccccccceeeeeeeecCCCCCCceEEEeccccccC
Confidence 99999999999999999999999999999999999999999999999999886554
No 24
>cd06080 MUM1_like Mutated melanoma-associated antigen 1 (MUM-1) is a melanoma-associated antigen (MAA). MUM-1 belongs to the mutated or aberrantly expressed type of MAAs, along with antigens such as CDK4, beta-catenin, gp100-in4, p15, and N-acetylglucosaminyltransferase V. It is highly expressed in several types of human cancers. The PWWP domain, named for a conserved Pro-Trp-Trp-Pro motif, is a small domain consisting of 100-150 amino acids. The PWWP domain is found in numerous proteins that are involved in cell division, growth and differentiation. Most PWWP-domain proteins seem to be nuclear, often DNA-binding, proteins that function as transcription factors regulating a variety of developmental processes.
Probab=99.71 E-value=7.5e-18 Score=142.30 Aligned_cols=76 Identities=25% Similarity=0.461 Sum_probs=59.6
Q ss_pred CCCCCEEEEeeCCCCCCCceeeCCCCcCccccccccCCCCcEEEEEeCCC-CEEEEeCCCccccccchhccccccCChHH
Q 003510 36 LEPGDIIWAKLTGHAMWPAIVVDESLIGDYKGLNKISGGRSIPVQFFGTH-DFARINVKQVISFLKGLLSSFHLKCKKPR 114 (814)
Q Consensus 36 f~~GdlVwaK~~GyPwWPa~V~~~~~~~~~~~~~~~~~~~~~~V~FFg~~-~~awv~~~~l~~f~~~~~~~~~~~~k~~~ 114 (814)
|.+|||||||++|||||||+|.+... ..+.++|+|||++ +++|+..++|+||.++ .+...+..+.+.
T Consensus 1 f~~gdlVWaK~~g~P~WPa~I~~~~~-----------~~~k~~V~FfG~~~~~a~~~~~~l~p~~~~-~~~~ek~~~~~k 68 (80)
T cd06080 1 FEKNDLVWAKIQGYPWWPAVIKSISR-----------KKQKARVNFIGDNMQSEKKGIRVVKRWLKH-FDCTEKQKLTNK 68 (80)
T ss_pred CCCCCEEEEeCCCCCCCCEEEeeecC-----------CCCEEEEEEeCCCCceeccchhhccccccc-HHHHHHHHHHHH
Confidence 78999999999999999999987531 1467999999999 8999999999999997 333333334455
Q ss_pred HHHHHHHHH
Q 003510 115 FTQSLEEAK 123 (814)
Q Consensus 115 ~~~A~~ea~ 123 (814)
.++++++|.
T Consensus 69 ~ke~~~~ai 77 (80)
T cd06080 69 AKESYEQAI 77 (80)
T ss_pred HHHHHHHHh
Confidence 666666654
No 25
>cd05839 BR140_related The PWWP domain is found in the BR140 family, which includes peregrin and BR140-like proteins 1 and 2. BR140 is the only family to contain the PWWP domain at the C terminus, with PHD and bromo domains in the N-terminal region. In myeloid leukemias, BR140 is disrupted by chromosomal translocations, similar to translocations of WHSC1 in lymphoid multiple myeloma. The PWWP domain, named for a conserved Pro-Trp-Trp-Pro motif, is a small domain consisting of 100-150 amino acids. The PWWP domain is found in numerous proteins that are involved in cell division, growth and differentiation. Most PWWP-domain proteins seem to be nuclear, often DNA-binding proteins, that function as transcription factors regulating a variety of developmental processes.
Probab=99.71 E-value=1.7e-17 Score=148.69 Aligned_cols=88 Identities=20% Similarity=0.318 Sum_probs=61.2
Q ss_pred CCCCCEEEEeeCCCCCCCceeeCCCCcCcc--------------ccccccCCCCcEEEEEeCC-CCEEEEeCCCcccccc
Q 003510 36 LEPGDIIWAKLTGHAMWPAIVVDESLIGDY--------------KGLNKISGGRSIPVQFFGT-HDFARINVKQVISFLK 100 (814)
Q Consensus 36 f~~GdlVwaK~~GyPwWPa~V~~~~~~~~~--------------~~~~~~~~~~~~~V~FFg~-~~~awv~~~~l~~f~~ 100 (814)
+.||||||||++|||||||+|+++...... ...+.......++|+||++ .+++||+.++|.||..
T Consensus 1 ~~pg~lVwaK~~g~P~wPa~iidp~~~~~~~~~~~~p~~~l~~~~~~~~~~~~~~~lV~FFd~~~s~~Wv~~~~l~pl~~ 80 (111)
T cd05839 1 LEPLTLVWAKCRGYPSYPALIIDPKMPRDGVFHNGVPPDVLTLGEARAQNADERLYLVLFFDNKRTWQWLPGDKLEPLGV 80 (111)
T ss_pred CCCcCEeeeeecCCCCCCeEeeCCCCCCcccccCCCCchhhhHHHHHhccCCCcEEEEEEecCCCcceecCHHHCccccc
Confidence 479999999999999999999998643321 1112344567799999998 6799999999999997
Q ss_pred chhc--cccccCChHHHHHHHHHHH
Q 003510 101 GLLS--SFHLKCKKPRFTQSLEEAK 123 (814)
Q Consensus 101 ~~~~--~~~~~~k~~~~~~A~~ea~ 123 (814)
+... ......+++..++|++.|.
T Consensus 81 ~~~~D~~kl~~~rk~~~rk~~~~Ay 105 (111)
T cd05839 81 DETLDKLKLKEGRKPSIRKAVQKAY 105 (111)
T ss_pred chhhhhhhhhhccCHHHHHHHHHHH
Confidence 5331 1122334444444444443
No 26
>PF05964 FYRN: F/Y-rich N-terminus; InterPro: IPR003888 The "FY-rich" domain N-terminal region is sometimes closely juxtaposed with the C-terminal region (IPR003889 from INTERPRO), but sometimes is far distant. It is of unknown function, but occurs frequently in chromatin-associated proteins like trithorax and its homologues.; GO: 0005634 nucleus; PDB: 2WZO_A.
Probab=99.70 E-value=9.3e-18 Score=132.15 Aligned_cols=54 Identities=43% Similarity=0.746 Sum_probs=42.3
Q ss_pred ecceeEEeeeeeecCCCCCCCCCcccCCCeEEEEEecCCCCCCCcceEEEEEEe
Q 003510 184 FGDLQILSLGKIVKDSEYFQDDRFIWPEGYTAVRKFTSLADPRVCNSYKMEVLR 237 (814)
Q Consensus 184 ~~~l~~~~lG~iv~~~~~fhs~~~i~P~Gy~s~R~~~s~~dp~~~~~y~~~I~~ 237 (814)
+|+|+|+|||+|++++++||+++||||+||+++|.|+|+.||.++++|+|+|+|
T Consensus 1 igsl~v~sLG~i~~~~~~fh~~~~IyP~Gy~s~R~y~S~~~p~~~~~Y~~~Ild 54 (54)
T PF05964_consen 1 IGSLTVHSLGKIVPDRPAFHSERYIYPVGYKSSRLYWSTVDPRRRCRYTCEILD 54 (54)
T ss_dssp -TTEEEEEEEE---SSGGGB-SS-B--EEEEEEEEEE-SS-TTSEEEEEEEEE-
T ss_pred CCceEEEECeEEeCCCCCccCCCEEeeCCEEEEEEEccccCCCCEEEEEEEEeC
Confidence 589999999999999999999999999999999999999999999999999986
No 27
>PF13771 zf-HC5HC2H: PHD-like zinc-binding domain
Probab=99.63 E-value=1.5e-16 Score=140.87 Aligned_cols=88 Identities=38% Similarity=0.759 Sum_probs=78.7
Q ss_pred hhhhhccccceEEccCCC--cccccccccchhcccCccceeeCCccceeEecCCCCcCcccchhhHhhcCceEEeecccc
Q 003510 429 HLACAIWIPETCLTDVKR--MEPIDGLNRVSKDRWKLLCSICGVSYGACIQCSNTTCRVAYHPLCARAAGLCVELEDEDR 506 (814)
Q Consensus 429 H~~Ca~~~pe~~~~~~~~--~~~v~~~~~~~~~~~~~~C~~C~~~~Ga~iqC~~~~C~~~fH~~CA~~~g~~~~~~~~~~ 506 (814)
|+.||+|+||+.+.+... +.++.+++.++..++++.|.+|+++.||+|+|..++|.+.||++||+.+|+.+++...
T Consensus 1 H~~Calwsp~v~~~~~~~~~~~~i~~v~~~~~~~~~~~C~~C~~~~Ga~i~C~~~~C~~~fH~~CA~~~~~~~~~~~~-- 78 (90)
T PF13771_consen 1 HENCALWSPEVYFDESEDIGGFSIEDVEKEIKRRRKLKCSICKKKGGACIGCSHPGCSRSFHVPCARKAGCFIEFDED-- 78 (90)
T ss_pred ChHHheecCceEEeCCCccccccHHhHHHHHHHHhCCCCcCCCCCCCeEEEEeCCCCCcEEChHHHccCCeEEEEccC--
Confidence 899999999999998764 6788899999999999999999998899999999999999999999999999876521
Q ss_pred ccccccCCCcccccccccccccccC
Q 003510 507 LNLLSLDEDDEDQCIRLLSFCKKHK 531 (814)
Q Consensus 507 ~~~~~~~~~~~~~~~~~~~~C~~H~ 531 (814)
...+.+||++|+
T Consensus 79 -------------~~~~~~~C~~H~ 90 (90)
T PF13771_consen 79 -------------NGKFRIFCPKHS 90 (90)
T ss_pred -------------CCceEEEChhcC
Confidence 125889999996
No 28
>PF05965 FYRC: F/Y rich C-terminus; InterPro: IPR003889 The "FY-rich" domain C-terminal region is sometimes closely juxtaposed with the N-terminal region (IPR003888 from INTERPRO), but sometimes is far distant. It is of unknown function, but occurs frequently in chromatin-associated proteins like trithorax and its homologues.; GO: 0005634 nucleus; PDB: 2WZO_A.
Probab=99.62 E-value=2.8e-16 Score=137.49 Aligned_cols=80 Identities=36% Similarity=0.583 Sum_probs=58.2
Q ss_pred cceEEEEcCC--CCceecCChhHHHHHHHHHHHhhccCCCCccccccccccccccCccccCCCcHHHHHHHhhcCCCCCC
Q 003510 244 RPLFRVTLDN--GEQFTGSTPSTCWSKICMKIREGQNNTSDDFSAEGAAEKISESGSDMFGFSNPEVMKLILGLTKSRPT 321 (814)
Q Consensus 244 ~P~F~Vt~~d--~~~~~~~s~~~~W~~i~k~i~~~~~~~~~~~~~~~~~~~~~~sG~~~FGls~p~v~~li~~Lp~a~~~ 321 (814)
+|+|+|+++| +..|.|.||+.||+.|+++|++.++... .......+++|++||||++|.|++|||+||+++.|
T Consensus 3 ~P~F~Vt~~d~p~~~~~g~s~~~~W~~i~~~v~~~r~~~~-----~~~~~~~~isG~~~FGls~p~V~~lie~Lp~a~~c 77 (86)
T PF05965_consen 3 GPLFEVTSEDDPGEVFEGSSPTEAWSEILERVNEARKQSG-----LLKLPPNSISGPEMFGLSNPAVQRLIESLPGADKC 77 (86)
T ss_dssp SEEEEEEETT-GGG-EEESSHHHHHHHHHHHHHHHHT------------TT----HHHHHSTTSHHHHHHHTTSTTGGG-
T ss_pred CCEEEEEECCCCCCEEEeCCHHHHHHHHHHHHHHHHhhcc-----ccccCCCCCCHhHhcCCCCHHHHHHHHhCCCcchh
Confidence 4999999999 4569999999999999999999877753 12234568999999999999999999999999999
Q ss_pred Cchhhhh
Q 003510 322 SKSSLCK 328 (814)
Q Consensus 322 ~k~~~~k 328 (814)
++|.++.
T Consensus 78 ~~Y~f~~ 84 (86)
T PF05965_consen 78 SNYKFRY 84 (86)
T ss_dssp TT-----
T ss_pred hcCCccc
Confidence 9997654
No 29
>smart00542 FYRC "FY-rich" domain, C-terminal region. is sometimes closely juxtaposed with the N-terminal region (FYRN), but sometimes is far distant. Unknown function, but occurs frequently in chromatin-associated proteins.
Probab=99.62 E-value=4.4e-16 Score=135.40 Aligned_cols=80 Identities=30% Similarity=0.489 Sum_probs=68.2
Q ss_pred eEEEEcCC--CCceecCChhHHHHHHHHHHHhhccCCCCccccccccccccccCccccCCCcHHHHHHHhhcCCCCCCCc
Q 003510 246 LFRVTLDN--GEQFTGSTPSTCWSKICMKIREGQNNTSDDFSAEGAAEKISESGSDMFGFSNPEVMKLILGLTKSRPTSK 323 (814)
Q Consensus 246 ~F~Vt~~d--~~~~~~~s~~~~W~~i~k~i~~~~~~~~~~~~~~~~~~~~~~sG~~~FGls~p~v~~li~~Lp~a~~~~k 323 (814)
+|+|+++| +..|.|.||++||+.|+++|++.++.... .......+||++||||++|+|++|||+||+++.|.+
T Consensus 1 lF~v~~~~~~~~~~~~~S~~~~W~~vl~~v~~~r~~~~~-----~~~~~~~isG~~mFGls~p~V~~lie~Lpga~~C~~ 75 (86)
T smart00542 1 LFRVEIESDPDEVFKGESPEKCWEMVLERVQEARIVARL-----LQLLPEGVSGEDMFGLSSPAVVKLIEQLPGVHQCTN 75 (86)
T ss_pred CeEEEEecCCCCeEEeCCHHHHHHHHHHHHHHHHHHccc-----CCCCCCCCCcHHHhCCCcHHHHHHHHhCCCchhhhh
Confidence 58999888 45799999999999999999998877532 112334789999999999999999999999999999
Q ss_pred hhhhhcc
Q 003510 324 SSLCKLT 330 (814)
Q Consensus 324 ~~~~k~~ 330 (814)
|++++..
T Consensus 76 Y~~~~~~ 82 (86)
T smart00542 76 YWFRYHR 82 (86)
T ss_pred hhhccCC
Confidence 9988654
No 30
>COG2940 Proteins containing SET domain [General function prediction only]
Probab=99.59 E-value=2e-16 Score=181.96 Aligned_cols=140 Identities=40% Similarity=0.672 Sum_probs=116.6
Q ss_pred ceeEEEEEecccCeeEEeeecCCCCCeEEeecCcccCHhHHhhhHHHHhhcccCCceeEEEcCC-ceEEeccccCCcccc
Q 003510 649 RKRLAFGKSGIHGFGIFAKHPHRAGDMVIEYTGELVRPSIADRREHFIYNSLVGAGTYMFRIDD-ERVIDATRAGSIAHL 727 (814)
Q Consensus 649 ~~~~~v~~s~~~G~GvfA~~~i~~G~~I~ey~Gevi~~~~~~~r~~~~~~~~~~~~~y~~~~~~-~~~iDa~~~gn~aRf 727 (814)
.....+..+.++|+|+||.+.|++|++|++|.|++++..++..++... .. .+....++.+.. ..++|+...|+.+||
T Consensus 331 ~~~~~~~~~~~~~~g~fa~~~i~~~e~i~~~~~~~~~~~~~~~~~~~~-~~-~~~~~~~~~~~~~~~~~d~~~~g~~~r~ 408 (480)
T COG2940 331 REPNVVQESEIKGYGVFALESIKKGEFIIEYHGEIIRRKEAREREENY-DL-LGNEFSFGLLEDKDKVRDSQKAGDVARF 408 (480)
T ss_pred cchhhhhhhcccccceeehhhccchHHHHHhcCcccchHHHHhhhccc-cc-cccccchhhccccchhhhhhhcccccce
Confidence 456677888899999999999999999999999999999888887753 22 222223333333 789999999999999
Q ss_pred ccCCCCCCeeEEEEEECCeeEEEEEEcCCCCCCCeeeEeCCCCCCC---------CCeeeeeCCCCCccccC
Q 003510 728 INHSCEPNCYSRVISVNGDEHIIIFAKRDIKQWEELTYDYRFFSID---------EQLACYCGFPRCRGVVN 790 (814)
Q Consensus 728 iNHSC~PN~~~~~~~~~~~~~i~i~A~rdI~~GEELt~dY~~~~~~---------~~~~C~Cg~~~Cr~~~~ 790 (814)
|||||.|||......+.|..++.++|+|||.+||||++||+...++ ..+.|.||++.|+++|+
T Consensus 409 ~nHS~~pN~~~~~~~~~g~~~~~~~~~rDI~~geEl~~dy~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 480 (480)
T COG2940 409 INHSCTPNCEASPIEVNGIFKISIYAIRDIKAGEELTYDYGPSLEDNRELKKLLEKRWGCACGEDRCSHTMS 480 (480)
T ss_pred eecCCCCCcceecccccccceeeecccccchhhhhhccccccccccchhhhhhhhhhhccccCCCccCCCCC
Confidence 9999999999988777666799999999999999999999886554 35789999999999874
No 31
>KOG1141 consensus Predicted histone methyl transferase [Chromatin structure and dynamics]
Probab=99.51 E-value=1.2e-14 Score=163.12 Aligned_cols=76 Identities=34% Similarity=0.715 Sum_probs=67.7
Q ss_pred eEEeccccCCccccccCCCCCCeeEEEEEECCe----eEEEEEEcCCCCCCCeeeEeCCCCCCC---CCeeeeeCCCCCc
Q 003510 714 RVIDATRAGSIAHLINHSCEPNCYSRVISVNGD----EHIIIFAKRDIKQWEELTYDYRFFSID---EQLACYCGFPRCR 786 (814)
Q Consensus 714 ~~iDa~~~gn~aRfiNHSC~PN~~~~~~~~~~~----~~i~i~A~rdI~~GEELt~dY~~~~~~---~~~~C~Cg~~~Cr 786 (814)
++|||+..||++||+||||.||..++.|+++.. +-++|||.+-|++|.|||+||++.... ....|+||+.+||
T Consensus 1179 yvIDAk~eGNlGRfLNHSC~PNl~VQnVfvdTHdlrfPwVAFFt~kyVkAgtELTWDY~Ye~g~v~~keL~C~CGa~~Cr 1258 (1262)
T KOG1141|consen 1179 YVIDAKQEGNLGRFLNHSCDPNLHVQNVFVDTHDLRFPWVAFFTRKYVKAGTELTWDYQYEQGQVATKELTCHCGAENCR 1258 (1262)
T ss_pred EEEecccccchhhhhccCCCccceeeeeeeeccccCCchhhhhhhhhhccCceeeeeccccccccccceEEEecChhhhh
Confidence 479999999999999999999999999998854 458899999999999999999986432 4689999999999
Q ss_pred ccc
Q 003510 787 GVV 789 (814)
Q Consensus 787 ~~~ 789 (814)
|.|
T Consensus 1259 grL 1261 (1262)
T KOG1141|consen 1259 GRL 1261 (1262)
T ss_pred ccc
Confidence 976
No 32
>KOG1904 consensus Transcription coactivator [Transcription]
Probab=99.50 E-value=1.7e-14 Score=160.26 Aligned_cols=89 Identities=22% Similarity=0.375 Sum_probs=76.9
Q ss_pred CCCCCCCCEEEEeeCCCCCCCceeeCCCCcCccccccccCCCCcEEEEEeCCCCEEEEeCCCccccccchhccccccCCh
Q 003510 33 CQELEPGDIIWAKLTGHAMWPAIVVDESLIGDYKGLNKISGGRSIPVQFFGTHDFARINVKQVISFLKGLLSSFHLKCKK 112 (814)
Q Consensus 33 ~~~f~~GdlVwaK~~GyPwWPa~V~~~~~~~~~~~~~~~~~~~~~~V~FFg~~~~awv~~~~l~~f~~~~~~~~~~~~k~ 112 (814)
...|++||||||||+|||.|||+|.+.... ..++..+.|.|+|||++++|||.+++|+||..+ .+.+....++
T Consensus 10 ~~~~~~GDLV~AKlkgyp~WParI~~~~~~------~~kp~pkky~V~FfGT~e~Afl~p~dlqpy~~~-k~~~g~~~k~ 82 (496)
T KOG1904|consen 10 AGNFKCGDLVFAKLKGYPPWPARIRNGPDG------AVKPPPKKYTVFFFGTKETAFLKPKDLQPYMLN-KEKLGKPNKR 82 (496)
T ss_pred cCCCCCCceeeecccCCCCCcccccCcccc------cccCCCceeEEEEeccCcccccchhhccchhhh-hhhcccchhh
Confidence 446999999999999999999999875432 123456779999999999999999999999997 8888888888
Q ss_pred --HHHHHHHHHHHHHHHh
Q 003510 113 --PRFTQSLEEAKVYLSE 128 (814)
Q Consensus 113 --~~~~~A~~ea~~~~~~ 128 (814)
+.|++|++++.+++..
T Consensus 83 ~~k~F~~av~eI~~a~~n 100 (496)
T KOG1904|consen 83 VWKGFIEAVEEIREAFNN 100 (496)
T ss_pred hhHHHHHHHHHHHHHhcC
Confidence 9999999999998843
No 33
>PF00856 SET: SET domain; InterPro: IPR001214 The SET domain appears generally as one part of a larger multidomain protein, and recently there were described three structures of very different proteins with distinct domain compositions: Neurospora crassa DIM-5, a member of the Su(var) family of HKMTs which methylate histone H3 on lysine 9,human SET7 (also called SET9), which methylates H3 on lysine 4 and garden pea Rubisco LSMT, an enzyme that does not modify histones, but instead methylates lysine 14 in the flexible tail of the large subunit of the enzyme Rubisco. The SET domain itself turned out to be an uncommon structure. Although in all three studies, electron density maps revealed the location of the AdoMet or AdoHcy cofactor, the SET domain bears no similarity at all to the canonical/AdoMet-dependent methyltransferase fold. Strictly conserved in the C-terminal motif of the SET domain tyrosine could be involved in abstracting a proton from the protonated amino group of the substrate lysine, promoting its nucleophilic attack on the sulphonium methyl group of the AdoMet cofactor. In contrast to the AdoMet-dependent protein methyltranferases of the classical type, which tend to bind their polypeptide substrates on top of the cofactor, it is noted from the Rubisco LSMT structure that the AdoMet seems to bind in a separate cleft, suggesting how a polypeptide substrate could be subjected to multiple rounds of methylation without having to be released from the enzyme. In contrast, SET7/9 is able to add only a single methyl group to its substrate. It has been demonstrated that association of SET domain and myotubularin-related proteins modulates growth control []. The SET domain-containing Drosophila melanogaster (Fruit fly) protein, enhancer of zeste, has a function in segment determination and the mammalian homologue may be involved in the regulation of gene transcription and chromatin structure. Histone lysine methylation is part of the histone code that regulated chromatin function and epigenetic control of gene function. Histone lysine methyltransferases (HMTase) differ both in their substrate specificity for the various acceptor lysines as well as in their product specificity for the number of methyl groups (one, two, or three) they transfer. With just one exception [], the HMTases belong to SET family that can be classified according to the sequences surrounding the SET domain [, ]. Structural studies on the human SET7/9, a mono-methylase, have revealed the molecular basis for the specificity of the enzyme for the histone-target and the roles of the invariant residues in the SET domain in determining the methylation specificities []. The pre-SET domain, as found in the SUV39 SET family, contains nine invariant cysteine residues that are grouped into two segments separated by a region of variable length. These 9 cysteines coordinate 3 zinc ions to form to form a triangular cluster, where each of the zinc ions is coordinated by 4 four cysteines to give a tetrahedral configuration. The function of this domain is structural, holding together 2 long segments of random coils. The C-terminal region including the post-SET domain is disordered when not interacting with a histone tail and in the absence of zinc. The three conserved cysteines in the post-SET domain form a zinc-binding site when coupled to a fourth conserved cysteine in the knot-like structure close to the SET domain active site []. The structured post-SET region brings in the C-terminal residues that participate in S-adenosylmethine-binding and histone tail interactions. The three conserved cysteine residues are essential for HMTase activity, as replacement with serine abolishes HMTase activity [], []. ; GO: 0005515 protein binding; PDB: 3TG5_A 3S7F_A 3RIB_B 3TG4_A 3S7J_A 3S7D_A 3S7B_A 3H6L_A 3SMT_A 3K5K_A ....
Probab=99.43 E-value=1.8e-13 Score=133.17 Aligned_cols=108 Identities=25% Similarity=0.371 Sum_probs=75.0
Q ss_pred CeeEEeeecCCCCCeEEeecCcccCHhHHhhh---HHH------------------------------------H-----
Q 003510 661 GFGIFAKHPHRAGDMVIEYTGELVRPSIADRR---EHF------------------------------------I----- 696 (814)
Q Consensus 661 G~GvfA~~~i~~G~~I~ey~Gevi~~~~~~~r---~~~------------------------------------~----- 696 (814)
|+||||+++|++|++|+...+.+++....... ... .
T Consensus 1 GrGl~At~dI~~Ge~I~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 80 (162)
T PF00856_consen 1 GRGLFATRDIKAGEVILIPRPAILTPDEVSPQPELLRLQLSKALEEQSRSDFSIQKKQKAEKSERSPQLESLHSISLRSE 80 (162)
T ss_dssp SEEEEESS-B-TTEEEEEESEEEEEHHHHHCHHHHSHHTTCSSSCSHHTTHHHHHHHHHHHHHHHHHHHHHHHHHCHTTT
T ss_pred CEEEEECccCCCCCEEEEECcceEEehhhhhcccchhhhhhhhhcccccccccccccccccccccccccccccccccccc
Confidence 89999999999999999888888876655331 000 0
Q ss_pred ----------hhcccCCceeEEEcCCceEEeccccCCccccccCCCCCCeeEEEEEECCeeEEEEEEcCCCCCCCeeeEe
Q 003510 697 ----------YNSLVGAGTYMFRIDDERVIDATRAGSIAHLINHSCEPNCYSRVISVNGDEHIIIFAKRDIKQWEELTYD 766 (814)
Q Consensus 697 ----------~~~~~~~~~y~~~~~~~~~iDa~~~gn~aRfiNHSC~PN~~~~~~~~~~~~~i~i~A~rdI~~GEELt~d 766 (814)
....................++.....++.|+||||.|||.+..........+.|+|.|+|++|||||++
T Consensus 81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~p~~d~~NHsc~pn~~~~~~~~~~~~~~~~~a~r~I~~GeEi~is 160 (162)
T PF00856_consen 81 LQFSQAFQWSWFISWTRSDFSSRSFSEDDRDGIALYPFADMLNHSCDPNCEVSFDFDGDGGCLVVRATRDIKKGEEIFIS 160 (162)
T ss_dssp CCTCCHHHHHHHHHHHHHEEEEEEETTEEEEEEEEETGGGGSEEESSTSEEEEEEEETTTTEEEEEESS-B-TTSBEEEE
T ss_pred ccccccccchhhccccceeeeccccccccccccccCcHhHheccccccccceeeEeecccceEEEEECCccCCCCEEEEE
Confidence 0000000011222223445667778889999999999999999877677899999999999999999999
Q ss_pred CC
Q 003510 767 YR 768 (814)
Q Consensus 767 Y~ 768 (814)
||
T Consensus 161 YG 162 (162)
T PF00856_consen 161 YG 162 (162)
T ss_dssp ST
T ss_pred EC
Confidence 97
No 34
>smart00541 FYRN "FY-rich" domain, N-terminal region. is sometimes closely juxtaposed with the C-terminal region (FYRC), but sometimes is far distant. Unknown function, but occurs frequently in chromatin-associated proteins.
Probab=99.38 E-value=3.6e-13 Score=100.65 Aligned_cols=41 Identities=27% Similarity=0.553 Sum_probs=38.2
Q ss_pred eecCCCCCCCCCcccCCCeEEEEEecCCCCCCCcceEEEEE
Q 003510 195 IVKDSEYFQDDRFIWPEGYTAVRKFTSLADPRVCNSYKMEV 235 (814)
Q Consensus 195 iv~~~~~fhs~~~i~P~Gy~s~R~~~s~~dp~~~~~y~~~I 235 (814)
++.++++||++++|||+||+++|+|+|++||+++|.|+|.|
T Consensus 2 ~~~~~~~fh~~~~IyP~Gy~s~R~y~S~~dp~~~c~Y~c~i 42 (44)
T smart00541 2 LPIQGKLFHSEDAIFPVGYKSTRKYWSVKDPNRRCNYSCVI 42 (44)
T ss_pred ccccCCCcccCCEEecCCEEEEEEEecccCCCCEEEEEEEE
Confidence 56789999999999999999999999999999999996666
No 35
>PF13831 PHD_2: PHD-finger; PDB: 2L43_A 2KU3_A.
Probab=99.17 E-value=4.7e-12 Score=90.49 Aligned_cols=36 Identities=44% Similarity=1.013 Sum_probs=22.0
Q ss_pred CCceEEccccccccccccccccccCCCCceeecccc
Q 003510 364 NNLFLQCDKCRMMVHARCYGELEPVNGVLWLCNLCR 399 (814)
Q Consensus 364 ~n~iv~C~~C~~~vH~~CYg~~~~~~~~~W~C~~C~ 399 (814)
+|+||+|++|++.||+.|||+...+++..|+|++|+
T Consensus 1 ~n~ll~C~~C~v~VH~~CYGv~~~~~~~~W~C~~C~ 36 (36)
T PF13831_consen 1 TNPLLFCDNCNVAVHQSCYGVSEVPDGDDWLCDRCE 36 (36)
T ss_dssp -CEEEE-SSS--EEEHHHHT-SS--SS-----HHH-
T ss_pred CCceEEeCCCCCcCChhhCCcccCCCCCcEECCcCC
Confidence 478999999999999999999998888789999995
No 36
>KOG2589 consensus Histone tail methylase [Chromatin structure and dynamics]
Probab=98.91 E-value=1.2e-09 Score=114.31 Aligned_cols=115 Identities=24% Similarity=0.277 Sum_probs=83.9
Q ss_pred ccCeeEEeeecCCCCCeEEeecCcccCHhHHhhhHHHHhhcccCCceeEEEcCCceEEeccccCCccccccCCCCCCeeE
Q 003510 659 IHGFGIFAKHPHRAGDMVIEYTGELVRPSIADRREHFIYNSLVGAGTYMFRIDDERVIDATRAGSIAHLINHSCEPNCYS 738 (814)
Q Consensus 659 ~~G~GvfA~~~i~~G~~I~ey~Gevi~~~~~~~r~~~~~~~~~~~~~y~~~~~~~~~iDa~~~gn~aRfiNHSC~PN~~~ 738 (814)
..|--|.+++.+.+||=|-..+|-|+.-.+++++.... .+.+.|..-... ..--|...=+.|+||||.|.|||.+
T Consensus 136 ~~gAkivst~~w~~ndkIe~LvGcIaeLse~eE~~ll~----~g~nDFSvmySt-Rk~caqLwLGPaafINHDCrpnCkF 210 (453)
T KOG2589|consen 136 QNGAKIVSTKSWSRNDKIELLVGCIAELSEAEERSLLR----GGGNDFSVMYST-RKRCAQLWLGPAAFINHDCRPNCKF 210 (453)
T ss_pred CCCceEEeeccccCCccHHHhhhhhhhcChhhhHHHHh----ccCCceeeeeec-ccchhhheeccHHhhcCCCCCCcee
Confidence 45889999999999999999999998888887774421 111222211110 0011222336899999999999987
Q ss_pred EEEEECCeeEEEEEEcCCCCCCCeeeEeCCCCCCC-CCeeeeeC
Q 003510 739 RVISVNGDEHIIIFAKRDIKQWEELTYDYRFFSID-EQLACYCG 781 (814)
Q Consensus 739 ~~~~~~~~~~i~i~A~rdI~~GEELt~dY~~~~~~-~~~~C~Cg 781 (814)
.. .|..++.+.++|||++|||||.-||..+++ +...|.|-
T Consensus 211 vs---~g~~tacvkvlRDIePGeEITcFYgs~fFG~~N~~CeC~ 251 (453)
T KOG2589|consen 211 VS---TGRDTACVKVLRDIEPGEEITCFYGSGFFGENNEECECV 251 (453)
T ss_pred ec---CCCceeeeehhhcCCCCceeEEeecccccCCCCceeEEe
Confidence 63 356899999999999999999999987776 46778883
No 37
>KOG1081 consensus Transcription factor NSD1 and related SET domain proteins [Transcription]
Probab=98.83 E-value=1e-09 Score=124.29 Aligned_cols=125 Identities=30% Similarity=0.484 Sum_probs=105.0
Q ss_pred EeeecCCCCCeEEeecCcccCHhHHhhhHHHHhhcccCCceeEEEcCCceEEeccccCCccccccCCCCCCeeEEEEEEC
Q 003510 665 FAKHPHRAGDMVIEYTGELVRPSIADRREHFIYNSLVGAGTYMFRIDDERVIDATRAGSIAHLINHSCEPNCYSRVISVN 744 (814)
Q Consensus 665 fA~~~i~~G~~I~ey~Gevi~~~~~~~r~~~~~~~~~~~~~y~~~~~~~~~iDa~~~gn~aRfiNHSC~PN~~~~~~~~~ 744 (814)
+|.++|.+| +|++|...+...+..+. ........|+..+..+..||+...||+.||+||||+|||....+.+.
T Consensus 319 ~~~~~~~k~------vg~~i~~~e~~~~~~~~-~~~~~~~~~~~~~e~~~~id~~~~~n~sr~~nh~~~~~v~~~k~~~~ 391 (463)
T KOG1081|consen 319 TAKADIRKG------VGEVIDDKECKARLQRV-KESDLVDFYMVFIQKDRIIDAGPKGNYSRFLNHSCQPNVETEKWQVI 391 (463)
T ss_pred hhHHhhhcc------cCcccchhhheeehhhh-hccchhhhhhhhhhcccccccccccchhhhhcccCCCceeechhhee
Confidence 888888888 89999888777665532 22233445666666666999999999999999999999999999999
Q ss_pred CeeEEEEEEcCCCCCCCeeeEeCCCCCCCCCeeeeeCCCCCccccCCChhHH
Q 003510 745 GDEHIIIFAKRDIKQWEELTYDYRFFSIDEQLACYCGFPRCRGVVNDTEAEE 796 (814)
Q Consensus 745 ~~~~i~i~A~rdI~~GEELt~dY~~~~~~~~~~C~Cg~~~Cr~~~~~~~~~~ 796 (814)
+..++.++|.+.|.+|||||++|..........|.|++.+|.++++......
T Consensus 392 ~~t~~~~~a~~~i~~g~e~t~~~n~~~~~~~~~~~~~~e~~~~~~~k~~~~~ 443 (463)
T KOG1081|consen 392 GDTRVGLFAPRQIEAGEELTFNYNGNCEGNEKRCCCGSENCTETKGKKKKKK 443 (463)
T ss_pred cccccccccccccccchhhhheeeccccCCcceEeecccccccCCcccccch
Confidence 9999999999999999999999998877778899999999999998877633
No 38
>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=97.68 E-value=1.1e-05 Score=63.03 Aligned_cols=45 Identities=36% Similarity=0.842 Sum_probs=36.8
Q ss_pred ccccccCCcccCCCceEEcccccccccccccccccc----CCCCceeecccc
Q 003510 352 KCSVCHMDEEYQNNLFLQCDKCRMMVHARCYGELEP----VNGVLWLCNLCR 399 (814)
Q Consensus 352 ~C~VC~~~~~~~~n~iv~C~~C~~~vH~~CYg~~~~----~~~~~W~C~~C~ 399 (814)
+|.||.. ..+.+.+|+|+.|+..+|..|+|+... +.+ .|+|..|+
T Consensus 1 ~C~vC~~--~~~~~~~i~C~~C~~~~H~~C~~~~~~~~~~~~~-~w~C~~C~ 49 (51)
T PF00628_consen 1 YCPVCGQ--SDDDGDMIQCDSCNRWYHQECVGPPEKAEEIPSG-DWYCPNCR 49 (51)
T ss_dssp EBTTTTS--SCTTSSEEEBSTTSCEEETTTSTSSHSHHSHHSS-SBSSHHHH
T ss_pred eCcCCCC--cCCCCCeEEcCCCChhhCcccCCCChhhccCCCC-cEECcCCc
Confidence 5889988 445678999999999999999998643 233 89999996
No 39
>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 KOG2461 consensus Transcription factor BLIMP-1/PRDI-BF1, contains C2H2-type Zn-finger and SET domains [Transcription]
Probab=97.58 E-value=6.1e-05 Score=83.77 Aligned_cols=110 Identities=23% Similarity=0.303 Sum_probs=80.5
Q ss_pred cceeEEEEEecc--cCeeEEeeecCCCCCeEEeecCcccCHhHHhhhHHHHhhcccCCceeEEEc---C-CceEEeccc-
Q 003510 648 FRKRLAFGKSGI--HGFGIFAKHPHRAGDMVIEYTGELVRPSIADRREHFIYNSLVGAGTYMFRI---D-DERVIDATR- 720 (814)
Q Consensus 648 ~~~~~~v~~s~~--~G~GvfA~~~i~~G~~I~ey~Gevi~~~~~~~r~~~~~~~~~~~~~y~~~~---~-~~~~iDa~~- 720 (814)
+...|.|..|.+ .|+||++...|.+|+--+=|.|+++... ... .....|+..+ + .-.+||++.
T Consensus 26 LP~~l~i~~Ssv~~~~lgV~s~~~i~~G~~FGP~~G~~~~~~----~~~------~~n~~y~W~I~~~d~~~~~iDg~d~ 95 (396)
T KOG2461|consen 26 LPPELRIKPSSVPVTGLGVWSNASILPGTSFGPFEGEIIASI----DSK------SANNRYMWEIFSSDNGYEYIDGTDE 95 (396)
T ss_pred CCCceEeeccccCCccccccccccccCcccccCccCcccccc----ccc------cccCcceEEEEeCCCceEEeccCCh
Confidence 456677777754 5789999999999999999999982111 111 1123454444 3 336899986
Q ss_pred -cCCccccccCCCCC---CeeEEEEEECCeeEEEEEEcCCCCCCCeeeEeCCCCC
Q 003510 721 -AGSIAHLINHSCEP---NCYSRVISVNGDEHIIIFAKRDIKQWEELTYDYRFFS 771 (814)
Q Consensus 721 -~gn~aRfiNHSC~P---N~~~~~~~~~~~~~i~i~A~rdI~~GEELt~dY~~~~ 771 (814)
..|+.||||=.++. |..+. .....|.++|+|+|++||||.+.|+.++
T Consensus 96 ~~sNWmRYV~~Ar~~eeQNL~A~----Q~~~~Ifyrt~r~I~p~eELlVWY~~e~ 146 (396)
T KOG2461|consen 96 EHSNWMRYVNSARSEEEQNLLAF----QIGENIFYRTIRDIRPNEELLVWYGSEY 146 (396)
T ss_pred hhcceeeeecccCChhhhhHHHH----hccCceEEEecccCCCCCeEEEEeccch
Confidence 88999999988765 64432 2346899999999999999999997654
No 41
>KOG4323 consensus Polycomb-like PHD Zn-finger protein [General function prediction only]
Probab=97.18 E-value=0.00033 Score=78.03 Aligned_cols=117 Identities=22% Similarity=0.306 Sum_probs=78.9
Q ss_pred CCccccccCCcccCCCceEEccccccccccccccccccCCCCceeeccccCCCCCCCCCceecCCCCCCceecCCCcchh
Q 003510 350 LDKCSVCHMDEEYQNNLFLQCDKCRMMVHARCYGELEPVNGVLWLCNLCRPGAPEPPPPCCLCPVVGGAMKPTTDGRWAH 429 (814)
Q Consensus 350 ~~~C~VC~~~~~~~~n~iv~C~~C~~~vH~~CYg~~~~~~~~~W~C~~C~~~~~~~~~~C~lC~~~~Galk~t~~~~WvH 429 (814)
...|.||........|.+++|++|+...||.|--... +..+.|.+..|..... ...||++|... -+|
T Consensus 83 e~~~nv~~s~~~~p~~e~~~~~r~~~~~~q~~~i~~~-~~~~~~~~~~c~~~~~---------~~~g~a~K~g~---~a~ 149 (464)
T KOG4323|consen 83 ELNPNVLTSETVLPENEKVICGRCKSGYHQGCNIPRF-PSLDIGESTECVFPIF---------SQEGGALKKGR---LAR 149 (464)
T ss_pred ccCCcccccccccCchhhhhhhhhccCcccccCccCc-CcCCcccccccccccc---------ccccccccccc---ccc
Confidence 4689999988777788999999999999999975433 4444788888876543 24677777654 344
Q ss_pred hhhhccccceEEccCCCcccccccccchhcccCccceeeCC----ccceeEecCCCCcCcccchhhHhhc
Q 003510 430 LACAIWIPETCLTDVKRMEPIDGLNRVSKDRWKLLCSICGV----SYGACIQCSNTTCRVAYHPLCARAA 495 (814)
Q Consensus 430 ~~Ca~~~pe~~~~~~~~~~~v~~~~~~~~~~~~~~C~~C~~----~~Ga~iqC~~~~C~~~fH~~CA~~~ 495 (814)
|-+.+.. .+++.-......+.|+||.. ..--+|||. +|.++||-.|-+..
T Consensus 150 -------~~l~y~~-------~~l~wD~~~~~n~qc~vC~~g~~~~~NrmlqC~--~C~~~fHq~Chqp~ 203 (464)
T KOG4323|consen 150 -------PSLPYPE-------ASLDWDSGHKVNLQCSVCYCGGPGAGNRMLQCD--KCRQWYHQACHQPL 203 (464)
T ss_pred -------ccccCcc-------cccccCccccccceeeeeecCCcCccceeeeec--ccccHHHHHhccCC
Confidence 2222211 11111111122356999985 223899999 99999999998653
No 42
>KOG4323 consensus Polycomb-like PHD Zn-finger protein [General function prediction only]
Probab=97.00 E-value=0.00043 Score=77.12 Aligned_cols=52 Identities=37% Similarity=0.703 Sum_probs=41.8
Q ss_pred CccccccCCcccCCCceEEccccccccccccccccc-----cCCCCceeeccccCCC
Q 003510 351 DKCSVCHMDEEYQNNLFLQCDKCRMMVHARCYGELE-----PVNGVLWLCNLCRPGA 402 (814)
Q Consensus 351 ~~C~VC~~~~~~~~n~iv~C~~C~~~vH~~CYg~~~-----~~~~~~W~C~~C~~~~ 402 (814)
..|+||........|.||+|++|+--+||.|.-... ......|+|..|..+.
T Consensus 169 ~qc~vC~~g~~~~~NrmlqC~~C~~~fHq~Chqp~i~~~l~~D~~~~w~C~~C~~~~ 225 (464)
T KOG4323|consen 169 LQCSVCYCGGPGAGNRMLQCDKCRQWYHQACHQPLIKDELAGDPFYEWFCDVCNRGP 225 (464)
T ss_pred ceeeeeecCCcCccceeeeecccccHHHHHhccCCCCHhhccCccceEeehhhccch
Confidence 569999988888888999999999999999985321 1123479999998764
No 43
>KOG1084 consensus Transcription factor TCF20 [Transcription]
Probab=96.96 E-value=0.00037 Score=77.35 Aligned_cols=114 Identities=22% Similarity=0.358 Sum_probs=76.2
Q ss_pred ccccccccccccCCCCceeeccccCCCCCCCCCceecCCCCCCceec-CCCcchhhhhhccccceEEccCCCcccccccc
Q 003510 376 MVHARCYGELEPVNGVLWLCNLCRPGAPEPPPPCCLCPVVGGAMKPT-TDGRWAHLACAIWIPETCLTDVKRMEPIDGLN 454 (814)
Q Consensus 376 ~vH~~CYg~~~~~~~~~W~C~~C~~~~~~~~~~C~lC~~~~Galk~t-~~~~WvH~~Ca~~~pe~~~~~~~~~~~v~~~~ 454 (814)
.+|+.|+-...... ..=+|+.|..-.......|++++... .+. ....|+|+.|++|.|.+.+.....+..+.
T Consensus 192 ~~~~~c~~~~a~ts-~~~~~~~~~~c~~~~e~~~~l~~~~~---~~d~~~~~~~h~~c~~~~~~~~~~q~~~l~~~~--- 264 (375)
T KOG1084|consen 192 LNCKLCHEPGAPTS-QFDPCDIDDDCNRSREFFCALSPKAT---IPDIGFELWYHRYCALWAPNVHESQGGQLTNVD--- 264 (375)
T ss_pred cccccccCCCCccc-ccCCcchhhhhhhhhhhhhhhcCCCc---CCccchhHHHHHHHHhcCCcceeccCccccCch---
Confidence 35666664333211 11134433322222335788887554 233 45689999999999999998876665554
Q ss_pred cchhcccCccceeeCCccceeEecCCCCcCcccchhhHhhcCc
Q 003510 455 RVSKDRWKLLCSICGVSYGACIQCSNTTCRVAYHPLCARAAGL 497 (814)
Q Consensus 455 ~~~~~~~~~~C~~C~~~~Ga~iqC~~~~C~~~fH~~CA~~~g~ 497 (814)
........+.|..|.+ .|+.+.|...+|...+|.+|+..+-.
T Consensus 265 ~~v~r~~~~~c~~c~k-~ga~~~c~~~~~~~~~h~~c~~~~~~ 306 (375)
T KOG1084|consen 265 NAVIRFPSLQCILCQK-PGATLKCVQASLLSNAHFPCARAKNG 306 (375)
T ss_pred hhhhcccchhcccccC-CCCchhhhhhhhhcccCcccccCccc
Confidence 2222223379999999 69999999999999999999977654
No 44
>PF15446 zf-PHD-like: PHD/FYVE-zinc-finger like domain
Probab=96.84 E-value=0.001 Score=63.76 Aligned_cols=69 Identities=22% Similarity=0.444 Sum_probs=47.6
Q ss_pred ccccccC-CcccCCCceEEccccccccccccccccc-------cCCCCc--eeeccccCCC--C----CCCCCceecCCC
Q 003510 352 KCSVCHM-DEEYQNNLFLQCDKCRMMVHARCYGELE-------PVNGVL--WLCNLCRPGA--P----EPPPPCCLCPVV 415 (814)
Q Consensus 352 ~C~VC~~-~~~~~~n~iv~C~~C~~~vH~~CYg~~~-------~~~~~~--W~C~~C~~~~--~----~~~~~C~lC~~~ 415 (814)
.|.+|.. +++.+..+||+|.+|..++|+.|.|... .+.... --|++|.-.. . ...-.|..|...
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 5999976 4566678999999999999999999532 111223 5599996422 1 123579999877
Q ss_pred CCCce
Q 003510 416 GGAMK 420 (814)
Q Consensus 416 ~Galk 420 (814)
|-+-+
T Consensus 81 G~~c~ 85 (175)
T PF15446_consen 81 GPSCK 85 (175)
T ss_pred CCCCc
Confidence 75543
No 45
>KOG1081 consensus Transcription factor NSD1 and related SET domain proteins [Transcription]
Probab=96.84 E-value=0.00052 Score=78.37 Aligned_cols=56 Identities=29% Similarity=0.672 Sum_probs=46.6
Q ss_pred CCCCCCCCEEEEeeCCCCCCCceeeCCCCcCccccccccCCCCcEEEEEeCCCCEEEEeCCCcccc
Q 003510 33 CQELEPGDIIWAKLTGHAMWPAIVVDESLIGDYKGLNKISGGRSIPVQFFGTHDFARINVKQVISF 98 (814)
Q Consensus 33 ~~~f~~GdlVwaK~~GyPwWPa~V~~~~~~~~~~~~~~~~~~~~~~V~FFg~~~~awv~~~~l~~f 98 (814)
...+..||+||-++..|+|||++|+.+..++. .. ... +|+||+. ++|+....+.++
T Consensus 133 ~~~~~~~~~vw~~vg~~~~~~c~vc~~~~~~~----~~---~~~-~~~f~~~--~~~~~~~~~~~~ 188 (463)
T KOG1081|consen 133 FKKREVGDLVWSKVGEYPWWPCMVCHDPLLPK----GM---KHD-HVNFFGC--YAWTHEKRVFPY 188 (463)
T ss_pred eccccceeEEeEEcCcccccccceecCcccch----hh---ccc-cceeccc--hhhHHHhhhhhc
Confidence 44789999999999999999999998876651 11 111 8999999 999999999999
No 46
>KOG1244 consensus Predicted transcription factor Requiem/NEURO-D4 [Transcription]
Probab=96.62 E-value=0.00088 Score=68.31 Aligned_cols=50 Identities=34% Similarity=0.818 Sum_probs=40.2
Q ss_pred CCCccccccCCcccCCCceEEcccccccccccccccc--ccCCCCceeeccccCC
Q 003510 349 DLDKCSVCHMDEEYQNNLFLQCDKCRMMVHARCYGEL--EPVNGVLWLCNLCRPG 401 (814)
Q Consensus 349 ~~~~C~VC~~~~~~~~n~iv~C~~C~~~vH~~CYg~~--~~~~~~~W~C~~C~~~ 401 (814)
+--.|+||+..+ ++++|+|||.|...+|.+|...+ .+|+| .|-|..|...
T Consensus 280 eck~csicgtse--nddqllfcddcdrgyhmyclsppm~eppeg-swsc~KOG~~ 331 (336)
T KOG1244|consen 280 ECKYCSICGTSE--NDDQLLFCDDCDRGYHMYCLSPPMVEPPEG-SWSCHLCLEE 331 (336)
T ss_pred ecceeccccCcC--CCceeEeecccCCceeeEecCCCcCCCCCC-chhHHHHHHH
Confidence 345899998754 45889999999999999999854 45655 9999999643
No 47
>KOG1512 consensus PHD Zn-finger protein [General function prediction only]
Probab=96.49 E-value=0.0007 Score=69.35 Aligned_cols=58 Identities=26% Similarity=0.528 Sum_probs=45.1
Q ss_pred CCCCCCCccccccCCCccccccCCcccCCCceEEccccccccccccccccccCCCCceeec
Q 003510 336 LPGGYRPVRVDWKDLDKCSVCHMDEEYQNNLFLQCDKCRMMVHARCYGELEPVNGVLWLCN 396 (814)
Q Consensus 336 lp~~~~~~~~~~~~~~~C~VC~~~~~~~~n~iv~C~~C~~~vH~~CYg~~~~~~~~~W~C~ 396 (814)
|...|++..+.--+-..|.||+...-+ +++++||.|.-.+|..|.|....|.| .|.|+
T Consensus 300 lv~~~KTY~W~C~~C~lC~IC~~P~~E--~E~~FCD~CDRG~HT~CVGL~~lP~G-~WICD 357 (381)
T KOG1512|consen 300 LVGQYKTYFWKCSSCELCRICLGPVIE--SEHLFCDVCDRGPHTLCVGLQDLPRG-EWICD 357 (381)
T ss_pred HHhHHhhcchhhcccHhhhccCCcccc--hheeccccccCCCCccccccccccCc-cchhh
Confidence 334455433333366789999987654 46999999999999999999998887 99999
No 48
>smart00508 PostSET Cysteine-rich motif following a subset of SET domains.
Probab=96.35 E-value=0.0019 Score=42.37 Aligned_cols=19 Identities=37% Similarity=1.015 Sum_probs=16.4
Q ss_pred CeeeeeCCCCCccccCCCh
Q 003510 775 QLACYCGFPRCRGVVNDTE 793 (814)
Q Consensus 775 ~~~C~Cg~~~Cr~~~~~~~ 793 (814)
.++|+||+++|||+|+...
T Consensus 2 ~~~C~CGs~~CRG~l~~~~ 20 (26)
T smart00508 2 KQPCLCGAPNCRGFLGXXX 20 (26)
T ss_pred CeeeeCCCccccceecccc
Confidence 5799999999999997654
No 49
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=94.65 E-value=0.015 Score=67.37 Aligned_cols=49 Identities=24% Similarity=0.670 Sum_probs=38.8
Q ss_pred CCCccccccCCcccCCCceEEccccccc-cccccccccc--cCCCCceeeccccC
Q 003510 349 DLDKCSVCHMDEEYQNNLFLQCDKCRMM-VHARCYGELE--PVNGVLWLCNLCRP 400 (814)
Q Consensus 349 ~~~~C~VC~~~~~~~~n~iv~C~~C~~~-vH~~CYg~~~--~~~~~~W~C~~C~~ 400 (814)
+...|.||...+.+ +.||.||.|+.+ +|.+|+-... ++-+ .|+|+-|..
T Consensus 214 E~~~C~IC~~~DpE--dVLLLCDsCN~~~YH~YCLDPdl~eiP~~-eWYC~NC~d 265 (1134)
T KOG0825|consen 214 EEVKCDICTVHDPE--DVLLLCDSCNKVYYHVYCLDPDLSESPVN-EWYCTNCSL 265 (1134)
T ss_pred ccccceeeccCChH--HhheeecccccceeeccccCccccccccc-ceecCcchh
Confidence 34589999987654 579999999999 9999997532 4444 899999964
No 50
>KOG4299 consensus PHD Zn-finger protein [General function prediction only]
Probab=94.08 E-value=0.018 Score=66.00 Aligned_cols=48 Identities=29% Similarity=0.684 Sum_probs=40.2
Q ss_pred CccccccCCcccCCCceEEcccccccccccccccc----ccCCCCceeeccccCC
Q 003510 351 DKCSVCHMDEEYQNNLFLQCDKCRMMVHARCYGEL----EPVNGVLWLCNLCRPG 401 (814)
Q Consensus 351 ~~C~VC~~~~~~~~n~iv~C~~C~~~vH~~CYg~~----~~~~~~~W~C~~C~~~ 401 (814)
++|.-|...+.. |.||.||+|...+||.|.-.+ ..|+| .|+|.-|...
T Consensus 254 ~fCsaCn~~~~F--~~~i~CD~Cp~sFH~~CLePPl~~eniP~g-~W~C~ec~~k 305 (613)
T KOG4299|consen 254 DFCSACNGSGLF--NDIICCDGCPRSFHQTCLEPPLEPENIPPG-SWFCPECKIK 305 (613)
T ss_pred HHHHHhCCcccc--ccceeecCCchHHHHhhcCCCCCcccCCCC-ccccCCCeee
Confidence 599999998766 778999999999999999754 34555 8999999853
No 51
>COG5034 TNG2 Chromatin remodeling protein, contains PhD zinc finger [Chromatin structure and dynamics]
Probab=92.96 E-value=0.064 Score=54.93 Aligned_cols=52 Identities=27% Similarity=0.639 Sum_probs=39.8
Q ss_pred cccccCCCccccccCCcccCCCceEEccc--ccc-ccccccccccccCCCCceeeccccC
Q 003510 344 RVDWKDLDKCSVCHMDEEYQNNLFLQCDK--CRM-MVHARCYGELEPVNGVLWLCNLCRP 400 (814)
Q Consensus 344 ~~~~~~~~~C~VC~~~~~~~~n~iv~C~~--C~~-~vH~~CYg~~~~~~~~~W~C~~C~~ 400 (814)
....++..+|- |...-. .+||-||+ |.. =+|..|-|+..+|.| .|+|+-|+.
T Consensus 215 d~se~e~lYCf-CqqvSy---GqMVaCDn~nCkrEWFH~~CVGLk~pPKG-~WYC~eCk~ 269 (271)
T COG5034 215 DNSEGEELYCF-CQQVSY---GQMVACDNANCKREWFHLECVGLKEPPKG-KWYCPECKK 269 (271)
T ss_pred ccccCceeEEE-eccccc---ccceecCCCCCchhheeccccccCCCCCC-cEeCHHhHh
Confidence 34445556765 776543 46999996 765 489999999999888 999999974
No 52
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=92.87 E-value=0.067 Score=41.78 Aligned_cols=33 Identities=24% Similarity=0.568 Sum_probs=26.8
Q ss_pred CCCccccccCCcccCCCceEEccccccccccccc
Q 003510 349 DLDKCSVCHMDEEYQNNLFLQCDKCRMMVHARCY 382 (814)
Q Consensus 349 ~~~~C~VC~~~~~~~~n~iv~C~~C~~~vH~~CY 382 (814)
....|.+|...-.. .+.+|+|..|+..+|..||
T Consensus 4 ~~~~C~~Cg~~~~~-~dDiVvCp~CgapyHR~C~ 36 (54)
T PF14446_consen 4 EGCKCPVCGKKFKD-GDDIVVCPECGAPYHRDCW 36 (54)
T ss_pred cCccChhhCCcccC-CCCEEECCCCCCcccHHHH
Confidence 34689999886532 3348999999999999999
No 53
>KOG1973 consensus Chromatin remodeling protein, contains PHD Zn-finger [Chromatin structure and dynamics]
Probab=92.80 E-value=0.061 Score=57.61 Aligned_cols=37 Identities=27% Similarity=0.728 Sum_probs=32.6
Q ss_pred CceEEccc--cc-cccccccccccccCCCCceeeccccCCC
Q 003510 365 NLFLQCDK--CR-MMVHARCYGELEPVNGVLWLCNLCRPGA 402 (814)
Q Consensus 365 n~iv~C~~--C~-~~vH~~CYg~~~~~~~~~W~C~~C~~~~ 402 (814)
..||-||+ |. -=||..|-|+..+|.| .|||..|+...
T Consensus 230 g~Mi~CDn~~C~~eWFH~~CVGL~~~Pkg-kWyC~~C~~~~ 269 (274)
T KOG1973|consen 230 GKMIGCDNPGCPIEWFHFTCVGLKTKPKG-KWYCPRCKAEN 269 (274)
T ss_pred ccccccCCCCCCcceEEEeccccccCCCC-cccchhhhhhh
Confidence 45999998 99 7899999999998888 69999998643
No 54
>PF08169 RBB1NT: RBB1NT (NUC162) domain; InterPro: IPR012603 This domain is found N-terminal to the ARID/BRIGHT domain in DNA-binding proteins of the Retinoblastoma-binding protein 1 family [].; PDB: 2YRV_A.
Probab=92.32 E-value=0.23 Score=43.73 Aligned_cols=85 Identities=22% Similarity=0.318 Sum_probs=48.6
Q ss_pred CCCEEEEeeC--CCCCCCceeeCCCCcCccccccccCCCCcEEEEEeCCCCEEEEeCCCccccccchhccccccCChHHH
Q 003510 38 PGDIIWAKLT--GHAMWPAIVVDESLIGDYKGLNKISGGRSIPVQFFGTHDFARINVKQVISFLKGLLSSFHLKCKKPRF 115 (814)
Q Consensus 38 ~GdlVwaK~~--GyPwWPa~V~~~~~~~~~~~~~~~~~~~~~~V~FFg~~~~awv~~~~l~~f~~~~~~~~~~~~k~~~~ 115 (814)
.|-+|-.... --.|-||.|+.++-... . .-++.++.|+=|-|..|+-|+.+++..|... .........
T Consensus 8 lGkVV~V~~~~~k~~W~PALVVsPsc~dd---v--~VkKD~~lVRSFkD~KfysV~rkd~~e~~~~-----~~~k~e~s~ 77 (96)
T PF08169_consen 8 LGKVVCVESTKKKTSWFPALVVSPSCNDD---V--TVKKDQCLVRSFKDGKFYSVARKDVREFDID-----SLPKSESSL 77 (96)
T ss_dssp TTSEEEEE-SS-SS-EEEEEEE--SS-SS---------TT-EEEEESSS--EEEE-TTTEE---ST-----TS-HHHHHH
T ss_pred cCcEEEEEcCCCCCceeeEEEEcCCccce---e--eeccceEEEEEeccCceEEEEhhhhhhcccc-----cCCcccchh
Confidence 6777777554 34699999999754333 1 2446789999999999999999999988764 111122467
Q ss_pred HHHHHHHHHHHHhCCCc
Q 003510 116 TQSLEEAKVYLSEQKLP 132 (814)
Q Consensus 116 ~~A~~ea~~~~~~~~~~ 132 (814)
+.|++.|..++....+|
T Consensus 78 k~al~~A~~Fl~~~~vP 94 (96)
T PF08169_consen 78 KPALDKASTFLKTGVVP 94 (96)
T ss_dssp -HHHHHHHHHHHS----
T ss_pred hHHHHHHHHHHhcCCCC
Confidence 89999999999877665
No 55
>PF11717 Tudor-knot: RNA binding activity-knot of a chromodomain ; PDB: 2EKO_A 2RO0_A 2RNZ_A 1WGS_A 3E9G_A 3E9F_A 2K3X_A 2K3Y_A 2EFI_A 2F5K_F ....
Probab=91.66 E-value=0.19 Score=39.83 Aligned_cols=52 Identities=15% Similarity=0.234 Sum_probs=41.2
Q ss_pred CCCCCEEEEeeCCCCCCCceeeCCCCcCccccccccCCCCcEEEEEeCCCCE--EEEeCCCcc
Q 003510 36 LEPGDIIWAKLTGHAMWPAIVVDESLIGDYKGLNKISGGRSIPVQFFGTHDF--ARINVKQVI 96 (814)
Q Consensus 36 f~~GdlVwaK~~GyPwWPa~V~~~~~~~~~~~~~~~~~~~~~~V~FFg~~~~--awv~~~~l~ 96 (814)
|++|+.|+++.+.--|-+|.|++.. ...+...|.|.|.|-+.+ -||+.++|.
T Consensus 1 ~~vG~~v~~~~~~~~~y~A~I~~~r---------~~~~~~~YyVHY~g~nkR~DeWV~~~~i~ 54 (55)
T PF11717_consen 1 FEVGEKVLCKYKDGQWYEAKILDIR---------EKNGEPEYYVHYQGWNKRLDEWVPESRIR 54 (55)
T ss_dssp --TTEEEEEEETTTEEEEEEEEEEE---------ECTTCEEEEEEETTSTGCC-EEEETTTEE
T ss_pred CCcCCEEEEEECCCcEEEEEEEEEE---------ecCCCEEEEEEcCCCCCCceeeecHHHcc
Confidence 6799999999988889999998742 233446799999999885 999999874
No 56
>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 smart00743 Agenet Tudor-like domain present in plant sequences. Domain in plant sequences with possible chromatin-associated functions.
Probab=90.01 E-value=0.38 Score=38.82 Aligned_cols=53 Identities=11% Similarity=0.139 Sum_probs=38.8
Q ss_pred CCCCCCEEEEeeC-CCCCCCceeeCCCCcCccccccccCCCCcEEEEEeC--CCCEEEEeCCCccccc
Q 003510 35 ELEPGDIIWAKLT-GHAMWPAIVVDESLIGDYKGLNKISGGRSIPVQFFG--THDFARINVKQVISFL 99 (814)
Q Consensus 35 ~f~~GdlVwaK~~-GyPwWPa~V~~~~~~~~~~~~~~~~~~~~~~V~FFg--~~~~awv~~~~l~~f~ 99 (814)
.|+.||+|-|+.+ .-.||+|+|..... .+.|.|+|.+ ....-=++.++|+|-.
T Consensus 2 ~~~~G~~Ve~~~~~~~~W~~a~V~~~~~------------~~~~~V~~~~~~~~~~e~v~~~~LRp~~ 57 (61)
T smart00743 2 DFKKGDRVEVFSKEEDSWWEAVVTKVLG------------DGKYLVRYLTESEPLKETVDWSDLRPHP 57 (61)
T ss_pred CcCCCCEEEEEECCCCEEEEEEEEEECC------------CCEEEEEECCCCcccEEEEeHHHcccCC
Confidence 5899999999983 56799999976311 3458999998 6555666666666643
No 58
>smart00333 TUDOR Tudor domain. Domain of unknown function present in several RNA-binding proteins. 10 copies in the Drosophila Tudor protein. Initial proposal that the survival motor neuron gene product contain a Tudor domain are corroborated by more recent database search techniques such as PSI-BLAST (unpublished).
Probab=89.42 E-value=0.5 Score=37.40 Aligned_cols=54 Identities=11% Similarity=0.110 Sum_probs=44.6
Q ss_pred CCCCCCEEEEeeCCCCCCCceeeCCCCcCccccccccCCCCcEEEEEeCCCCEEEEeCCCcccccc
Q 003510 35 ELEPGDIIWAKLTGHAMWPAIVVDESLIGDYKGLNKISGGRSIPVQFFGTHDFARINVKQVISFLK 100 (814)
Q Consensus 35 ~f~~GdlVwaK~~GyPwWPa~V~~~~~~~~~~~~~~~~~~~~~~V~FFg~~~~awv~~~~l~~f~~ 100 (814)
.+++|++|-|+...=-|.+|+|..... .+.+.|+|.+.....||+..+|.+...
T Consensus 2 ~~~~G~~~~a~~~d~~wyra~I~~~~~------------~~~~~V~f~D~G~~~~v~~~~l~~l~~ 55 (57)
T smart00333 2 TFKVGDKVAARWEDGEWYRARIIKVDG------------EQLYEVFFIDYGNEEVVPPSDLRPLPE 55 (57)
T ss_pred CCCCCCEEEEEeCCCCEEEEEEEEECC------------CCEEEEEEECCCccEEEeHHHeecCCC
Confidence 478999999999666799999976421 145899999999999999999987754
No 59
>KOG1141 consensus Predicted histone methyl transferase [Chromatin structure and dynamics]
Probab=88.50 E-value=0.45 Score=56.06 Aligned_cols=57 Identities=19% Similarity=0.232 Sum_probs=50.9
Q ss_pred chhhhhHHHhhccceeEEEEEecccCeeEEeeecCCCCCeEEeecCcccCHhHHhhh
Q 003510 636 SMADKYKHMKETFRKRLAFGKSGIHGFGIFAKHPHRAGDMVIEYTGELVRPSIADRR 692 (814)
Q Consensus 636 ~~~~~~~~l~~~~~~~~~v~~s~~~G~GvfA~~~i~~G~~I~ey~Gevi~~~~~~~r 692 (814)
..-|.||..|-+.+.+|.+.++..+|||++...+|..|.||+-|.|.++...-++..
T Consensus 785 ~~~C~nrmvqhg~qvRlq~fkt~~kGWg~rclddi~~g~fVciy~g~~l~~~~sdks 841 (1262)
T KOG1141|consen 785 GPDCLNRMVQHGYQVRLQRFKTIHKGWGRRCLDDITGGNFVCIYPGGALLHQISDKS 841 (1262)
T ss_pred cHHHHHHHhhcCceeEeeeccccccccceEeeeecCCceEEEEecchhhhhhhchhh
Confidence 345678889999999999999999999999999999999999999999887766655
No 60
>KOG0383 consensus Predicted helicase [General function prediction only]
Probab=88.36 E-value=0.2 Score=59.52 Aligned_cols=49 Identities=33% Similarity=0.716 Sum_probs=39.3
Q ss_pred cccCCCccccccCCcccCCCceEEcccccccccccccccc--ccCCCCceeeccccC
Q 003510 346 DWKDLDKCSVCHMDEEYQNNLFLQCDKCRMMVHARCYGEL--EPVNGVLWLCNLCRP 400 (814)
Q Consensus 346 ~~~~~~~C~VC~~~~~~~~n~iv~C~~C~~~vH~~CYg~~--~~~~~~~W~C~~C~~ 400 (814)
.|.+.+.|.||...+. ++-|+.|-..+|..|.+.. ..+.++ |.|.+|..
T Consensus 43 ~~~~~e~c~ic~~~g~-----~l~c~tC~~s~h~~cl~~pl~~~p~~~-~~c~Rc~~ 93 (696)
T KOG0383|consen 43 DDAEQEACRICADGGE-----LLWCDTCPASFHASCLGPPLTPQPNGE-FICPRCFC 93 (696)
T ss_pred chhhhhhhhhhcCCCc-----EEEeccccHHHHHHccCCCCCcCCccc-eeeeeecc
Confidence 4556689999987653 7789999999999999865 345665 99999954
No 61
>PF15057 DUF4537: Domain of unknown function (DUF4537)
Probab=87.24 E-value=0.79 Score=42.95 Aligned_cols=72 Identities=18% Similarity=0.304 Sum_probs=49.1
Q ss_pred CchhhhhhcccccCCCCCCCCCEEEEeeC--CCCCCCceeeCCCCcCccccccccCCCCcEEEEEeCCCCEEEEeCCCcc
Q 003510 19 DYDEMVVLAASLDDCQELEPGDIIWAKLT--GHAMWPAIVVDESLIGDYKGLNKISGGRSIPVQFFGTHDFARINVKQVI 96 (814)
Q Consensus 19 ~~~~~~~~~~~~~~~~~f~~GdlVwaK~~--GyPwWPa~V~~~~~~~~~~~~~~~~~~~~~~V~FFg~~~~awv~~~~l~ 96 (814)
...++..+..++ ...+++||-|+|+-. ++.|=||+|..-.+ +.......|.|.||... .++++...+.
T Consensus 41 ~~~~iI~~~~~~--~~~L~~GD~VLA~~~~~~~~Y~Pg~V~~~~~-------~~~~~~~~~~V~f~ng~-~~~vp~~~~~ 110 (124)
T PF15057_consen 41 PISDIIALSDAM--RHSLQVGDKVLAPWEPDDCRYGPGTVIAGPE-------RRASEDKEYTVRFYNGK-TAKVPRGEVI 110 (124)
T ss_pred ChHHeEEccCcc--cCcCCCCCEEEEecCcCCCEEeCEEEEECcc-------ccccCCceEEEEEECCC-CCccchhhEE
Confidence 344444444443 778999999999976 77789999985321 12344567999999877 5667666666
Q ss_pred cccc
Q 003510 97 SFLK 100 (814)
Q Consensus 97 ~f~~ 100 (814)
....
T Consensus 111 ~I~~ 114 (124)
T PF15057_consen 111 WISP 114 (124)
T ss_pred ECCH
Confidence 5544
No 62
>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=85.39 E-value=0.41 Score=37.04 Aligned_cols=29 Identities=38% Similarity=0.954 Sum_probs=24.4
Q ss_pred ceeeCC--ccceeEecCCCCcCcccchhhHhhc
Q 003510 465 CSICGV--SYGACIQCSNTTCRVAYHPLCARAA 495 (814)
Q Consensus 465 C~~C~~--~~Ga~iqC~~~~C~~~fH~~CA~~~ 495 (814)
|.+|++ ..+.+|+|. .|..+||..|....
T Consensus 2 C~vC~~~~~~~~~i~C~--~C~~~~H~~C~~~~ 32 (51)
T PF00628_consen 2 CPVCGQSDDDGDMIQCD--SCNRWYHQECVGPP 32 (51)
T ss_dssp BTTTTSSCTTSSEEEBS--TTSCEEETTTSTSS
T ss_pred CcCCCCcCCCCCeEEcC--CCChhhCcccCCCC
Confidence 777876 478999999 89999999998544
No 63
>KOG0957 consensus PHD finger protein [General function prediction only]
Probab=84.80 E-value=0.71 Score=51.54 Aligned_cols=48 Identities=25% Similarity=0.646 Sum_probs=37.3
Q ss_pred CCCccccccCCcccCCCceEEccccccccccccccccc--cCC---CCceeeccc
Q 003510 349 DLDKCSVCHMDEEYQNNLFLQCDKCRMMVHARCYGELE--PVN---GVLWLCNLC 398 (814)
Q Consensus 349 ~~~~C~VC~~~~~~~~n~iv~C~~C~~~vH~~CYg~~~--~~~---~~~W~C~~C 398 (814)
....|.||.... +.-.++.||.|++.+|..|+..+. .|. ...|.|.-|
T Consensus 543 ~~ysCgiCkks~--dQHll~~CDtC~lhYHlGCL~PPLTR~Pkk~kn~gWqCsEC 595 (707)
T KOG0957|consen 543 MNYSCGICKKST--DQHLLTQCDTCHLHYHLGCLSPPLTRLPKKNKNFGWQCSEC 595 (707)
T ss_pred cceeeeeeccch--hhHHHhhcchhhceeeccccCCccccCcccccCcceeeccc
Confidence 346899999854 456799999999999999997542 222 346999999
No 64
>KOG1473 consensus Nucleosome remodeling factor, subunit NURF301/BPTF [Chromatin structure and dynamics; Transcription]
Probab=84.03 E-value=0.95 Score=55.39 Aligned_cols=110 Identities=25% Similarity=0.494 Sum_probs=73.7
Q ss_pred CccccccCCcccCCCceEEccccccccccccccccc-cCCCCceeeccccCCCCCCCCCceecCCCCCCceecCCCcchh
Q 003510 351 DKCSVCHMDEEYQNNLFLQCDKCRMMVHARCYGELE-PVNGVLWLCNLCRPGAPEPPPPCCLCPVVGGAMKPTTDGRWAH 429 (814)
Q Consensus 351 ~~C~VC~~~~~~~~n~iv~C~~C~~~vH~~CYg~~~-~~~~~~W~C~~C~~~~~~~~~~C~lC~~~~Galk~t~~~~WvH 429 (814)
+.|.+|...++ ++.|..|...||..|.--+. ......|-|..|...+.+....|+|=+.+.+...+.+.+
T Consensus 345 dhcrf~~d~~~-----~lc~Et~prvvhlEcv~hP~~~~~s~~~e~evc~~hkvngvvd~vl~~~K~~~~iR~~~i---- 415 (1414)
T KOG1473|consen 345 DHCRFCHDLGD-----LLCCETCPRVVHLECVFHPRFAVPSAFWECEVCNIHKVNGVVDCVLPPSKNVDSIRHTPI---- 415 (1414)
T ss_pred ccccccCcccc-----eeecccCCceEEeeecCCccccCCCccchhhhhhhhccCcccccccChhhcccceeccCC----
Confidence 58999987554 88999999999999975332 233448999999876655566788888777776443321
Q ss_pred hhhhccccceEEccCCCcccccccccchhccc--CccceeeCCccceeEecCCCCcCcccch-hhHh
Q 003510 430 LACAIWIPETCLTDVKRMEPIDGLNRVSKDRW--KLLCSICGVSYGACIQCSNTTCRVAYHP-LCAR 493 (814)
Q Consensus 430 ~~Ca~~~pe~~~~~~~~~~~v~~~~~~~~~~~--~~~C~~C~~~~Ga~iqC~~~~C~~~fH~-~CA~ 493 (814)
|.+......| ...|.||+. .|..+ |.+..|...||. .|--
T Consensus 416 ----------------------G~dr~gr~ywfi~rrl~Ie~~-det~l-~yysT~pqly~ll~cLd 458 (1414)
T KOG1473|consen 416 ----------------------GRDRYGRKYWFISRRLRIEGM-DETLL-WYYSTCPQLYHLLRCLD 458 (1414)
T ss_pred ----------------------CcCccccchhceeeeeEEecC-CCcEE-EEecCcHHHHHHHHHhc
Confidence 1111111111 247999997 45444 445679999999 7753
No 65
>PF07649 C1_3: C1-like domain; InterPro: IPR011424 This short domain is rich in cysteines and histidines. The pattern of conservation is similar to that found in IPR002219 from INTERPRO. C1 domains are protein kinase C-like zinc finger structures. Diacylglycerol (DAG) kinases (DGKs) have a two or three commonly conserved cysteine-rich C1 domains []. DGKs modulate the balance between the two signaling lipids, DAG and phosphatidic acid (PA), by phosphorylating DAG to yield PA []. The PKD (protein kinase D) family are novel DAG receptors. They have twin C1 domains, designated C1a and C1b, which bind DAG or phorbol esters. Individual C1 domains differ in ligand-binding activity and selectivity []. ; GO: 0047134 protein-disulfide reductase activity, 0055114 oxidation-reduction process; PDB: 1V5N_A.
Probab=83.27 E-value=0.5 Score=32.40 Aligned_cols=28 Identities=25% Similarity=0.829 Sum_probs=12.4
Q ss_pred ccccccCCcccCCCceEEcccccccccccc
Q 003510 352 KCSVCHMDEEYQNNLFLQCDKCRMMVHARC 381 (814)
Q Consensus 352 ~C~VC~~~~~~~~n~iv~C~~C~~~vH~~C 381 (814)
.|++|....+. +....|..|+..+|..|
T Consensus 2 ~C~~C~~~~~~--~~~Y~C~~Cdf~lH~~C 29 (30)
T PF07649_consen 2 RCDACGKPIDG--GWFYRCSECDFDLHEEC 29 (30)
T ss_dssp --TTTS----S----EEE-TTT-----HHH
T ss_pred cCCcCCCcCCC--CceEECccCCCccChhc
Confidence 58999876543 46889999999999988
No 66
>KOG1044 consensus Actin-binding LIM Zn-finger protein Limatin involved in axon guidance [Signal transduction mechanisms; Cytoskeleton]
Probab=83.07 E-value=0.46 Score=54.15 Aligned_cols=38 Identities=24% Similarity=0.542 Sum_probs=26.4
Q ss_pred hhcccCccceeeCC-ccceeEecCCCCcCcccchhhHhhcCce
Q 003510 457 SKDRWKLLCSICGV-SYGACIQCSNTTCRVAYHPLCARAAGLC 498 (814)
Q Consensus 457 ~~~~~~~~C~~C~~-~~Ga~iqC~~~~C~~~fH~~CA~~~g~~ 498 (814)
....+..+|..|.+ ..|..+|=. + ..|||+||+-.-+.
T Consensus 187 y~~~fgvkc~~c~~fisgkvLqag--~--kh~HPtCARCsRCg 225 (670)
T KOG1044|consen 187 YQAKFGVKCEECEKFISGKVLQAG--D--KHFHPTCARCSRCG 225 (670)
T ss_pred hhhhcCeehHHhhhhhhhhhhhcc--C--cccCcchhhhhhhc
Confidence 44455667888876 456666654 3 78999999877664
No 67
>KOG1512 consensus PHD Zn-finger protein [General function prediction only]
Probab=82.73 E-value=0.75 Score=47.82 Aligned_cols=49 Identities=16% Similarity=0.457 Sum_probs=36.7
Q ss_pred CccccccCCccc----CCCceEEccccccccccccccccc----cCCCCceeecccc
Q 003510 351 DKCSVCHMDEEY----QNNLFLQCDKCRMMVHARCYGELE----PVNGVLWLCNLCR 399 (814)
Q Consensus 351 ~~C~VC~~~~~~----~~n~iv~C~~C~~~vH~~CYg~~~----~~~~~~W~C~~C~ 399 (814)
..|.+|+..... .-|-+|.|.-|..+.|-+|..... ......|-|-.|+
T Consensus 259 ~~~~~~~~~~~~~~~~r~~S~I~C~~C~~~~HP~Ci~M~~elv~~~KTY~W~C~~C~ 315 (381)
T KOG1512|consen 259 NERKHFWDIQTNIIQSRRNSWIVCKPCATRPHPYCVAMIPELVGQYKTYFWKCSSCE 315 (381)
T ss_pred hhhhhhhcchhhhhhhhhccceeecccccCCCCcchhcCHHHHhHHhhcchhhcccH
Confidence 589999876532 346689999999999999987542 2334579988886
No 68
>KOG2084 consensus Predicted histone tail methylase containing SET domain [Chromatin structure and dynamics]
Probab=82.15 E-value=2.1 Score=49.47 Aligned_cols=40 Identities=33% Similarity=0.422 Sum_probs=29.0
Q ss_pred cccCCCCCCeeEEEEEECCeeEEEEEEcCCCCCCC-eeeEeCCCC
Q 003510 727 LINHSCEPNCYSRVISVNGDEHIIIFAKRDIKQWE-ELTYDYRFF 770 (814)
Q Consensus 727 fiNHSC~PN~~~~~~~~~~~~~i~i~A~rdI~~GE-ELt~dY~~~ 770 (814)
++||||.||+.. ..+ .....+++...+.+++ ||++.|...
T Consensus 208 ~~~hsC~pn~~~---~~~-~~~~~~~~~~~~~~~~~~l~~~y~~~ 248 (482)
T KOG2084|consen 208 LFNHSCFPNISV---IFD-GRGLALLVPAGIDAGEEELTISYTDP 248 (482)
T ss_pred hcccCCCCCeEE---EEC-CceeEEEeecccCCCCCEEEEeeccc
Confidence 679999999872 222 3455566777777776 999999554
No 69
>cd04508 TUDOR Tudor domains are found in many eukaryotic organisms and have been implicated in protein-protein interactions in which methylated protein substrates bind to these domains. For example, the Tudor domain of Survival of Motor Neuron (SMN) binds to symmetrically dimethylated arginines of arginine-glycine (RG) rich sequences found in the C-terminal tails of Sm proteins. The SMN protein is linked to spinal muscular atrophy. Another example is the tandem tudor domains of 53BP1, which bind to histone H4 specifically dimethylated at Lys20 (H4-K20me2). 53BP1 is a key transducer of the DNA damage checkpoint signal.
Probab=80.92 E-value=1.8 Score=32.79 Aligned_cols=47 Identities=15% Similarity=0.188 Sum_probs=37.9
Q ss_pred CCEEEEeeCC-CCCCCceeeCCCCcCccccccccCCCCcEEEEEeCCCCEEEEeCCCccc
Q 003510 39 GDIIWAKLTG-HAMWPAIVVDESLIGDYKGLNKISGGRSIPVQFFGTHDFARINVKQVIS 97 (814)
Q Consensus 39 GdlVwaK~~G-yPwWPa~V~~~~~~~~~~~~~~~~~~~~~~V~FFg~~~~awv~~~~l~~ 97 (814)
|++|.|+... --|.+|+|..... .+.+.|+|.+-.....|+.++|.+
T Consensus 1 G~~c~a~~~~d~~wyra~V~~~~~------------~~~~~V~f~DyG~~~~v~~~~l~~ 48 (48)
T cd04508 1 GDLCLAKYSDDGKWYRAKITSILS------------DGKVEVFFVDYGNTEVVPLSDLRP 48 (48)
T ss_pred CCEEEEEECCCCeEEEEEEEEECC------------CCcEEEEEEcCCCcEEEeHHHcCC
Confidence 7899999987 7899999976321 455899999999988898877754
No 70
>PF00130 C1_1: Phorbol esters/diacylglycerol binding domain (C1 domain); InterPro: IPR002219 Diacylglycerol (DAG) is an important second messenger. Phorbol esters (PE) are analogues of DAG and potent tumour promoters that cause a variety of physiological changes when administered to both cells and tissues. DAG activates a family of serine/threonine protein kinases, collectively known as protein kinase C (PKC) []. Phorbol esters can directly stimulate PKC. The N-terminal region of PKC, known as C1, has been shown [] to bind PE and DAG in a phospholipid and zinc-dependent fashion. The C1 region contains one or two copies (depending on the isozyme of PKC) of a cysteine-rich domain, which is about 50 amino-acid residues long, and which is essential for DAG/PE-binding. The DAG/PE-binding domain binds two zinc ions; the ligands of these metal ions are probably the six cysteines and two histidines that are conserved in this domain.; GO: 0035556 intracellular signal transduction; PDB: 1RFH_A 2FNF_X 3PFQ_A 1PTQ_A 1PTR_A 2VRW_B 1XA6_A 2ENN_A 1TBN_A 1TBO_A ....
Probab=80.22 E-value=1.7 Score=33.87 Aligned_cols=36 Identities=19% Similarity=0.419 Sum_probs=26.3
Q ss_pred CCccccccCCcccCCCceEEcccccccccccccccc
Q 003510 350 LDKCSVCHMDEEYQNNLFLQCDKCRMMVHARCYGEL 385 (814)
Q Consensus 350 ~~~C~VC~~~~~~~~n~iv~C~~C~~~vH~~CYg~~ 385 (814)
...|++|...--.....-+.|..|++.||..|....
T Consensus 11 ~~~C~~C~~~i~g~~~~g~~C~~C~~~~H~~C~~~~ 46 (53)
T PF00130_consen 11 PTYCDVCGKFIWGLGKQGYRCSWCGLVCHKKCLSKV 46 (53)
T ss_dssp TEB-TTSSSBECSSSSCEEEETTTT-EEETTGGCTS
T ss_pred CCCCcccCcccCCCCCCeEEECCCCChHhhhhhhhc
Confidence 368999987653345567899999999999998643
No 71
>KOG1973 consensus Chromatin remodeling protein, contains PHD Zn-finger [Chromatin structure and dynamics]
Probab=79.82 E-value=0.82 Score=49.03 Aligned_cols=29 Identities=38% Similarity=0.747 Sum_probs=24.1
Q ss_pred cceeeCCccceeEecCCCCcC-cccchhhH
Q 003510 464 LCSICGVSYGACIQCSNTTCR-VAYHPLCA 492 (814)
Q Consensus 464 ~C~~C~~~~Ga~iqC~~~~C~-~~fH~~CA 492 (814)
.|.-....+|.+|.|...+|. .+||..|-
T Consensus 221 yC~Cnqvsyg~Mi~CDn~~C~~eWFH~~CV 250 (274)
T KOG1973|consen 221 YCICNQVSYGKMIGCDNPGCPIEWFHFTCV 250 (274)
T ss_pred EEEecccccccccccCCCCCCcceEEEecc
Confidence 444444479999999999999 99999996
No 72
>PF03107 C1_2: C1 domain; InterPro: IPR004146 This short domain is rich in cysteines and histidines. The pattern of conservation is similar to that found in DAG_PE-bind (IPR002219 from INTERPRO), therefore we have termed this domain DC1 for divergent C1 domain. This domain probably also binds to two zinc ions. The function of proteins with this domain is uncertain, however this domain may bind to molecules such as diacylglycerol. This family are found in plant proteins.
Probab=77.83 E-value=1.6 Score=29.97 Aligned_cols=28 Identities=32% Similarity=0.840 Sum_probs=22.1
Q ss_pred ccccccCCcccCCCceEEcccccccccccc
Q 003510 352 KCSVCHMDEEYQNNLFLQCDKCRMMVHARC 381 (814)
Q Consensus 352 ~C~VC~~~~~~~~n~iv~C~~C~~~vH~~C 381 (814)
.|+||+..-+... ...|+.|...+|..|
T Consensus 2 ~C~~C~~~~~~~~--~Y~C~~c~f~lh~~C 29 (30)
T PF03107_consen 2 WCDVCRRKIDGFY--FYHCSECCFTLHVRC 29 (30)
T ss_pred CCCCCCCCcCCCE--eEEeCCCCCeEcCcc
Confidence 5999976544322 889999999999988
No 73
>cd00029 C1 Protein kinase C conserved region 1 (C1) . Cysteine-rich zinc binding domain. Some members of this domain family bind phorbol esters and diacylglycerol, some are reported to bind RasGTP. May occur in tandem arrangement. Diacylglycerol (DAG) is a second messenger, released by activation of Phospholipase D. Phorbol Esters (PE) can act as analogues of DAG and mimic its downstream effects in, for example, tumor promotion. Protein Kinases C are activated by DAG/PE, this activation is mediated by their N-terminal conserved region (C1). DAG/PE binding may be phospholipid dependent. C1 domains may also mediate DAG/PE signals in chimaerins (a family of Rac GTPase activating proteins), RasGRPs (exchange factors for Ras/Rap1), and Munc13 isoforms (scaffolding proteins involved in exocytosis).
Probab=77.72 E-value=1.1 Score=34.19 Aligned_cols=34 Identities=24% Similarity=0.480 Sum_probs=26.0
Q ss_pred CccccccCCcccCCCceEEccccccccccccccc
Q 003510 351 DKCSVCHMDEEYQNNLFLQCDKCRMMVHARCYGE 384 (814)
Q Consensus 351 ~~C~VC~~~~~~~~n~iv~C~~C~~~vH~~CYg~ 384 (814)
..|++|...-......-+.|+.|++.||..|...
T Consensus 12 ~~C~~C~~~i~~~~~~~~~C~~C~~~~H~~C~~~ 45 (50)
T cd00029 12 TFCDVCRKSIWGLFKQGLRCSWCKVKCHKKCADK 45 (50)
T ss_pred CChhhcchhhhccccceeEcCCCCCchhhhhhcc
Confidence 5899998753322345778999999999999853
No 74
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=76.67 E-value=1.7 Score=36.30 Aligned_cols=33 Identities=18% Similarity=0.364 Sum_probs=13.2
Q ss_pred CccccccCCcc-cCCCceEEcc--cccccccccccc
Q 003510 351 DKCSVCHMDEE-YQNNLFLQCD--KCRMMVHARCYG 383 (814)
Q Consensus 351 ~~C~VC~~~~~-~~~n~iv~C~--~C~~~vH~~CYg 383 (814)
..|.||..... .+.-+.+.|+ .|+..+|..|.-
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 57999998654 3344578998 799999999985
No 75
>KOG1245 consensus Chromatin remodeling complex WSTF-ISWI, large subunit (contains heterochromatin localization, PHD and BROMO domains) [Chromatin structure and dynamics]
Probab=75.65 E-value=0.74 Score=59.50 Aligned_cols=50 Identities=28% Similarity=0.618 Sum_probs=40.0
Q ss_pred CCccccccCCcccCCCceEEccccccccccccccc--cccCCCCceeeccccCCC
Q 003510 350 LDKCSVCHMDEEYQNNLFLQCDKCRMMVHARCYGE--LEPVNGVLWLCNLCRPGA 402 (814)
Q Consensus 350 ~~~C~VC~~~~~~~~n~iv~C~~C~~~vH~~CYg~--~~~~~~~~W~C~~C~~~~ 402 (814)
...|.||+..... +.|+.|+.|...+|..|.-. ...+.+ +|+|..|....
T Consensus 1108 ~~~c~~cr~k~~~--~~m~lc~~c~~~~h~~C~rp~~~~~~~~-dW~C~~c~~e~ 1159 (1404)
T KOG1245|consen 1108 NALCKVCRRKKQD--EKMLLCDECLSGFHLFCLRPALSSVPPG-DWMCPSCRKEH 1159 (1404)
T ss_pred hhhhhhhhhcccc--hhhhhhHhhhhhHHHHhhhhhhccCCcC-CccCCccchhh
Confidence 3689999986644 46899999999999999975 345555 89999998643
No 76
>KOG1244 consensus Predicted transcription factor Requiem/NEURO-D4 [Transcription]
Probab=71.50 E-value=2.3 Score=44.19 Aligned_cols=50 Identities=22% Similarity=0.507 Sum_probs=38.0
Q ss_pred CccccccCCccc-----CCCceEEcccccccccccccccc----ccCCCCceeeccccC
Q 003510 351 DKCSVCHMDEEY-----QNNLFLQCDKCRMMVHARCYGEL----EPVNGVLWLCNLCRP 400 (814)
Q Consensus 351 ~~C~VC~~~~~~-----~~n~iv~C~~C~~~vH~~CYg~~----~~~~~~~W~C~~C~~ 400 (814)
.+|+-|+++.-. -...||.|..|+..-|-+|.-.. ..+....|-|..|++
T Consensus 225 ~YCDFclgdsr~nkkt~~peelvscsdcgrsghpsclqft~nm~~avk~yrwqcieck~ 283 (336)
T KOG1244|consen 225 PYCDFCLGDSRENKKTGMPEELVSCSDCGRSGHPSCLQFTANMIAAVKTYRWQCIECKY 283 (336)
T ss_pred cccceeccccccccccCCchhhcchhhcCCCCCcchhhhhHHHHHHHHhheeeeeecce
Confidence 589999986522 12459999999999999998643 234455799999984
No 77
>KOG1337 consensus N-methyltransferase [General function prediction only]
Probab=71.24 E-value=2.8 Score=48.75 Aligned_cols=40 Identities=33% Similarity=0.319 Sum_probs=30.4
Q ss_pred cccCCCCCCeeEEEEEECCeeEEEEEEcCCCCCCCeeeEeCCC
Q 003510 727 LINHSCEPNCYSRVISVNGDEHIIIFAKRDIKQWEELTYDYRF 769 (814)
Q Consensus 727 fiNHSC~PN~~~~~~~~~~~~~i~i~A~rdI~~GEELt~dY~~ 769 (814)
+.||++.+. . ..+......+.+++.++|.+||||++.||.
T Consensus 239 ~~NH~~~~~-~--~~~~~~d~~~~l~~~~~v~~geevfi~YG~ 278 (472)
T KOG1337|consen 239 LLNHSPEVI-K--AGYNQEDEAVELVAERDVSAGEEVFINYGP 278 (472)
T ss_pred hhccCchhc-c--ccccCCCCcEEEEEeeeecCCCeEEEecCC
Confidence 579999992 1 122222348899999999999999999976
No 78
>smart00109 C1 Protein kinase C conserved region 1 (C1) domains (Cysteine-rich domains). Some bind phorbol esters and diacylglycerol. Some bind RasGTP. Zinc-binding domains.
Probab=70.12 E-value=1.9 Score=32.61 Aligned_cols=33 Identities=27% Similarity=0.522 Sum_probs=25.0
Q ss_pred CCccccccCCcccCCCceEEcccccccccccccc
Q 003510 350 LDKCSVCHMDEEYQNNLFLQCDKCRMMVHARCYG 383 (814)
Q Consensus 350 ~~~C~VC~~~~~~~~n~iv~C~~C~~~vH~~CYg 383 (814)
...|.+|...-.... .-+.|..|++.||..|..
T Consensus 11 ~~~C~~C~~~i~~~~-~~~~C~~C~~~~H~~C~~ 43 (49)
T smart00109 11 PTKCCVCRKSIWGSF-QGLRCSWCKVKCHKKCAE 43 (49)
T ss_pred CCCccccccccCcCC-CCcCCCCCCchHHHHHHh
Confidence 358999987533211 467899999999999975
No 79
>PF02318 FYVE_2: FYVE-type zinc finger; InterPro: IPR003315 This entry represents the zinc-binding domain found in rabphilin Rab3A. The small G protein Rab3A plays an important role in the regulation of neurotransmitter release. The crystal structure of the small G protein Rab3A complexed with the effector domain of rabphilin-3A shows that the effector domain of rabphilin-3A contacts Rab3A in two distinct areas. The first interface involves the Rab3A switch I and switch II regions, which are sensitive to the nucleotide-binding state of Rab3A. The second interface consists of a deep pocket in Rab3A that interacts with a SGAWFF structural element of rabphilin-3A. Sequence and structure analysis, and biochemical data suggest that this pocket, or Rab complementarity-determining region (RabCDR), establishes a specific interaction between each Rab protein and its effectors. It has been suggested that RabCDRs could be major determinants of effector specificity during vesicle trafficking and fusion [].; GO: 0008270 zinc ion binding, 0017137 Rab GTPase binding, 0006886 intracellular protein transport; PDB: 2CSZ_A 2ZET_C 1ZBD_B 3BC1_B 2CJS_C 2A20_A.
Probab=66.88 E-value=4.5 Score=37.52 Aligned_cols=49 Identities=22% Similarity=0.512 Sum_probs=35.3
Q ss_pred CCccccccCCcccCCCceEEccccccccccccccccccCCCCceeeccccC
Q 003510 350 LDKCSVCHMDEEYQNNLFLQCDKCRMMVHARCYGELEPVNGVLWLCNLCRP 400 (814)
Q Consensus 350 ~~~C~VC~~~~~~~~n~iv~C~~C~~~vH~~CYg~~~~~~~~~W~C~~C~~ 400 (814)
...|..|...-.--.|.-..|..|...|-+.|-.. ......|+|..|..
T Consensus 54 ~~~C~~C~~~fg~l~~~~~~C~~C~~~VC~~C~~~--~~~~~~WlC~vC~k 102 (118)
T PF02318_consen 54 ERHCARCGKPFGFLFNRGRVCVDCKHRVCKKCGVY--SKKEPIWLCKVCQK 102 (118)
T ss_dssp CSB-TTTS-BCSCTSTTCEEETTTTEEEETTSEEE--TSSSCCEEEHHHHH
T ss_pred CcchhhhCCcccccCCCCCcCCcCCccccCccCCc--CCCCCCEEChhhHH
Confidence 45899998765444555688999999999999554 23344899999975
No 80
>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=64.95 E-value=4.6 Score=46.90 Aligned_cols=82 Identities=22% Similarity=0.482 Sum_probs=51.5
Q ss_pred ceEEccccccccccccccccccCCCCceeeccccCCCCCC---------CCCceecCCCCCCceecCCCcchhhhhhccc
Q 003510 366 LFLQCDKCRMMVHARCYGELEPVNGVLWLCNLCRPGAPEP---------PPPCCLCPVVGGAMKPTTDGRWAHLACAIWI 436 (814)
Q Consensus 366 ~iv~C~~C~~~vH~~CYg~~~~~~~~~W~C~~C~~~~~~~---------~~~C~lC~~~~Galk~t~~~~WvH~~Ca~~~ 436 (814)
.|.+|..|.......|... +-..|||..|....+.. ...|+-||.=.+.|.-+....
T Consensus 4 ~L~fC~~C~~irc~~c~~~----Ei~~~yCp~CL~~~p~~e~~~~~nrC~r~Cf~CP~C~~~L~~~~~~~---------- 69 (483)
T PF05502_consen 4 ELYFCEHCHKIRCPRCVSE----EIDSYYCPNCLFEVPSSEARSEKNRCSRNCFDCPICFSPLSVRASDT---------- 69 (483)
T ss_pred cceecccccccCChhhccc----ccceeECccccccCChhhheeccceeccccccCCCCCCcceeEeccc----------
Confidence 4789999999888888642 22379999998654321 247999997776665443110
Q ss_pred cceEEccCCCcccccccccchhcccCccceeeCC
Q 003510 437 PETCLTDVKRMEPIDGLNRVSKDRWKLLCSICGV 470 (814)
Q Consensus 437 pe~~~~~~~~~~~v~~~~~~~~~~~~~~C~~C~~ 470 (814)
+. .+...........+-+.|.+|.=
T Consensus 70 ~~---------~~~~~~~~~~~~~~~l~C~~C~W 94 (483)
T PF05502_consen 70 PP---------SPPDPSSDSGGKPYYLSCSYCRW 94 (483)
T ss_pred cc---------ccccccccCCCCCEEEECCCcee
Confidence 00 11222334455566678999873
No 81
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=62.30 E-value=3.5 Score=34.71 Aligned_cols=49 Identities=24% Similarity=0.614 Sum_probs=23.0
Q ss_pred CCccccccCC--cccCCCceEEccccccccccccccccccCCCCceeeccccC
Q 003510 350 LDKCSVCHMD--EEYQNNLFLQCDKCRMMVHARCYGELEPVNGVLWLCNLCRP 400 (814)
Q Consensus 350 ~~~C~VC~~~--~~~~~n~iv~C~~C~~~vH~~CYg~~~~~~~~~W~C~~C~~ 400 (814)
.-.|.||... -..+.+.+|.|..|+..|-..||--.. -++ .-.|..|+.
T Consensus 9 ~qiCqiCGD~VGl~~~Ge~FVAC~eC~fPvCr~CyEYEr-keg-~q~CpqCkt 59 (80)
T PF14569_consen 9 GQICQICGDDVGLTENGEVFVACHECAFPVCRPCYEYER-KEG-NQVCPQCKT 59 (80)
T ss_dssp S-B-SSS--B--B-SSSSB--S-SSS-----HHHHHHHH-HTS--SB-TTT--
T ss_pred CcccccccCccccCCCCCEEEEEcccCCccchhHHHHHh-hcC-cccccccCC
Confidence 3589999874 245678999999999999999995322 223 668888874
No 82
>PHA02862 5L protein; Provisional
Probab=61.15 E-value=3.1 Score=39.29 Aligned_cols=50 Identities=28% Similarity=0.606 Sum_probs=35.2
Q ss_pred CccccccCCcccCCCceEEccccccccccccccccccCCCCceeeccccCCCCCCCCCceecCCCC
Q 003510 351 DKCSVCHMDEEYQNNLFLQCDKCRMMVHARCYGELEPVNGVLWLCNLCRPGAPEPPPPCCLCPVVG 416 (814)
Q Consensus 351 ~~C~VC~~~~~~~~n~iv~C~~C~~~vH~~CYg~~~~~~~~~W~C~~C~~~~~~~~~~C~lC~~~~ 416 (814)
+.|-||+..++++. .--.|.|-..-|||+|.. .|+ .......|.+|....
T Consensus 3 diCWIC~~~~~e~~-~PC~C~GS~K~VHq~CL~--------~WI-------n~S~k~~CeLCkteY 52 (156)
T PHA02862 3 DICWICNDVCDERN-NFCGCNEEYKVVHIKCMQ--------LWI-------NYSKKKECNLCKTKY 52 (156)
T ss_pred CEEEEecCcCCCCc-ccccccCcchhHHHHHHH--------HHH-------hcCCCcCccCCCCeE
Confidence 68999999876544 345688999999999974 565 122345677776544
No 83
>PF11764 N-SET: COMPASS (Complex proteins associated with Set1p) component N; InterPro: IPR024657 The COMPASS complex (complex proteins associated with Set1p) is conserved in yeasts and in other eukaryotes up to humans. The COMPASS complex functions to methylate the fourth lysine of Histone 3 and for the silencing of genes close to the telomeres of chromosomes []. Five domains are conserved in Saccharomyces cerevisiae Set1 and other eukaryotic Set1-related proteins: an amino-terminal RNA-recognition motif (RRM), a semi-conserved central domain, an N-SET domain, the catalytic SET domain, and the C-terminal post-SET domain. This entry represents the N-SET domain, which promotes trimethylation in conjunction with the RRM domain [] and is necessary for binding of the Spp1 component of COMPASS into the complex [].; PDB: 3UVO_B 4ES0_C 3UVN_D 4EWR_C.
Probab=60.13 E-value=2.2 Score=42.17 Aligned_cols=16 Identities=31% Similarity=0.507 Sum_probs=6.0
Q ss_pred CCCCCcccccCccccc
Q 003510 557 PSNPSGCARSEPYNYF 572 (814)
Q Consensus 557 ~~npsGcaRsEp~~~~ 572 (814)
..|++||||+|||+++
T Consensus 78 ~~h~TGsARtEGy~KI 93 (167)
T PF11764_consen 78 VPHSTGSARTEGYYKI 93 (167)
T ss_dssp -----SSHHHH-----
T ss_pred ccCCCcCcccccceeC
Confidence 4588999999999865
No 84
>PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=59.81 E-value=6.1 Score=40.38 Aligned_cols=42 Identities=26% Similarity=0.789 Sum_probs=32.2
Q ss_pred CccccccCCc---ccCCCceEEccccccccccccccccccCCCCceeeccccC
Q 003510 351 DKCSVCHMDE---EYQNNLFLQCDKCRMMVHARCYGELEPVNGVLWLCNLCRP 400 (814)
Q Consensus 351 ~~C~VC~~~~---~~~~n~iv~C~~C~~~vH~~CYg~~~~~~~~~W~C~~C~~ 400 (814)
..|.+|..++ ..+.+..+.|..|+..+|..|+.. . -|.+|..
T Consensus 153 fiCe~C~~~~~IfPF~~~~~~~C~~C~~v~H~~C~~~-----~---~CpkC~R 197 (202)
T PF13901_consen 153 FICEICNSDDIIFPFQIDTTVRCPKCKSVFHKSCFRK-----K---SCPKCAR 197 (202)
T ss_pred CCCccCCCCCCCCCCCCCCeeeCCcCccccchhhcCC-----C---CCCCcHh
Confidence 6899998754 334456889999999999999962 1 2888864
No 85
>COG5475 Uncharacterized small protein [Function unknown]
Probab=56.21 E-value=26 Score=27.61 Aligned_cols=51 Identities=16% Similarity=0.242 Sum_probs=39.9
Q ss_pred CCCCCCEEEEeeCCCCCCCceeeCCCCcCccccccccCCCCcEEEEEeCCC--CEEEEeCCCcccccc
Q 003510 35 ELEPGDIIWAKLTGHAMWPAIVVDESLIGDYKGLNKISGGRSIPVQFFGTH--DFARINVKQVISFLK 100 (814)
Q Consensus 35 ~f~~GdlVwaK~~GyPwWPa~V~~~~~~~~~~~~~~~~~~~~~~V~FFg~~--~~awv~~~~l~~f~~ 100 (814)
.|..||+|-.|-.| |+|++..- ..++.|..+||.-. .++=..++.|+|+..
T Consensus 4 ~FstgdvV~lKsGG----P~Mtvs~~-----------ss~Gmy~C~Wf~g~g~~~~~F~ed~Lvp~~a 56 (60)
T COG5475 4 SFSTGDVVTLKSGG----PRMTVSGY-----------SSDGMYECRWFDGYGVKREAFHEDELVPGEA 56 (60)
T ss_pred eeecCcEEEeecCC----ceEEEecc-----------ccCCeEEEEEecCCCcccccccccceecccc
Confidence 59999999999998 88988631 23477999999864 467778888888754
No 86
>KOG4443 consensus Putative transcription factor HALR/MLL3, involved in embryonic development [General function prediction only]
Probab=55.46 E-value=5.8 Score=46.38 Aligned_cols=46 Identities=28% Similarity=0.772 Sum_probs=32.9
Q ss_pred CccccccCCcccCCCceEEcccccccccccccccc--ccCCCCceeecccc
Q 003510 351 DKCSVCHMDEEYQNNLFLQCDKCRMMVHARCYGEL--EPVNGVLWLCNLCR 399 (814)
Q Consensus 351 ~~C~VC~~~~~~~~n~iv~C~~C~~~vH~~CYg~~--~~~~~~~W~C~~C~ 399 (814)
.+|-.|...++ ...+++|++|.+++|-+|--.. .++.+ +|+|..|.
T Consensus 69 rvCe~c~~~gD--~~kf~~Ck~cDvsyh~yc~~P~~~~v~sg-~~~ckk~~ 116 (694)
T KOG4443|consen 69 RVCEACGTTGD--PKKFLLCKRCDVSYHCYCQKPPNDKVPSG-PWLCKKCT 116 (694)
T ss_pred eeeeeccccCC--cccccccccccccccccccCCccccccCc-ccccHHHH
Confidence 46666664333 3568899999999998886543 23444 89999885
No 87
>COG5034 TNG2 Chromatin remodeling protein, contains PhD zinc finger [Chromatin structure and dynamics]
Probab=55.33 E-value=9.1 Score=39.72 Aligned_cols=40 Identities=25% Similarity=0.603 Sum_probs=30.1
Q ss_pred cccchhcccCccceeeCC-ccceeEecCCCCcCc-ccchhhH
Q 003510 453 LNRVSKDRWKLLCSICGV-SYGACIQCSNTTCRV-AYHPLCA 492 (814)
Q Consensus 453 ~~~~~~~~~~~~C~~C~~-~~Ga~iqC~~~~C~~-~fH~~CA 492 (814)
++.......+..-++|++ ++|-||.|+..+|.. +||..|-
T Consensus 211 vss~d~se~e~lYCfCqqvSyGqMVaCDn~nCkrEWFH~~CV 252 (271)
T COG5034 211 VSSEDNSEGEELYCFCQQVSYGQMVACDNANCKREWFHLECV 252 (271)
T ss_pred cCccccccCceeEEEecccccccceecCCCCCchhheecccc
Confidence 333333344556778987 799999999999975 6999996
No 88
>PF08746 zf-RING-like: RING-like domain; InterPro: IPR014857 This is a zinc finger domain that is related to the C3HC4 RING finger domain (IPR001841 from INTERPRO). ; PDB: 3NW0_A 2CT0_A.
Probab=54.76 E-value=5.7 Score=29.76 Aligned_cols=30 Identities=30% Similarity=0.639 Sum_probs=16.6
Q ss_pred ceeeCCccceeEecCCCCcCcccchhhHhh
Q 003510 465 CSICGVSYGACIQCSNTTCRVAYHPLCARA 494 (814)
Q Consensus 465 C~~C~~~~Ga~iqC~~~~C~~~fH~~CA~~ 494 (814)
|.+|+...-.-+.|....|...+|..|+..
T Consensus 1 C~~C~~iv~~G~~C~~~~C~~r~H~~C~~~ 30 (43)
T PF08746_consen 1 CEACKEIVTQGQRCSNRDCNVRLHDDCFKK 30 (43)
T ss_dssp -TTT-SB-SSSEE-SS--S--EE-HHHHHH
T ss_pred CcccchhHeeeccCCCCccCchHHHHHHHH
Confidence 567777555567999999999999999854
No 89
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=53.80 E-value=11 Score=29.77 Aligned_cols=35 Identities=31% Similarity=0.789 Sum_probs=30.0
Q ss_pred ccceeeCCc---cceeEecCCCCcCcccchhhHhhcCceE
Q 003510 463 LLCSICGVS---YGACIQCSNTTCRVAYHPLCARAAGLCV 499 (814)
Q Consensus 463 ~~C~~C~~~---~Ga~iqC~~~~C~~~fH~~CA~~~g~~~ 499 (814)
-+|.+|+.. .+..|.|. .|.+.||-.|...+|-..
T Consensus 6 ~~C~~Cg~~~~~~dDiVvCp--~CgapyHR~C~~~~g~C~ 43 (54)
T PF14446_consen 6 CKCPVCGKKFKDGDDIVVCP--ECGAPYHRDCWEKAGGCI 43 (54)
T ss_pred ccChhhCCcccCCCCEEECC--CCCCcccHHHHhhCCceE
Confidence 479999973 68889997 999999999998888653
No 90
>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=53.63 E-value=8.7 Score=36.89 Aligned_cols=26 Identities=27% Similarity=0.627 Sum_probs=19.9
Q ss_pred cccccccccc--ccCCCCceeeccccCCC
Q 003510 376 MVHARCYGEL--EPVNGVLWLCNLCRPGA 402 (814)
Q Consensus 376 ~vH~~CYg~~--~~~~~~~W~C~~C~~~~ 402 (814)
.+|..|...+ .+|+| +|+|..|....
T Consensus 1 g~H~~CL~Ppl~~~P~g-~W~Cp~C~~~~ 28 (148)
T cd04718 1 GFHLCCLRPPLKEVPEG-DWICPFCEVEK 28 (148)
T ss_pred CcccccCCCCCCCCCCC-CcCCCCCcCCC
Confidence 3799999753 45665 99999998654
No 91
>KOG4443 consensus Putative transcription factor HALR/MLL3, involved in embryonic development [General function prediction only]
Probab=53.11 E-value=5.2 Score=46.75 Aligned_cols=48 Identities=25% Similarity=0.637 Sum_probs=37.5
Q ss_pred CccccccCCcccCCCceEEcccccccccccccccc---ccCCCCceeecccc
Q 003510 351 DKCSVCHMDEEYQNNLFLQCDKCRMMVHARCYGEL---EPVNGVLWLCNLCR 399 (814)
Q Consensus 351 ~~C~VC~~~~~~~~n~iv~C~~C~~~vH~~CYg~~---~~~~~~~W~C~~C~ 399 (814)
..|-||...+....+.|+.|..|+...|-.|.... ....+ .|-|..|+
T Consensus 19 ~mc~l~~s~G~~~ag~m~ac~~c~~~yH~~cvt~~~~~~~l~~-gWrC~~cr 69 (694)
T KOG4443|consen 19 LMCPLCGSSGKGRAGRLLACSDCGQKYHPYCVTSWAQHAVLSG-GWRCPSCR 69 (694)
T ss_pred hhhhhhccccccccCcchhhhhhcccCCcchhhHHHhHHHhcC-CcccCCce
Confidence 46778877777777889999999999999998742 22233 59999997
No 92
>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.
Probab=51.65 E-value=4.9 Score=30.75 Aligned_cols=30 Identities=33% Similarity=0.791 Sum_probs=18.3
Q ss_pred cccccCCcccCCCceEEcccccc---cccccccc
Q 003510 353 CSVCHMDEEYQNNLFLQCDKCRM---MVHARCYG 383 (814)
Q Consensus 353 C~VC~~~~~~~~n~iv~C~~C~~---~vH~~CYg 383 (814)
|-||+..++.++..+--|. |.- .||+.|.-
T Consensus 1 CrIC~~~~~~~~~li~pC~-C~Gs~~~vH~~CL~ 33 (47)
T PF12906_consen 1 CRICLEGEEEDEPLISPCR-CKGSMKYVHRSCLE 33 (47)
T ss_dssp ETTTTEE-SSSS-EE-SSS--SSCCGSEECCHHH
T ss_pred CeEeCCcCCCCCceecccc-cCCCcchhHHHHHH
Confidence 7799887765553333443 555 99999974
No 93
>PF10447 EXOSC1: Exosome component EXOSC1/CSL4; InterPro: IPR019495 The exosome mediates degradation of unstable mRNAs that contain AU-rich elements (AREs) within their 3' untranslated regions []. The proteins in this entry are components of the exosome 3'->5' exoribonuclease complex. They do not have exonuclease activity, but are required for the 3'-processing of the 7S pre-RNA to the mature 5.8S rRNA and for mRNA decay [, ].; PDB: 2NN6_I.
Probab=51.08 E-value=11 Score=32.51 Aligned_cols=13 Identities=38% Similarity=0.810 Sum_probs=9.4
Q ss_pred CCCCCCCEEEEee
Q 003510 34 QELEPGDIIWAKL 46 (814)
Q Consensus 34 ~~f~~GdlVwaK~ 46 (814)
+-|+|||+|.||+
T Consensus 67 ~~FrpGDIVrA~V 79 (82)
T PF10447_consen 67 DCFRPGDIVRARV 79 (82)
T ss_dssp GT--SSSEEEEEE
T ss_pred hccCCCCEEEEEE
Confidence 3499999999997
No 94
>KOG2041 consensus WD40 repeat protein [General function prediction only]
Probab=51.03 E-value=11 Score=44.36 Aligned_cols=75 Identities=27% Similarity=0.554 Sum_probs=45.5
Q ss_pred CCCCCCCCccccccCCCccccccCCcccCCCceEEcccccccccccccccccc-CCCCceeeccccCCCCC----CCCCc
Q 003510 335 DLPGGYRPVRVDWKDLDKCSVCHMDEEYQNNLFLQCDKCRMMVHARCYGELEP-VNGVLWLCNLCRPGAPE----PPPPC 409 (814)
Q Consensus 335 ~lp~~~~~~~~~~~~~~~C~VC~~~~~~~~n~iv~C~~C~~~vH~~CYg~~~~-~~~~~W~C~~C~~~~~~----~~~~C 409 (814)
++-+.+.|+..+. ...-|.+|...-+. --++|..|+..+- .|-....+ .+..-|+|.+|+..... .-..|
T Consensus 1103 ~iFsk~~p~d~~~-~~vdc~~cg~~i~~---~~~~c~ec~~kfP-~CiasG~pIt~~~fWlC~~CkH~a~~~EIs~y~~C 1177 (1189)
T KOG2041|consen 1103 RIFSKNPPVDPNS-AKVDCSVCGAKIDP---YDLQCSECQTKFP-VCIASGRPITDNIFWLCPRCKHRAHQHEISKYNCC 1177 (1189)
T ss_pred HHhccCCCCCCCc-cceeeeecCCcCCc---cCCCChhhcCcCc-eeeccCCccccceEEEccccccccccccccccccC
Confidence 3444455555443 34689999874332 2468999987764 46543332 23347999999976532 22457
Q ss_pred eecCC
Q 003510 410 CLCPV 414 (814)
Q Consensus 410 ~lC~~ 414 (814)
.||-.
T Consensus 1178 PLCHs 1182 (1189)
T KOG2041|consen 1178 PLCHS 1182 (1189)
T ss_pred ccccC
Confidence 78854
No 95
>PLN00104 MYST -like histone acetyltransferase; Provisional
Probab=50.39 E-value=21 Score=40.59 Aligned_cols=60 Identities=13% Similarity=0.118 Sum_probs=45.5
Q ss_pred CCCCCCCCCEEEEeeCCCCCC-CceeeCCCCcCccccccccCCCCcEEEEEeCCCCE--EEEeCCCcc
Q 003510 32 DCQELEPGDIIWAKLTGHAMW-PAIVVDESLIGDYKGLNKISGGRSIPVQFFGTHDF--ARINVKQVI 96 (814)
Q Consensus 32 ~~~~f~~GdlVwaK~~GyPwW-Pa~V~~~~~~~~~~~~~~~~~~~~~~V~FFg~~~~--awv~~~~l~ 96 (814)
....|.+|+.|.|+..+-+-| +|.|++-.... ....+...|.|.|-|.+.+ -||..++|.
T Consensus 50 ~~~~~~VGekVla~~~~Dg~~~~A~VI~~R~~~-----~~~~~~~~YYVHY~g~nrRlDEWV~~~rLd 112 (450)
T PLN00104 50 VMLPLEVGTRVMCRWRFDGKYHPVKVIERRRGG-----SGGPNDYEYYVHYTEFNRRLDEWVKLEQLD 112 (450)
T ss_pred ccceeccCCEEEEEECCCCCEEEEEEEEEeccC-----CCCCCCceEEEEEecCCccHhhccCHhhcc
Confidence 344699999999999988877 99998754211 0112334699999999998 999999884
No 96
>PF07649 C1_3: C1-like domain; InterPro: IPR011424 This short domain is rich in cysteines and histidines. The pattern of conservation is similar to that found in IPR002219 from INTERPRO. C1 domains are protein kinase C-like zinc finger structures. Diacylglycerol (DAG) kinases (DGKs) have a two or three commonly conserved cysteine-rich C1 domains []. DGKs modulate the balance between the two signaling lipids, DAG and phosphatidic acid (PA), by phosphorylating DAG to yield PA []. The PKD (protein kinase D) family are novel DAG receptors. They have twin C1 domains, designated C1a and C1b, which bind DAG or phorbol esters. Individual C1 domains differ in ligand-binding activity and selectivity []. ; GO: 0047134 protein-disulfide reductase activity, 0055114 oxidation-reduction process; PDB: 1V5N_A.
Probab=49.67 E-value=7.9 Score=26.42 Aligned_cols=27 Identities=33% Similarity=0.775 Sum_probs=12.3
Q ss_pred cceeeCCccc--eeEecCCCCcCcccchhhH
Q 003510 464 LCSICGVSYG--ACIQCSNTTCRVAYHPLCA 492 (814)
Q Consensus 464 ~C~~C~~~~G--a~iqC~~~~C~~~fH~~CA 492 (814)
.|..|+...+ ....|. .|.-.+|..||
T Consensus 2 ~C~~C~~~~~~~~~Y~C~--~Cdf~lH~~Ca 30 (30)
T PF07649_consen 2 RCDACGKPIDGGWFYRCS--ECDFDLHEECA 30 (30)
T ss_dssp --TTTS----S--EEE-T--TT-----HHHH
T ss_pred cCCcCCCcCCCCceEECc--cCCCccChhcC
Confidence 5888998544 577997 99999999998
No 97
>PF09926 DUF2158: Uncharacterized small protein (DUF2158); InterPro: IPR019226 This entry represents a family of predominantly prokaryotic proteins with no known function.
Probab=49.63 E-value=33 Score=27.05 Aligned_cols=41 Identities=32% Similarity=0.570 Sum_probs=28.3
Q ss_pred CCCCCEEEEeeCCCCCCCceeeCCCCcCccccccccCCCCcEEEEEeCCCC
Q 003510 36 LEPGDIIWAKLTGHAMWPAIVVDESLIGDYKGLNKISGGRSIPVQFFGTHD 86 (814)
Q Consensus 36 f~~GdlVwaK~~GyPwWPa~V~~~~~~~~~~~~~~~~~~~~~~V~FFg~~~ 86 (814)
|++||+|--|-.| |.|++.. +.. ......+.+..+||..+.
T Consensus 1 f~~GDvV~LKSGG----p~MTV~~--v~~----~~~~~~~~v~C~WFd~~~ 41 (53)
T PF09926_consen 1 FKIGDVVQLKSGG----PRMTVTE--VGP----NAGASGGWVECQWFDGHG 41 (53)
T ss_pred CCCCCEEEEccCC----CCeEEEE--ccc----cccCCCCeEEEEeCCCCC
Confidence 7899999999999 6777662 111 112234568899998765
No 98
>KOG3799 consensus Rab3 effector RIM1 and related proteins, contain Rab3a binding domain [Intracellular trafficking, secretion, and vesicular transport]
Probab=49.54 E-value=8.2 Score=35.85 Aligned_cols=52 Identities=35% Similarity=0.760 Sum_probs=36.7
Q ss_pred cCCCccccccCCcccCCCceEEcccccccccccccccccc-CCCCceeeccccC
Q 003510 348 KDLDKCSVCHMDEEYQNNLFLQCDKCRMMVHARCYGELEP-VNGVLWLCNLCRP 400 (814)
Q Consensus 348 ~~~~~C~VC~~~~~~~~n~iv~C~~C~~~vH~~CYg~~~~-~~~~~W~C~~C~~ 400 (814)
.++..|.||....-.++ .=-.|.-|++.+-..|-|-... .+..-|+|..|..
T Consensus 63 ~ddatC~IC~KTKFADG-~GH~C~YCq~r~CARCGGrv~lrsNKv~wvcnlc~k 115 (169)
T KOG3799|consen 63 GDDATCGICHKTKFADG-CGHNCSYCQTRFCARCGGRVSLRSNKVMWVCNLCRK 115 (169)
T ss_pred CcCcchhhhhhcccccc-cCcccchhhhhHHHhcCCeeeeccCceEEeccCCcH
Confidence 35689999987543322 2235889999999999885443 3455799999974
No 99
>PLN02400 cellulose synthase
Probab=48.96 E-value=14 Score=46.23 Aligned_cols=50 Identities=26% Similarity=0.667 Sum_probs=38.6
Q ss_pred CCccccccCC--cccCCCceEEccccccccccccccccccCCCCceeeccccCC
Q 003510 350 LDKCSVCHMD--EEYQNNLFLQCDKCRMMVHARCYGELEPVNGVLWLCNLCRPG 401 (814)
Q Consensus 350 ~~~C~VC~~~--~~~~~n~iv~C~~C~~~vH~~CYg~~~~~~~~~W~C~~C~~~ 401 (814)
..+|.||.++ -..++++.|-|..|.-.|-..||- .+.-+| .=.|..|+..
T Consensus 36 gqiCqICGD~VG~t~dGe~FVAC~eCaFPVCRpCYE-YERkeG-nq~CPQCkTr 87 (1085)
T PLN02400 36 GQICQICGDDVGVTETGDVFVACNECAFPVCRPCYE-YERKDG-TQCCPQCKTR 87 (1085)
T ss_pred CceeeecccccCcCCCCCEEEEEccCCCccccchhh-eecccC-CccCcccCCc
Confidence 3599999875 245678899999999999999993 333334 7789999753
No 100
>cd04712 BAH_DCM_I BAH, or Bromo Adjacent Homology domain, as present in DNA (Cytosine-5)-methyltransferases (DCM) 1. DNA methylation, or the covalent addition of a methyl group to cytosine within the context of the CpG dinucleotide, has profound effects on the genome. These effects include transcriptional repression via inhibition of transcription factor binding, the recruitment of methyl-binding proteins and their associated chromatin remodeling factors, X chromosome inactivation, imprinting, and the suppression of parasitic DNA sequences. DNA methylation is also essential for proper embryonic development and is an important player in both DNA repair and genome stability. 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=48.73 E-value=17 Score=34.31 Aligned_cols=49 Identities=10% Similarity=0.152 Sum_probs=32.7
Q ss_pred CCCCCCCCEEEEeeCCCCC---------CCceeeCCCCcCccccccccCCCCcEEEEEeCCCC
Q 003510 33 CQELEPGDIIWAKLTGHAM---------WPAIVVDESLIGDYKGLNKISGGRSIPVQFFGTHD 86 (814)
Q Consensus 33 ~~~f~~GdlVwaK~~GyPw---------WPa~V~~~~~~~~~~~~~~~~~~~~~~V~FFg~~~ 86 (814)
+..+++||+|..+-.+-+- ||+.|.....+-. ...+...++|+||-...
T Consensus 3 ~~~i~vGD~V~v~~d~~~~~~~~~~~~~~~~~i~~V~~~~e-----~~~g~~~~h~~W~yrp~ 60 (130)
T cd04712 3 GLTIRVGDVVSVERDDADSTTKWNDDHRWLPLVQFVEYMKK-----GSDGSKMFHGRWLYRGC 60 (130)
T ss_pred CCEEeCCCEEEEcCCCCCccccccccccccceEEEEEEeee-----cCCCceEEEEEEEEcch
Confidence 5678999999999887653 6777766433222 22334578888886543
No 101
>KOG0955 consensus PHD finger protein BR140/LIN-49 [General function prediction only]
Probab=45.69 E-value=16 Score=45.92 Aligned_cols=64 Identities=22% Similarity=0.355 Sum_probs=47.0
Q ss_pred CCCCCEEEEeeCCCCCCCceeeCCCCcCccccccc------------------cCCCCcEEEEEeCCCC-EEEEeCCCcc
Q 003510 36 LEPGDIIWAKLTGHAMWPAIVVDESLIGDYKGLNK------------------ISGGRSIPVQFFGTHD-FARINVKQVI 96 (814)
Q Consensus 36 f~~GdlVwaK~~GyPwWPa~V~~~~~~~~~~~~~~------------------~~~~~~~~V~FFg~~~-~awv~~~~l~ 96 (814)
+.+=++||||..||||-|+.++++.+.......+. +.....+.|.||.+.- .-|++...+.
T Consensus 943 l~~~~~~~akc~g~~s~~~l~l~p~~~~~~~~~~g~~~~p~~dv~~l~eq~~~~~~~~l~~~L~~~n~~~~~~~~~s~~~ 1022 (1051)
T KOG0955|consen 943 LEELKLVWAKCRGYPSYPALILDPKMPREGNFHNGPDPAPPTDVLALPEQRTNKAPETLFLVLFFDNKRCWQWLPRSKVL 1022 (1051)
T ss_pred eeehhceeehhcCCccchhhhcccccccccCccCCCCCCCCcccccchHHHhcccChhheEEEeecccccccccCCCCcc
Confidence 77888999999999999999998766544333211 1122345699999876 5999999877
Q ss_pred ccc
Q 003510 97 SFL 99 (814)
Q Consensus 97 ~f~ 99 (814)
+.-
T Consensus 1023 ~l~ 1025 (1051)
T KOG0955|consen 1023 ELG 1025 (1051)
T ss_pred ccc
Confidence 764
No 102
>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=42.78 E-value=17 Score=45.49 Aligned_cols=50 Identities=26% Similarity=0.636 Sum_probs=38.5
Q ss_pred CCccccccCC--cccCCCceEEccccccccccccccccccCCCCceeeccccCC
Q 003510 350 LDKCSVCHMD--EEYQNNLFLQCDKCRMMVHARCYGELEPVNGVLWLCNLCRPG 401 (814)
Q Consensus 350 ~~~C~VC~~~--~~~~~n~iv~C~~C~~~vH~~CYg~~~~~~~~~W~C~~C~~~ 401 (814)
..+|.||++. -..++++.|-|..|+-.|-..||- .+.-+| .=.|..|+..
T Consensus 17 ~qiCqICGD~vg~~~~Ge~FVAC~eC~FPVCrpCYE-YEr~eG-~q~CPqCktr 68 (1079)
T PLN02638 17 GQVCQICGDNVGKTVDGEPFVACDVCAFPVCRPCYE-YERKDG-NQSCPQCKTK 68 (1079)
T ss_pred CceeeecccccCcCCCCCEEEEeccCCCccccchhh-hhhhcC-CccCCccCCc
Confidence 3599999875 245677899999999999999993 333344 7789999753
No 103
>PLN02436 cellulose synthase A
Probab=41.82 E-value=19 Score=45.08 Aligned_cols=50 Identities=22% Similarity=0.558 Sum_probs=38.5
Q ss_pred CCccccccCCc--ccCCCceEEccccccccccccccccccCCCCceeeccccCC
Q 003510 350 LDKCSVCHMDE--EYQNNLFLQCDKCRMMVHARCYGELEPVNGVLWLCNLCRPG 401 (814)
Q Consensus 350 ~~~C~VC~~~~--~~~~n~iv~C~~C~~~vH~~CYg~~~~~~~~~W~C~~C~~~ 401 (814)
..+|.||.++- ..++++.|-|.-|+-.|-..||- .+..+ +.=.|..|+..
T Consensus 36 ~~iCqICGD~Vg~t~dGe~FVACn~C~fpvCr~Cye-yer~e-g~~~Cpqckt~ 87 (1094)
T PLN02436 36 GQTCQICGDEIELTVDGEPFVACNECAFPVCRPCYE-YERRE-GNQACPQCKTR 87 (1094)
T ss_pred CccccccccccCcCCCCCEEEeeccCCCccccchhh-hhhhc-CCccCcccCCc
Confidence 35999998753 55678899999999999999993 33333 37789999753
No 104
>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=41.59 E-value=13 Score=42.02 Aligned_cols=13 Identities=46% Similarity=1.058 Sum_probs=11.3
Q ss_pred CCcchhhhhhccc
Q 003510 424 DGRWAHLACAIWI 436 (814)
Q Consensus 424 ~~~WvH~~Ca~~~ 436 (814)
.|.|+|+-||+-.
T Consensus 152 CgH~cH~dCALr~ 164 (446)
T PF07227_consen 152 CGHWCHLDCALRH 164 (446)
T ss_pred CCceehhhhhccc
Confidence 5789999999974
No 105
>PF10080 DUF2318: Predicted membrane protein (DUF2318); InterPro: IPR018758 This domain of unknown function is found in hypothetical bacterial membrane proteins with no known function.
Probab=40.38 E-value=13 Score=33.51 Aligned_cols=33 Identities=27% Similarity=0.599 Sum_probs=26.3
Q ss_pred CccccccCCcccCCCceEEcccccccccccccc
Q 003510 351 DKCSVCHMDEEYQNNLFLQCDKCRMMVHARCYG 383 (814)
Q Consensus 351 ~~C~VC~~~~~~~~n~iv~C~~C~~~vH~~CYg 383 (814)
+.|.||...+......-|.|..|++..+..=.|
T Consensus 36 daCeiC~~~GY~q~g~~lvC~~C~~~~~~~~ig 68 (102)
T PF10080_consen 36 DACEICGPKGYYQEGDQLVCKNCGVRFNLPTIG 68 (102)
T ss_pred EeccccCCCceEEECCEEEEecCCCEEehhhcc
Confidence 589999877766656677899999999987555
No 106
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=40.25 E-value=9.8 Score=32.22 Aligned_cols=32 Identities=31% Similarity=0.781 Sum_probs=26.0
Q ss_pred ccceeeCC-ccceeEecCC------------CCcCcccchhhHhh
Q 003510 463 LLCSICGV-SYGACIQCSN------------TTCRVAYHPLCARA 494 (814)
Q Consensus 463 ~~C~~C~~-~~Ga~iqC~~------------~~C~~~fH~~CA~~ 494 (814)
..|.||+. -.|.|++|.. +.|.-+||..|-.+
T Consensus 21 d~CaICRnhim~~C~eCq~~~~~~~eC~v~wG~CnHaFH~HCI~r 65 (88)
T COG5194 21 DVCAICRNHIMGTCPECQFGMTPGDECPVVWGVCNHAFHDHCIYR 65 (88)
T ss_pred chhhhhhccccCcCcccccCCCCCCcceEEEEecchHHHHHHHHH
Confidence 37999986 4689999987 35999999999854
No 107
>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=39.26 E-value=14 Score=27.49 Aligned_cols=31 Identities=23% Similarity=0.584 Sum_probs=22.7
Q ss_pred CccccccCCcccCCCceEEcccccccccccccc
Q 003510 351 DKCSVCHMDEEYQNNLFLQCDKCRMMVHARCYG 383 (814)
Q Consensus 351 ~~C~VC~~~~~~~~n~iv~C~~C~~~vH~~CYg 383 (814)
+.|.||...-.. .+.++... |+=.+|..|..
T Consensus 1 d~C~IC~~~~~~-~~~~~~l~-C~H~fh~~Ci~ 31 (44)
T PF13639_consen 1 DECPICLEEFED-GEKVVKLP-CGHVFHRSCIK 31 (44)
T ss_dssp -CETTTTCBHHT-TSCEEEET-TSEEEEHHHHH
T ss_pred CCCcCCChhhcC-CCeEEEcc-CCCeeCHHHHH
Confidence 369999987654 34455555 99999999975
No 108
>PF11781 RRN7: RNA polymerase I-specific transcription initiation factor Rrn7; InterPro: IPR021752 Rrn7 is a transcription binding factor that associates strongly with both Rrn6 and Rrn11 to form a complex which itself binds the TATA-binding protein and is required for transcription by the core domain of the RNA PolI promoter [],[].
Probab=39.09 E-value=21 Score=25.71 Aligned_cols=26 Identities=31% Similarity=0.744 Sum_probs=19.8
Q ss_pred CccccccCCcccCCCceEEccccccc
Q 003510 351 DKCSVCHMDEEYQNNLFLQCDKCRMM 376 (814)
Q Consensus 351 ~~C~VC~~~~~~~~n~iv~C~~C~~~ 376 (814)
..|.+|.......++-..+|+.|+-.
T Consensus 9 ~~C~~C~~~~~~~~dG~~yC~~cG~~ 34 (36)
T PF11781_consen 9 EPCPVCGSRWFYSDDGFYYCDRCGHQ 34 (36)
T ss_pred CcCCCCCCeEeEccCCEEEhhhCceE
Confidence 45999998766666778889888754
No 109
>smart00744 RINGv The RING-variant domain is a C4HC3 zinc-finger like motif found in a number of cellular and viral proteins. Some of these proteins have been shown both in vivo and in vitro to have ubiquitin E3 ligase activity. The RING-variant domain is reminiscent of both the RING and the PHD domains and may represent an evolutionary intermediate. To describe this domain the term PHD/LAP domain has been used in the past. Extended description: The RING-variant (RINGv) domain contains a C4HC3 zinc-finger-like motif similar to the PHD domain, while some of the spacing between the Cys/His residues follow a pattern somewhat closer to that found in the RING domain. The RINGv domain, similar to the RING, PHD and LIM domains, is thought to bind two zinc ions co-ordinated by the highly conserved Cys and His residues. RING variant domain: C-x (2) -C-x(10-45)-C-x (1) -C-x (7) -H-x(2)-C-x(11-25)-C-x(2)-C As opposed to a PHD: C-x(1-2) -C-x (7-13)-C-x(2-4)-C-x(4-5)-H-x(2)-C-x(10-21)-C-x(2)-C Class
Probab=38.33 E-value=13 Score=28.61 Aligned_cols=31 Identities=23% Similarity=0.685 Sum_probs=19.1
Q ss_pred ccccccCCcccCCCceE-Ecc--cccccccccccc
Q 003510 352 KCSVCHMDEEYQNNLFL-QCD--KCRMMVHARCYG 383 (814)
Q Consensus 352 ~C~VC~~~~~~~~n~iv-~C~--~C~~~vH~~CYg 383 (814)
.|.||+..++ ++++++ -|. +-...||+.|.-
T Consensus 1 ~CrIC~~~~~-~~~~l~~PC~C~G~~~~vH~~Cl~ 34 (49)
T smart00744 1 ICRICHDEGD-EGDPLVSPCRCKGSLKYVHQECLE 34 (49)
T ss_pred CccCCCCCCC-CCCeeEeccccCCchhHHHHHHHH
Confidence 4899998333 344443 333 233679999974
No 110
>smart00547 ZnF_RBZ Zinc finger domain. Zinc finger domain in Ran-binding proteins (RanBPs), and other proteins. In RanBPs, this domain binds RanGDP.
Probab=37.55 E-value=19 Score=23.50 Aligned_cols=23 Identities=22% Similarity=0.502 Sum_probs=18.1
Q ss_pred ceeeccccCCCCCCCCCceecCC
Q 003510 392 LWLCNLCRPGAPEPPPPCCLCPV 414 (814)
Q Consensus 392 ~W~C~~C~~~~~~~~~~C~lC~~ 414 (814)
+|.|..|..........|..|..
T Consensus 2 ~W~C~~C~~~N~~~~~~C~~C~~ 24 (26)
T smart00547 2 DWECPACTFLNFASRSKCFACGA 24 (26)
T ss_pred cccCCCCCCcChhhhccccccCC
Confidence 79999998766556678888864
No 111
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=36.92 E-value=15 Score=43.74 Aligned_cols=30 Identities=30% Similarity=0.805 Sum_probs=25.3
Q ss_pred ccceeeCCc--cceeEecCCCCcCcc-cchhhHhh
Q 003510 463 LLCSICGVS--YGACIQCSNTTCRVA-YHPLCARA 494 (814)
Q Consensus 463 ~~C~~C~~~--~Ga~iqC~~~~C~~~-fH~~CA~~ 494 (814)
-.|.||... --.+|-|. .|... ||..|--.
T Consensus 216 ~~C~IC~~~DpEdVLLLCD--sCN~~~YH~YCLDP 248 (1134)
T KOG0825|consen 216 VKCDICTVHDPEDVLLLCD--SCNKVYYHVYCLDP 248 (1134)
T ss_pred ccceeeccCChHHhheeec--ccccceeeccccCc
Confidence 579999974 56889999 99999 99999744
No 112
>PF08666 SAF: SAF domain; InterPro: IPR013974 This entry includes a range of different proteins, such as antifreeze proteins, flagellar FlgA proteins, and CpaB pilus proteins. ; PDB: 1C89_A 3NLA_A 3RDN_A 1C8A_A 3FRN_A 1WVO_A 3K3S_H 3G8R_B 1XUU_A 1XUZ_A ....
Probab=36.49 E-value=22 Score=28.38 Aligned_cols=16 Identities=31% Similarity=0.376 Sum_probs=11.9
Q ss_pred EEEEcCCCCCCCeeeE
Q 003510 750 IIFAKRDIKQWEELTY 765 (814)
Q Consensus 750 ~i~A~rdI~~GEELt~ 765 (814)
+++|.|||++|+.|+-
T Consensus 3 vvVA~~di~~G~~i~~ 18 (63)
T PF08666_consen 3 VVVAARDIPAGTVITA 18 (63)
T ss_dssp EEEESSTB-TT-BECT
T ss_pred EEEEeCccCCCCEEcc
Confidence 4789999999999963
No 113
>PLN02915 cellulose synthase A [UDP-forming], catalytic subunit
Probab=36.09 E-value=21 Score=44.65 Aligned_cols=49 Identities=27% Similarity=0.619 Sum_probs=37.7
Q ss_pred CCccccccCC--cccCCCceEEccccccccccccccccccCCCCceeeccccC
Q 003510 350 LDKCSVCHMD--EEYQNNLFLQCDKCRMMVHARCYGELEPVNGVLWLCNLCRP 400 (814)
Q Consensus 350 ~~~C~VC~~~--~~~~~n~iv~C~~C~~~vH~~CYg~~~~~~~~~W~C~~C~~ 400 (814)
..+|.||++. -..++++.|-|..|+..|-..||- .+..+| .=.|..|+.
T Consensus 15 ~~~c~iCGd~vg~~~~Ge~FVAC~eC~fpvCr~cye-ye~~~g-~~~cp~c~t 65 (1044)
T PLN02915 15 AKTCRVCGDEVGVKEDGQPFVACHVCGFPVCKPCYE-YERSEG-NQCCPQCNT 65 (1044)
T ss_pred cchhhccccccCcCCCCCEEEEeccCCCccccchhh-hhhhcC-CccCCccCC
Confidence 3699999875 245667899999999999999993 333334 678888874
No 114
>PLN02195 cellulose synthase A
Probab=34.55 E-value=23 Score=44.04 Aligned_cols=48 Identities=21% Similarity=0.549 Sum_probs=37.1
Q ss_pred CccccccCC--cccCCCceEEccccccccccccccccccCCCCceeeccccC
Q 003510 351 DKCSVCHMD--EEYQNNLFLQCDKCRMMVHARCYGELEPVNGVLWLCNLCRP 400 (814)
Q Consensus 351 ~~C~VC~~~--~~~~~n~iv~C~~C~~~vH~~CYg~~~~~~~~~W~C~~C~~ 400 (814)
..|.||++. -+.++++.|-|..|+..|-..||- .+.-+| .=-|..|+.
T Consensus 7 ~~c~~cgd~~~~~~~g~~fvaC~eC~~pvCrpCye-yer~eg-~q~CpqCkt 56 (977)
T PLN02195 7 PICATCGEEVGVDSNGEAFVACHECSYPLCKACLE-YEIKEG-RKVCLRCGG 56 (977)
T ss_pred ccceecccccCcCCCCCeEEEeccCCCccccchhh-hhhhcC-CccCCccCC
Confidence 589999873 345667899999999999999993 333334 678888874
No 115
>PF05641 Agenet: Agenet domain; InterPro: IPR008395 This domain is related to the TUDOR domain IPR008191 from INTERPRO []. The function of the agenet domain is unknown. This signature matches one of the two Agenet domains in the FMR proteins [].; GO: 0003723 RNA binding; PDB: 2BKD_N 3O8V_A 3KUF_A 3H8Z_A.
Probab=34.28 E-value=41 Score=27.76 Aligned_cols=52 Identities=15% Similarity=0.217 Sum_probs=29.9
Q ss_pred CCCCCEEEEee--CCCC--CCCceeeCCCCcCccccccccCCCCcEEEEEeC--CC------CEEEEeCCCccccc
Q 003510 36 LEPGDIIWAKL--TGHA--MWPAIVVDESLIGDYKGLNKISGGRSIPVQFFG--TH------DFARINVKQVISFL 99 (814)
Q Consensus 36 f~~GdlVwaK~--~GyP--wWPa~V~~~~~~~~~~~~~~~~~~~~~~V~FFg--~~------~~awv~~~~l~~f~ 99 (814)
|++|+.|=.+- .||. |+||.|..... .+.|.|+|-. +. -.-||....|.|--
T Consensus 1 F~~G~~VEV~s~e~g~~gaWf~a~V~~~~~------------~~~~~V~Y~~~~~~~~~~~~l~e~V~~~~iRP~p 64 (68)
T PF05641_consen 1 FKKGDEVEVSSDEDGFRGAWFPATVLKENG------------DDKYLVEYDDLPDEDGESPPLKEWVDARRIRPCP 64 (68)
T ss_dssp --TT-EEEEEE-SBTT--EEEEEEEEEEET------------T-EEEEEETT-SS--------EEEEEGGGEEE--
T ss_pred CCCCCEEEEEEcCCCCCcEEEEEEEEEeCC------------CcEEEEEECCcccccccccccEEEechheEECcC
Confidence 67899887665 4665 99999976311 1168999842 11 25678777777653
No 116
>PLN02189 cellulose synthase
Probab=34.05 E-value=23 Score=44.21 Aligned_cols=50 Identities=26% Similarity=0.659 Sum_probs=38.2
Q ss_pred CCccccccCCc--ccCCCceEEccccccccccccccccccCCCCceeeccccCC
Q 003510 350 LDKCSVCHMDE--EYQNNLFLQCDKCRMMVHARCYGELEPVNGVLWLCNLCRPG 401 (814)
Q Consensus 350 ~~~C~VC~~~~--~~~~n~iv~C~~C~~~vH~~CYg~~~~~~~~~W~C~~C~~~ 401 (814)
...|.||++.- ..+++..|-|.-|+-.|-..||- .+..+| .=.|..|+..
T Consensus 34 ~~~C~iCgd~vg~~~~g~~fvaC~~C~fpvCr~Cye-yer~eg-~q~CpqCkt~ 85 (1040)
T PLN02189 34 GQVCEICGDEIGLTVDGDLFVACNECGFPVCRPCYE-YERREG-TQNCPQCKTR 85 (1040)
T ss_pred CccccccccccCcCCCCCEEEeeccCCCccccchhh-hhhhcC-CccCcccCCc
Confidence 35999998753 35667899999999999999993 333333 7789999753
No 117
>PF12773 DZR: Double zinc ribbon
Probab=33.06 E-value=36 Score=26.03 Aligned_cols=38 Identities=21% Similarity=0.458 Sum_probs=22.5
Q ss_pred eEEccccccccccccccccccCCCCceeeccccCCCCCCCCCceec
Q 003510 367 FLQCDKCRMMVHARCYGELEPVNGVLWLCNLCRPGAPEPPPPCCLC 412 (814)
Q Consensus 367 iv~C~~C~~~vH~~CYg~~~~~~~~~W~C~~C~~~~~~~~~~C~lC 412 (814)
..+|..|+..+- ..+...++|..|..........|.-|
T Consensus 12 ~~fC~~CG~~l~--------~~~~~~~~C~~Cg~~~~~~~~fC~~C 49 (50)
T PF12773_consen 12 AKFCPHCGTPLP--------PPDQSKKICPNCGAENPPNAKFCPNC 49 (50)
T ss_pred ccCChhhcCChh--------hccCCCCCCcCCcCCCcCCcCccCcc
Confidence 456777776665 22334678888876554444555554
No 118
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=32.20 E-value=20 Score=29.92 Aligned_cols=32 Identities=34% Similarity=0.758 Sum_probs=13.2
Q ss_pred ccceeeCCc---cc--eeEecCCCCcCcccchhhHhh
Q 003510 463 LLCSICGVS---YG--ACIQCSNTTCRVAYHPLCARA 494 (814)
Q Consensus 463 ~~C~~C~~~---~G--a~iqC~~~~C~~~fH~~CA~~ 494 (814)
..|.||... .+ .-+.|.+..|...||..|-..
T Consensus 3 ~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~ 39 (70)
T PF11793_consen 3 LECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSE 39 (70)
T ss_dssp -S-SSS--SS-TT-----B--S-TT----B-SGGGHH
T ss_pred CCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHH
Confidence 468999852 22 347999999999999999744
No 119
>KOG0954 consensus PHD finger protein [General function prediction only]
Probab=31.80 E-value=29 Score=41.31 Aligned_cols=34 Identities=21% Similarity=0.271 Sum_probs=23.7
Q ss_pred cceeeCCccceeEecCCCCcCcccchhhHhh-cCceE
Q 003510 464 LCSICGVSYGACIQCSNTTCRVAYHPLCARA-AGLCV 499 (814)
Q Consensus 464 ~C~~C~~~~Ga~iqC~~~~C~~~fH~~CA~~-~g~~~ 499 (814)
.|.+|-+.+|++-.=..+ ..+-|+.||.. -.+.+
T Consensus 325 pCvLCPkkGGamK~~~sg--T~wAHvsCALwIPEVsi 359 (893)
T KOG0954|consen 325 PCVLCPKKGGAMKPTKSG--TKWAHVSCALWIPEVSI 359 (893)
T ss_pred CeeeccccCCcccccCCC--CeeeEeeeeeccceeec
Confidence 699999987877654422 37889999944 34443
No 120
>cd04370 BAH BAH, or Bromo Adjacent Homology domain (also called ELM1 and BAM for Bromo Adjacent Motif). BAH domains have first been described as domains found in the polybromo protein and Yeast Rsc1/Rsc2 (Remodeling of the Structure of Chromatin). They also occur in mammalian DNA methyltransferases and the MTA1 subunits of histone deacetylase complexes. A BAH domain is also found in Yeast Sir3p and in the origin receptor complex protein 1 (Orc1p), where it was found to interact with the N-terminal lobe of the silence information regulator 1 protein (Sir1p), confirming the initial hypothesis that BAH plays a role in protein-protein interactions.
Probab=31.31 E-value=52 Score=29.86 Aligned_cols=43 Identities=16% Similarity=0.272 Sum_probs=30.5
Q ss_pred CCCCCCCEEEEeeCC----CCCCCceeeCCCCcCccccccccCCCCcEEEEEeCC
Q 003510 34 QELEPGDIIWAKLTG----HAMWPAIVVDESLIGDYKGLNKISGGRSIPVQFFGT 84 (814)
Q Consensus 34 ~~f~~GdlVwaK~~G----yPwWPa~V~~~~~~~~~~~~~~~~~~~~~~V~FFg~ 84 (814)
..|++||.|..+-.. -|.|.|+|..-.. ...+...+.|+||=.
T Consensus 2 ~~y~vgd~V~v~~~~~~~~~~~~i~~I~~i~~--------~~~~~~~~~v~wf~r 48 (123)
T cd04370 2 ITYEVGDSVYVEPDDSIKSDPPYIARIEELWE--------DTNGSKQVKVRWFYR 48 (123)
T ss_pred CEEecCCEEEEecCCcCCCCCCEEEEEeeeeE--------CCCCCEEEEEEEEEc
Confidence 468899999999887 6899999965321 112334677888754
No 121
>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=31.00 E-value=14 Score=25.10 Aligned_cols=24 Identities=25% Similarity=0.614 Sum_probs=16.9
Q ss_pred CceeeccccCCCCCCCCCceecCC
Q 003510 391 VLWLCNLCRPGAPEPPPPCCLCPV 414 (814)
Q Consensus 391 ~~W~C~~C~~~~~~~~~~C~lC~~ 414 (814)
+.|.|..|..........|..|..
T Consensus 3 g~W~C~~C~~~N~~~~~~C~~C~~ 26 (30)
T PF00641_consen 3 GDWKCPSCTFMNPASRSKCVACGA 26 (30)
T ss_dssp SSEEETTTTEEEESSSSB-TTT--
T ss_pred cCccCCCCcCCchHHhhhhhCcCC
Confidence 389999999766666678888853
No 122
>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=30.98 E-value=35 Score=38.61 Aligned_cols=31 Identities=23% Similarity=0.639 Sum_probs=21.7
Q ss_pred ccccccCCc-ccCCCceEEccccccccccccc
Q 003510 352 KCSVCHMDE-EYQNNLFLQCDKCRMMVHARCY 382 (814)
Q Consensus 352 ~C~VC~~~~-~~~~n~iv~C~~C~~~vH~~CY 382 (814)
-|.||...+ ..+.-.-|.||-|+-..|..|-
T Consensus 130 ~C~iC~kfD~~~n~~~Wi~Cd~CgH~cH~dCA 161 (446)
T PF07227_consen 130 MCCICSKFDDNKNTCSWIGCDVCGHWCHLDCA 161 (446)
T ss_pred CccccCCcccCCCCeeEEeccCCCceehhhhh
Confidence 466776532 2233447899999999999994
No 123
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=29.83 E-value=27 Score=30.29 Aligned_cols=34 Identities=21% Similarity=0.447 Sum_probs=24.4
Q ss_pred CCCccccccCCcc---------cCCCceEEcccccccccccccc
Q 003510 349 DLDKCSVCHMDEE---------YQNNLFLQCDKCRMMVHARCYG 383 (814)
Q Consensus 349 ~~~~C~VC~~~~~---------~~~n~iv~C~~C~~~vH~~CYg 383 (814)
+++.|.||+...+ .++-+|+.+. |+-.+|..|.-
T Consensus 20 ~dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~-C~H~FH~hCI~ 62 (85)
T PF12861_consen 20 NDDVCGICRMPFDGCCPDCKFPGDDCPLVWGK-CSHNFHMHCIL 62 (85)
T ss_pred CCCceeeEecccccCCCCccCCCCCCceeecc-CccHHHHHHHH
Confidence 4689999987543 2344566555 99999999963
No 124
>PF13771 zf-HC5HC2H: PHD-like zinc-binding domain
Probab=29.80 E-value=42 Score=29.03 Aligned_cols=35 Identities=26% Similarity=0.326 Sum_probs=27.7
Q ss_pred CCCceecCCCCCCceecC---CCcchhhhhhccccceE
Q 003510 406 PPPCCLCPVVGGAMKPTT---DGRWAHLACAIWIPETC 440 (814)
Q Consensus 406 ~~~C~lC~~~~Galk~t~---~~~WvH~~Ca~~~pe~~ 440 (814)
...|.+|...+||..... .....|+.||+...-..
T Consensus 36 ~~~C~~C~~~~Ga~i~C~~~~C~~~fH~~CA~~~~~~~ 73 (90)
T PF13771_consen 36 KLKCSICKKKGGACIGCSHPGCSRSFHVPCARKAGCFI 73 (90)
T ss_pred CCCCcCCCCCCCeEEEEeCCCCCcEEChHHHccCCeEE
Confidence 468999999978887665 46899999999865443
No 125
>KOG0782 consensus Predicted diacylglycerol kinase [Signal transduction mechanisms]
Probab=29.78 E-value=15 Score=42.08 Aligned_cols=20 Identities=35% Similarity=0.913 Sum_probs=16.4
Q ss_pred eEEccccccccccccccccc
Q 003510 367 FLQCDKCRMMVHARCYGELE 386 (814)
Q Consensus 367 iv~C~~C~~~vH~~CYg~~~ 386 (814)
--.|.-|.+.||..|.....
T Consensus 199 rRkCAaCkIVvHT~CieqLe 218 (1004)
T KOG0782|consen 199 RRKCAACKIVVHTNCIEQLE 218 (1004)
T ss_pred hccceeeeEEEechHHHHHH
Confidence 34799999999999986544
No 126
>PF02452 PemK: PemK-like protein; InterPro: IPR003477 PemK is a growth inhibitor in Escherichia coli known to bind to the promoter region of the Pem operon, auto-regulating synthesis. It is responsible for mediating cell death through inhibiting protein synthesis through the cleavage of single-stranded RNA. PemK is part of the PemK-PemI system, where PemI is an antitoxin that inhibits the action of the PemK toxin []. PemK homologues have been found in a wide range of bacteria, which together form an endonuclease family that interfere with mRNA function. This family consists of the PemK protein in addition to ChpA, ChpB, Kid and MazF.; GO: 0003677 DNA binding; PDB: 1M1F_A 2C06_A 3NFC_F 1UB4_B 1NE8_A.
Probab=29.67 E-value=93 Score=27.65 Aligned_cols=68 Identities=18% Similarity=0.273 Sum_probs=36.9
Q ss_pred CCCCEEEEeeC--CC---CCCCceeeCCCCcCc-----cccccccCC-C-C-cEEEEEeCC---CC----EEEEeCCCcc
Q 003510 37 EPGDIIWAKLT--GH---AMWPAIVVDESLIGD-----YKGLNKISG-G-R-SIPVQFFGT---HD----FARINVKQVI 96 (814)
Q Consensus 37 ~~GdlVwaK~~--Gy---PwWPa~V~~~~~~~~-----~~~~~~~~~-~-~-~~~V~FFg~---~~----~awv~~~~l~ 96 (814)
+.||+||+.+. |- -.=||+|++...... ...+..+.. . . .+.|.--.. .. -+||...++.
T Consensus 1 k~GdI~~v~~p~~~~e~~k~RP~vVls~~~~n~~~~v~v~piTs~~~~~~~~~~~~~i~~~~~~~~~~~~~s~v~~~~i~ 80 (110)
T PF02452_consen 1 KRGDIVWVDFPDFGSEMGKRRPAVVLSNNAFNENGTVVVVPITSKKPNKKPFPFHVEIEPDDYNGLKGLKDSYVRCDQIR 80 (110)
T ss_dssp STTEEEEEE-S--TTS--SEEEEEE-S-HHHHHHSEEEEEEEESSTTSSSSCTTEEEETCSHCTSSS---SEEEECCCEE
T ss_pred CCceEEEEECCCCCcccCCcccEEEEEeecccccCceeEEEeeeccccccccceEEEEcccccccccccCCceeEEEEEE
Confidence 57999999994 21 378999998752211 001111111 1 1 334544433 12 2999999999
Q ss_pred ccccchhc
Q 003510 97 SFLKGLLS 104 (814)
Q Consensus 97 ~f~~~~~~ 104 (814)
.+....+.
T Consensus 81 ~i~~~~~~ 88 (110)
T PF02452_consen 81 TIDKERLR 88 (110)
T ss_dssp EEECCCTE
T ss_pred EECHHHCe
Confidence 99865443
No 127
>KOG0696 consensus Serine/threonine protein kinase [Signal transduction mechanisms]
Probab=29.64 E-value=22 Score=39.80 Aligned_cols=85 Identities=24% Similarity=0.312 Sum_probs=49.1
Q ss_pred CCCccccccCCcccCCCceEEcccccccccccccccc--------ccCCC---------------CceeeccccCCCCCC
Q 003510 349 DLDKCSVCHMDEEYQNNLFLQCDKCRMMVHARCYGEL--------EPVNG---------------VLWLCNLCRPGAPEP 405 (814)
Q Consensus 349 ~~~~C~VC~~~~~~~~n~iv~C~~C~~~vH~~CYg~~--------~~~~~---------------~~W~C~~C~~~~~~~ 405 (814)
+..+|+-|..---.-.-+=.+|.-|...||+.|.-.. .-++. ++-||+.|-.-.
T Consensus 55 qPTfCsHCkDFiwGfgKQGfQCqvC~fvvHkrChefVtF~CPGadkg~dtDdpr~kHkf~~~tYssPTFCDhCGsLL--- 131 (683)
T KOG0696|consen 55 QPTFCSHCKDFIWGFGKQGFQCQVCCFVVHKRCHEFVTFSCPGADKGPDTDDPRSKHKFKIHTYSSPTFCDHCGSLL--- 131 (683)
T ss_pred CCchhhhhhhheeccccCceeeeEEeehhhhhhcceEEEECCCCCCCCCCCCcccccceeeeecCCCchhhhHHHHH---
Confidence 3468999965322223345799999999999997421 11110 124555553210
Q ss_pred CCCceecCCCCCCceecCCCcchhhhhhccccceEEc
Q 003510 406 PPPCCLCPVVGGAMKPTTDGRWAHLACAIWIPETCLT 442 (814)
Q Consensus 406 ~~~C~lC~~~~Galk~t~~~~WvH~~Ca~~~pe~~~~ 442 (814)
=+....-||-.+...=||-.|..-+|...=.
T Consensus 132 ------yGl~HQGmKC~~C~mNVH~rCv~nVPslCG~ 162 (683)
T KOG0696|consen 132 ------YGLIHQGMKCDTCDMNVHHRCVENVPSLCGT 162 (683)
T ss_pred ------HHHHhcccccccccchHHHHHhhcCCcccCC
Confidence 0111223555566677999999888876533
No 128
>KOG3409 consensus Exosomal 3'-5' exoribonuclease complex, subunit ski4 (Csl4) [Translation, ribosomal structure and biogenesis]
Probab=29.63 E-value=32 Score=33.74 Aligned_cols=14 Identities=43% Similarity=0.864 Sum_probs=12.0
Q ss_pred CCCCCCCCEEEEee
Q 003510 33 CQELEPGDIIWAKL 46 (814)
Q Consensus 33 ~~~f~~GdlVwaK~ 46 (814)
.+.|+|||+|.||+
T Consensus 120 ~ksFrPgDiVlAkV 133 (193)
T KOG3409|consen 120 YKSFRPGDIVLAKV 133 (193)
T ss_pred hhccCCCcEEEEEE
Confidence 44699999999987
No 129
>KOG0383 consensus Predicted helicase [General function prediction only]
Probab=29.59 E-value=28 Score=41.93 Aligned_cols=31 Identities=29% Similarity=0.674 Sum_probs=26.1
Q ss_pred ccceeeCCccceeEecCCCCcCcccchhhHhhcC
Q 003510 463 LLCSICGVSYGACIQCSNTTCRVAYHPLCARAAG 496 (814)
Q Consensus 463 ~~C~~C~~~~Ga~iqC~~~~C~~~fH~~CA~~~g 496 (814)
..|.+|+. +|-.|-|+ .|..+||..|.-.-+
T Consensus 48 e~c~ic~~-~g~~l~c~--tC~~s~h~~cl~~pl 78 (696)
T KOG0383|consen 48 EACRICAD-GGELLWCD--TCPASFHASCLGPPL 78 (696)
T ss_pred hhhhhhcC-CCcEEEec--cccHHHHHHccCCCC
Confidence 47999998 68888898 999999999984443
No 130
>KOG4299 consensus PHD Zn-finger protein [General function prediction only]
Probab=29.22 E-value=19 Score=42.08 Aligned_cols=46 Identities=24% Similarity=0.570 Sum_probs=33.3
Q ss_pred CCccccccCCcccCCCceEEccccccccccccccccccC--CCCceeeccccC
Q 003510 350 LDKCSVCHMDEEYQNNLFLQCDKCRMMVHARCYGELEPV--NGVLWLCNLCRP 400 (814)
Q Consensus 350 ~~~C~VC~~~~~~~~n~iv~C~~C~~~vH~~CYg~~~~~--~~~~W~C~~C~~ 400 (814)
...|.+|...+. ++.|+.|--++|+.|-+....+ .+..|.|..|..
T Consensus 47 ~ts~~~~~~~gn-----~~~~~~~~~s~h~~~~~~~~sp~~~~~~~~~~~~~~ 94 (613)
T KOG4299|consen 47 ATSCGICKSGGN-----LLCCDHCPASFHLECDKPPLSPDLKGSEINCSRCPK 94 (613)
T ss_pred hhhcchhhhcCC-----ccccccCccccchhccCcccCcccccccccccCCCc
Confidence 568888887654 5678899999999987754433 344688888865
No 131
>PF11302 DUF3104: Protein of unknown function (DUF3104); InterPro: IPR021453 This family of proteins with unknown function appears to be restricted to Cyanobacteria.
Probab=27.89 E-value=1.4e+02 Score=25.31 Aligned_cols=57 Identities=18% Similarity=0.198 Sum_probs=42.8
Q ss_pred CCCCCEEEEeeCC-------CCCCCceeeCCCCcCccccccccCCCCcEEEEEeCCCCEEEEeCCCccc
Q 003510 36 LEPGDIIWAKLTG-------HAMWPAIVVDESLIGDYKGLNKISGGRSIPVQFFGTHDFARINVKQVIS 97 (814)
Q Consensus 36 f~~GdlVwaK~~G-------yPwWPa~V~~~~~~~~~~~~~~~~~~~~~~V~FFg~~~~awv~~~~l~~ 97 (814)
+++||.|..+=.. -.||=|.|+.-.. +.+.+....-+.|-=-.+...-||..+.+..
T Consensus 6 Vk~Gd~ViV~~~~~~~~~~~~dWWmg~Vi~~~g-----gaR~P~~~tlFQVadVDtG~I~wVnaD~Vt~ 69 (75)
T PF11302_consen 6 VKPGDTVIVQDEQEVGQKQDKDWWMGQVIHCEG-----GARDPKVPTLFQVADVDTGVIRWVNADEVTH 69 (75)
T ss_pred cCCCCEEEEecCccccccCCCCcEEEEEEEEec-----cccCCCCCceEEEEEccCCeEEEEEchheee
Confidence 6899999999887 7899999987532 1233333455779999999999999876643
No 132
>PF13832 zf-HC5HC2H_2: PHD-zinc-finger like domain
Probab=27.83 E-value=34 Score=31.02 Aligned_cols=29 Identities=28% Similarity=0.725 Sum_probs=24.6
Q ss_pred CCccccccCCcccCCCceEEccc--cccccccccc
Q 003510 350 LDKCSVCHMDEEYQNNLFLQCDK--CRMMVHARCY 382 (814)
Q Consensus 350 ~~~C~VC~~~~~~~~n~iv~C~~--C~~~vH~~CY 382 (814)
...|.||.... ...+.|.. |...+|..|-
T Consensus 55 ~~~C~iC~~~~----G~~i~C~~~~C~~~fH~~CA 85 (110)
T PF13832_consen 55 KLKCSICGKSG----GACIKCSHPGCSTAFHPTCA 85 (110)
T ss_pred CCcCcCCCCCC----ceeEEcCCCCCCcCCCHHHH
Confidence 36999999863 34899997 9999999996
No 133
>smart00109 C1 Protein kinase C conserved region 1 (C1) domains (Cysteine-rich domains). Some bind phorbol esters and diacylglycerol. Some bind RasGTP. Zinc-binding domains.
Probab=26.72 E-value=33 Score=25.62 Aligned_cols=32 Identities=31% Similarity=0.649 Sum_probs=25.3
Q ss_pred ccceeeCCccc---eeEecCCCCcCcccchhhHhhcC
Q 003510 463 LLCSICGVSYG---ACIQCSNTTCRVAYHPLCARAAG 496 (814)
Q Consensus 463 ~~C~~C~~~~G---a~iqC~~~~C~~~fH~~CA~~~g 496 (814)
..|.+|++... ..++|. .|....|..|+....
T Consensus 12 ~~C~~C~~~i~~~~~~~~C~--~C~~~~H~~C~~~v~ 46 (49)
T smart00109 12 TKCCVCRKSIWGSFQGLRCS--WCKVKCHKKCAEKVP 46 (49)
T ss_pred CCccccccccCcCCCCcCCC--CCCchHHHHHHhhcC
Confidence 46999998433 368897 899999999997654
No 134
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=24.45 E-value=42 Score=36.18 Aligned_cols=88 Identities=17% Similarity=0.456 Sum_probs=50.4
Q ss_pred cCCCCceeeccccCCCCCCCCCceecCCCCCCceecCCCcchhhhhhccccceEEccCCCcccccccccchhcccC--cc
Q 003510 387 PVNGVLWLCNLCRPGAPEPPPPCCLCPVVGGAMKPTTDGRWAHLACAIWIPETCLTDVKRMEPIDGLNRVSKDRWK--LL 464 (814)
Q Consensus 387 ~~~~~~W~C~~C~~~~~~~~~~C~lC~~~~Galk~t~~~~WvH~~Ca~~~pe~~~~~~~~~~~v~~~~~~~~~~~~--~~ 464 (814)
++.+..++|..|+...-.....|-.|...- .-+. |+.=+. ..+-|+.....++..... ..
T Consensus 271 ~~~~~Gy~CP~CkakvCsLP~eCpiC~ltL---Vss~-----hLARSy----------hhL~PL~~F~Eip~~~~~~~~~ 332 (378)
T KOG2807|consen 271 ELSGGGYFCPQCKAKVCSLPIECPICSLTL---VSSP-----HLARSY----------HHLFPLKPFVEIPETEYNGSRF 332 (378)
T ss_pred ccccCceeCCcccCeeecCCccCCccceeE---ecch-----HHHHHH----------HhhcCCcchhhccccccCCCcc
Confidence 345668999999975544456788886432 1111 111111 112233333444443322 24
Q ss_pred ceeeCC--ccceeEecCCCCcCcccchhhHhh
Q 003510 465 CSICGV--SYGACIQCSNTTCRVAYHPLCARA 494 (814)
Q Consensus 465 C~~C~~--~~Ga~iqC~~~~C~~~fH~~CA~~ 494 (814)
|..|+. ..+...+|. .|+..|=.-|-..
T Consensus 333 Cf~C~~~~~~~~~y~C~--~Ck~~FCldCDv~ 362 (378)
T KOG2807|consen 333 CFACQGELLSSGRYRCE--SCKNVFCLDCDVF 362 (378)
T ss_pred eeeeccccCCCCcEEch--hccceeeccchHH
Confidence 999943 467788998 8999998888643
No 135
>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=24.40 E-value=54 Score=29.22 Aligned_cols=31 Identities=32% Similarity=0.634 Sum_probs=21.0
Q ss_pred CCCccccccCCcccCCCceEEccccccccccccc
Q 003510 349 DLDKCSVCHMDEEYQNNLFLQCDKCRMMVHARCY 382 (814)
Q Consensus 349 ~~~~C~VC~~~~~~~~n~iv~C~~C~~~vH~~CY 382 (814)
+...|.||...-.. ..++ ---|+..||..|+
T Consensus 77 ~~~~C~vC~k~l~~--~~f~-~~p~~~v~H~~C~ 107 (109)
T PF10367_consen 77 ESTKCSVCGKPLGN--SVFV-VFPCGHVVHYSCI 107 (109)
T ss_pred CCCCccCcCCcCCC--ceEE-EeCCCeEEecccc
Confidence 44689999885432 2333 3356799999996
No 136
>PF04810 zf-Sec23_Sec24: Sec23/Sec24 zinc finger; InterPro: IPR006895 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. COPII (coat protein complex II)-coated vesicles carry proteins from the endoplasmic reticulum (ER) to the Golgi complex []. COPII-coated vesicles form on the ER by the stepwise recruitment of three cytosolic components: Sar1-GTP to initiate coat formation, Sec23/24 heterodimer to select SNARE and cargo molecules, and Sec13/31 to induce coat polymerisation and membrane deformation []. Sec23 p and Sec24p are structurally related, folding into five distinct domains: a beta-barrel, a zinc-finger, an alpha/beta trunk domain (IPR006896 from INTERPRO), an all-helical region (IPR006900 from INTERPRO), and a C-terminal gelsolin-like domain (IPR007123 from INTERPRO). This entry describes an approximately 55-residue Sec23/24 zinc-binding domain, which lies against the beta-barrel at the periphery of the complex. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0006886 intracellular protein transport, 0006888 ER to Golgi vesicle-mediated transport, 0030127 COPII vesicle coat; PDB: 3EFO_B 3EG9_B 3EGD_A 2YRC_A 2NUP_A 2YRD_A 3EGX_A 2NUT_A 3EH1_A 1PD0_A ....
Probab=23.77 E-value=43 Score=24.59 Aligned_cols=31 Identities=29% Similarity=0.860 Sum_probs=16.5
Q ss_pred eEEccccccccccccccccccCCCCceeeccccC
Q 003510 367 FLQCDKCRMMVHARCYGELEPVNGVLWLCNLCRP 400 (814)
Q Consensus 367 iv~C~~C~~~vH~~CYg~~~~~~~~~W~C~~C~~ 400 (814)
++.|.+|+..+--.|- ....+..|.|..|..
T Consensus 2 p~rC~~C~aylNp~~~---~~~~~~~w~C~~C~~ 32 (40)
T PF04810_consen 2 PVRCRRCRAYLNPFCQ---FDDGGKTWICNFCGT 32 (40)
T ss_dssp S-B-TTT--BS-TTSE---EETTTTEEEETTT--
T ss_pred ccccCCCCCEECCcce---EcCCCCEEECcCCCC
Confidence 5678888877766663 223455899999975
No 137
>cd05791 S1_CSL4 S1_CSL4: CSL4, S1-like RNA-binding domain. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. ScCSL4 protein is a subunit of the exosome complex. The exosome plays a central role in 3' to 5' RNA processing and degradation in eukarytes and archaea. Its functions include the removal of incorrectly processed RNA and the maintenance of proper levels of mRNA, rRNA and a number of small RNA species. In S. cerevisiae, the exosome includes nine core components, six of which are homologous to bacterial RNase PH. These form a hexameric ring structure. The other three subunits (RrP4, Rrp40, and Csl4) contain an S1 RNA binding domain and are part of the "S1 pore structure".
Probab=23.54 E-value=48 Score=29.22 Aligned_cols=16 Identities=38% Similarity=0.617 Sum_probs=13.6
Q ss_pred CCCCCCEEEEeeCCCC
Q 003510 35 ELEPGDIIWAKLTGHA 50 (814)
Q Consensus 35 ~f~~GdlVwaK~~GyP 50 (814)
-|++||+|-||+-.+-
T Consensus 60 ~f~~GDiV~AkVis~~ 75 (92)
T cd05791 60 CFRPGDIVRAKVISLG 75 (92)
T ss_pred hcCCCCEEEEEEEEcC
Confidence 4999999999997653
No 138
>KOG4477 consensus RING1 interactor RYBP and related Zn-finger-containing proteins [Transcription]
Probab=23.49 E-value=38 Score=33.36 Aligned_cols=32 Identities=22% Similarity=0.509 Sum_probs=26.0
Q ss_pred CCceeeccccCCCCCCCCCceecCCCCCCcee
Q 003510 390 GVLWLCNLCRPGAPEPPPPCCLCPVVGGAMKP 421 (814)
Q Consensus 390 ~~~W~C~~C~~~~~~~~~~C~lC~~~~Galk~ 421 (814)
.+.|-|..|.+........|++|..+.|--.+
T Consensus 22 eg~WdCsvCTFrNsAeAfkC~vCdvRKGTSTR 53 (228)
T KOG4477|consen 22 EGKWDCSVCTFRNSAEAFKCFVCDVRKGTSTR 53 (228)
T ss_pred cCceeeeeeeecchhhhhheeeeccccccccc
Confidence 34799999998776677899999998886544
No 139
>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=23.39 E-value=33 Score=30.66 Aligned_cols=31 Identities=26% Similarity=0.583 Sum_probs=20.6
Q ss_pred ccceeeCCccceeEecCCCCcCcccchhhHhh
Q 003510 463 LLCSICGVSYGACIQCSNTTCRVAYHPLCARA 494 (814)
Q Consensus 463 ~~C~~C~~~~Ga~iqC~~~~C~~~fH~~CA~~ 494 (814)
..|.+|+++-|...--.+ -|...||..|+.+
T Consensus 79 ~~C~vC~k~l~~~~f~~~-p~~~v~H~~C~~r 109 (109)
T PF10367_consen 79 TKCSVCGKPLGNSVFVVF-PCGHVVHYSCIKR 109 (109)
T ss_pred CCccCcCCcCCCceEEEe-CCCeEEecccccC
Confidence 469999996554322222 4568999999853
No 140
>PF09465 LBR_tudor: Lamin-B receptor of TUDOR domain; InterPro: IPR019023 The Lamin-B receptor is a chromatin and lamin binding protein in the inner nuclear membrane. It is one of the integral inner nuclear envelope membrane proteins responsible for targeting nuclear membranes to chromatin, being a downstream effector of Ran, a small Ras-like nuclear GTPase which regulates NE assembly. Lamin-B receptor interacts with importin beta, a Ran-binding protein, thereby directly contributing to the fusion of membrane vesicles and the formation of the nuclear envelope []. ; PDB: 2L8D_A 2DIG_A.
Probab=22.82 E-value=1.2e+02 Score=24.13 Aligned_cols=25 Identities=12% Similarity=0.492 Sum_probs=18.1
Q ss_pred CCCCCCCEEEEeeCCCCCC-CceeeC
Q 003510 34 QELEPGDIIWAKLTGHAMW-PAIVVD 58 (814)
Q Consensus 34 ~~f~~GdlVwaK~~GyPwW-Pa~V~~ 58 (814)
.+|..|++|-+|-.|-.-| +|+|.+
T Consensus 4 ~k~~~Ge~V~~rWP~s~lYYe~kV~~ 29 (55)
T PF09465_consen 4 RKFAIGEVVMVRWPGSSLYYEGKVLS 29 (55)
T ss_dssp SSS-SS-EEEEE-TTTS-EEEEEEEE
T ss_pred ccccCCCEEEEECCCCCcEEEEEEEE
Confidence 6799999999998888877 888866
No 141
>cd04721 BAH_plant_1 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=22.78 E-value=86 Score=29.59 Aligned_cols=52 Identities=17% Similarity=0.218 Sum_probs=36.3
Q ss_pred CCCCCCCCEEEEeeCCCCCCCceeeCCCCcCccccccccCCCCcEEEEEeCCCC--EEEEeC
Q 003510 33 CQELEPGDIIWAKLTGHAMWPAIVVDESLIGDYKGLNKISGGRSIPVQFFGTHD--FARINV 92 (814)
Q Consensus 33 ~~~f~~GdlVwaK~~GyPwWPa~V~~~~~~~~~~~~~~~~~~~~~~V~FFg~~~--~awv~~ 92 (814)
+..+++||.|..+-.+=..|=|+|.+-.. ...+...+.|+||-..+ .++.++
T Consensus 5 ~~~i~vGD~V~v~~~~~~~~va~Ie~i~e--------d~~g~~~v~v~WF~~p~E~~~~~~~ 58 (130)
T cd04721 5 GVTISVHDFVYVLSEEEDRYVAYIEDLYE--------DKKGSKMVKVRWFHTTDEVGAALSP 58 (130)
T ss_pred CEEEECCCEEEEeCCCCCcEEEEEEEEEE--------cCCCCEEEEEEEecCHHHhccccCC
Confidence 44589999999998877789999965321 11233468899999765 454444
No 142
>cd00029 C1 Protein kinase C conserved region 1 (C1) . Cysteine-rich zinc binding domain. Some members of this domain family bind phorbol esters and diacylglycerol, some are reported to bind RasGTP. May occur in tandem arrangement. Diacylglycerol (DAG) is a second messenger, released by activation of Phospholipase D. Phorbol Esters (PE) can act as analogues of DAG and mimic its downstream effects in, for example, tumor promotion. Protein Kinases C are activated by DAG/PE, this activation is mediated by their N-terminal conserved region (C1). DAG/PE binding may be phospholipid dependent. C1 domains may also mediate DAG/PE signals in chimaerins (a family of Rac GTPase activating proteins), RasGRPs (exchange factors for Ras/Rap1), and Munc13 isoforms (scaffolding proteins involved in exocytosis).
Probab=22.71 E-value=47 Score=24.98 Aligned_cols=32 Identities=31% Similarity=0.689 Sum_probs=25.2
Q ss_pred ccceeeCCccc----eeEecCCCCcCcccchhhHhhcC
Q 003510 463 LLCSICGVSYG----ACIQCSNTTCRVAYHPLCARAAG 496 (814)
Q Consensus 463 ~~C~~C~~~~G----a~iqC~~~~C~~~fH~~CA~~~g 496 (814)
..|.+|++... .-++|. .|....|..|+....
T Consensus 12 ~~C~~C~~~i~~~~~~~~~C~--~C~~~~H~~C~~~v~ 47 (50)
T cd00029 12 TFCDVCRKSIWGLFKQGLRCS--WCKVKCHKKCADKVP 47 (50)
T ss_pred CChhhcchhhhccccceeEcC--CCCCchhhhhhccCC
Confidence 46999987422 667897 899999999997654
No 143
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=22.59 E-value=28 Score=37.49 Aligned_cols=51 Identities=24% Similarity=0.590 Sum_probs=36.6
Q ss_pred cccCCCccccccCCcccCCCceEEccccccccccccccc-cccCCCCceeeccccC
Q 003510 346 DWKDLDKCSVCHMDEEYQNNLFLQCDKCRMMVHARCYGE-LEPVNGVLWLCNLCRP 400 (814)
Q Consensus 346 ~~~~~~~C~VC~~~~~~~~n~iv~C~~C~~~vH~~CYg~-~~~~~~~~W~C~~C~~ 400 (814)
..++++.|-.|.+.-+..+--+.-| -|+-.|.|.||.- ..... -.|..|+.
T Consensus 10 sedeed~cplcie~mditdknf~pc-~cgy~ic~fc~~~irq~ln---grcpacrr 61 (480)
T COG5175 10 SEDEEDYCPLCIEPMDITDKNFFPC-PCGYQICQFCYNNIRQNLN---GRCPACRR 61 (480)
T ss_pred cccccccCcccccccccccCCcccC-CcccHHHHHHHHHHHhhcc---CCChHhhh
Confidence 4566788999998766554445556 5999999999974 33333 47899964
No 144
>KOG2752 consensus Uncharacterized conserved protein, contains N-recognin-type Zn-finger [General function prediction only]
Probab=22.16 E-value=1e+02 Score=33.19 Aligned_cols=113 Identities=16% Similarity=0.268 Sum_probs=64.1
Q ss_pred CccccccCCcccCCCceEEccccccccccccccccccCCCCceeeccccCCCCCCCCCceecCCCCCCceecCCCcchhh
Q 003510 351 DKCSVCHMDEEYQNNLFLQCDKCRMMVHARCYGELEPVNGVLWLCNLCRPGAPEPPPPCCLCPVVGGAMKPTTDGRWAHL 430 (814)
Q Consensus 351 ~~C~VC~~~~~~~~n~iv~C~~C~~~vH~~CYg~~~~~~~~~W~C~~C~~~~~~~~~~C~lC~~~~Galk~t~~~~WvH~ 430 (814)
-.|--|.-... ...+|-.|.+..|..=-++.... ...|.|+.|..... .|.+=+...+..+ .+.+.|.|-
T Consensus 56 ~sClTC~P~~~----~agvC~~C~~~CH~~H~lveL~t-KR~FrCDCg~sk~g----~~sc~l~~~~~~~-n~~N~YNhN 125 (345)
T KOG2752|consen 56 FSCLTCTPAPE----MAGVCYACSLSCHDGHELVELYT-KRNFRCDCGNSKFG----RCSCNLLEDKDAE-NSENLYNHN 125 (345)
T ss_pred eEeecccCChh----hceeEEEeeeeecCCceeeeccc-cCCccccccccccc----ccccccccccccc-cchhhhhhh
Confidence 35666654322 46789999999998765554433 44899999976443 2222223333333 445567775
Q ss_pred hhhccccceEEccCCCcccccccccchhcccCccceeeCCccceeEecCCCCcCcccc-hhhHhhcCc
Q 003510 431 ACAIWIPETCLTDVKRMEPIDGLNRVSKDRWKLLCSICGVSYGACIQCSNTTCRVAYH-PLCARAAGL 497 (814)
Q Consensus 431 ~Ca~~~pe~~~~~~~~~~~v~~~~~~~~~~~~~~C~~C~~~~Ga~iqC~~~~C~~~fH-~~CA~~~g~ 497 (814)
.=.++.- .+...-.|+.. -.|.++||. -|..+|| -.|-....+
T Consensus 126 fqG~~C~----Cd~~Ypdp~~~------------------~e~~m~QC~--iCEDWFHce~c~~~~~~ 169 (345)
T KOG2752|consen 126 FQGLFCK----CDTPYPDPVRT------------------EEGEMLQCV--ICEDWFHCEGCMQAKTF 169 (345)
T ss_pred hcceeEE----ecCCCCCcccc------------------ccceeeeEE--eccchhcccccCcccch
Confidence 4443311 11111122221 158899998 8999999 566554443
No 145
>KOG1844 consensus PHD Zn-finger proteins [General function prediction only]
Probab=21.88 E-value=53 Score=38.50 Aligned_cols=49 Identities=27% Similarity=0.851 Sum_probs=36.3
Q ss_pred CccccccCCcccCCCceEEccccccccccccccccccCCCCceeeccccCC
Q 003510 351 DKCSVCHMDEEYQNNLFLQCDKCRMMVHARCYGELEPVNGVLWLCNLCRPG 401 (814)
Q Consensus 351 ~~C~VC~~~~~~~~n~iv~C~~C~~~vH~~CYg~~~~~~~~~W~C~~C~~~ 401 (814)
..|. |...++. +..++.|+-|..--|..|+|+.....-....|..|...
T Consensus 87 ~~c~-c~~~~~~-~g~~i~c~~c~~Wqh~~C~g~~~~~~p~~y~c~~c~~~ 135 (508)
T KOG1844|consen 87 SRCD-CGLEDDM-EGLMIQCDWCGRWQHKICCGSFKSTKPDKYVCEICTPR 135 (508)
T ss_pred cccc-cccccCC-CceeeCCcccCcccCceeeeecCCCCchhceeeeeccc
Confidence 3554 7665442 67899999999999999999765433236889999754
No 146
>PF08274 PhnA_Zn_Ribbon: PhnA Zinc-Ribbon ; InterPro: IPR013987 The PhnA protein family includes the uncharacterised Escherichia coli protein PhnA and its homologues. The E. coli phnA gene is part of a large operon associated with alkylphosphonate uptake and carbon-phosphorus bond cleavage []. The protein is not related to the characterised phosphonoacetate hydrolase designated PhnA []. This entry represents the N-terminal domain of PhnA, which is predicted to form a zinc-ribbon.; PDB: 2AKL_A.
Probab=21.56 E-value=42 Score=23.19 Aligned_cols=24 Identities=29% Similarity=0.848 Sum_probs=12.2
Q ss_pred CccccccCCcccCCCceEEccccc
Q 003510 351 DKCSVCHMDEEYQNNLFLQCDKCR 374 (814)
Q Consensus 351 ~~C~VC~~~~~~~~n~iv~C~~C~ 374 (814)
..|-.|.......++.++.|..|+
T Consensus 3 p~Cp~C~se~~y~D~~~~vCp~C~ 26 (30)
T PF08274_consen 3 PKCPLCGSEYTYEDGELLVCPECG 26 (30)
T ss_dssp ---TTT-----EE-SSSEEETTTT
T ss_pred CCCCCCCCcceeccCCEEeCCccc
Confidence 368888887777777888888886
No 147
>KOG3268 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=21.36 E-value=25 Score=34.35 Aligned_cols=36 Identities=22% Similarity=0.461 Sum_probs=25.7
Q ss_pred cCCCccccccCCcccCCCceEEccc--ccccccccccc
Q 003510 348 KDLDKCSVCHMDEEYQNNLFLQCDK--CRMMVHARCYG 383 (814)
Q Consensus 348 ~~~~~C~VC~~~~~~~~n~iv~C~~--C~~~vH~~CYg 383 (814)
+....|.||.--.-++.-+-..|++ |+..+||-|.-
T Consensus 163 d~~~~cgicyayqldGTipDqtCdN~qCgkpFHqiCL~ 200 (234)
T KOG3268|consen 163 DELGACGICYAYQLDGTIPDQTCDNIQCGKPFHQICLT 200 (234)
T ss_pred hhhhcccceeeeecCCccccccccccccCCcHHHHHHH
Confidence 3445788887655444445567995 99999999973
Done!