Query 041905
Match_columns 191
No_of_seqs 225 out of 931
Neff 6.0
Searched_HMMs 46136
Date Fri Mar 29 11:55:52 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/041905.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/041905hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0383 Predicted helicase [Ge 99.6 6.1E-16 1.3E-20 147.8 1.7 141 33-177 1-181 (696)
2 KOG1244 Predicted transcriptio 99.1 1.8E-11 3.8E-16 105.7 1.7 92 13-107 223-331 (336)
3 KOG1512 PHD Zn-finger protein 98.9 4.4E-10 9.5E-15 97.8 1.9 87 14-105 258-361 (381)
4 KOG4299 PHD Zn-finger protein 98.8 2E-09 4.4E-14 101.4 2.1 43 62-105 255-303 (613)
5 KOG4443 Putative transcription 98.7 4.4E-09 9.6E-14 99.6 1.2 92 13-107 17-118 (694)
6 smart00249 PHD PHD zinc finger 98.4 2.1E-07 4.6E-12 58.2 3.2 43 16-60 1-46 (47)
7 KOG4299 PHD Zn-finger protein 98.4 1.2E-07 2.7E-12 89.5 1.4 49 14-64 253-305 (613)
8 KOG0383 Predicted helicase [Ge 98.3 2.1E-07 4.5E-12 89.8 1.9 131 11-145 44-264 (696)
9 PF00628 PHD: PHD-finger; Int 98.3 2.6E-07 5.6E-12 60.2 1.0 42 16-59 1-46 (51)
10 KOG1473 Nucleosome remodeling 98.1 5.9E-07 1.3E-11 89.5 0.7 117 14-135 344-507 (1414)
11 KOG1244 Predicted transcriptio 98.0 2.4E-06 5.1E-11 74.3 2.1 42 14-58 281-325 (336)
12 PF00628 PHD: PHD-finger; Int 98.0 2.5E-06 5.4E-11 55.5 1.1 44 62-106 1-50 (51)
13 COG5034 TNG2 Chromatin remodel 98.0 4.3E-06 9.3E-11 71.9 2.7 47 10-60 217-266 (271)
14 PF15446 zf-PHD-like: PHD/FYVE 97.8 2.2E-05 4.8E-10 63.9 4.6 71 16-88 1-141 (175)
15 smart00249 PHD PHD zinc finger 97.8 1.5E-05 3.3E-10 49.6 2.7 43 62-104 1-47 (47)
16 KOG0825 PHD Zn-finger protein 97.6 2.4E-05 5.2E-10 76.1 2.0 44 61-105 216-264 (1134)
17 KOG1973 Chromatin remodeling p 97.6 3.3E-05 7.1E-10 67.4 2.0 46 11-59 216-263 (274)
18 cd04718 BAH_plant_2 BAH, or Br 97.4 6.7E-05 1.5E-09 60.0 1.7 25 80-105 1-25 (148)
19 KOG1081 Transcription factor N 97.3 0.00024 5.2E-09 66.2 3.8 67 4-70 79-153 (463)
20 KOG0825 PHD Zn-finger protein 97.2 0.00016 3.5E-09 70.5 2.4 43 14-59 215-261 (1134)
21 KOG0956 PHD finger protein AF1 97.2 0.00027 5.9E-09 68.1 3.5 99 15-116 6-189 (900)
22 KOG0955 PHD finger protein BR1 97.1 0.00047 1E-08 69.6 4.5 67 11-87 216-289 (1051)
23 KOG0957 PHD finger protein [Ge 96.9 0.00028 6.1E-09 66.1 0.9 43 61-104 545-595 (707)
24 KOG1512 PHD Zn-finger protein 96.9 0.00041 9E-09 61.0 1.5 40 15-59 315-357 (381)
25 KOG4443 Putative transcription 96.7 0.00075 1.6E-08 64.8 2.1 70 15-87 69-153 (694)
26 KOG0954 PHD finger protein [Ge 96.7 0.00063 1.4E-08 66.1 1.4 45 10-59 267-316 (893)
27 cd04718 BAH_plant_2 BAH, or Br 96.6 0.0013 2.8E-08 52.7 2.1 25 37-62 1-25 (148)
28 KOG1973 Chromatin remodeling p 96.1 0.003 6.4E-08 55.1 2.1 49 51-106 215-267 (274)
29 COG5141 PHD zinc finger-contai 96.0 0.0051 1.1E-07 57.7 2.9 62 13-84 192-260 (669)
30 KOG0955 PHD finger protein BR1 95.8 0.0044 9.6E-08 62.7 1.7 42 61-105 220-267 (1051)
31 PF13771 zf-HC5HC2H: PHD-like 95.7 0.0051 1.1E-07 44.1 1.3 48 14-61 36-89 (90)
32 KOG0957 PHD finger protein [Ge 94.9 0.012 2.7E-07 55.4 1.5 44 14-59 544-593 (707)
33 KOG1245 Chromatin remodeling c 94.7 0.0064 1.4E-07 63.4 -0.9 46 61-107 1109-1158(1404)
34 KOG4323 Polycomb-like PHD Zn-f 94.6 0.011 2.4E-07 55.2 0.4 89 13-107 82-224 (464)
35 KOG1245 Chromatin remodeling c 94.0 0.012 2.6E-07 61.5 -0.8 47 11-60 1105-1154(1404)
36 PF13832 zf-HC5HC2H_2: PHD-zin 93.3 0.043 9.4E-07 40.8 1.5 35 13-47 54-89 (110)
37 COG5141 PHD zinc finger-contai 92.6 0.046 9.9E-07 51.5 0.8 41 62-105 195-241 (669)
38 PF13831 PHD_2: PHD-finger; PD 92.5 0.017 3.8E-07 35.5 -1.4 33 70-105 3-36 (36)
39 PF13831 PHD_2: PHD-finger; PD 92.4 0.052 1.1E-06 33.3 0.7 32 24-59 2-33 (36)
40 KOG4323 Polycomb-like PHD Zn-f 91.7 0.086 1.9E-06 49.3 1.5 46 17-69 171-224 (464)
41 COG5034 TNG2 Chromatin remodel 90.5 0.085 1.8E-06 45.8 0.3 45 54-107 220-270 (271)
42 PF13832 zf-HC5HC2H_2: PHD-zin 89.0 0.45 9.7E-06 35.3 3.1 72 16-89 2-88 (110)
43 PF14446 Prok-RING_1: Prokaryo 88.8 0.23 5E-06 33.4 1.2 32 14-47 5-40 (54)
44 KOG1473 Nucleosome remodeling 88.1 0.29 6.4E-06 50.2 2.0 44 61-105 345-389 (1414)
45 PF11793 FANCL_C: FANCL C-term 88.0 0.23 5E-06 34.6 0.9 34 14-47 2-41 (70)
46 KOG0954 PHD finger protein [Ge 87.4 0.22 4.7E-06 49.0 0.7 42 61-105 272-319 (893)
47 KOG3362 Predicted BBOX Zn-fing 87.0 0.26 5.7E-06 39.4 0.8 43 36-87 103-146 (156)
48 KOG4628 Predicted E3 ubiquitin 81.7 0.91 2E-05 41.2 2.0 45 15-70 230-277 (348)
49 KOG0956 PHD finger protein AF1 81.7 0.7 1.5E-05 45.4 1.3 33 71-106 22-56 (900)
50 PF10497 zf-4CXXC_R1: Zinc-fin 81.7 0.5 1.1E-05 35.7 0.2 45 62-106 9-69 (105)
51 KOG3612 PHD Zn-finger protein 79.6 1.2 2.5E-05 42.6 2.0 47 11-59 57-103 (588)
52 KOG1946 RNA polymerase I trans 78.1 1.3 2.9E-05 38.1 1.8 39 129-167 3-41 (240)
53 PF15446 zf-PHD-like: PHD/FYVE 74.4 1.3 2.9E-05 36.4 0.7 27 62-88 1-34 (175)
54 PF11793 FANCL_C: FANCL C-term 69.8 1.6 3.4E-05 30.4 0.1 34 71-105 20-62 (70)
55 PF08746 zf-RING-like: RING-li 69.5 1.1 2.3E-05 28.4 -0.7 39 63-104 1-43 (43)
56 PF04438 zf-HIT: HIT zinc fing 68.8 1.6 3.5E-05 25.7 0.0 23 60-82 2-24 (30)
57 PF06524 NOA36: NOA36 protein; 67.5 5.7 0.00012 35.0 3.1 44 62-105 173-216 (314)
58 PF07649 C1_3: C1-like domain; 66.5 2.2 4.8E-05 24.6 0.3 25 62-86 2-30 (30)
59 PF13901 DUF4206: Domain of un 66.4 5 0.00011 33.4 2.5 27 71-107 172-198 (202)
60 PF10367 Vps39_2: Vacuolar sor 55.3 8.1 0.00017 27.8 1.7 32 11-44 75-108 (109)
61 PF13771 zf-HC5HC2H: PHD-like 54.3 7.1 0.00015 27.5 1.2 31 60-90 36-70 (90)
62 COG5082 AIR1 Arginine methyltr 49.9 15 0.00032 30.7 2.6 49 12-70 58-107 (190)
63 KOG1246 DNA-binding protein ju 49.2 12 0.00027 37.7 2.4 46 61-107 156-204 (904)
64 PF00130 C1_1: Phorbol esters/ 48.2 15 0.00033 23.3 2.0 34 12-47 9-47 (53)
65 PF13639 zf-RING_2: Ring finge 46.8 6 0.00013 24.3 -0.1 32 15-48 1-35 (44)
66 PF00641 zf-RanBP: Zn-finger i 45.3 15 0.00032 21.0 1.4 24 53-78 2-25 (30)
67 KOG1829 Uncharacterized conser 43.0 7.5 0.00016 37.6 -0.2 38 72-117 532-569 (580)
68 PF02318 FYVE_2: FYVE-type zin 38.9 14 0.0003 28.0 0.7 50 60-113 54-109 (118)
69 KOG1246 DNA-binding protein ju 37.3 24 0.00053 35.7 2.4 52 10-64 151-204 (904)
70 cd00162 RING RING-finger (Real 34.1 15 0.00034 21.3 0.3 39 63-105 2-42 (45)
71 PLN02638 cellulose synthase A 33.9 27 0.00058 36.3 2.0 55 61-119 18-80 (1079)
72 PF03380 DUF282: Caenorhabditi 32.4 31 0.00068 21.6 1.5 23 29-56 2-24 (39)
73 PLN02915 cellulose synthase A 32.1 33 0.00071 35.6 2.3 58 56-117 11-76 (1044)
74 cd00029 C1 Protein kinase C co 31.4 27 0.00059 21.4 1.1 31 14-46 11-46 (50)
75 PLN02436 cellulose synthase A 31.2 33 0.0007 35.7 2.1 73 58-135 34-114 (1094)
76 PF12678 zf-rbx1: RING-H2 zinc 31.1 12 0.00026 26.0 -0.7 35 11-47 16-63 (73)
77 PF12861 zf-Apc11: Anaphase-pr 30.6 20 0.00044 26.2 0.4 33 13-48 20-66 (85)
78 KOG4628 Predicted E3 ubiquitin 28.6 30 0.00065 31.5 1.3 41 62-106 231-275 (348)
79 PLN02189 cellulose synthase 28.6 38 0.00082 35.1 2.1 66 59-128 33-106 (1040)
80 COG1997 RPL43A Ribosomal prote 28.3 38 0.00083 25.0 1.6 27 61-87 36-69 (89)
81 PF03107 C1_2: C1 domain; Int 28.1 57 0.0012 18.6 2.0 26 16-43 2-30 (30)
82 KOG2932 E3 ubiquitin ligase in 28.0 58 0.0013 29.6 2.9 69 39-114 53-139 (389)
83 KOG3799 Rab3 effector RIM1 and 27.5 41 0.00088 27.0 1.7 55 62-117 67-126 (169)
84 PF04236 Transp_Tc5_C: Tc5 tra 27.0 47 0.001 22.8 1.7 27 61-87 28-56 (63)
85 cd00730 rubredoxin Rubredoxin; 26.7 32 0.00069 22.5 0.8 35 72-107 2-43 (50)
86 PF05191 ADK_lid: Adenylate ki 26.1 36 0.00079 20.7 1.0 27 72-105 2-28 (36)
87 smart00547 ZnF_RBZ Zinc finger 26.1 39 0.00086 18.3 1.0 7 54-60 1-7 (26)
88 smart00109 C1 Protein kinase C 25.3 24 0.00052 21.4 0.0 32 13-46 10-45 (49)
89 PF15227 zf-C3HC4_4: zinc fing 25.2 12 0.00026 23.2 -1.3 29 75-104 14-42 (42)
90 KOG3576 Ovo and related transc 25.2 14 0.00031 31.6 -1.3 52 23-88 114-190 (267)
91 smart00400 ZnF_CHCC zinc finge 25.1 21 0.00045 23.2 -0.3 15 13-27 22-36 (55)
92 PLN02400 cellulose synthase 24.8 44 0.00095 34.8 1.8 65 60-128 36-108 (1085)
93 smart00744 RINGv The RING-vari 24.6 26 0.00057 22.5 0.1 32 16-47 1-37 (49)
94 PF07227 DUF1423: Protein of u 24.6 72 0.0016 30.1 3.0 61 56-116 124-204 (446)
95 PF14569 zf-UDP: Zinc-binding 23.3 19 0.00041 26.0 -0.8 50 61-114 10-67 (80)
96 PHA02929 N1R/p28-like protein; 22.0 28 0.00062 30.0 -0.1 45 13-69 173-225 (238)
97 KOG1671 Ubiquinol cytochrome c 21.7 50 0.0011 28.0 1.2 21 39-61 155-175 (210)
98 COG1645 Uncharacterized Zn-fin 20.8 50 0.0011 26.0 1.0 16 90-106 37-52 (131)
99 PF13842 Tnp_zf-ribbon_2: DDE_ 20.7 82 0.0018 18.5 1.7 21 63-83 3-28 (32)
100 PF10080 DUF2318: Predicted me 20.2 60 0.0013 24.4 1.3 30 13-44 34-68 (102)
No 1
>KOG0383 consensus Predicted helicase [General function prediction only]
Probab=99.56 E-value=6.1e-16 Score=147.84 Aligned_cols=141 Identities=21% Similarity=0.401 Sum_probs=114.0
Q ss_pred CCCCcccccccCccccccCCCCCeeec--------------------CcccccccCCc-eeeeccCCCCCCCcccCcccc
Q 041905 33 RCPKVYHSECVDKDESFLVAETKWTCN--------------------WHYCHVCGKAS-KFYCLCCPSAVCKTCLYDAQF 91 (191)
Q Consensus 33 ~CpkayH~~Cl~~~~~~~~~~g~W~Cp--------------------~h~C~~C~~~~-~~~C~~Cp~syh~~Cl~~~~l 91 (191)
.|+|+||..|++|.+.. .++++|.|| +..|.+|++++ ++.|++|+.+||.+|+. +++
T Consensus 1 ~~~r~~~~~~~~p~~~~-~~~~~~k~~~~e~~~~~~~~~~~~~~~~~~e~c~ic~~~g~~l~c~tC~~s~h~~cl~-~pl 78 (696)
T KOG0383|consen 1 TCPRAYHRVCLDPKLKE-EPEMDPKCPGCESSSAQVEAKDDDWDDAEQEACRICADGGELLWCDTCPASFHASCLG-PPL 78 (696)
T ss_pred CCCcccCcCCCCccccc-CCcCCccCcchhhcccccccccCCcchhhhhhhhhhcCCCcEEEeccccHHHHHHccC-CCC
Confidence 48999999999998865 568999999 34799999987 79999999999999999 788
Q ss_pred ccccCCcccCcCcH--HHHHHHhhhccccCCCCccC-------CCC-----CCccccC----CcceeEEeeecc-CCChh
Q 041905 92 AVVKRNKGFCNSCL--ELAWLIETNKDVKSVGCNID-------VNH-----PKTTDYF----FNGYWQTIKQKE-GLTSK 152 (191)
Q Consensus 92 ~~i~~~~w~C~~C~--~~~~~iek~~~~~~~~~~vd-------~~d-----~~~~E~~----~~~YW~~~k~k~-~l~~~ 152 (191)
..+|.+.|.|++|. ....++++++.|.......+ +.. ...+||| .++||||.|..+ .+...
T Consensus 79 ~~~p~~~~~c~Rc~~p~~~~k~~~il~~~~~~~~~~~~~~~~~~~~~~~~~~~~re~~vk~qg~s~~~c~~~~e~~~q~~ 158 (696)
T KOG0383|consen 79 TPQPNGEFICPRCFCPKNAGKIEKILGWRWKPTPKPREGNQGVISPRRSNGIVEREFFVKWQGLSYWHCSWKSELLLQNP 158 (696)
T ss_pred CcCCccceeeeeeccCCCcccccccceeEecCCCCccccCcCccCCcccccchhhhcccccccCCccchhHHHHHHhhhh
Confidence 88898889999996 45678999988733222211 111 2248888 789999999885 55556
Q ss_pred hHHHHHhhhhCCCCCcCCCCCcCCC
Q 041905 153 NVILAYDLSKKGEMHKRASNAFESD 177 (191)
Q Consensus 153 ~~~~a~~~~r~~~~~~~~~~~~~~~ 177 (191)
...+.+++++..+++++ |.++++
T Consensus 159 ~~~~~~~~~~~~~~~~~--~~~~~~ 181 (696)
T KOG0383|consen 159 LNTLPVELQRKHDTDQK--PEAEIG 181 (696)
T ss_pred cccchHhhhhhhhcccC--cccccc
Confidence 78889999999999987 888886
No 2
>KOG1244 consensus Predicted transcription factor Requiem/NEURO-D4 [Transcription]
Probab=99.12 E-value=1.8e-11 Score=105.72 Aligned_cols=92 Identities=24% Similarity=0.641 Sum_probs=79.1
Q ss_pred cccccceeccc----------CceEeeCCCCCCCcccccccCcccccc--CCCCCeeecC-cccccccCCc----eeeec
Q 041905 13 SENWCYVCKDG----------GKLRLCDHLRCPKVYHSECVDKDESFL--VAETKWTCNW-HYCHVCGKAS----KFYCL 75 (191)
Q Consensus 13 ~ed~C~vC~dg----------GeLi~Cd~~~CpkayH~~Cl~~~~~~~--~~~g~W~Cp~-h~C~~C~~~~----~~~C~ 75 (191)
...||..|-.+ -+||.|. .|.|+-|++||......+ +....|.|-. ..|.+|+-.. +++|+
T Consensus 223 Pn~YCDFclgdsr~nkkt~~peelvscs--dcgrsghpsclqft~nm~~avk~yrwqcieck~csicgtsenddqllfcd 300 (336)
T KOG1244|consen 223 PNPYCDFCLGDSRENKKTGMPEELVSCS--DCGRSGHPSCLQFTANMIAAVKTYRWQCIECKYCSICGTSENDDQLLFCD 300 (336)
T ss_pred CCcccceeccccccccccCCchhhcchh--hcCCCCCcchhhhhHHHHHHHHhheeeeeecceeccccCcCCCceeEeec
Confidence 46789999643 3799999 999999999999876532 3578999986 5799998764 79999
Q ss_pred cCCCCCCCcccCccccccccCCcccCcCcHHH
Q 041905 76 CCPSAVCKTCLYDAQFAVVKRNKGFCNSCLEL 107 (191)
Q Consensus 76 ~Cp~syh~~Cl~~~~l~~i~~~~w~C~~C~~~ 107 (191)
-|+++||++||. |++.+.|+|.|.|.-|++.
T Consensus 301 dcdrgyhmycls-ppm~eppegswsc~KOG~~ 331 (336)
T KOG1244|consen 301 DCDRGYHMYCLS-PPMVEPPEGSWSCHLCLEE 331 (336)
T ss_pred ccCCceeeEecC-CCcCCCCCCchhHHHHHHH
Confidence 999999999999 8999999999999999865
No 3
>KOG1512 consensus PHD Zn-finger protein [General function prediction only]
Probab=98.91 E-value=4.4e-10 Score=97.85 Aligned_cols=87 Identities=20% Similarity=0.448 Sum_probs=74.6
Q ss_pred ccccceecccC---------ceEeeCCCCCCCcccccccCcccccc--CCCCCeeecC-cccccccCCc----eeeeccC
Q 041905 14 ENWCYVCKDGG---------KLRLCDHLRCPKVYHSECVDKDESFL--VAETKWTCNW-HYCHVCGKAS----KFYCLCC 77 (191)
Q Consensus 14 ed~C~vC~dgG---------eLi~Cd~~~CpkayH~~Cl~~~~~~~--~~~g~W~Cp~-h~C~~C~~~~----~~~C~~C 77 (191)
...|.+|-+|- .+|+|. .|--+||+.|++...+.+ .....|.|.. ..|.+|+++. .++||.|
T Consensus 258 ~~~~~~~~~~~~~~~~~r~~S~I~C~--~C~~~~HP~Ci~M~~elv~~~KTY~W~C~~C~lC~IC~~P~~E~E~~FCD~C 335 (381)
T KOG1512|consen 258 RNERKHFWDIQTNIIQSRRNSWIVCK--PCATRPHPYCVAMIPELVGQYKTYFWKCSSCELCRICLGPVIESEHLFCDVC 335 (381)
T ss_pred hhhhhhhhcchhhhhhhhhccceeec--ccccCCCCcchhcCHHHHhHHhhcchhhcccHhhhccCCcccchheeccccc
Confidence 46699998863 499999 999999999999987632 4578899996 5899999885 6999999
Q ss_pred CCCCCCcccCccccccccCCcccCc-CcH
Q 041905 78 PSAVCKTCLYDAQFAVVKRNKGFCN-SCL 105 (191)
Q Consensus 78 p~syh~~Cl~~~~l~~i~~~~w~C~-~C~ 105 (191)
+++||..|+. |..+|.|.|+|. .|.
T Consensus 336 DRG~HT~CVG---L~~lP~G~WICD~~C~ 361 (381)
T KOG1512|consen 336 DRGPHTLCVG---LQDLPRGEWICDMRCR 361 (381)
T ss_pred cCCCCccccc---cccccCccchhhhHHH
Confidence 9999999999 788999999995 775
No 4
>KOG4299 consensus PHD Zn-finger protein [General function prediction only]
Probab=98.79 E-value=2e-09 Score=101.37 Aligned_cols=43 Identities=26% Similarity=0.680 Sum_probs=38.8
Q ss_pred ccccccCCce----eeeccCCCCCCCcccCccc--cccccCCcccCcCcH
Q 041905 62 YCHVCGKASK----FYCLCCPSAVCKTCLYDAQ--FAVVKRNKGFCNSCL 105 (191)
Q Consensus 62 ~C~~C~~~~~----~~C~~Cp~syh~~Cl~~~~--l~~i~~~~w~C~~C~ 105 (191)
+|..|++.++ ++|+.||++||..||. || ...||.+.|+|+.|.
T Consensus 255 fCsaCn~~~~F~~~i~CD~Cp~sFH~~CLe-PPl~~eniP~g~W~C~ec~ 303 (613)
T KOG4299|consen 255 FCSACNGSGLFNDIICCDGCPRSFHQTCLE-PPLEPENIPPGSWFCPECK 303 (613)
T ss_pred HHHHhCCccccccceeecCCchHHHHhhcC-CCCCcccCCCCccccCCCe
Confidence 8999999883 7999999999999999 66 567899999999996
No 5
>KOG4443 consensus Putative transcription factor HALR/MLL3, involved in embryonic development [General function prediction only]
Probab=98.69 E-value=4.4e-09 Score=99.59 Aligned_cols=92 Identities=24% Similarity=0.543 Sum_probs=77.1
Q ss_pred cccccceeccc-----CceEeeCCCCCCCcccccccCccccccCCCCCeeecCc-ccccccCCc----eeeeccCCCCCC
Q 041905 13 SENWCYVCKDG-----GKLRLCDHLRCPKVYHSECVDKDESFLVAETKWTCNWH-YCHVCGKAS----KFYCLCCPSAVC 82 (191)
Q Consensus 13 ~ed~C~vC~dg-----GeLi~Cd~~~CpkayH~~Cl~~~~~~~~~~g~W~Cp~h-~C~~C~~~~----~~~C~~Cp~syh 82 (191)
...+|.+|+.. |.|+.|. .|...||+.|+..-+..+.-.+.|.||.| .|..|+.++ ++.|..|+-+||
T Consensus 17 ~~~mc~l~~s~G~~~ag~m~ac~--~c~~~yH~~cvt~~~~~~~l~~gWrC~~crvCe~c~~~gD~~kf~~Ck~cDvsyh 94 (694)
T KOG4443|consen 17 VCLMCPLCGSSGKGRAGRLLACS--DCGQKYHPYCVTSWAQHAVLSGGWRCPSCRVCEACGTTGDPKKFLLCKRCDVSYH 94 (694)
T ss_pred hhhhhhhhccccccccCcchhhh--hhcccCCcchhhHHHhHHHhcCCcccCCceeeeeccccCCccccccccccccccc
Confidence 45778999875 4699999 99999999999977654444556999975 688998665 699999999999
Q ss_pred CcccCccccccccCCcccCcCcHHH
Q 041905 83 KTCLYDAQFAVVKRNKGFCNSCLEL 107 (191)
Q Consensus 83 ~~Cl~~~~l~~i~~~~w~C~~C~~~ 107 (191)
.+|+. |+...|+.+.|+|+.|...
T Consensus 95 ~yc~~-P~~~~v~sg~~~ckk~~~c 118 (694)
T KOG4443|consen 95 CYCQK-PPNDKVPSGPWLCKKCTRC 118 (694)
T ss_pred ccccC-CccccccCcccccHHHHhh
Confidence 99999 8999999999999877643
No 6
>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 KOG4299 consensus PHD Zn-finger protein [General function prediction only]
Probab=98.36 E-value=1.2e-07 Score=89.47 Aligned_cols=49 Identities=24% Similarity=0.703 Sum_probs=41.4
Q ss_pred ccccceecccCce---EeeCCCCCCCcccccccCccccc-cCCCCCeeecCcccc
Q 041905 14 ENWCYVCKDGGKL---RLCDHLRCPKVYHSECVDKDESF-LVAETKWTCNWHYCH 64 (191)
Q Consensus 14 ed~C~vC~dgGeL---i~Cd~~~CpkayH~~Cl~~~~~~-~~~~g~W~Cp~h~C~ 64 (191)
+++|+.|...|.. |+|| +||++||+.||+|+++. ..|.|.|+|+.|.|.
T Consensus 253 ~~fCsaCn~~~~F~~~i~CD--~Cp~sFH~~CLePPl~~eniP~g~W~C~ec~~k 305 (613)
T KOG4299|consen 253 EDFCSACNGSGLFNDIICCD--GCPRSFHQTCLEPPLEPENIPPGSWFCPECKIK 305 (613)
T ss_pred HHHHHHhCCccccccceeec--CCchHHHHhhcCCCCCcccCCCCccccCCCeee
Confidence 4599999999876 9999 99999999999999642 368999999965443
No 8
>KOG0383 consensus Predicted helicase [General function prediction only]
Probab=98.32 E-value=2.1e-07 Score=89.82 Aligned_cols=131 Identities=14% Similarity=0.251 Sum_probs=88.5
Q ss_pred cccccccceecccCceEeeCCCCCCCcccccccCccccccCCCCCeeecCcc----------------------------
Q 041905 11 EISENWCYVCKDGGKLRLCDHLRCPKVYHSECVDKDESFLVAETKWTCNWHY---------------------------- 62 (191)
Q Consensus 11 ~~~ed~C~vC~dgGeLi~Cd~~~CpkayH~~Cl~~~~~~~~~~g~W~Cp~h~---------------------------- 62 (191)
+.++..|.||+++|++|+|+ +||.+||..|++++... .|.+.|.|++++
T Consensus 44 ~~~~e~c~ic~~~g~~l~c~--tC~~s~h~~cl~~pl~~-~p~~~~~c~Rc~~p~~~~k~~~il~~~~~~~~~~~~~~~~ 120 (696)
T KOG0383|consen 44 DAEQEACRICADGGELLWCD--TCPASFHASCLGPPLTP-QPNGEFICPRCFCPKNAGKIEKILGWRWKPTPKPREGNQG 120 (696)
T ss_pred hhhhhhhhhhcCCCcEEEec--cccHHHHHHccCCCCCc-CCccceeeeeeccCCCcccccccceeEecCCCCccccCcC
Confidence 34567899999999999999 99999999999999876 456669999221
Q ss_pred -----------------------------------------------------------cccccCCc-eeeeccCCCCCC
Q 041905 63 -----------------------------------------------------------CHVCGKAS-KFYCLCCPSAVC 82 (191)
Q Consensus 63 -----------------------------------------------------------C~~C~~~~-~~~C~~Cp~syh 82 (191)
+.+|+..+ +..+..|+.+|+
T Consensus 121 ~~~~~~~~~~~~re~~vk~qg~s~~~c~~~~e~~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k~~~~a~~~~r~~ 200 (696)
T KOG0383|consen 121 VISPRRSNGIVEREFFVKWQGLSYWHCSWKSELLLQNPLNTLPVELQRKHDTDQKPEAEIGVTRDKGKLVPYADLEERFL 200 (696)
T ss_pred ccCCcccccchhhhcccccccCCccchhHHHHHHhhhhcccchHhhhhhhhcccCccccccccccCccccccccchhhhh
Confidence 22233333 355556888999
Q ss_pred CcccCccccccccCCcccCcCcH-HHHHHHhhh-ccccCCCCccCCCCCCccccCCcceeEEeee
Q 041905 83 KTCLYDAQFAVVKRNKGFCNSCL-ELAWLIETN-KDVKSVGCNIDVNHPKTTDYFFNGYWQTIKQ 145 (191)
Q Consensus 83 ~~Cl~~~~l~~i~~~~w~C~~C~-~~~~~iek~-~~~~~~~~~vd~~d~~~~E~~~~~YW~~~k~ 145 (191)
..++. |+...|....|.+..+. .....|+.. +..+...-+++..+...++-.+-+||+..=.
T Consensus 201 ~~~iK-pe~~~i~rii~~~~s~~~~~~~~Vk~k~l~~d~~~~e~~~~~ip~~~~~~qe~~~~~~~ 264 (696)
T KOG0383|consen 201 LYGIK-PEWMPIARIINRRSSQKGATDYLVKWKELSYDEQEWEVEDPDIPGYSSAGQEAWHHREK 264 (696)
T ss_pred heecc-ccccccchhhhhhcccccceeeEeeeccCCccccCCCcCCCCcccCcccccccccccCc
Confidence 99999 77777788888887775 222222211 1223333344444555567777788876543
No 9
>PF00628 PHD: PHD-finger; InterPro: IPR019787 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the PHD (homeodomain) zinc finger domain [,], which is a C4HC3 zinc-finger-like motif found in nuclear proteins thought to be involved in chromatin-mediated transcriptional regulation. The PHD finger motif is reminiscent of, but distinct from the C3HC4 type RING finger. The function of this domain is not yet known but in analogy with the LIM domain it could be involved in protein-protein interaction and be important for the assembly or activity of multicomponent complexes involved in transcriptional activation or repression. Alternatively, the interactions could be intra-molecular and be important in maintaining the structural integrity of the protein. In similarity to the RING finger and the LIM domain, the PHD finger is thought to bind two zinc ions. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0005515 protein binding; PDB: 3ZVY_A 2LGG_A 3SOW_A 3SOU_B 3ASL_A 3ASK_A 3ZVZ_B 3T6R_A 2LGK_A 3SOX_B ....
Probab=98.27 E-value=2.6e-07 Score=60.19 Aligned_cols=42 Identities=36% Similarity=0.918 Sum_probs=34.8
Q ss_pred ccceecc---cCceEeeCCCCCCCcccccccCcccccc-CCCCCeeec
Q 041905 16 WCYVCKD---GGKLRLCDHLRCPKVYHSECVDKDESFL-VAETKWTCN 59 (191)
Q Consensus 16 ~C~vC~d---gGeLi~Cd~~~CpkayH~~Cl~~~~~~~-~~~g~W~Cp 59 (191)
+|.+|+. ++++|.|+ +|.+.||..|++++.... .+.+.|+|+
T Consensus 1 ~C~vC~~~~~~~~~i~C~--~C~~~~H~~C~~~~~~~~~~~~~~w~C~ 46 (51)
T PF00628_consen 1 YCPVCGQSDDDGDMIQCD--SCNRWYHQECVGPPEKAEEIPSGDWYCP 46 (51)
T ss_dssp EBTTTTSSCTTSSEEEBS--TTSCEEETTTSTSSHSHHSHHSSSBSSH
T ss_pred eCcCCCCcCCCCCeEEcC--CCChhhCcccCCCChhhccCCCCcEECc
Confidence 5888887 67899999 999999999999998621 234599997
No 10
>KOG1473 consensus Nucleosome remodeling factor, subunit NURF301/BPTF [Chromatin structure and dynamics; Transcription]
Probab=98.14 E-value=5.9e-07 Score=89.49 Aligned_cols=117 Identities=20% Similarity=0.407 Sum_probs=81.8
Q ss_pred ccccceecccCceEeeCCCCCCCcccccccCccccccCCCCCeeecC---------------------------------
Q 041905 14 ENWCYVCKDGGKLRLCDHLRCPKVYHSECVDKDESFLVAETKWTCNW--------------------------------- 60 (191)
Q Consensus 14 ed~C~vC~dgGeLi~Cd~~~CpkayH~~Cl~~~~~~~~~~g~W~Cp~--------------------------------- 60 (191)
+|.|-+|.+.|+++||. +||++||+.|+.++... .+...|.|--
T Consensus 344 ddhcrf~~d~~~~lc~E--t~prvvhlEcv~hP~~~-~~s~~~e~evc~~hkvngvvd~vl~~~K~~~~iR~~~iG~dr~ 420 (1414)
T KOG1473|consen 344 DDHCRFCHDLGDLLCCE--TCPRVVHLECVFHPRFA-VPSAFWECEVCNIHKVNGVVDCVLPPSKNVDSIRHTPIGRDRY 420 (1414)
T ss_pred cccccccCcccceeecc--cCCceEEeeecCCcccc-CCCccchhhhhhhhccCcccccccChhhcccceeccCCCcCcc
Confidence 68999999999999999 99999999999999876 6888999861
Q ss_pred --------cccccccCCc-eeeecc-CCCCCCC-cccCccccc--cccCCcccCcCcHHHHHHHhhhccccCCCCccCCC
Q 041905 61 --------HYCHVCGKAS-KFYCLC-CPSAVCK-TCLYDAQFA--VVKRNKGFCNSCLELAWLIETNKDVKSVGCNIDVN 127 (191)
Q Consensus 61 --------h~C~~C~~~~-~~~C~~-Cp~syh~-~Cl~~~~l~--~i~~~~w~C~~C~~~~~~iek~~~~~~~~~~vd~~ 127 (191)
..|.+|+..+ ++.|+. ||.+||. .||. .... .++.+-|+|+.|..-.+.+-..++ ++...-|+|.
T Consensus 421 gr~ywfi~rrl~Ie~~det~l~yysT~pqly~ll~cLd-~~~~e~~L~d~i~~~~ee~~rqM~lT~~lt-ne~R~~~~f~ 498 (1414)
T KOG1473|consen 421 GRKYWFISRRLRIEGMDETLLWYYSTCPQLYHLLRCLD-RTYVEMYLCDGIWERREEIIRQMGLTEELT-NELRGAVDFG 498 (1414)
T ss_pred ccchhceeeeeEEecCCCcEEEEecCcHHHHHHHHHhc-hHHHHHhhccchhhhHHHHHHhccchhhhh-hhhhcccccc
Confidence 1355555444 466665 9999999 9999 3332 347889999999732222222222 2233445553
Q ss_pred -CCCccccC
Q 041905 128 -HPKTTDYF 135 (191)
Q Consensus 128 -d~~~~E~~ 135 (191)
|+..+-|+
T Consensus 499 ~~~h~r~~l 507 (1414)
T KOG1473|consen 499 EDPHGRLFL 507 (1414)
T ss_pred cCCCcceee
Confidence 34445555
No 11
>KOG1244 consensus Predicted transcription factor Requiem/NEURO-D4 [Transcription]
Probab=98.02 E-value=2.4e-06 Score=74.32 Aligned_cols=42 Identities=29% Similarity=0.797 Sum_probs=37.0
Q ss_pred ccccceeccc---CceEeeCCCCCCCcccccccCccccccCCCCCeee
Q 041905 14 ENWCYVCKDG---GKLRLCDHLRCPKVYHSECVDKDESFLVAETKWTC 58 (191)
Q Consensus 14 ed~C~vC~dg---GeLi~Cd~~~CpkayH~~Cl~~~~~~~~~~g~W~C 58 (191)
--+|.||+.. .+|++|| .|.|.||+.||.|++.. +|+|.|+|
T Consensus 281 ck~csicgtsenddqllfcd--dcdrgyhmyclsppm~e-ppegswsc 325 (336)
T KOG1244|consen 281 CKYCSICGTSENDDQLLFCD--DCDRGYHMYCLSPPMVE-PPEGSWSC 325 (336)
T ss_pred cceeccccCcCCCceeEeec--ccCCceeeEecCCCcCC-CCCCchhH
Confidence 4578888863 6899999 99999999999999976 79999998
No 12
>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=97.97 E-value=2.5e-06 Score=55.48 Aligned_cols=44 Identities=23% Similarity=0.621 Sum_probs=34.3
Q ss_pred ccccccCCc----eeeeccCCCCCCCcccCccccc--cccCCcccCcCcHH
Q 041905 62 YCHVCGKAS----KFYCLCCPSAVCKTCLYDAQFA--VVKRNKGFCNSCLE 106 (191)
Q Consensus 62 ~C~~C~~~~----~~~C~~Cp~syh~~Cl~~~~l~--~i~~~~w~C~~C~~ 106 (191)
+|.+|+... ++.|+.|...||..|+. ++.. .++.+.|+|+.|.+
T Consensus 1 ~C~vC~~~~~~~~~i~C~~C~~~~H~~C~~-~~~~~~~~~~~~w~C~~C~~ 50 (51)
T PF00628_consen 1 YCPVCGQSDDDGDMIQCDSCNRWYHQECVG-PPEKAEEIPSGDWYCPNCRP 50 (51)
T ss_dssp EBTTTTSSCTTSSEEEBSTTSCEEETTTST-SSHSHHSHHSSSBSSHHHHH
T ss_pred eCcCCCCcCCCCCeEEcCCCChhhCcccCC-CChhhccCCCCcEECcCCcC
Confidence 467787742 79999999999999999 4333 44566999999863
No 13
>COG5034 TNG2 Chromatin remodeling protein, contains PhD zinc finger [Chromatin structure and dynamics]
Probab=97.97 E-value=4.3e-06 Score=71.94 Aligned_cols=47 Identities=34% Similarity=0.832 Sum_probs=40.9
Q ss_pred ccccccccceeccc--CceEeeCCCCCCCc-ccccccCccccccCCCCCeeecC
Q 041905 10 EEISENWCYVCKDG--GKLRLCDHLRCPKV-YHSECVDKDESFLVAETKWTCNW 60 (191)
Q Consensus 10 ~~~~ed~C~vC~dg--GeLi~Cd~~~Cpka-yH~~Cl~~~~~~~~~~g~W~Cp~ 60 (191)
+++++-||| |+++ |++|-||...|.+- ||+.|+++.. +|+|.|+||.
T Consensus 217 se~e~lYCf-CqqvSyGqMVaCDn~nCkrEWFH~~CVGLk~---pPKG~WYC~e 266 (271)
T COG5034 217 SEGEELYCF-CQQVSYGQMVACDNANCKREWFHLECVGLKE---PPKGKWYCPE 266 (271)
T ss_pred ccCceeEEE-ecccccccceecCCCCCchhheeccccccCC---CCCCcEeCHH
Confidence 355778999 9985 99999999999976 9999999986 6899999963
No 14
>PF15446 zf-PHD-like: PHD/FYVE-zinc-finger like domain
Probab=97.84 E-value=2.2e-05 Score=63.94 Aligned_cols=71 Identities=28% Similarity=0.632 Sum_probs=53.2
Q ss_pred ccceecc------cCceEeeCCCCCCCcccccccCcccc--cc---CCCCCee--ec---------------Cccccccc
Q 041905 16 WCYVCKD------GGKLRLCDHLRCPKVYHSECVDKDES--FL---VAETKWT--CN---------------WHYCHVCG 67 (191)
Q Consensus 16 ~C~vC~d------gGeLi~Cd~~~CpkayH~~Cl~~~~~--~~---~~~g~W~--Cp---------------~h~C~~C~ 67 (191)
.|.+|+. -|.||.|. +|..+||..||++... .+ +.++.|+ |- .-.|..|+
T Consensus 1 ~C~~C~~~g~~~~kG~Lv~CQ--GCs~sYHk~CLG~Rs~ReHlVTKVg~d~FVLQCr~Cig~~~kKD~~aP~~~~C~~C~ 78 (175)
T PF15446_consen 1 TCDTCGYEGDDRNKGPLVYCQ--GCSSSYHKACLGPRSQREHLVTKVGDDDFVLQCRRCIGIAHKKDPRAPHHGMCQQCK 78 (175)
T ss_pred CcccccCCCCCccCCCeEEcC--ccChHHHhhhcCCccccceeeEEEcCCceEEechhhcChhhcccCCCCCCCcccccC
Confidence 4778853 37899999 9999999999999873 11 2344443 33 23688887
Q ss_pred CC------------------------------------------ceeeeccCCCCCCCcccCc
Q 041905 68 KA------------------------------------------SKFYCLCCPSAVCKTCLYD 88 (191)
Q Consensus 68 ~~------------------------------------------~~~~C~~Cp~syh~~Cl~~ 88 (191)
.. -+|+|..|-+|||.++|+.
T Consensus 79 ~~G~~c~pfr~r~T~kQEe~~ReeNgG~DPit~Vd~~lvnN~~nVLFRC~~C~RawH~~HLP~ 141 (175)
T PF15446_consen 79 KPGPSCKPFRPRKTPKQEEKLREENGGVDPITPVDPELVNNPDNVLFRCTSCHRAWHFEHLPP 141 (175)
T ss_pred CCCCCCcccCCCCCcHHHHHHHHHcCCCCCCccCCHHHccChhheEEecCCccceeehhhCCC
Confidence 53 0699999999999999994
No 15
>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 KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=97.63 E-value=2.4e-05 Score=76.14 Aligned_cols=44 Identities=20% Similarity=0.542 Sum_probs=41.1
Q ss_pred cccccccCCc----eeeeccCCCC-CCCcccCccccccccCCcccCcCcH
Q 041905 61 HYCHVCGKAS----KFYCLCCPSA-VCKTCLYDAQFAVVKRNKGFCNSCL 105 (191)
Q Consensus 61 h~C~~C~~~~----~~~C~~Cp~s-yh~~Cl~~~~l~~i~~~~w~C~~C~ 105 (191)
..|.+|.... +++|+.|..+ ||.+||+ |+|.+||-+.|+|++|.
T Consensus 216 ~~C~IC~~~DpEdVLLLCDsCN~~~YH~YCLD-Pdl~eiP~~eWYC~NC~ 264 (1134)
T KOG0825|consen 216 VKCDICTVHDPEDVLLLCDSCNKVYYHVYCLD-PDLSESPVNEWYCTNCS 264 (1134)
T ss_pred ccceeeccCChHHhheeecccccceeeccccC-cccccccccceecCcch
Confidence 4799999876 7999999999 9999999 99999999999999997
No 17
>KOG1973 consensus Chromatin remodeling protein, contains PHD Zn-finger [Chromatin structure and dynamics]
Probab=97.58 E-value=3.3e-05 Score=67.35 Aligned_cols=46 Identities=28% Similarity=0.659 Sum_probs=38.0
Q ss_pred cccccccceec-ccCceEeeCCCCCC-CcccccccCccccccCCCCCeeec
Q 041905 11 EISENWCYVCK-DGGKLRLCDHLRCP-KVYHSECVDKDESFLVAETKWTCN 59 (191)
Q Consensus 11 ~~~ed~C~vC~-dgGeLi~Cd~~~Cp-kayH~~Cl~~~~~~~~~~g~W~Cp 59 (191)
.++..||+... ..|++|-||..+|| .=||..|+++.. .|.|+||||
T Consensus 216 ~~e~~yC~Cnqvsyg~Mi~CDn~~C~~eWFH~~CVGL~~---~PkgkWyC~ 263 (274)
T KOG1973|consen 216 PDEPTYCICNQVSYGKMIGCDNPGCPIEWFHFTCVGLKT---KPKGKWYCP 263 (274)
T ss_pred CCCCEEEEecccccccccccCCCCCCcceEEEecccccc---CCCCcccch
Confidence 34566787543 47999999977799 889999999985 689999998
No 18
>cd04718 BAH_plant_2 BAH, or Bromo Adjacent Homology domain, plant-specific sub-family with unknown function. BAH domains are found in a variety of proteins playing roles in transcriptional silencing and the remodeling of chromatin. It is assumed that in most or all of these instances the BAH domain mediates protein-protein interactions.
Probab=97.41 E-value=6.7e-05 Score=60.03 Aligned_cols=25 Identities=20% Similarity=0.372 Sum_probs=23.9
Q ss_pred CCCCcccCccccccccCCcccCcCcH
Q 041905 80 AVCKTCLYDAQFAVVKRNKGFCNSCL 105 (191)
Q Consensus 80 syh~~Cl~~~~l~~i~~~~w~C~~C~ 105 (191)
+||+.||+ |||..||.|.|+|+.|.
T Consensus 1 g~H~~CL~-Ppl~~~P~g~W~Cp~C~ 25 (148)
T cd04718 1 GFHLCCLR-PPLKEVPEGDWICPFCE 25 (148)
T ss_pred CcccccCC-CCCCCCCCCCcCCCCCc
Confidence 59999999 99999999999999997
No 19
>KOG1081 consensus Transcription factor NSD1 and related SET domain proteins [Transcription]
Probab=97.26 E-value=0.00024 Score=66.23 Aligned_cols=67 Identities=19% Similarity=0.351 Sum_probs=54.0
Q ss_pred ccccccccccccccceecccCceEeeC------CCCCCCcccccccCc--cccccCCCCCeeecCcccccccCCc
Q 041905 4 KKRLTKEEISENWCYVCKDGGKLRLCD------HLRCPKVYHSECVDK--DESFLVAETKWTCNWHYCHVCGKAS 70 (191)
Q Consensus 4 ~~~~~~~~~~ed~C~vC~dgGeLi~Cd------~~~CpkayH~~Cl~~--~~~~~~~~g~W~Cp~h~C~~C~~~~ 70 (191)
.+-++....+.++||+|.+||.|++|+ ++.|+.+||..|... +..++.....|.|-|+.|..+....
T Consensus 79 ~~~~~~~~~~~~~c~vc~~ggs~v~~~s~~~~~~r~c~~~~~~~c~~~~~d~~~~~~~~~~~~vw~~vg~~~~~~ 153 (463)
T KOG1081|consen 79 PGSRRHPKIEPSECFVCFKGGSLVTCKSRIQAPHRKCKPAQLEKCSKRCTDCRAFKKREVGDLVWSKVGEYPWWP 153 (463)
T ss_pred CCchhccCCCcchhccccCCCccceeccccccccccCcCccCcccccCCcceeeeccccceeEEeEEcCcccccc
Confidence 445566678899999999999999999 999999999999999 5554456667888877766665554
No 20
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=97.23 E-value=0.00016 Score=70.54 Aligned_cols=43 Identities=42% Similarity=0.818 Sum_probs=36.7
Q ss_pred ccccceecccC---ceEeeCCCCCCCc-ccccccCccccccCCCCCeeec
Q 041905 14 ENWCYVCKDGG---KLRLCDHLRCPKV-YHSECVDKDESFLVAETKWTCN 59 (191)
Q Consensus 14 ed~C~vC~dgG---eLi~Cd~~~Cpka-yH~~Cl~~~~~~~~~~g~W~Cp 59 (191)
..-|.||.-.. -||+|| .|..+ ||..||+|++.. +|-+.|+|+
T Consensus 215 ~~~C~IC~~~DpEdVLLLCD--sCN~~~YH~YCLDPdl~e-iP~~eWYC~ 261 (1134)
T KOG0825|consen 215 EVKCDICTVHDPEDVLLLCD--SCNKVYYHVYCLDPDLSE-SPVNEWYCT 261 (1134)
T ss_pred cccceeeccCChHHhheeec--ccccceeeccccCccccc-ccccceecC
Confidence 45599998643 489999 99999 999999999876 688999997
No 21
>KOG0956 consensus PHD finger protein AF10 [General function prediction only]
Probab=97.20 E-value=0.00027 Score=68.14 Aligned_cols=99 Identities=25% Similarity=0.548 Sum_probs=73.5
Q ss_pred cccceeccc-----CceEeeCCCCCCCcccccccCccccccCCCCCeeec------------------------------
Q 041905 15 NWCYVCKDG-----GKLRLCDHLRCPKVYHSECVDKDESFLVAETKWTCN------------------------------ 59 (191)
Q Consensus 15 d~C~vC~dg-----GeLi~Cd~~~CpkayH~~Cl~~~~~~~~~~g~W~Cp------------------------------ 59 (191)
.=|-||-|. .-||.||.-+|--|.|..|.++.. +|.|.|||.
T Consensus 6 GGCCVCSDErGWaeNPLVYCDG~nCsVAVHQaCYGIvq---VPtGpWfCrKCesqeraarvrCeLCP~kdGALKkTDn~G 82 (900)
T KOG0956|consen 6 GGCCVCSDERGWAENPLVYCDGHNCSVAVHQACYGIVQ---VPTGPWFCRKCESQERAARVRCELCPHKDGALKKTDNGG 82 (900)
T ss_pred cceeeecCcCCCccCceeeecCCCceeeeehhcceeEe---cCCCchhhhhhhhhhhhccceeecccCcccceecccCCC
Confidence 348899984 359999999999999999999986 799999988
Q ss_pred ----------------------------------CcccccccCCc------e---eee--ccCCCCCCCcccCccccc--
Q 041905 60 ----------------------------------WHYCHVCGKAS------K---FYC--LCCPSAVCKTCLYDAQFA-- 92 (191)
Q Consensus 60 ----------------------------------~h~C~~C~~~~------~---~~C--~~Cp~syh~~Cl~~~~l~-- 92 (191)
..+|.+|...+ . +.| ..|-.+||..|-.-.-|-
T Consensus 83 WAHVVCALYIPEVrFgNV~TMEPIiLq~VP~dRfnKtCYIC~E~GrpnkA~~GACMtCNKs~CkqaFHVTCAQ~~GLLCE 162 (900)
T KOG0956|consen 83 WAHVVCALYIPEVRFGNVHTMEPIILQDVPHDRFNKTCYICNEEGRPNKAAKGACMTCNKSGCKQAFHVTCAQRAGLLCE 162 (900)
T ss_pred ceEEEEEeeccceeecccccccceeeccCchhhhcceeeeecccCCccccccccceecccccchhhhhhhHhhhhcccee
Confidence 34799998763 2 445 456678999998733221
Q ss_pred ---cccCCcccCcCcHHHHHHHhhhcc
Q 041905 93 ---VVKRNKGFCNSCLELAWLIETNKD 116 (191)
Q Consensus 93 ---~i~~~~w~C~~C~~~~~~iek~~~ 116 (191)
.+-.+--+|..|.-.+.++.+--.
T Consensus 163 E~gn~~dNVKYCGYCk~HfsKlkk~~~ 189 (900)
T KOG0956|consen 163 EEGNISDNVKYCGYCKYHFSKLKKSPA 189 (900)
T ss_pred ccccccccceechhHHHHHHHhhcCCC
Confidence 123455689999877777665544
No 22
>KOG0955 consensus PHD finger protein BR140/LIN-49 [General function prediction only]
Probab=97.13 E-value=0.00047 Score=69.59 Aligned_cols=67 Identities=28% Similarity=0.627 Sum_probs=51.4
Q ss_pred cccccccceeccc-----CceEeeCCCCCCCcccccccCccccccCCCCCeeecCcccccccCCc--eeeeccCCCCCCC
Q 041905 11 EISENWCYVCKDG-----GKLRLCDHLRCPKVYHSECVDKDESFLVAETKWTCNWHYCHVCGKAS--KFYCLCCPSAVCK 83 (191)
Q Consensus 11 ~~~ed~C~vC~dg-----GeLi~Cd~~~CpkayH~~Cl~~~~~~~~~~g~W~Cp~h~C~~C~~~~--~~~C~~Cp~syh~ 83 (191)
...+.+|.||.++ ..+|.|| .|..++|+.|.+.+. +|+|.|.| +.|-... .+.|..||.+=+.
T Consensus 216 ~~~D~~C~iC~~~~~~n~n~ivfCD--~Cnl~VHq~Cygi~~---ipeg~WlC-----r~Cl~s~~~~v~c~~cp~~~gA 285 (1051)
T KOG0955|consen 216 LEEDAVCCICLDGECQNSNVIVFCD--GCNLAVHQECYGIPF---IPEGQWLC-----RRCLQSPQRPVRCLLCPSKGGA 285 (1051)
T ss_pred cCCCccceeecccccCCCceEEEcC--CCcchhhhhccCCCC---CCCCcEee-----hhhccCcCcccceEeccCCCCc
Confidence 4568899999986 3599999 999999999999553 79999988 5565543 4678888876554
Q ss_pred cccC
Q 041905 84 TCLY 87 (191)
Q Consensus 84 ~Cl~ 87 (191)
.+-.
T Consensus 286 Fkqt 289 (1051)
T KOG0955|consen 286 FKQT 289 (1051)
T ss_pred ceec
Confidence 4433
No 23
>KOG0957 consensus PHD finger protein [General function prediction only]
Probab=96.94 E-value=0.00028 Score=66.05 Aligned_cols=43 Identities=21% Similarity=0.494 Sum_probs=38.1
Q ss_pred cccccccCCc----eeeeccCCCCCCCcccCccccccccCC----cccCcCc
Q 041905 61 HYCHVCGKAS----KFYCLCCPSAVCKTCLYDAQFAVVKRN----KGFCNSC 104 (191)
Q Consensus 61 h~C~~C~~~~----~~~C~~Cp~syh~~Cl~~~~l~~i~~~----~w~C~~C 104 (191)
-.|.+|++.. ++.||+|-..||++||+ |||+.+|.. .|.|..|
T Consensus 545 ysCgiCkks~dQHll~~CDtC~lhYHlGCL~-PPLTR~Pkk~kn~gWqCsEC 595 (707)
T KOG0957|consen 545 YSCGICKKSTDQHLLTQCDTCHLHYHLGCLS-PPLTRLPKKNKNFGWQCSEC 595 (707)
T ss_pred eeeeeeccchhhHHHhhcchhhceeeccccC-CccccCcccccCcceeeccc
Confidence 4689999986 69999999999999999 889988753 6999999
No 24
>KOG1512 consensus PHD Zn-finger protein [General function prediction only]
Probab=96.89 E-value=0.00041 Score=61.02 Aligned_cols=40 Identities=25% Similarity=0.773 Sum_probs=35.1
Q ss_pred cccceeccc---CceEeeCCCCCCCcccccccCccccccCCCCCeeec
Q 041905 15 NWCYVCKDG---GKLRLCDHLRCPKVYHSECVDKDESFLVAETKWTCN 59 (191)
Q Consensus 15 d~C~vC~dg---GeLi~Cd~~~CpkayH~~Cl~~~~~~~~~~g~W~Cp 59 (191)
..|.||++. .+++.|| .|.|.||..|+++.. .|.|.|+|-
T Consensus 315 ~lC~IC~~P~~E~E~~FCD--~CDRG~HT~CVGL~~---lP~G~WICD 357 (381)
T KOG1512|consen 315 ELCRICLGPVIESEHLFCD--VCDRGPHTLCVGLQD---LPRGEWICD 357 (381)
T ss_pred HhhhccCCcccchheeccc--cccCCCCcccccccc---ccCccchhh
Confidence 358888874 6899999 999999999999986 689999995
No 25
>KOG4443 consensus Putative transcription factor HALR/MLL3, involved in embryonic development [General function prediction only]
Probab=96.74 E-value=0.00075 Score=64.75 Aligned_cols=70 Identities=31% Similarity=0.759 Sum_probs=49.8
Q ss_pred cccceecccC---ceEeeCCCCCCCcccccccCccccccCCCCCeeecCcc-cccccCCc----------eeeeccCCC-
Q 041905 15 NWCYVCKDGG---KLRLCDHLRCPKVYHSECVDKDESFLVAETKWTCNWHY-CHVCGKAS----------KFYCLCCPS- 79 (191)
Q Consensus 15 d~C~vC~dgG---eLi~Cd~~~CpkayH~~Cl~~~~~~~~~~g~W~Cp~h~-C~~C~~~~----------~~~C~~Cp~- 79 (191)
.+|..|+.+| .+++|+ .|.-+||-.|+.|.... ++.|.|.|++|+ |..|.... ...|..|.+
T Consensus 69 rvCe~c~~~gD~~kf~~Ck--~cDvsyh~yc~~P~~~~-v~sg~~~ckk~~~c~qc~~~lpg~s~~~~~~~~~~~~c~s~ 145 (694)
T KOG4443|consen 69 RVCEACGTTGDPKKFLLCK--RCDVSYHCYCQKPPNDK-VPSGPWLCKKCTRCRQCDSTLPGLSLDLQEGYLQCAPCASL 145 (694)
T ss_pred eeeeeccccCCcccccccc--cccccccccccCCcccc-ccCcccccHHHHhhhhccccccccchhhhccCccccccccc
Confidence 3577777554 589999 99999999999999876 789999999763 66665421 244555555
Q ss_pred CCCCcccC
Q 041905 80 AVCKTCLY 87 (191)
Q Consensus 80 syh~~Cl~ 87 (191)
+||..|+.
T Consensus 146 ~~cPvc~~ 153 (694)
T KOG4443|consen 146 SYCPVCLI 153 (694)
T ss_pred ccCchHHH
Confidence 55554443
No 26
>KOG0954 consensus PHD finger protein [General function prediction only]
Probab=96.72 E-value=0.00063 Score=66.06 Aligned_cols=45 Identities=31% Similarity=0.714 Sum_probs=39.5
Q ss_pred ccccccccceeccc-----CceEeeCCCCCCCcccccccCccccccCCCCCeeec
Q 041905 10 EEISENWCYVCKDG-----GKLRLCDHLRCPKVYHSECVDKDESFLVAETKWTCN 59 (191)
Q Consensus 10 ~~~~ed~C~vC~dg-----GeLi~Cd~~~CpkayH~~Cl~~~~~~~~~~g~W~Cp 59 (191)
+.+++..|.||..+ .+||+|| .|.-.-|..|.++.. .|+|.|.|.
T Consensus 267 e~dedviCDvCrspD~e~~neMVfCd--~Cn~cVHqaCyGIle---~p~gpWlCr 316 (893)
T KOG0954|consen 267 EYDEDVICDVCRSPDSEEANEMVFCD--KCNICVHQACYGILE---VPEGPWLCR 316 (893)
T ss_pred eccccceeceecCCCccccceeEEec--cchhHHHHhhhceee---cCCCCeeeh
Confidence 45578889999865 5899999 999999999999986 689999987
No 27
>cd04718 BAH_plant_2 BAH, or Bromo Adjacent Homology domain, plant-specific sub-family with unknown function. BAH domains are found in a variety of proteins playing roles in transcriptional silencing and the remodeling of chromatin. It is assumed that in most or all of these instances the BAH domain mediates protein-protein interactions.
Probab=96.58 E-value=0.0013 Score=52.70 Aligned_cols=25 Identities=24% Similarity=0.511 Sum_probs=21.4
Q ss_pred cccccccCccccccCCCCCeeecCcc
Q 041905 37 VYHSECVDKDESFLVAETKWTCNWHY 62 (191)
Q Consensus 37 ayH~~Cl~~~~~~~~~~g~W~Cp~h~ 62 (191)
.||+.||+|++.. +|+|+|+||.+.
T Consensus 1 g~H~~CL~Ppl~~-~P~g~W~Cp~C~ 25 (148)
T cd04718 1 GFHLCCLRPPLKE-VPEGDWICPFCE 25 (148)
T ss_pred CcccccCCCCCCC-CCCCCcCCCCCc
Confidence 4999999999986 799999998543
No 28
>KOG1973 consensus Chromatin remodeling protein, contains PHD Zn-finger [Chromatin structure and dynamics]
Probab=96.15 E-value=0.003 Score=55.12 Aligned_cols=49 Identities=20% Similarity=0.415 Sum_probs=39.4
Q ss_pred CCCCCeeecCcccccccCCc-eeeecc--CC-CCCCCcccCccccccccCCcccCcCcHH
Q 041905 51 VAETKWTCNWHYCHVCGKAS-KFYCLC--CP-SAVCKTCLYDAQFAVVKRNKGFCNSCLE 106 (191)
Q Consensus 51 ~~~g~W~Cp~h~C~~C~~~~-~~~C~~--Cp-~syh~~Cl~~~~l~~i~~~~w~C~~C~~ 106 (191)
.++..++| +|. +...+ ++.||. |+ .=||..|+. |...|.|+|+|+.|..
T Consensus 215 d~~e~~yC---~Cn-qvsyg~Mi~CDn~~C~~eWFH~~CVG---L~~~PkgkWyC~~C~~ 267 (274)
T KOG1973|consen 215 DPDEPTYC---ICN-QVSYGKMIGCDNPGCPIEWFHFTCVG---LKTKPKGKWYCPRCKA 267 (274)
T ss_pred CCCCCEEE---Eec-ccccccccccCCCCCCcceEEEeccc---cccCCCCcccchhhhh
Confidence 45678888 455 44444 799998 99 789999999 6777999999999974
No 29
>COG5141 PHD zinc finger-containing protein [General function prediction only]
Probab=95.99 E-value=0.0051 Score=57.72 Aligned_cols=62 Identities=24% Similarity=0.563 Sum_probs=47.3
Q ss_pred cccccceeccc-----CceEeeCCCCCCCcccccccCccccccCCCCCeeecCcccccccCCc--eeeeccCCCCCCCc
Q 041905 13 SENWCYVCKDG-----GKLRLCDHLRCPKVYHSECVDKDESFLVAETKWTCNWHYCHVCGKAS--KFYCLCCPSAVCKT 84 (191)
Q Consensus 13 ~ed~C~vC~dg-----GeLi~Cd~~~CpkayH~~Cl~~~~~~~~~~g~W~Cp~h~C~~C~~~~--~~~C~~Cp~syh~~ 84 (191)
-++.|.+|... .-+|.|| +|.-+-|..|.+... .|+|.|.| ..|--+. ..+|..||++--..
T Consensus 192 ~d~~C~~c~~t~~eN~naiVfCd--gC~i~VHq~CYGI~f---~peG~WlC-----rkCi~~~~~i~~C~fCps~dGaF 260 (669)
T COG5141 192 FDDICTKCTSTHNENSNAIVFCD--GCEICVHQSCYGIQF---LPEGFWLC-----RKCIYGEYQIRCCSFCPSSDGAF 260 (669)
T ss_pred hhhhhHhccccccCCcceEEEec--Ccchhhhhhccccee---cCcchhhh-----hhhcccccceeEEEeccCCCCce
Confidence 46778888753 3599999 999999999999975 79999987 5554443 56688888764333
No 30
>KOG0955 consensus PHD finger protein BR140/LIN-49 [General function prediction only]
Probab=95.76 E-value=0.0044 Score=62.74 Aligned_cols=42 Identities=24% Similarity=0.647 Sum_probs=37.0
Q ss_pred cccccccCCc------eeeeccCCCCCCCcccCccccccccCCcccCcCcH
Q 041905 61 HYCHVCGKAS------KFYCLCCPSAVCKTCLYDAQFAVVKRNKGFCNSCL 105 (191)
Q Consensus 61 h~C~~C~~~~------~~~C~~Cp~syh~~Cl~~~~l~~i~~~~w~C~~C~ 105 (191)
-.|.+|.++. ++.||.|..++|++|.. .+-||++.|+|.+|+
T Consensus 220 ~~C~iC~~~~~~n~n~ivfCD~Cnl~VHq~Cyg---i~~ipeg~WlCr~Cl 267 (1051)
T KOG0955|consen 220 AVCCICLDGECQNSNVIVFCDGCNLAVHQECYG---IPFIPEGQWLCRRCL 267 (1051)
T ss_pred ccceeecccccCCCceEEEcCCCcchhhhhccC---CCCCCCCcEeehhhc
Confidence 3789998874 69999999999999999 445799999999997
No 31
>PF13771 zf-HC5HC2H: PHD-like zinc-binding domain
Probab=95.69 E-value=0.0051 Score=44.15 Aligned_cols=48 Identities=27% Similarity=0.606 Sum_probs=37.1
Q ss_pred ccccceeccc-CceEeeCCCCCCCcccccccCccccccCC-----CCCeeecCc
Q 041905 14 ENWCYVCKDG-GKLRLCDHLRCPKVYHSECVDKDESFLVA-----ETKWTCNWH 61 (191)
Q Consensus 14 ed~C~vC~dg-GeLi~Cd~~~CpkayH~~Cl~~~~~~~~~-----~g~W~Cp~h 61 (191)
...|.+|+.. |-.|-|...+|.++||+.|.......+.. ....+|+.|
T Consensus 36 ~~~C~~C~~~~Ga~i~C~~~~C~~~fH~~CA~~~~~~~~~~~~~~~~~~~C~~H 89 (90)
T PF13771_consen 36 KLKCSICKKKGGACIGCSHPGCSRSFHVPCARKAGCFIEFDEDNGKFRIFCPKH 89 (90)
T ss_pred CCCCcCCCCCCCeEEEEeCCCCCcEEChHHHccCCeEEEEccCCCceEEEChhc
Confidence 4679999998 99999999999999999999886532211 235566655
No 32
>KOG0957 consensus PHD finger protein [General function prediction only]
Probab=94.88 E-value=0.012 Score=55.37 Aligned_cols=44 Identities=30% Similarity=0.671 Sum_probs=34.5
Q ss_pred ccccceecccC---ceEeeCCCCCCCcccccccCccccccC---CCCCeeec
Q 041905 14 ENWCYVCKDGG---KLRLCDHLRCPKVYHSECVDKDESFLV---AETKWTCN 59 (191)
Q Consensus 14 ed~C~vC~dgG---eLi~Cd~~~CpkayH~~Cl~~~~~~~~---~~g~W~Cp 59 (191)
.-.|.||+..- -|+.|| +|...||+.||+|++..++ ....|.|.
T Consensus 544 ~ysCgiCkks~dQHll~~CD--tC~lhYHlGCL~PPLTR~Pkk~kn~gWqCs 593 (707)
T KOG0957|consen 544 NYSCGICKKSTDQHLLTQCD--TCHLHYHLGCLSPPLTRLPKKNKNFGWQCS 593 (707)
T ss_pred ceeeeeeccchhhHHHhhcc--hhhceeeccccCCccccCcccccCcceeec
Confidence 34699998754 489999 9999999999999996422 24579883
No 33
>KOG1245 consensus Chromatin remodeling complex WSTF-ISWI, large subunit (contains heterochromatin localization, PHD and BROMO domains) [Chromatin structure and dynamics]
Probab=94.72 E-value=0.0064 Score=63.44 Aligned_cols=46 Identities=26% Similarity=0.551 Sum_probs=41.4
Q ss_pred cccccccCCc----eeeeccCCCCCCCcccCccccccccCCcccCcCcHHH
Q 041905 61 HYCHVCGKAS----KFYCLCCPSAVCKTCLYDAQFAVVKRNKGFCNSCLEL 107 (191)
Q Consensus 61 h~C~~C~~~~----~~~C~~Cp~syh~~Cl~~~~l~~i~~~~w~C~~C~~~ 107 (191)
-.|.+|++.+ ++.|+.|.+.||..|+. |.+.++|.+.|+|+.|.+-
T Consensus 1109 ~~c~~cr~k~~~~~m~lc~~c~~~~h~~C~r-p~~~~~~~~dW~C~~c~~e 1158 (1404)
T KOG1245|consen 1109 ALCKVCRRKKQDEKMLLCDECLSGFHLFCLR-PALSSVPPGDWMCPSCRKE 1158 (1404)
T ss_pred hhhhhhhhcccchhhhhhHhhhhhHHHHhhh-hhhccCCcCCccCCccchh
Confidence 3789998875 69999999999999999 8899999999999999843
No 34
>KOG4323 consensus Polycomb-like PHD Zn-finger protein [General function prediction only]
Probab=94.58 E-value=0.011 Score=55.15 Aligned_cols=89 Identities=21% Similarity=0.269 Sum_probs=63.8
Q ss_pred cccccceecc-----cCceEeeCCCCCCCcccccccCccccccCCCCCeeec----------------------------
Q 041905 13 SENWCYVCKD-----GGKLRLCDHLRCPKVYHSECVDKDESFLVAETKWTCN---------------------------- 59 (191)
Q Consensus 13 ~ed~C~vC~d-----gGeLi~Cd~~~CpkayH~~Cl~~~~~~~~~~g~W~Cp---------------------------- 59 (191)
.+-.|-||.. +.+++.|+ .|-++||..|..+... ..+.|.+-
T Consensus 82 ~e~~~nv~~s~~~~p~~e~~~~~--r~~~~~~q~~~i~~~~---~~~~~~~~~c~~~~~~~~g~a~K~g~~a~~~l~y~~ 156 (464)
T KOG4323|consen 82 SELNPNVLTSETVLPENEKVICG--RCKSGYHQGCNIPRFP---SLDIGESTECVFPIFSQEGGALKKGRLARPSLPYPE 156 (464)
T ss_pred cccCCcccccccccCchhhhhhh--hhccCcccccCccCcC---cCCccccccccccccccccccccccccccccccCcc
Confidence 3556777764 35688999 9999999999887652 22222222
Q ss_pred -----------CcccccccCCc------eeeeccCCCCCCCcccCcccc----ccccCCcccCcCcHHH
Q 041905 60 -----------WHYCHVCGKAS------KFYCLCCPSAVCKTCLYDAQF----AVVKRNKGFCNSCLEL 107 (191)
Q Consensus 60 -----------~h~C~~C~~~~------~~~C~~Cp~syh~~Cl~~~~l----~~i~~~~w~C~~C~~~ 107 (191)
.-.|.+|..+. ++.|+.|-.-||..|.. |+. ..=+...|||..|..-
T Consensus 157 ~~l~wD~~~~~n~qc~vC~~g~~~~~NrmlqC~~C~~~fHq~Chq-p~i~~~l~~D~~~~w~C~~C~~~ 224 (464)
T KOG4323|consen 157 ASLDWDSGHKVNLQCSVCYCGGPGAGNRMLQCDKCRQWYHQACHQ-PLIKDELAGDPFYEWFCDVCNRG 224 (464)
T ss_pred cccccCccccccceeeeeecCCcCccceeeeecccccHHHHHhcc-CCCCHhhccCccceEeehhhccc
Confidence 12588898654 79999999999999998 432 2226789999999843
No 35
>KOG1245 consensus Chromatin remodeling complex WSTF-ISWI, large subunit (contains heterochromatin localization, PHD and BROMO domains) [Chromatin structure and dynamics]
Probab=93.99 E-value=0.012 Score=61.49 Aligned_cols=47 Identities=30% Similarity=0.642 Sum_probs=40.6
Q ss_pred cccccccceecccC---ceEeeCCCCCCCcccccccCccccccCCCCCeeecC
Q 041905 11 EISENWCYVCKDGG---KLRLCDHLRCPKVYHSECVDKDESFLVAETKWTCNW 60 (191)
Q Consensus 11 ~~~ed~C~vC~dgG---eLi~Cd~~~CpkayH~~Cl~~~~~~~~~~g~W~Cp~ 60 (191)
......|.||.-.+ .+++|+ .|-+.||..|+.|.+.. .+.++|+||+
T Consensus 1105 s~~~~~c~~cr~k~~~~~m~lc~--~c~~~~h~~C~rp~~~~-~~~~dW~C~~ 1154 (1404)
T KOG1245|consen 1105 SAVNALCKVCRRKKQDEKMLLCD--ECLSGFHLFCLRPALSS-VPPGDWMCPS 1154 (1404)
T ss_pred ccchhhhhhhhhcccchhhhhhH--hhhhhHHHHhhhhhhcc-CCcCCccCCc
Confidence 45677899998754 489999 99999999999999986 6899999995
No 36
>PF13832 zf-HC5HC2H_2: PHD-zinc-finger like domain
Probab=93.33 E-value=0.043 Score=40.82 Aligned_cols=35 Identities=29% Similarity=0.704 Sum_probs=30.2
Q ss_pred cccccceecc-cCceEeeCCCCCCCcccccccCccc
Q 041905 13 SENWCYVCKD-GGKLRLCDHLRCPKVYHSECVDKDE 47 (191)
Q Consensus 13 ~ed~C~vC~d-gGeLi~Cd~~~CpkayH~~Cl~~~~ 47 (191)
....|.+|+. +|-+|-|...+|.++||+.|.....
T Consensus 54 ~~~~C~iC~~~~G~~i~C~~~~C~~~fH~~CA~~~g 89 (110)
T PF13832_consen 54 FKLKCSICGKSGGACIKCSHPGCSTAFHPTCARKAG 89 (110)
T ss_pred cCCcCcCCCCCCceeEEcCCCCCCcCCCHHHHHHCC
Confidence 4678999998 6889999977899999999987654
No 37
>COG5141 PHD zinc finger-containing protein [General function prediction only]
Probab=92.59 E-value=0.046 Score=51.52 Aligned_cols=41 Identities=20% Similarity=0.616 Sum_probs=34.8
Q ss_pred ccccccCC------ceeeeccCCCCCCCcccCccccccccCCcccCcCcH
Q 041905 62 YCHVCGKA------SKFYCLCCPSAVCKTCLYDAQFAVVKRNKGFCNSCL 105 (191)
Q Consensus 62 ~C~~C~~~------~~~~C~~Cp~syh~~Cl~~~~l~~i~~~~w~C~~C~ 105 (191)
.|.+|..+ +++.|+-|..+.|..|.. ++-+|+|.|+|..|.
T Consensus 195 ~C~~c~~t~~eN~naiVfCdgC~i~VHq~CYG---I~f~peG~WlCrkCi 241 (669)
T COG5141 195 ICTKCTSTHNENSNAIVFCDGCEICVHQSCYG---IQFLPEGFWLCRKCI 241 (669)
T ss_pred hhHhccccccCCcceEEEecCcchhhhhhccc---ceecCcchhhhhhhc
Confidence 57777665 379999999999999999 455799999999996
No 38
>PF13831 PHD_2: PHD-finger; PDB: 2L43_A 2KU3_A.
Probab=92.54 E-value=0.017 Score=35.47 Aligned_cols=33 Identities=24% Similarity=0.562 Sum_probs=17.6
Q ss_pred ceeeeccCCCCCCCcccCccccccccCC-cccCcCcH
Q 041905 70 SKFYCLCCPSAVCKTCLYDAQFAVVKRN-KGFCNSCL 105 (191)
Q Consensus 70 ~~~~C~~Cp~syh~~Cl~~~~l~~i~~~-~w~C~~C~ 105 (191)
.++.|+.|..++|..|-.- ..++.+ .|+|..|.
T Consensus 3 ~ll~C~~C~v~VH~~CYGv---~~~~~~~~W~C~~C~ 36 (36)
T PF13831_consen 3 PLLFCDNCNVAVHQSCYGV---SEVPDGDDWLCDRCE 36 (36)
T ss_dssp EEEE-SSS--EEEHHHHT----SS--SS-----HHH-
T ss_pred ceEEeCCCCCcCChhhCCc---ccCCCCCcEECCcCC
Confidence 3689999999999999993 334444 79998773
No 39
>PF13831 PHD_2: PHD-finger; PDB: 2L43_A 2KU3_A.
Probab=92.43 E-value=0.052 Score=33.32 Aligned_cols=32 Identities=28% Similarity=0.714 Sum_probs=17.4
Q ss_pred CceEeeCCCCCCCcccccccCccccccCCCCCeeec
Q 041905 24 GKLRLCDHLRCPKVYHSECVDKDESFLVAETKWTCN 59 (191)
Q Consensus 24 GeLi~Cd~~~CpkayH~~Cl~~~~~~~~~~g~W~Cp 59 (191)
.+||.|+ +|.-+.|..|.+....+ ....|+|-
T Consensus 2 n~ll~C~--~C~v~VH~~CYGv~~~~--~~~~W~C~ 33 (36)
T PF13831_consen 2 NPLLFCD--NCNVAVHQSCYGVSEVP--DGDDWLCD 33 (36)
T ss_dssp CEEEE-S--SS--EEEHHHHT-SS----SS-----H
T ss_pred CceEEeC--CCCCcCChhhCCcccCC--CCCcEECC
Confidence 4689999 99999999999998742 33379884
No 40
>KOG4323 consensus Polycomb-like PHD Zn-finger protein [General function prediction only]
Probab=91.68 E-value=0.086 Score=49.33 Aligned_cols=46 Identities=33% Similarity=0.780 Sum_probs=36.8
Q ss_pred cceecccC-----ceEeeCCCCCCCcccccccCcccccc---CCCCCeeecCcccccccCC
Q 041905 17 CYVCKDGG-----KLRLCDHLRCPKVYHSECVDKDESFL---VAETKWTCNWHYCHVCGKA 69 (191)
Q Consensus 17 C~vC~dgG-----eLi~Cd~~~CpkayH~~Cl~~~~~~~---~~~g~W~Cp~h~C~~C~~~ 69 (191)
|-||.-|| +||-|+ .|-.-||..|..+..... .+...|+| .+|..+
T Consensus 171 c~vC~~g~~~~~NrmlqC~--~C~~~fHq~Chqp~i~~~l~~D~~~~w~C-----~~C~~~ 224 (464)
T KOG4323|consen 171 CSVCYCGGPGAGNRMLQCD--KCRQWYHQACHQPLIKDELAGDPFYEWFC-----DVCNRG 224 (464)
T ss_pred eeeeecCCcCccceeeeec--ccccHHHHHhccCCCCHhhccCccceEee-----hhhccc
Confidence 99998654 799999 999999999999886421 36789988 667654
No 41
>COG5034 TNG2 Chromatin remodeling protein, contains PhD zinc finger [Chromatin structure and dynamics]
Probab=90.54 E-value=0.085 Score=45.84 Aligned_cols=45 Identities=20% Similarity=0.542 Sum_probs=33.3
Q ss_pred CCeeecCcccccccCCc---eeeec--cCCCC-CCCcccCccccccccCCcccCcCcHHH
Q 041905 54 TKWTCNWHYCHVCGKAS---KFYCL--CCPSA-VCKTCLYDAQFAVVKRNKGFCNSCLEL 107 (191)
Q Consensus 54 g~W~Cp~h~C~~C~~~~---~~~C~--~Cp~s-yh~~Cl~~~~l~~i~~~~w~C~~C~~~ 107 (191)
..-|| + |++.+ ++.|| -|.+. ||..|+. |.+.|.|.|+|+.|.+.
T Consensus 220 e~lYC---f---CqqvSyGqMVaCDn~nCkrEWFH~~CVG---Lk~pPKG~WYC~eCk~~ 270 (271)
T COG5034 220 EELYC---F---CQQVSYGQMVACDNANCKREWFHLECVG---LKEPPKGKWYCPECKKA 270 (271)
T ss_pred ceeEE---E---ecccccccceecCCCCCchhheeccccc---cCCCCCCcEeCHHhHhc
Confidence 45666 3 55554 67786 45543 8999999 78889999999999753
No 42
>PF13832 zf-HC5HC2H_2: PHD-zinc-finger like domain
Probab=89.04 E-value=0.45 Score=35.30 Aligned_cols=72 Identities=21% Similarity=0.292 Sum_probs=45.7
Q ss_pred ccceecccCceEeeCCCCCCCcccccccCcccccc-CC---CCCee----e---cCcccccccCCc--eeeecc--CCCC
Q 041905 16 WCYVCKDGGKLRLCDHLRCPKVYHSECVDKDESFL-VA---ETKWT----C---NWHYCHVCGKAS--KFYCLC--CPSA 80 (191)
Q Consensus 16 ~C~vC~dgGeLi~Cd~~~CpkayH~~Cl~~~~~~~-~~---~g~W~----C---p~h~C~~C~~~~--~~~C~~--Cp~s 80 (191)
.|.+|...|.++.-. .-.+-.|..|.--..+-. .. ...+. = -...|.+|++.. .+.|.. |..+
T Consensus 2 ~C~lC~~~~Galk~t--~~~~WvHv~Cal~~~~~~~~~~~~~~~v~~~~i~~~~~~~~C~iC~~~~G~~i~C~~~~C~~~ 79 (110)
T PF13832_consen 2 SCVLCPKRGGALKRT--SDGQWVHVLCALWIPEVIFNNGESMEPVDISNIPPSRFKLKCSICGKSGGACIKCSHPGCSTA 79 (110)
T ss_pred ccEeCCCCCCcccCc--cCCcEEEeEccceeCccEEeechhcCcccceeecchhcCCcCcCCCCCCceeEEcCCCCCCcC
Confidence 588898765554444 346677888876543210 00 00011 0 135789999863 799998 9999
Q ss_pred CCCcccCcc
Q 041905 81 VCKTCLYDA 89 (191)
Q Consensus 81 yh~~Cl~~~ 89 (191)
||..|....
T Consensus 80 fH~~CA~~~ 88 (110)
T PF13832_consen 80 FHPTCARKA 88 (110)
T ss_pred CCHHHHHHC
Confidence 999998743
No 43
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=88.78 E-value=0.23 Score=33.37 Aligned_cols=32 Identities=31% Similarity=0.784 Sum_probs=27.4
Q ss_pred ccccceecc----cCceEeeCCCCCCCcccccccCccc
Q 041905 14 ENWCYVCKD----GGKLRLCDHLRCPKVYHSECVDKDE 47 (191)
Q Consensus 14 ed~C~vC~d----gGeLi~Cd~~~CpkayH~~Cl~~~~ 47 (191)
...|.+|++ ++++|.|. .|...||..|.....
T Consensus 5 ~~~C~~Cg~~~~~~dDiVvCp--~CgapyHR~C~~~~g 40 (54)
T PF14446_consen 5 GCKCPVCGKKFKDGDDIVVCP--ECGAPYHRDCWEKAG 40 (54)
T ss_pred CccChhhCCcccCCCCEEECC--CCCCcccHHHHhhCC
Confidence 456999986 78999999 999999999997653
No 44
>KOG1473 consensus Nucleosome remodeling factor, subunit NURF301/BPTF [Chromatin structure and dynamics; Transcription]
Probab=88.09 E-value=0.29 Score=50.16 Aligned_cols=44 Identities=23% Similarity=0.529 Sum_probs=39.4
Q ss_pred cccccccCCc-eeeeccCCCCCCCcccCccccccccCCcccCcCcH
Q 041905 61 HYCHVCGKAS-KFYCLCCPSAVCKTCLYDAQFAVVKRNKGFCNSCL 105 (191)
Q Consensus 61 h~C~~C~~~~-~~~C~~Cp~syh~~Cl~~~~l~~i~~~~w~C~~C~ 105 (191)
..|.+|.+.+ +++|.+||+-||..|+. +|..+++...|-|..|.
T Consensus 345 dhcrf~~d~~~~lc~Et~prvvhlEcv~-hP~~~~~s~~~e~evc~ 389 (1414)
T KOG1473|consen 345 DHCRFCHDLGDLLCCETCPRVVHLECVF-HPRFAVPSAFWECEVCN 389 (1414)
T ss_pred ccccccCcccceeecccCCceEEeeecC-CccccCCCccchhhhhh
Confidence 4789998876 89999999999999999 77788899999998885
No 45
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=88.01 E-value=0.23 Score=34.63 Aligned_cols=34 Identities=26% Similarity=0.525 Sum_probs=14.8
Q ss_pred ccccceecc----cCc--eEeeCCCCCCCcccccccCccc
Q 041905 14 ENWCYVCKD----GGK--LRLCDHLRCPKVYHSECVDKDE 47 (191)
Q Consensus 14 ed~C~vC~d----gGe--Li~Cd~~~CpkayH~~Cl~~~~ 47 (191)
+..|.||.. .++ .+.|+...|.++||..||..-.
T Consensus 2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf 41 (70)
T PF11793_consen 2 ELECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWF 41 (70)
T ss_dssp --S-SSS--SS-TT-----B--S-TT----B-SGGGHHHH
T ss_pred CCCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHH
Confidence 457899975 343 4889988999999999997654
No 46
>KOG0954 consensus PHD finger protein [General function prediction only]
Probab=87.45 E-value=0.22 Score=49.03 Aligned_cols=42 Identities=24% Similarity=0.603 Sum_probs=36.5
Q ss_pred cccccccCCc------eeeeccCCCCCCCcccCccccccccCCcccCcCcH
Q 041905 61 HYCHVCGKAS------KFYCLCCPSAVCKTCLYDAQFAVVKRNKGFCNSCL 105 (191)
Q Consensus 61 h~C~~C~~~~------~~~C~~Cp~syh~~Cl~~~~l~~i~~~~w~C~~C~ 105 (191)
-.|.+|+.+. +++|+.|..-+|+.|.. +.++|.+.|+|..|.
T Consensus 272 viCDvCrspD~e~~neMVfCd~Cn~cVHqaCyG---Ile~p~gpWlCr~Ca 319 (893)
T KOG0954|consen 272 VICDVCRSPDSEEANEMVFCDKCNICVHQACYG---ILEVPEGPWLCRTCA 319 (893)
T ss_pred ceeceecCCCccccceeEEeccchhHHHHhhhc---eeecCCCCeeehhcc
Confidence 3688888762 79999999999999998 678899999998885
No 47
>KOG3362 consensus Predicted BBOX Zn-finger protein [General function prediction only]
Probab=86.97 E-value=0.26 Score=39.45 Aligned_cols=43 Identities=30% Similarity=0.704 Sum_probs=33.6
Q ss_pred CcccccccCccccccCCCCCeeecCcccccccCCceeeeccCCCCCCCc-ccC
Q 041905 36 KVYHSECVDKDESFLVAETKWTCNWHYCHVCGKASKFYCLCCPSAVCKT-CLY 87 (191)
Q Consensus 36 kayH~~Cl~~~~~~~~~~g~W~Cp~h~C~~C~~~~~~~C~~Cp~syh~~-Cl~ 87 (191)
.+||..+..+...+ +.++|.+|+-.+.+.|..|+..||.- |+.
T Consensus 103 ~~Y~~~~a~p~~KP---------~r~fCaVCG~~S~ysC~~CG~kyCsv~C~~ 146 (156)
T KOG3362|consen 103 PNYHTAYAKPSFKP---------LRKFCAVCGYDSKYSCVNCGTKYCSVRCLK 146 (156)
T ss_pred cchhhcccCCCCCC---------cchhhhhcCCCchhHHHhcCCceeechhhh
Confidence 46888888776532 25799999999999999999999853 554
No 48
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=81.75 E-value=0.91 Score=41.19 Aligned_cols=45 Identities=22% Similarity=0.548 Sum_probs=32.5
Q ss_pred cccceeccc---CceEeeCCCCCCCcccccccCccccccCCCCCeeecCcccccccCCc
Q 041905 15 NWCYVCKDG---GKLRLCDHLRCPKVYHSECVDKDESFLVAETKWTCNWHYCHVCGKAS 70 (191)
Q Consensus 15 d~C~vC~dg---GeLi~Cd~~~CpkayH~~Cl~~~~~~~~~~g~W~Cp~h~C~~C~~~~ 70 (191)
+.|.||-+. |+.|.== .|--.||..|+++=+.. | .++|.+|++..
T Consensus 230 ~~CaIClEdY~~GdklRiL--PC~H~FH~~CIDpWL~~------~---r~~CPvCK~di 277 (348)
T KOG4628|consen 230 DTCAICLEDYEKGDKLRIL--PCSHKFHVNCIDPWLTQ------T---RTFCPVCKRDI 277 (348)
T ss_pred ceEEEeecccccCCeeeEe--cCCCchhhccchhhHhh------c---CccCCCCCCcC
Confidence 599999873 5533333 78889999999985421 2 47889999753
No 49
>KOG0956 consensus PHD finger protein AF10 [General function prediction only]
Probab=81.70 E-value=0.7 Score=45.39 Aligned_cols=33 Identities=30% Similarity=0.630 Sum_probs=29.3
Q ss_pred eeeec--cCCCCCCCcccCccccccccCCcccCcCcHH
Q 041905 71 KFYCL--CCPSAVCKTCLYDAQFAVVKRNKGFCNSCLE 106 (191)
Q Consensus 71 ~~~C~--~Cp~syh~~Cl~~~~l~~i~~~~w~C~~C~~ 106 (191)
++.|| -|..|+|..|.. +++||.|.|||..|..
T Consensus 22 LVYCDG~nCsVAVHQaCYG---IvqVPtGpWfCrKCes 56 (900)
T KOG0956|consen 22 LVYCDGHNCSVAVHQACYG---IVQVPTGPWFCRKCES 56 (900)
T ss_pred eeeecCCCceeeeehhcce---eEecCCCchhhhhhhh
Confidence 67885 688999999999 7899999999999973
No 50
>PF10497 zf-4CXXC_R1: Zinc-finger domain of monoamine-oxidase A repressor R1; InterPro: IPR018866 R1 is a transcription factor repressor that inhibits monoamine oxidase A gene expression. This domain is a four-CXXC zinc finger putative DNA-binding domain found at the C-terminal end of R1. The domain carries 12 cysteines of which four pairs are of the CXXC type [].
Probab=81.66 E-value=0.5 Score=35.65 Aligned_cols=45 Identities=27% Similarity=0.628 Sum_probs=29.6
Q ss_pred ccccccCCc---eeee------ccC---CCCCCCcccCcc----ccccccCCcccCcCcHH
Q 041905 62 YCHVCGKAS---KFYC------LCC---PSAVCKTCLYDA----QFAVVKRNKGFCNSCLE 106 (191)
Q Consensus 62 ~C~~C~~~~---~~~C------~~C---p~syh~~Cl~~~----~l~~i~~~~w~C~~C~~ 106 (191)
+|+.|++.+ ...| ..| ...||..||... ....+....|.||.|..
T Consensus 9 ~CHqCrqKt~~~~~~C~~~~~~~~C~~~~~~fC~~CL~~ryge~~~ev~~~~~W~CP~Crg 69 (105)
T PF10497_consen 9 TCHQCRQKTLDFKTICTGHWKNSSCRGCRGKFCGGCLRNRYGENVEEVLEDPNWKCPKCRG 69 (105)
T ss_pred CchhhcCCCCCCceEcCCCCCCCCCccCcceehHhHHHHHHhhhHHHHhcCCceECCCCCC
Confidence 466666643 3445 555 889999999832 12223568999999973
No 51
>KOG3612 consensus PHD Zn-finger protein [General function prediction only]
Probab=79.55 E-value=1.2 Score=42.64 Aligned_cols=47 Identities=17% Similarity=0.376 Sum_probs=40.0
Q ss_pred cccccccceecccCceEeeCCCCCCCcccccccCccccccCCCCCeeec
Q 041905 11 EISENWCYVCKDGGKLRLCDHLRCPKVYHSECVDKDESFLVAETKWTCN 59 (191)
Q Consensus 11 ~~~ed~C~vC~dgGeLi~Cd~~~CpkayH~~Cl~~~~~~~~~~g~W~Cp 59 (191)
.+.+-+||.|.-.|..+.|+ .|-|.||..|+.++.+.-.....|-||
T Consensus 57 ~N~d~~cfechlpg~vl~c~--vc~Rs~h~~c~sp~~q~r~~s~p~~~p 103 (588)
T KOG3612|consen 57 SNIDPFCFECHLPGAVLKCI--VCHRSFHENCQSPDPQKRNYSVPSDKP 103 (588)
T ss_pred cCCCcccccccCCcceeeee--hhhccccccccCcchhhccccccccCC
Confidence 45678899999999999999 999999999999987643345678888
No 52
>KOG1946 consensus RNA polymerase I transcription factor UAF [Transcription]
Probab=78.11 E-value=1.3 Score=38.15 Aligned_cols=39 Identities=23% Similarity=0.308 Sum_probs=35.0
Q ss_pred CCccccCCcceeEEeeeccCCChhhHHHHHhhhhCCCCC
Q 041905 129 PKTTDYFFNGYWQTIKQKEGLTSKNVILAYDLSKKGEMH 167 (191)
Q Consensus 129 ~~~~E~~~~~YW~~~k~k~~l~~~~~~~a~~~~r~~~~~ 167 (191)
...+|++|..||..++..++||+.++.+|-+.+.+.+.+
T Consensus 3 ~~~~~~~~~~~~l~~~~~~~lt~~~vr~~~~~~~~v~~~ 41 (240)
T KOG1946|consen 3 SLSWEYLFKDYILSLKDQETLTPDDVRRAMAPRSGVDGT 41 (240)
T ss_pred chhhhhhhhHHHhcccccccCCHHHHHHHhccccCCCCc
Confidence 456899999999999999999999999999998887664
No 53
>PF15446 zf-PHD-like: PHD/FYVE-zinc-finger like domain
Probab=74.38 E-value=1.3 Score=36.37 Aligned_cols=27 Identities=37% Similarity=0.839 Sum_probs=21.5
Q ss_pred ccccccC-------CceeeeccCCCCCCCcccCc
Q 041905 62 YCHVCGK-------ASKFYCLCCPSAVCKTCLYD 88 (191)
Q Consensus 62 ~C~~C~~-------~~~~~C~~Cp~syh~~Cl~~ 88 (191)
.|.+|.. +.++.|.-|..|||..||..
T Consensus 1 ~C~~C~~~g~~~~kG~Lv~CQGCs~sYHk~CLG~ 34 (175)
T PF15446_consen 1 TCDTCGYEGDDRNKGPLVYCQGCSSSYHKACLGP 34 (175)
T ss_pred CcccccCCCCCccCCCeEEcCccChHHHhhhcCC
Confidence 3677742 23899999999999999983
No 54
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=69.78 E-value=1.6 Score=30.38 Aligned_cols=34 Identities=24% Similarity=0.481 Sum_probs=14.6
Q ss_pred eeeec--cCCCCCCCcccCcccccccc-------CCcccCcCcH
Q 041905 71 KFYCL--CCPSAVCKTCLYDAQFAVVK-------RNKGFCNSCL 105 (191)
Q Consensus 71 ~~~C~--~Cp~syh~~Cl~~~~l~~i~-------~~~w~C~~C~ 105 (191)
.+.|. .|...||..||.. =|...+ ...|.||.|.
T Consensus 20 ~~~C~n~~C~~~fH~~CL~~-wf~~~~~~~~~~~~~~G~CP~C~ 62 (70)
T PF11793_consen 20 DVVCPNPSCGKKFHLLCLSE-WFLSLEKSRQSFIPIFGECPYCS 62 (70)
T ss_dssp -B--S-TT----B-SGGGHH-HHHHHHSSS-TTT--EEE-TTT-
T ss_pred ceEcCCcccCCHHHHHHHHH-HHHHcccCCeeecccccCCcCCC
Confidence 47786 9999999999983 222221 2346799996
No 55
>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=69.46 E-value=1.1 Score=28.42 Aligned_cols=39 Identities=23% Similarity=0.575 Sum_probs=19.0
Q ss_pred cccccCCc--eeeec--cCCCCCCCcccCccccccccCCcccCcCc
Q 041905 63 CHVCGKAS--KFYCL--CCPSAVCKTCLYDAQFAVVKRNKGFCNSC 104 (191)
Q Consensus 63 C~~C~~~~--~~~C~--~Cp~syh~~Cl~~~~l~~i~~~~w~C~~C 104 (191)
|.+|++-. -++|. .|+..+|.+|+. .-|.... +. .||.|
T Consensus 1 C~~C~~iv~~G~~C~~~~C~~r~H~~C~~-~y~r~~~-~~-~CP~C 43 (43)
T PF08746_consen 1 CEACKEIVTQGQRCSNRDCNVRLHDDCFK-KYFRHRS-NP-KCPNC 43 (43)
T ss_dssp -TTT-SB-SSSEE-SS--S--EE-HHHHH-HHTTT-S-S--B-TTT
T ss_pred CcccchhHeeeccCCCCccCchHHHHHHH-HHHhcCC-CC-CCcCC
Confidence 56777765 37888 699999999998 4333322 22 67776
No 56
>PF04438 zf-HIT: HIT zinc finger; InterPro: IPR007529 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 HIT-type zinc finger, which contains 7 conserved cysteines and one histidine that can potentially coordinate two zinc atoms. It has been named after the first protein that originally defined the domain: the yeast HIT1 protein (P46973 from SWISSPROT) []. The HIT-type zinc finger displays some sequence similarities to the MYND-type zinc finger. The function of this domain is unknown but it is mainly found in nuclear proteins involved in gene regulation and chromatin remodeling. This domain is also found in the thyroid receptor interacting protein 3 (TRIP-3) Q15649 from SWISSPROT, that specifically interacts with the ligand binding domain of the thyroid receptor. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 2YQP_A 2YQQ_A 1X4S_A.
Probab=68.79 E-value=1.6 Score=25.65 Aligned_cols=23 Identities=35% Similarity=0.989 Sum_probs=16.2
Q ss_pred CcccccccCCceeeeccCCCCCC
Q 041905 60 WHYCHVCGKASKFYCLCCPSAVC 82 (191)
Q Consensus 60 ~h~C~~C~~~~~~~C~~Cp~syh 82 (191)
.++|.+|+..+.+.|..|...|+
T Consensus 2 ~~~C~vC~~~~kY~Cp~C~~~~C 24 (30)
T PF04438_consen 2 RKLCSVCGNPAKYRCPRCGARYC 24 (30)
T ss_dssp -EEETSSSSEESEE-TTT--EES
T ss_pred cCCCccCcCCCEEECCCcCCcee
Confidence 46789999977899999987766
No 57
>PF06524 NOA36: NOA36 protein; InterPro: IPR010531 This family consists of several NOA36 proteins which contain 29 highly conserved cysteine residues. The function of this protein is unknown.; GO: 0008270 zinc ion binding, 0005634 nucleus
Probab=67.54 E-value=5.7 Score=35.01 Aligned_cols=44 Identities=23% Similarity=0.573 Sum_probs=37.3
Q ss_pred ccccccCCceeeeccCCCCCCCcccCccccccccCCcccCcCcH
Q 041905 62 YCHVCGKASKFYCLCCPSAVCKTCLYDAQFAVVKRNKGFCNSCL 105 (191)
Q Consensus 62 ~C~~C~~~~~~~C~~Cp~syh~~Cl~~~~l~~i~~~~w~C~~C~ 105 (191)
.|..|++-+++.|..|-..||..++....|...+.....||.|.
T Consensus 173 KC~SCNrlGq~sCLRCK~cfCddHvrrKg~ky~k~k~~PCPKCg 216 (314)
T PF06524_consen 173 KCQSCNRLGQYSCLRCKICFCDDHVRRKGFKYEKGKPIPCPKCG 216 (314)
T ss_pred cccccccccchhhhheeeeehhhhhhhcccccccCCCCCCCCCC
Confidence 57899999999999999999999998555665566778899996
No 58
>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=66.46 E-value=2.2 Score=24.60 Aligned_cols=25 Identities=28% Similarity=0.747 Sum_probs=11.5
Q ss_pred ccccccCCc----eeeeccCCCCCCCccc
Q 041905 62 YCHVCGKAS----KFYCLCCPSAVCKTCL 86 (191)
Q Consensus 62 ~C~~C~~~~----~~~C~~Cp~syh~~Cl 86 (191)
.|.+|++.. .+.|..|.-..|..|.
T Consensus 2 ~C~~C~~~~~~~~~Y~C~~Cdf~lH~~Ca 30 (30)
T PF07649_consen 2 RCDACGKPIDGGWFYRCSECDFDLHEECA 30 (30)
T ss_dssp --TTTS----S--EEE-TTT-----HHHH
T ss_pred cCCcCCCcCCCCceEECccCCCccChhcC
Confidence 477888764 6999999999998873
No 59
>PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=66.40 E-value=5 Score=33.38 Aligned_cols=27 Identities=26% Similarity=0.605 Sum_probs=22.6
Q ss_pred eeeeccCCCCCCCcccCccccccccCCcccCcCcHHH
Q 041905 71 KFYCLCCPSAVCKTCLYDAQFAVVKRNKGFCNSCLEL 107 (191)
Q Consensus 71 ~~~C~~Cp~syh~~Cl~~~~l~~i~~~~w~C~~C~~~ 107 (191)
...|..|.+-||..|... -.||.|.++
T Consensus 172 ~~~C~~C~~v~H~~C~~~----------~~CpkC~R~ 198 (202)
T PF13901_consen 172 TVRCPKCKSVFHKSCFRK----------KSCPKCARR 198 (202)
T ss_pred eeeCCcCccccchhhcCC----------CCCCCcHhH
Confidence 589999999999999992 239999765
No 60
>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=55.28 E-value=8.1 Score=27.76 Aligned_cols=32 Identities=25% Similarity=0.545 Sum_probs=22.0
Q ss_pred cccccccceecc--cCceEeeCCCCCCCcccccccC
Q 041905 11 EISENWCYVCKD--GGKLRLCDHLRCPKVYHSECVD 44 (191)
Q Consensus 11 ~~~ed~C~vC~d--gGeLi~Cd~~~CpkayH~~Cl~ 44 (191)
-..+..|.+|+. |...+.=- .|..+||..|+.
T Consensus 75 i~~~~~C~vC~k~l~~~~f~~~--p~~~v~H~~C~~ 108 (109)
T PF10367_consen 75 ITESTKCSVCGKPLGNSVFVVF--PCGHVVHYSCIK 108 (109)
T ss_pred ECCCCCccCcCCcCCCceEEEe--CCCeEEeccccc
Confidence 345678999997 33333333 567999999975
No 61
>PF13771 zf-HC5HC2H: PHD-like zinc-binding domain
Probab=54.33 E-value=7.1 Score=27.54 Aligned_cols=31 Identities=23% Similarity=0.465 Sum_probs=25.1
Q ss_pred CcccccccCC-c-eeeecc--CCCCCCCcccCccc
Q 041905 60 WHYCHVCGKA-S-KFYCLC--CPSAVCKTCLYDAQ 90 (191)
Q Consensus 60 ~h~C~~C~~~-~-~~~C~~--Cp~syh~~Cl~~~~ 90 (191)
...|.+|++. + .+.|.. |..+||..|.....
T Consensus 36 ~~~C~~C~~~~Ga~i~C~~~~C~~~fH~~CA~~~~ 70 (90)
T PF13771_consen 36 KLKCSICKKKGGACIGCSHPGCSRSFHVPCARKAG 70 (90)
T ss_pred CCCCcCCCCCCCeEEEEeCCCCCcEEChHHHccCC
Confidence 3579999988 6 688865 99999999998543
No 62
>COG5082 AIR1 Arginine methyltransferase-interacting protein, contains RING Zn-finger [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]
Probab=49.85 E-value=15 Score=30.75 Aligned_cols=49 Identities=29% Similarity=0.615 Sum_probs=30.6
Q ss_pred ccccccceecccCceEeeCCCCCCCcccccccCccccccCCCCCeeecCc-ccccccCCc
Q 041905 12 ISENWCYVCKDGGKLRLCDHLRCPKVYHSECVDKDESFLVAETKWTCNWH-YCHVCGKAS 70 (191)
Q Consensus 12 ~~ed~C~vC~dgGeLi~Cd~~~CpkayH~~Cl~~~~~~~~~~g~W~Cp~h-~C~~C~~~~ 70 (191)
..+-.|+.|++-|.++ +.|| |..|..=.+ ..-..=-||+. .|..|+..+
T Consensus 58 ~~~~~C~nCg~~GH~~----~DCP---~~iC~~C~~---~~H~s~~C~~~~~C~~Cg~~G 107 (190)
T COG5082 58 EENPVCFNCGQNGHLR----RDCP---HSICYNCSW---DGHRSNHCPKPKKCYNCGETG 107 (190)
T ss_pred ccccccchhcccCccc----ccCC---hhHhhhcCC---CCcccccCCcccccccccccC
Confidence 3467899999999876 3788 455544421 11112235653 788888876
No 63
>KOG1246 consensus DNA-binding protein jumonji/RBP2/SMCY, contains JmjC domain [General function prediction only]
Probab=49.17 E-value=12 Score=37.75 Aligned_cols=46 Identities=22% Similarity=0.545 Sum_probs=39.2
Q ss_pred cccccccCCc---eeeeccCCCCCCCcccCccccccccCCcccCcCcHHH
Q 041905 61 HYCHVCGKAS---KFYCLCCPSAVCKTCLYDAQFAVVKRNKGFCNSCLEL 107 (191)
Q Consensus 61 h~C~~C~~~~---~~~C~~Cp~syh~~Cl~~~~l~~i~~~~w~C~~C~~~ 107 (191)
..|..|.+.. ++.|+.|..+||..|+. ++++.++.+.|.|+.|...
T Consensus 156 ~~~~~~~k~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~ 204 (904)
T KOG1246|consen 156 PQCNTCSKGKEEKLLLCDSCDDSYHTYCLR-PPLTRVPDGDWRCPKCIPT 204 (904)
T ss_pred hhhhccccCCCccceecccccCcccccccC-CCCCcCCcCcccCCccccc
Confidence 3578887765 23999999999999999 8899999999999999754
No 64
>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=48.21 E-value=15 Score=23.29 Aligned_cols=34 Identities=29% Similarity=0.647 Sum_probs=26.1
Q ss_pred ccccccceecc-----cCceEeeCCCCCCCcccccccCccc
Q 041905 12 ISENWCYVCKD-----GGKLRLCDHLRCPKVYHSECVDKDE 47 (191)
Q Consensus 12 ~~ed~C~vC~d-----gGeLi~Cd~~~CpkayH~~Cl~~~~ 47 (191)
..-.+|.+|+. +.+-+.|. .|..+.|..|+..-.
T Consensus 9 ~~~~~C~~C~~~i~g~~~~g~~C~--~C~~~~H~~C~~~~~ 47 (53)
T PF00130_consen 9 SKPTYCDVCGKFIWGLGKQGYRCS--WCGLVCHKKCLSKVP 47 (53)
T ss_dssp SSTEB-TTSSSBECSSSSCEEEET--TTT-EEETTGGCTSS
T ss_pred CCCCCCcccCcccCCCCCCeEEEC--CCCChHhhhhhhhcC
Confidence 34568999986 46789999 999999999998754
No 65
>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=46.75 E-value=6 Score=24.35 Aligned_cols=32 Identities=22% Similarity=0.541 Sum_probs=22.6
Q ss_pred cccceeccc---CceEeeCCCCCCCcccccccCcccc
Q 041905 15 NWCYVCKDG---GKLRLCDHLRCPKVYHSECVDKDES 48 (191)
Q Consensus 15 d~C~vC~dg---GeLi~Cd~~~CpkayH~~Cl~~~~~ 48 (191)
|.|.||.+. ++.+.-- .|.-+||..|+..-+.
T Consensus 1 d~C~IC~~~~~~~~~~~~l--~C~H~fh~~Ci~~~~~ 35 (44)
T PF13639_consen 1 DECPICLEEFEDGEKVVKL--PCGHVFHRSCIKEWLK 35 (44)
T ss_dssp -CETTTTCBHHTTSCEEEE--TTSEEEEHHHHHHHHH
T ss_pred CCCcCCChhhcCCCeEEEc--cCCCeeCHHHHHHHHH
Confidence 468888863 4444444 6999999999987653
No 66
>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=45.30 E-value=15 Score=21.00 Aligned_cols=24 Identities=33% Similarity=0.865 Sum_probs=12.2
Q ss_pred CCCeeecCcccccccCCceeeeccCC
Q 041905 53 ETKWTCNWHYCHVCGKASKFYCLCCP 78 (191)
Q Consensus 53 ~g~W~Cp~h~C~~C~~~~~~~C~~Cp 78 (191)
+|+|.|+ .|..=.......|..|.
T Consensus 2 ~g~W~C~--~C~~~N~~~~~~C~~C~ 25 (30)
T PF00641_consen 2 EGDWKCP--SCTFMNPASRSKCVACG 25 (30)
T ss_dssp SSSEEET--TTTEEEESSSSB-TTT-
T ss_pred CcCccCC--CCcCCchHHhhhhhCcC
Confidence 5789996 33333333445555554
No 67
>KOG1829 consensus Uncharacterized conserved protein, contains C1, PH and RUN domains [Signal transduction mechanisms]
Probab=43.02 E-value=7.5 Score=37.63 Aligned_cols=38 Identities=21% Similarity=0.403 Sum_probs=28.0
Q ss_pred eeeccCCCCCCCcccCccccccccCCcccCcCcHHHHHHHhhhccc
Q 041905 72 FYCLCCPSAVCKTCLYDAQFAVVKRNKGFCNSCLELAWLIETNKDV 117 (191)
Q Consensus 72 ~~C~~Cp~syh~~Cl~~~~l~~i~~~~w~C~~C~~~~~~iek~~~~ 117 (191)
..|..|...||..|+... .. -||.|..+-..-+.....
T Consensus 532 ~rC~~C~avfH~~C~~r~-------s~-~CPrC~R~q~r~~~~~~~ 569 (580)
T KOG1829|consen 532 RRCSTCLAVFHKKCLRRK-------SP-CCPRCERRQKRAEQGAQL 569 (580)
T ss_pred eeHHHHHHHHHHHHHhcc-------CC-CCCchHHHHHHhhccccc
Confidence 789999999999999921 11 199998776655555444
No 68
>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=38.95 E-value=14 Score=28.04 Aligned_cols=50 Identities=28% Similarity=0.507 Sum_probs=33.0
Q ss_pred CcccccccCC-c-----eeeeccCCCCCCCcccCccccccccCCcccCcCcHHHHHHHhh
Q 041905 60 WHYCHVCGKA-S-----KFYCLCCPSAVCKTCLYDAQFAVVKRNKGFCNSCLELAWLIET 113 (191)
Q Consensus 60 ~h~C~~C~~~-~-----~~~C~~Cp~syh~~Cl~~~~l~~i~~~~w~C~~C~~~~~~iek 113 (191)
.+.|..|+.. + -..|..|...+|..|-.. ......|+|..|.+.....-+
T Consensus 54 ~~~C~~C~~~fg~l~~~~~~C~~C~~~VC~~C~~~----~~~~~~WlC~vC~k~rel~~~ 109 (118)
T PF02318_consen 54 ERHCARCGKPFGFLFNRGRVCVDCKHRVCKKCGVY----SKKEPIWLCKVCQKQRELKKK 109 (118)
T ss_dssp CSB-TTTS-BCSCTSTTCEEETTTTEEEETTSEEE----TSSSCCEEEHHHHHHHHHHHH
T ss_pred CcchhhhCCcccccCCCCCcCCcCCccccCccCCc----CCCCCCEEChhhHHHHHHHHH
Confidence 3467777653 1 367888888888888773 225679999999865444433
No 69
>KOG1246 consensus DNA-binding protein jumonji/RBP2/SMCY, contains JmjC domain [General function prediction only]
Probab=37.25 E-value=24 Score=35.69 Aligned_cols=52 Identities=31% Similarity=0.643 Sum_probs=39.9
Q ss_pred ccccccccceecccCc--eEeeCCCCCCCcccccccCccccccCCCCCeeecCcccc
Q 041905 10 EEISENWCYVCKDGGK--LRLCDHLRCPKVYHSECVDKDESFLVAETKWTCNWHYCH 64 (191)
Q Consensus 10 ~~~~ed~C~vC~dgGe--Li~Cd~~~CpkayH~~Cl~~~~~~~~~~g~W~Cp~h~C~ 64 (191)
.......|..|..+.+ ++.|+ .|-+.||..|+.+.... .+++.|.|+...-.
T Consensus 151 ~~~~~~~~~~~~k~~~~~~~~~~--~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~ 204 (904)
T KOG1246|consen 151 EFIDYPQCNTCSKGKEEKLLLCD--SCDDSYHTYCLRPPLTR-VPDGDWRCPKCIPT 204 (904)
T ss_pred ccccchhhhccccCCCccceecc--cccCcccccccCCCCCc-CCcCcccCCccccc
Confidence 3444566888887763 33999 99999999999999875 78999988754443
No 70
>cd00162 RING RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in mediating protein-protein interactions; identified in a proteins with a wide range of functions such as viral replication, signal transduction, and development; has two variants, the C3HC4-type and a C3H2C3-type (RING-H2 finger), which have different cysteine/histidine pattern; a subset of RINGs are associated with B-Boxes (C-X2-H-X7-C-X7-C-X2-C-H-X2-H)
Probab=34.06 E-value=15 Score=21.29 Aligned_cols=39 Identities=23% Similarity=0.622 Sum_probs=22.9
Q ss_pred cccccCCc--eeeeccCCCCCCCcccCccccccccCCcccCcCcH
Q 041905 63 CHVCGKAS--KFYCLCCPSAVCKTCLYDAQFAVVKRNKGFCNSCL 105 (191)
Q Consensus 63 C~~C~~~~--~~~C~~Cp~syh~~Cl~~~~l~~i~~~~w~C~~C~ 105 (191)
|.+|...- .+.-..|.-.||..|+.. -+. .+...||.|.
T Consensus 2 C~iC~~~~~~~~~~~~C~H~~c~~C~~~-~~~---~~~~~Cp~C~ 42 (45)
T cd00162 2 CPICLEEFREPVVLLPCGHVFCRSCIDK-WLK---SGKNTCPLCR 42 (45)
T ss_pred CCcCchhhhCceEecCCCChhcHHHHHH-HHH---hCcCCCCCCC
Confidence 45555542 233445888889899872 222 2455677774
No 71
>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=33.91 E-value=27 Score=36.33 Aligned_cols=55 Identities=20% Similarity=0.454 Sum_probs=42.1
Q ss_pred cccccccCCc--------eeeeccCCCCCCCcccCccccccccCCcccCcCcHHHHHHHhhhccccC
Q 041905 61 HYCHVCGKAS--------KFYCLCCPSAVCKTCLYDAQFAVVKRNKGFCNSCLELAWLIETNKDVKS 119 (191)
Q Consensus 61 h~C~~C~~~~--------~~~C~~Cp~syh~~Cl~~~~l~~i~~~~w~C~~C~~~~~~iek~~~~~~ 119 (191)
+.|.+|++.- .+.|.-|.-..|..|.. .+..+|.--||+|...+..+.....+..
T Consensus 18 qiCqICGD~vg~~~~Ge~FVAC~eC~FPVCrpCYE----YEr~eG~q~CPqCktrYkr~kgsprv~g 80 (1079)
T PLN02638 18 QVCQICGDNVGKTVDGEPFVACDVCAFPVCRPCYE----YERKDGNQSCPQCKTKYKRHKGSPAILG 80 (1079)
T ss_pred ceeeecccccCcCCCCCEEEEeccCCCccccchhh----hhhhcCCccCCccCCchhhhcCCCCcCc
Confidence 5789999861 58999999999999996 3457888899999866555555555533
No 72
>PF03380 DUF282: Caenorhabditis protein of unknown function, DUF282; InterPro: IPR005044 This family consists of proteins of unknown function found in Caenorhabditis species.
Probab=32.40 E-value=31 Score=21.61 Aligned_cols=23 Identities=26% Similarity=0.793 Sum_probs=17.9
Q ss_pred eCCCCCCCcccccccCccccccCCCCCe
Q 041905 29 CDHLRCPKVYHSECVDKDESFLVAETKW 56 (191)
Q Consensus 29 Cd~~~CpkayH~~Cl~~~~~~~~~~g~W 56 (191)
|. .|+++|-..|.+... ++...|
T Consensus 2 Cs--~C~~iYdt~CqG~g~---Ps~~~w 24 (39)
T PF03380_consen 2 CS--VCSKIYDTTCQGFGI---PSLSDW 24 (39)
T ss_pred Cc--ccccccCCCCccCCC---CCcccc
Confidence 66 899999999999874 334456
No 73
>PLN02915 cellulose synthase A [UDP-forming], catalytic subunit
Probab=32.05 E-value=33 Score=35.56 Aligned_cols=58 Identities=22% Similarity=0.402 Sum_probs=44.0
Q ss_pred eeecCcccccccCCc--------eeeeccCCCCCCCcccCccccccccCCcccCcCcHHHHHHHhhhccc
Q 041905 56 WTCNWHYCHVCGKAS--------KFYCLCCPSAVCKTCLYDAQFAVVKRNKGFCNSCLELAWLIETNKDV 117 (191)
Q Consensus 56 W~Cp~h~C~~C~~~~--------~~~C~~Cp~syh~~Cl~~~~l~~i~~~~w~C~~C~~~~~~iek~~~~ 117 (191)
=.|+...|.+|++.- .+.|.-|....|..|.. .+..++.-.||+|...+........+
T Consensus 11 ~~~~~~~c~iCGd~vg~~~~Ge~FVAC~eC~fpvCr~cye----ye~~~g~~~cp~c~t~y~~~~~~~~~ 76 (1044)
T PLN02915 11 QSADAKTCRVCGDEVGVKEDGQPFVACHVCGFPVCKPCYE----YERSEGNQCCPQCNTRYKRHKGCPRV 76 (1044)
T ss_pred cCCCcchhhccccccCcCCCCCEEEEeccCCCccccchhh----hhhhcCCccCCccCCchhhhcCCCCc
Confidence 457788999999861 58999999999999996 34578888999998555544434333
No 74
>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=31.41 E-value=27 Score=21.43 Aligned_cols=31 Identities=32% Similarity=0.720 Sum_probs=25.1
Q ss_pred ccccceecc--cC---ceEeeCCCCCCCcccccccCcc
Q 041905 14 ENWCYVCKD--GG---KLRLCDHLRCPKVYHSECVDKD 46 (191)
Q Consensus 14 ed~C~vC~d--gG---eLi~Cd~~~CpkayH~~Cl~~~ 46 (191)
..+|.+|+. .| .-+.|+ .|..+.|..|...-
T Consensus 11 ~~~C~~C~~~i~~~~~~~~~C~--~C~~~~H~~C~~~v 46 (50)
T cd00029 11 PTFCDVCRKSIWGLFKQGLRCS--WCKVKCHKKCADKV 46 (50)
T ss_pred CCChhhcchhhhccccceeEcC--CCCCchhhhhhccC
Confidence 467999986 22 678899 99999999998764
No 75
>PLN02436 cellulose synthase A
Probab=31.19 E-value=33 Score=35.73 Aligned_cols=73 Identities=18% Similarity=0.364 Sum_probs=48.4
Q ss_pred ecCcccccccCCc--------eeeeccCCCCCCCcccCccccccccCCcccCcCcHHHHHHHhhhccccCCCCccCCCCC
Q 041905 58 CNWHYCHVCGKAS--------KFYCLCCPSAVCKTCLYDAQFAVVKRNKGFCNSCLELAWLIETNKDVKSVGCNIDVNHP 129 (191)
Q Consensus 58 Cp~h~C~~C~~~~--------~~~C~~Cp~syh~~Cl~~~~l~~i~~~~w~C~~C~~~~~~iek~~~~~~~~~~vd~~d~ 129 (191)
...+.|.+|++.- ...|..|....|..|.. .+..++.-.||+|...+........+..+.+..+++|-
T Consensus 34 ~~~~iCqICGD~Vg~t~dGe~FVACn~C~fpvCr~Cye----yer~eg~~~Cpqckt~Y~r~kgs~~~~~d~ee~~~dd~ 109 (1094)
T PLN02436 34 LSGQTCQICGDEIELTVDGEPFVACNECAFPVCRPCYE----YERREGNQACPQCKTRYKRIKGSPRVEGDEEEDDIDDL 109 (1094)
T ss_pred cCCccccccccccCcCCCCCEEEeeccCCCccccchhh----hhhhcCCccCcccCCchhhccCCCCcCCccccccchhh
Confidence 3456899999861 48999999999999996 34577888999998555544444444333334444443
Q ss_pred CccccC
Q 041905 130 KTTDYF 135 (191)
Q Consensus 130 ~~~E~~ 135 (191)
+.||-
T Consensus 110 -e~ef~ 114 (1094)
T PLN02436 110 -ENEFD 114 (1094)
T ss_pred -hhhhc
Confidence 24443
No 76
>PF12678 zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This domain constitutes a conserved region found in proteins that participate in diverse functions relevant to chromosome metabolism and cell cycle control [].The domain contains 8 cysteine/ histidine residues which are proposed to be the conserved residues involved in zinc binding.; PDB: 4A0C_D 4A0L_I 4A0K_B 2ECL_A 1LDK_C 3RTR_F 3DQV_Y 1U6G_B 1LDJ_B 2HYE_D ....
Probab=31.11 E-value=12 Score=26.01 Aligned_cols=35 Identities=17% Similarity=0.602 Sum_probs=22.3
Q ss_pred cccccccceeccc-----------C-c-eEeeCCCCCCCcccccccCccc
Q 041905 11 EISENWCYVCKDG-----------G-K-LRLCDHLRCPKVYHSECVDKDE 47 (191)
Q Consensus 11 ~~~ed~C~vC~dg-----------G-e-Li~Cd~~~CpkayH~~Cl~~~~ 47 (191)
+..++.|.||... + + .+.=. .|.-+||..||..=+
T Consensus 16 ~~~~d~C~IC~~~l~~~~~~~~~~~~~~~i~~~--~C~H~FH~~Ci~~Wl 63 (73)
T PF12678_consen 16 DIADDNCAICREPLEDPCPECQAPQDECPIVWG--PCGHIFHFHCISQWL 63 (73)
T ss_dssp SSCCSBETTTTSBTTSTTCCHHHCTTTS-EEEE--TTSEEEEHHHHHHHH
T ss_pred cCcCCcccccChhhhChhhhhcCCccccceEec--ccCCCEEHHHHHHHH
Confidence 3446679999852 2 1 22223 699999999997543
No 77
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=30.63 E-value=20 Score=26.18 Aligned_cols=33 Identities=27% Similarity=0.616 Sum_probs=24.3
Q ss_pred cccccceecc-----------cCc---eEeeCCCCCCCcccccccCcccc
Q 041905 13 SENWCYVCKD-----------GGK---LRLCDHLRCPKVYHSECVDKDES 48 (191)
Q Consensus 13 ~ed~C~vC~d-----------gGe---Li~Cd~~~CpkayH~~Cl~~~~~ 48 (191)
+++.|.||+. +|+ |+.+ .|.-+||..|+..=++
T Consensus 20 ~dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g---~C~H~FH~hCI~kWl~ 66 (85)
T PF12861_consen 20 NDDVCGICRMPFDGCCPDCKFPGDDCPLVWG---KCSHNFHMHCILKWLS 66 (85)
T ss_pred CCCceeeEecccccCCCCccCCCCCCceeec---cCccHHHHHHHHHHHc
Confidence 4788888874 232 5555 6999999999987654
No 78
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=28.64 E-value=30 Score=31.52 Aligned_cols=41 Identities=22% Similarity=0.598 Sum_probs=31.1
Q ss_pred ccccccCC----ceeeeccCCCCCCCcccCccccccccCCcccCcCcHH
Q 041905 62 YCHVCGKA----SKFYCLCCPSAVCKTCLYDAQFAVVKRNKGFCNSCLE 106 (191)
Q Consensus 62 ~C~~C~~~----~~~~C~~Cp~syh~~Cl~~~~l~~i~~~~w~C~~C~~ 106 (191)
.|.+|-+. ..++=.-|.-.||..|++ += +-+.+-+||.|..
T Consensus 231 ~CaIClEdY~~GdklRiLPC~H~FH~~CID-pW---L~~~r~~CPvCK~ 275 (348)
T KOG4628|consen 231 TCAICLEDYEKGDKLRILPCSHKFHVNCID-PW---LTQTRTFCPVCKR 275 (348)
T ss_pred eEEEeecccccCCeeeEecCCCchhhccch-hh---HhhcCccCCCCCC
Confidence 78999654 466668999999999999 42 2334668999964
No 79
>PLN02189 cellulose synthase
Probab=28.60 E-value=38 Score=35.12 Aligned_cols=66 Identities=18% Similarity=0.395 Sum_probs=46.0
Q ss_pred cCcccccccCCc--------eeeeccCCCCCCCcccCccccccccCCcccCcCcHHHHHHHhhhccccCCCCccCCCC
Q 041905 59 NWHYCHVCGKAS--------KFYCLCCPSAVCKTCLYDAQFAVVKRNKGFCNSCLELAWLIETNKDVKSVGCNIDVNH 128 (191)
Q Consensus 59 p~h~C~~C~~~~--------~~~C~~Cp~syh~~Cl~~~~l~~i~~~~w~C~~C~~~~~~iek~~~~~~~~~~vd~~d 128 (191)
..+.|.+|++.- ...|..|....|..|.. .+..++.-.||+|...+........+..+.+..+++|
T Consensus 33 ~~~~C~iCgd~vg~~~~g~~fvaC~~C~fpvCr~Cye----yer~eg~q~CpqCkt~Y~r~kgs~~v~gd~ee~~~dd 106 (1040)
T PLN02189 33 DGQVCEICGDEIGLTVDGDLFVACNECGFPVCRPCYE----YERREGTQNCPQCKTRYKRLKGSPRVEGDDDEEDIDD 106 (1040)
T ss_pred cCccccccccccCcCCCCCEEEeeccCCCccccchhh----hhhhcCCccCcccCCchhhccCCCCcCCccccccchh
Confidence 346889999761 58899999999999996 3457888899999865555544444433334444544
No 80
>COG1997 RPL43A Ribosomal protein L37AE/L43A [Translation, ribosomal structure and biogenesis]
Probab=28.31 E-value=38 Score=24.96 Aligned_cols=27 Identities=22% Similarity=0.640 Sum_probs=19.0
Q ss_pred cccccccCCc-------eeeeccCCCCCCCcccC
Q 041905 61 HYCHVCGKAS-------KFYCLCCPSAVCKTCLY 87 (191)
Q Consensus 61 h~C~~C~~~~-------~~~C~~Cp~syh~~Cl~ 87 (191)
|.|..|++.. ++.|..|...|=...-.
T Consensus 36 ~~Cp~C~~~~VkR~a~GIW~C~kCg~~fAGgay~ 69 (89)
T COG1997 36 HVCPFCGRTTVKRIATGIWKCRKCGAKFAGGAYT 69 (89)
T ss_pred CcCCCCCCcceeeeccCeEEcCCCCCeecccccc
Confidence 6778888763 57788887777665554
No 81
>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=28.11 E-value=57 Score=18.64 Aligned_cols=26 Identities=35% Similarity=0.979 Sum_probs=20.0
Q ss_pred ccceecc--cCc-eEeeCCCCCCCccccccc
Q 041905 16 WCYVCKD--GGK-LRLCDHLRCPKVYHSECV 43 (191)
Q Consensus 16 ~C~vC~d--gGe-Li~Cd~~~CpkayH~~Cl 43 (191)
.|.+|+. .|. .-.|+ .|.-+.|+.|.
T Consensus 2 ~C~~C~~~~~~~~~Y~C~--~c~f~lh~~Ca 30 (30)
T PF03107_consen 2 WCDVCRRKIDGFYFYHCS--ECCFTLHVRCA 30 (30)
T ss_pred CCCCCCCCcCCCEeEEeC--CCCCeEcCccC
Confidence 5788876 355 78898 88888888874
No 82
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=27.99 E-value=58 Score=29.57 Aligned_cols=69 Identities=19% Similarity=0.317 Sum_probs=34.8
Q ss_pred cccccCcccc----ccCCCCCeeec------------CcccccccCCce--eeeccCCCCCCCcccCccccccccCCccc
Q 041905 39 HSECVDKDES----FLVAETKWTCN------------WHYCHVCGKASK--FYCLCCPSAVCKTCLYDAQFAVVKRNKGF 100 (191)
Q Consensus 39 H~~Cl~~~~~----~~~~~g~W~Cp------------~h~C~~C~~~~~--~~C~~Cp~syh~~Cl~~~~l~~i~~~~w~ 100 (191)
|..|++.+.- .+.+.-.|.=+ -|+|..|...-+ -+=.-|.-.||.+|... .+ .-+
T Consensus 53 ~~~~~~~p~f~~~~r~pphl~w~~~V~~~gek~l~p~VHfCd~Cd~PI~IYGRmIPCkHvFCl~CAr~---~~----dK~ 125 (389)
T KOG2932|consen 53 HLVLADLPVFKGIGRVPPHLTWIKPVGRRGEKQLGPRVHFCDRCDFPIAIYGRMIPCKHVFCLECARS---DS----DKI 125 (389)
T ss_pred hhhhcCCchhcccccCCCceeeeeecccccccccCcceEeecccCCcceeeecccccchhhhhhhhhc---Cc----ccc
Confidence 5666666542 12344567765 488999988641 11122334455555441 11 234
Q ss_pred CcCcHHHHHHHhhh
Q 041905 101 CNSCLELAWLIETN 114 (191)
Q Consensus 101 C~~C~~~~~~iek~ 114 (191)
|+.|..-+++||.+
T Consensus 126 Cp~C~d~VqrIeq~ 139 (389)
T KOG2932|consen 126 CPLCDDRVQRIEQI 139 (389)
T ss_pred CcCcccHHHHHHHh
Confidence 55555555555544
No 83
>KOG3799 consensus Rab3 effector RIM1 and related proteins, contain Rab3a binding domain [Intracellular trafficking, secretion, and vesicular transport]
Probab=27.53 E-value=41 Score=26.97 Aligned_cols=55 Identities=18% Similarity=0.452 Sum_probs=36.4
Q ss_pred ccccccCCc-----eeeeccCCCCCCCcccCccccccccCCcccCcCcHHHHHHHhhhccc
Q 041905 62 YCHVCGKAS-----KFYCLCCPSAVCKTCLYDAQFAVVKRNKGFCNSCLELAWLIETNKDV 117 (191)
Q Consensus 62 ~C~~C~~~~-----~~~C~~Cp~syh~~Cl~~~~l~~i~~~~w~C~~C~~~~~~iek~~~~ 117 (191)
+|.+|.++. -..|..|-.-+|..|-....+.+ ..-.|.|.-|.+-...|.+.-.|
T Consensus 67 tC~IC~KTKFADG~GH~C~YCq~r~CARCGGrv~lrs-NKv~wvcnlc~k~q~il~ksg~w 126 (169)
T KOG3799|consen 67 TCGICHKTKFADGCGHNCSYCQTRFCARCGGRVSLRS-NKVMWVCNLCRKQQEILTKSGAW 126 (169)
T ss_pred chhhhhhcccccccCcccchhhhhHHHhcCCeeeecc-CceEEeccCCcHHHHHHHhcchH
Confidence 566776653 25677777777777776332222 23479999998877777776666
No 84
>PF04236 Transp_Tc5_C: Tc5 transposase C-terminal domain; InterPro: IPR007350 This domain corresponds to a C-terminal cysteine rich region that probably binds to a metal ion and could be DNA-binding. It is found in association with the DDE superfamily (IPR004875 from INTERPRO) and the Tc5 transposase family (IPR004906 from INTERPRO). More information about these proteins can be found at Protein of the Month: Transposase [].
Probab=26.98 E-value=47 Score=22.83 Aligned_cols=27 Identities=22% Similarity=0.674 Sum_probs=22.6
Q ss_pred ccccc--ccCCceeeeccCCCCCCCcccC
Q 041905 61 HYCHV--CGKASKFYCLCCPSAVCKTCLY 87 (191)
Q Consensus 61 h~C~~--C~~~~~~~C~~Cp~syh~~Cl~ 87 (191)
..|.+ |+..+.++|..|.+.++..++-
T Consensus 28 ~~C~~~gC~~~s~I~C~~Ckk~~Cf~Hfi 56 (63)
T PF04236_consen 28 GDCDITGCNNTSFIRCAYCKKSLCFNHFI 56 (63)
T ss_pred CcCCCCCCCCcCEEEccccCCccccccee
Confidence 46777 9999999999999998877654
No 85
>cd00730 rubredoxin Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are believed to be involved in electron transfer.
Probab=26.72 E-value=32 Score=22.51 Aligned_cols=35 Identities=14% Similarity=0.170 Sum_probs=20.1
Q ss_pred eeeccCCCCCCCcccC-------ccccccccCCcccCcCcHHH
Q 041905 72 FYCLCCPSAVCKTCLY-------DAQFAVVKRNKGFCNSCLEL 107 (191)
Q Consensus 72 ~~C~~Cp~syh~~Cl~-------~~~l~~i~~~~w~C~~C~~~ 107 (191)
+.|..|..-|...=-. +.+|..+|. .|.||.|..-
T Consensus 2 y~C~~CgyiYd~~~Gd~~~~i~pGt~f~~Lp~-~w~CP~C~a~ 43 (50)
T cd00730 2 YECRICGYIYDPAEGDPDEGIPPGTPFEDLPD-DWVCPVCGAG 43 (50)
T ss_pred cCCCCCCeEECCCCCCcccCcCCCCCHhHCCC-CCCCCCCCCc
Confidence 3566666666643111 124555544 8999999743
No 86
>PF05191 ADK_lid: Adenylate kinase, active site lid; InterPro: IPR007862 Adenylate kinases (ADK; 2.7.4.3 from EC) are phosphotransferases that catalyse the Mg-dependent reversible conversion of ATP and AMP to two molecules of ADP, an essential reaction for many processes in living cells. In large variants of adenylate kinase, the AMP and ATP substrates are buried in a domain that undergoes conformational changes from an open to a closed state when bound to substrate; the ligand is then contained within a highly specific environment required for catalysis. Adenylate kinase is a 3-domain protein consisting of a large central CORE domain flanked by a LID domain on one side and the AMP-binding NMPbind domain on the other []. The LID domain binds ATP and covers the phosphates at the active site. The substrates first bind the CORE domain, followed by closure of the active site by the LID and NMPbind domains. Comparisons of adenylate kinases have revealed a particular divergence in the active site lid. In some organisms, particularly the Gram-positive bacteria, residues in the lid domain have been mutated to cysteines and these cysteine residues (two CX(n)C motifs) are responsible for the binding of a zinc ion. The bound zinc ion in the lid domain is clearly structurally homologous to Zinc-finger domains. However, it is unclear whether the adenylate kinase lid is a novel zinc-finger DNA/RNA binding domain, or that the lid bound zinc serves a purely structural function [].; GO: 0004017 adenylate kinase activity; PDB: 3BE4_A 2OSB_B 2ORI_A 2EU8_A 3DL0_A 1P3J_A 2QAJ_A 2OO7_A 2P3S_A 3DKV_A ....
Probab=26.12 E-value=36 Score=20.65 Aligned_cols=27 Identities=19% Similarity=0.364 Sum_probs=18.2
Q ss_pred eeeccCCCCCCCcccCccccccccCCcccCcCcH
Q 041905 72 FYCLCCPSAVCKTCLYDAQFAVVKRNKGFCNSCL 105 (191)
Q Consensus 72 ~~C~~Cp~syh~~Cl~~~~l~~i~~~~w~C~~C~ 105 (191)
..|..|.+.||..=.+ |...+.|..|.
T Consensus 2 r~C~~Cg~~Yh~~~~p-------P~~~~~Cd~cg 28 (36)
T PF05191_consen 2 RICPKCGRIYHIEFNP-------PKVEGVCDNCG 28 (36)
T ss_dssp EEETTTTEEEETTTB---------SSTTBCTTTT
T ss_pred cCcCCCCCccccccCC-------CCCCCccCCCC
Confidence 3578889999965333 56677888775
No 87
>smart00547 ZnF_RBZ Zinc finger domain. Zinc finger domain in Ran-binding proteins (RanBPs), and other proteins. In RanBPs, this domain binds RanGDP.
Probab=26.10 E-value=39 Score=18.29 Aligned_cols=7 Identities=29% Similarity=0.976 Sum_probs=4.7
Q ss_pred CCeeecC
Q 041905 54 TKWTCNW 60 (191)
Q Consensus 54 g~W~Cp~ 60 (191)
++|.|+.
T Consensus 1 g~W~C~~ 7 (26)
T smart00547 1 GDWECPA 7 (26)
T ss_pred CcccCCC
Confidence 4688863
No 88
>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=25.30 E-value=24 Score=21.42 Aligned_cols=32 Identities=28% Similarity=0.674 Sum_probs=25.1
Q ss_pred cccccceeccc--C--ceEeeCCCCCCCcccccccCcc
Q 041905 13 SENWCYVCKDG--G--KLRLCDHLRCPKVYHSECVDKD 46 (191)
Q Consensus 13 ~ed~C~vC~dg--G--eLi~Cd~~~CpkayH~~Cl~~~ 46 (191)
...+|.+|++. | .-+.|. .|..+.|..|+..-
T Consensus 10 ~~~~C~~C~~~i~~~~~~~~C~--~C~~~~H~~C~~~v 45 (49)
T smart00109 10 KPTKCCVCRKSIWGSFQGLRCS--WCKVKCHKKCAEKV 45 (49)
T ss_pred CCCCccccccccCcCCCCcCCC--CCCchHHHHHHhhc
Confidence 35679999862 2 467899 99999999998764
No 89
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=25.19 E-value=12 Score=23.23 Aligned_cols=29 Identities=24% Similarity=0.584 Sum_probs=13.3
Q ss_pred ccCCCCCCCcccCccccccccCCcccCcCc
Q 041905 75 LCCPSAVCKTCLYDAQFAVVKRNKGFCNSC 104 (191)
Q Consensus 75 ~~Cp~syh~~Cl~~~~l~~i~~~~w~C~~C 104 (191)
..|+-+|+..||. .-..........||.|
T Consensus 14 l~CGH~FC~~Cl~-~~~~~~~~~~~~CP~C 42 (42)
T PF15227_consen 14 LPCGHSFCRSCLE-RLWKEPSGSGFSCPEC 42 (42)
T ss_dssp -SSSSEEEHHHHH-HHHCCSSSST---SSS
T ss_pred cCCcCHHHHHHHH-HHHHccCCcCCCCcCC
Confidence 3567777777777 2222222223667765
No 90
>KOG3576 consensus Ovo and related transcription factors [Transcription]
Probab=25.16 E-value=14 Score=31.63 Aligned_cols=52 Identities=27% Similarity=0.688 Sum_probs=35.0
Q ss_pred cCceEeeCCCCCCCcc--------cccccCccccccCCCCCeeecCcccccccCC---------------c--eeeeccC
Q 041905 23 GGKLRLCDHLRCPKVY--------HSECVDKDESFLVAETKWTCNWHYCHVCGKA---------------S--KFYCLCC 77 (191)
Q Consensus 23 gGeLi~Cd~~~Cpkay--------H~~Cl~~~~~~~~~~g~W~Cp~h~C~~C~~~---------------~--~~~C~~C 77 (191)
++++..|+ .|.|+| |+.|...-. +|.|..|+++ + -+.|..|
T Consensus 114 d~d~ftCr--vCgK~F~lQRmlnrh~kch~~vk------------r~lct~cgkgfndtfdlkrh~rthtgvrpykc~~c 179 (267)
T KOG3576|consen 114 DQDSFTCR--VCGKKFGLQRMLNRHLKCHSDVK------------RHLCTFCGKGFNDTFDLKRHTRTHTGVRPYKCSLC 179 (267)
T ss_pred CCCeeeee--hhhhhhhHHHHHHHHhhhccHHH------------HHHHhhccCcccchhhhhhhhccccCccccchhhh
Confidence 36778888 888887 444444322 3577888775 1 2788888
Q ss_pred CCCCCCcccCc
Q 041905 78 PSAVCKTCLYD 88 (191)
Q Consensus 78 p~syh~~Cl~~ 88 (191)
.+||-..|.-+
T Consensus 180 ~kaftqrcsle 190 (267)
T KOG3576|consen 180 EKAFTQRCSLE 190 (267)
T ss_pred hHHHHhhccHH
Confidence 88888887653
No 91
>smart00400 ZnF_CHCC zinc finger.
Probab=25.10 E-value=21 Score=23.19 Aligned_cols=15 Identities=27% Similarity=0.649 Sum_probs=11.7
Q ss_pred cccccceecccCceE
Q 041905 13 SENWCYVCKDGGKLR 27 (191)
Q Consensus 13 ~ed~C~vC~dgGeLi 27 (191)
+--+|+.|+.||++|
T Consensus 22 n~~~Cf~cg~gGd~i 36 (55)
T smart00400 22 QFFHCFGCGAGGNVI 36 (55)
T ss_pred CEEEEeCCCCCCCHH
Confidence 345899999999765
No 92
>PLN02400 cellulose synthase
Probab=24.81 E-value=44 Score=34.84 Aligned_cols=65 Identities=22% Similarity=0.394 Sum_probs=44.9
Q ss_pred CcccccccCCc--------eeeeccCCCCCCCcccCccccccccCCcccCcCcHHHHHHHhhhccccCCCCccCCCC
Q 041905 60 WHYCHVCGKAS--------KFYCLCCPSAVCKTCLYDAQFAVVKRNKGFCNSCLELAWLIETNKDVKSVGCNIDVNH 128 (191)
Q Consensus 60 ~h~C~~C~~~~--------~~~C~~Cp~syh~~Cl~~~~l~~i~~~~w~C~~C~~~~~~iek~~~~~~~~~~vd~~d 128 (191)
.+.|.+|++.- ...|.-|....|..|.. .+.++|.-.||+|..-+........+.-+.+.-+++|
T Consensus 36 gqiCqICGD~VG~t~dGe~FVAC~eCaFPVCRpCYE----YERkeGnq~CPQCkTrYkR~KgsprV~GDeeedd~DD 108 (1085)
T PLN02400 36 GQICQICGDDVGVTETGDVFVACNECAFPVCRPCYE----YERKDGTQCCPQCKTRYRRHKGSPRVEGDEDEDDVDD 108 (1085)
T ss_pred CceeeecccccCcCCCCCEEEEEccCCCccccchhh----eecccCCccCcccCCccccccCCCCCCcccccccchh
Confidence 45889999861 58999999999999997 3457888899999754444444444433333344444
No 93
>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=24.65 E-value=26 Score=22.51 Aligned_cols=32 Identities=28% Similarity=0.558 Sum_probs=19.6
Q ss_pred ccceecc---cCceE--eeCCCCCCCcccccccCccc
Q 041905 16 WCYVCKD---GGKLR--LCDHLRCPKVYHSECVDKDE 47 (191)
Q Consensus 16 ~C~vC~d---gGeLi--~Cd~~~CpkayH~~Cl~~~~ 47 (191)
+|.||.+ +++.+ -|.-++--+.+|..||..=.
T Consensus 1 ~CrIC~~~~~~~~~l~~PC~C~G~~~~vH~~Cl~~W~ 37 (49)
T smart00744 1 ICRICHDEGDEGDPLVSPCRCKGSLKYVHQECLERWI 37 (49)
T ss_pred CccCCCCCCCCCCeeEeccccCCchhHHHHHHHHHHH
Confidence 4788886 33322 34322334789999998754
No 94
>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=24.57 E-value=72 Score=30.07 Aligned_cols=61 Identities=20% Similarity=0.334 Sum_probs=42.4
Q ss_pred eeecCcccccccCCc-------eeeeccCCCCCCCcccCcccccc----c------cCCcccCcCcH---HHHHHHhhhc
Q 041905 56 WTCNWHYCHVCGKAS-------KFYCLCCPSAVCKTCLYDAQFAV----V------KRNKGFCNSCL---ELAWLIETNK 115 (191)
Q Consensus 56 W~Cp~h~C~~C~~~~-------~~~C~~Cp~syh~~Cl~~~~l~~----i------~~~~w~C~~C~---~~~~~iek~~ 115 (191)
=||..+.|.+|.+-. .+.|+.|...-|.+|--...+.. + ......|..|. .|.+.+.+.+
T Consensus 124 gFC~~C~C~iC~kfD~~~n~~~Wi~Cd~CgH~cH~dCALr~~~i~~G~s~~g~~g~~d~~f~C~~C~~~seLlG~vk~vf 203 (446)
T PF07227_consen 124 GFCRRCMCCICSKFDDNKNTCSWIGCDVCGHWCHLDCALRHELIGTGPSVKGSIGTLDMQFHCRACGKTSELLGFVKKVF 203 (446)
T ss_pred CccccCCccccCCcccCCCCeeEEeccCCCceehhhhhcccccccCCccCCCCCccCceEEEccCCCChhhHHHHHHHHH
Confidence 458888999997642 69999999999999976433221 1 12356788886 5666666665
Q ss_pred c
Q 041905 116 D 116 (191)
Q Consensus 116 ~ 116 (191)
.
T Consensus 204 ~ 204 (446)
T PF07227_consen 204 Q 204 (446)
T ss_pred H
Confidence 4
No 95
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=23.28 E-value=19 Score=26.01 Aligned_cols=50 Identities=22% Similarity=0.515 Sum_probs=22.1
Q ss_pred cccccccCCc--------eeeeccCCCCCCCcccCccccccccCCcccCcCcHHHHHHHhhh
Q 041905 61 HYCHVCGKAS--------KFYCLCCPSAVCKTCLYDAQFAVVKRNKGFCNSCLELAWLIETN 114 (191)
Q Consensus 61 h~C~~C~~~~--------~~~C~~Cp~syh~~Cl~~~~l~~i~~~~w~C~~C~~~~~~iek~ 114 (191)
.+|.+|++.- ...|.-|....+..|.. .+...+.-.|++|......+...
T Consensus 10 qiCqiCGD~VGl~~~Ge~FVAC~eC~fPvCr~CyE----YErkeg~q~CpqCkt~ykr~kgs 67 (80)
T PF14569_consen 10 QICQICGDDVGLTENGEVFVACHECAFPVCRPCYE----YERKEGNQVCPQCKTRYKRHKGS 67 (80)
T ss_dssp -B-SSS--B--B-SSSSB--S-SSS-----HHHHH----HHHHTS-SB-TTT--B----TT-
T ss_pred cccccccCccccCCCCCEEEEEcccCCccchhHHH----HHhhcCcccccccCCCcccccCC
Confidence 4789998752 48899999988888887 45578888999997544444433
No 96
>PHA02929 N1R/p28-like protein; Provisional
Probab=22.02 E-value=28 Score=29.96 Aligned_cols=45 Identities=22% Similarity=0.588 Sum_probs=27.9
Q ss_pred cccccceecccC---c-----eEeeCCCCCCCcccccccCccccccCCCCCeeecCcccccccCC
Q 041905 13 SENWCYVCKDGG---K-----LRLCDHLRCPKVYHSECVDKDESFLVAETKWTCNWHYCHVCGKA 69 (191)
Q Consensus 13 ~ed~C~vC~dgG---e-----Li~Cd~~~CpkayH~~Cl~~~~~~~~~~g~W~Cp~h~C~~C~~~ 69 (191)
.+..|.||.+.- + +..=. .|.-+||..|+..-+. ....|.+|+..
T Consensus 173 ~~~eC~ICle~~~~~~~~~~~~~vl~--~C~H~FC~~CI~~Wl~----------~~~tCPlCR~~ 225 (238)
T PHA02929 173 KDKECAICMEKVYDKEIKNMYFGILS--NCNHVFCIECIDIWKK----------EKNTCPVCRTP 225 (238)
T ss_pred CCCCCccCCcccccCccccccceecC--CCCCcccHHHHHHHHh----------cCCCCCCCCCE
Confidence 357899998751 1 11112 6888999999976432 12356677654
No 97
>KOG1671 consensus Ubiquinol cytochrome c reductase, subunit RIP1 [Energy production and conversion]
Probab=21.73 E-value=50 Score=28.00 Aligned_cols=21 Identities=24% Similarity=0.417 Sum_probs=15.7
Q ss_pred cccccCccccccCCCCCeeecCc
Q 041905 39 HSECVDKDESFLVAETKWTCNWH 61 (191)
Q Consensus 39 H~~Cl~~~~~~~~~~g~W~Cp~h 61 (191)
|+.|+-+... -..|.|+||.|
T Consensus 155 hLGCVp~~~A--Gd~gg~~CPCH 175 (210)
T KOG1671|consen 155 HLGCVPIANA--GDYGGYYCPCH 175 (210)
T ss_pred cccccccccc--cccCceecccc
Confidence 9999988642 35678999954
No 98
>COG1645 Uncharacterized Zn-finger containing protein [General function prediction only]
Probab=20.81 E-value=50 Score=26.05 Aligned_cols=16 Identities=25% Similarity=0.411 Sum_probs=12.4
Q ss_pred ccccccCCcccCcCcHH
Q 041905 90 QFAVVKRNKGFCNSCLE 106 (191)
Q Consensus 90 ~l~~i~~~~w~C~~C~~ 106 (191)
||.. ..|.-|||.|..
T Consensus 37 PLF~-KdG~v~CPvC~~ 52 (131)
T COG1645 37 PLFR-KDGEVFCPVCGY 52 (131)
T ss_pred ccee-eCCeEECCCCCc
Confidence 4444 889999999963
No 99
>PF13842 Tnp_zf-ribbon_2: DDE_Tnp_1-like zinc-ribbon
Probab=20.70 E-value=82 Score=18.52 Aligned_cols=21 Identities=33% Similarity=1.072 Sum_probs=11.9
Q ss_pred cccccCC-----ceeeeccCCCCCCC
Q 041905 63 CHVCGKA-----SKFYCLCCPSAVCK 83 (191)
Q Consensus 63 C~~C~~~-----~~~~C~~Cp~syh~ 83 (191)
|.+|... +.+.|..|+...|.
T Consensus 3 C~vC~~~k~rk~T~~~C~~C~v~lC~ 28 (32)
T PF13842_consen 3 CKVCSKKKRRKDTRYMCSKCDVPLCV 28 (32)
T ss_pred CeECCcCCccceeEEEccCCCCcccC
Confidence 4555444 35777777655443
No 100
>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=20.20 E-value=60 Score=24.36 Aligned_cols=30 Identities=17% Similarity=0.519 Sum_probs=24.2
Q ss_pred cccccceecc-----cCceEeeCCCCCCCcccccccC
Q 041905 13 SENWCYVCKD-----GGKLRLCDHLRCPKVYHSECVD 44 (191)
Q Consensus 13 ~ed~C~vC~d-----gGeLi~Cd~~~CpkayH~~Cl~ 44 (191)
.-|.|.+|++ .|+-|.|. .|...+++.=++
T Consensus 34 a~daCeiC~~~GY~q~g~~lvC~--~C~~~~~~~~ig 68 (102)
T PF10080_consen 34 AFDACEICGPKGYYQEGDQLVCK--NCGVRFNLPTIG 68 (102)
T ss_pred EEEeccccCCCceEEECCEEEEe--cCCCEEehhhcc
Confidence 4588999975 36788899 999999876666
Done!