Query psy8311
Match_columns 254
No_of_seqs 268 out of 1490
Neff 7.9
Searched_HMMs 46136
Date Sat Aug 17 00:31:02 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy8311.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/8311hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0696|consensus 99.9 6.5E-27 1.4E-31 210.3 -0.3 128 47-182 29-156 (683)
2 KOG4236|consensus 99.9 2.2E-25 4.7E-30 205.3 1.4 179 50-248 132-317 (888)
3 KOG0694|consensus 99.8 4E-21 8.6E-26 181.7 1.3 135 47-183 142-277 (694)
4 KOG0696|consensus 99.8 5.7E-21 1.2E-25 172.2 1.4 117 134-251 44-163 (683)
5 KOG0695|consensus 99.6 7.5E-17 1.6E-21 142.6 -1.3 83 30-117 102-184 (593)
6 PF00130 C1_1: Phorbol esters/ 99.4 1.9E-13 4E-18 90.9 4.4 52 64-115 1-52 (53)
7 KOG4236|consensus 99.3 3.6E-13 7.7E-18 125.2 2.6 56 62-117 266-321 (888)
8 KOG0694|consensus 99.3 8E-14 1.7E-18 132.5 -1.8 110 135-246 158-278 (694)
9 PF00130 C1_1: Phorbol esters/ 99.3 2.5E-12 5.3E-17 85.4 3.2 51 199-249 1-51 (53)
10 cd00029 C1 Protein kinase C co 99.2 4E-12 8.6E-17 83.1 2.1 50 64-113 1-50 (50)
11 smart00109 C1 Protein kinase C 99.1 4.4E-11 9.6E-16 77.6 1.4 49 64-113 1-49 (49)
12 cd00029 C1 Protein kinase C co 99.0 9.8E-11 2.1E-15 76.4 2.4 49 199-247 1-49 (50)
13 smart00109 C1 Protein kinase C 98.8 1.1E-09 2.3E-14 71.0 1.2 48 199-247 1-48 (49)
14 KOG1169|consensus 98.6 5.6E-09 1.2E-13 99.7 -1.9 180 62-251 32-219 (634)
15 KOG1011|consensus 98.4 2.1E-08 4.5E-13 95.2 -2.8 58 62-119 171-228 (1283)
16 KOG1011|consensus 98.3 8.5E-08 1.8E-12 91.1 -1.5 57 192-248 166-222 (1283)
17 KOG0695|consensus 98.1 7E-07 1.5E-11 79.9 0.3 53 196-248 128-180 (593)
18 KOG4239|consensus 98.0 6.5E-07 1.4E-11 78.4 -0.8 60 58-117 46-105 (348)
19 KOG1169|consensus 97.9 3E-06 6.6E-11 81.3 0.5 139 96-247 3-150 (634)
20 KOG2996|consensus 97.5 3.5E-05 7.5E-10 72.9 0.8 53 60-113 520-572 (865)
21 KOG4239|consensus 97.2 3.7E-05 8.1E-10 67.6 -2.1 51 196-246 49-99 (348)
22 KOG2996|consensus 97.2 3.4E-05 7.4E-10 73.0 -2.9 71 176-246 501-571 (865)
23 KOG3564|consensus 97.1 0.00012 2.5E-09 68.0 -0.4 102 62-173 285-387 (604)
24 KOG1170|consensus 96.8 0.00031 6.8E-09 68.8 0.3 56 196-251 105-161 (1099)
25 PF03107 C1_2: C1 domain; Int 96.2 0.0036 7.7E-08 36.3 1.9 29 76-106 2-30 (30)
26 KOG0193|consensus 96.0 0.0035 7.5E-08 60.3 1.8 53 60-115 175-227 (678)
27 PF07649 C1_3: C1-like domain; 94.6 0.0096 2.1E-07 34.4 -0.0 29 76-106 2-30 (30)
28 PF03107 C1_2: C1 domain; Int 94.4 0.035 7.6E-07 32.0 2.1 29 211-241 2-30 (30)
29 KOG0193|consensus 93.7 0.04 8.6E-07 53.3 2.1 55 196-253 176-230 (678)
30 KOG1453|consensus 92.9 0.023 5E-07 58.3 -0.7 83 65-156 545-629 (918)
31 KOG1170|consensus 91.4 0.076 1.6E-06 52.7 0.9 83 95-177 66-150 (1099)
32 KOG1453|consensus 91.3 0.087 1.9E-06 54.2 1.2 56 62-117 390-452 (918)
33 KOG3564|consensus 91.1 0.075 1.6E-06 49.8 0.5 50 197-248 285-335 (604)
34 PF07649 C1_3: C1-like domain; 90.3 0.066 1.4E-06 30.8 -0.4 29 211-241 2-30 (30)
35 PF08746 zf-RING-like: RING-li 88.4 0.16 3.6E-06 31.8 0.3 29 77-109 1-31 (43)
36 PF00628 PHD: PHD-finger; Int 84.1 0.98 2.1E-05 28.9 2.3 31 76-108 1-31 (51)
37 PF14446 Prok-RING_1: Prokaryo 77.2 1 2.3E-05 29.7 0.6 35 74-109 5-39 (54)
38 KOG0957|consensus 72.5 2.3 4.9E-05 40.5 1.8 36 209-244 238-275 (707)
39 PF13831 PHD_2: PHD-finger; PD 72.5 1.4 3E-05 26.5 0.3 20 90-109 3-22 (36)
40 KOG2807|consensus 72.2 5.1 0.00011 36.1 3.9 86 73-173 262-355 (378)
41 PF13901 DUF4206: Domain of un 71.4 3.2 7E-05 35.0 2.4 42 73-116 151-195 (202)
42 PF00628 PHD: PHD-finger; Int 69.3 4.7 0.0001 25.6 2.3 31 211-243 1-31 (51)
43 cd02340 ZZ_NBR1_like Zinc fing 63.0 4.2 9.1E-05 25.4 1.1 29 76-107 2-31 (43)
44 KOG0612|consensus 61.4 1.5 3.2E-05 45.8 -1.8 53 61-114 1207-1259(1317)
45 KOG3532|consensus 57.2 2.6 5.5E-05 41.7 -0.9 48 60-109 743-790 (1051)
46 PF07282 OrfB_Zn_ribbon: Putat 51.5 23 0.00051 23.9 3.5 35 70-104 24-59 (69)
47 KOG4323|consensus 49.2 8.8 0.00019 36.4 1.3 34 77-110 171-204 (464)
48 TIGR01053 LSD1 zinc finger dom 47.5 17 0.00037 21.0 1.9 26 210-235 2-28 (31)
49 smart00249 PHD PHD zinc finger 47.3 11 0.00025 22.6 1.2 31 76-108 1-31 (47)
50 KOG3532|consensus 45.9 3.4 7.4E-05 40.8 -2.0 48 60-109 69-116 (1051)
51 PF13922 PHD_3: PHD domain of 45.2 8.1 0.00018 26.4 0.3 16 227-242 44-59 (69)
52 KOG4718|consensus 41.3 6.3 0.00014 33.4 -0.9 32 75-110 182-213 (235)
53 PF09297 zf-NADH-PPase: NADH p 39.9 21 0.00045 20.5 1.5 26 210-235 4-30 (32)
54 PF07754 DUF1610: Domain of un 39.0 27 0.00059 19.0 1.7 23 212-234 1-24 (24)
55 COG1571 Predicted DNA-binding 34.5 28 0.00061 32.7 2.1 39 64-103 341-379 (421)
56 COG1571 Predicted DNA-binding 34.1 30 0.00066 32.5 2.3 34 210-243 351-384 (421)
57 smart00661 RPOL9 RNA polymeras 32.7 36 0.00077 21.5 1.9 27 76-102 2-31 (52)
58 KOG0782|consensus 32.5 9.3 0.0002 37.2 -1.3 116 133-251 167-305 (1004)
59 KOG0782|consensus 32.1 13 0.00028 36.2 -0.5 111 61-176 167-289 (1004)
60 PF11781 RRN7: RNA polymerase 31.8 23 0.00049 21.2 0.7 24 75-99 9-33 (36)
61 PF06943 zf-LSD1: LSD1 zinc fi 31.5 37 0.00081 18.7 1.5 23 212-234 1-24 (25)
62 smart00659 RPOLCX RNA polymera 31.0 35 0.00076 21.4 1.5 26 211-236 4-29 (44)
63 PF03604 DNA_RNApol_7kD: DNA d 31.0 26 0.00056 20.5 0.8 24 212-235 3-26 (32)
64 KOG0612|consensus 30.9 11 0.00023 39.7 -1.3 50 194-244 1205-1254(1317)
65 COG5151 SSL1 RNA polymerase II 30.3 46 0.001 30.0 2.7 36 73-117 294-329 (421)
66 PF14803 Nudix_N_2: Nudix N-te 30.1 33 0.00072 20.3 1.2 25 76-100 2-31 (34)
67 KOG0957|consensus 29.4 26 0.00056 33.6 1.0 35 210-244 120-154 (707)
68 KOG0954|consensus 28.3 26 0.00057 35.2 0.9 44 207-250 269-314 (893)
69 PF02318 FYVE_2: FYVE-type zin 27.5 51 0.0011 25.1 2.2 36 209-244 54-89 (118)
70 smart00291 ZnF_ZZ Zinc-binding 27.3 49 0.0011 20.4 1.7 22 74-98 4-25 (44)
71 PF02318 FYVE_2: FYVE-type zin 27.0 61 0.0013 24.6 2.6 36 73-108 53-88 (118)
72 KOG0955|consensus 26.5 41 0.00089 35.4 2.0 38 205-242 215-252 (1051)
73 PF13240 zinc_ribbon_2: zinc-r 25.8 30 0.00064 18.5 0.5 21 76-99 1-21 (23)
74 COG4306 Uncharacterized protei 25.6 36 0.00078 26.5 1.0 50 147-219 29-78 (160)
75 PRK00432 30S ribosomal protein 25.5 57 0.0012 21.0 1.8 28 74-102 20-48 (50)
76 cd02249 ZZ Zinc finger, ZZ typ 25.4 46 0.001 20.7 1.4 28 76-106 2-30 (46)
77 KOG3362|consensus 24.2 25 0.00053 28.0 -0.1 22 73-100 117-138 (156)
78 PF04438 zf-HIT: HIT zinc fing 23.8 35 0.00075 19.5 0.5 22 74-101 2-23 (30)
79 cd02339 ZZ_Mind_bomb Zinc fing 23.7 41 0.00089 21.1 0.9 29 76-107 2-32 (45)
80 PF01363 FYVE: FYVE zinc finge 23.6 70 0.0015 21.5 2.1 34 73-107 8-41 (69)
81 PF08271 TF_Zn_Ribbon: TFIIB z 23.5 1E+02 0.0022 18.8 2.7 36 211-246 2-39 (43)
82 PF10083 DUF2321: Uncharacteri 23.4 28 0.00061 28.1 0.1 51 146-220 28-80 (158)
83 TIGR01384 TFS_arch transcripti 23.2 50 0.0011 24.3 1.5 27 76-103 2-28 (104)
84 PF13824 zf-Mss51: Zinc-finger 22.5 50 0.0011 21.8 1.1 24 77-102 2-25 (55)
85 KOG3520|consensus 22.1 45 0.00097 35.3 1.2 51 58-110 182-232 (1167)
86 PF04770 ZF-HD_dimer: ZF-HD pr 21.5 55 0.0012 22.0 1.2 21 78-98 23-47 (60)
87 PF10367 Vps39_2: Vacuolar sor 21.5 1.1E+02 0.0024 22.0 3.1 35 70-107 74-108 (109)
88 PF02150 RNA_POL_M_15KD: RNA p 21.0 44 0.00096 19.7 0.6 27 75-101 2-30 (35)
89 COG1996 RPC10 DNA-directed RNA 20.4 58 0.0013 21.0 1.1 26 211-236 8-34 (49)
90 KOG0955|consensus 20.1 56 0.0012 34.4 1.5 38 70-107 215-252 (1051)
No 1
>KOG0696|consensus
Probab=99.92 E-value=6.5e-27 Score=210.32 Aligned_cols=128 Identities=48% Similarity=1.017 Sum_probs=115.3
Q ss_pred ccccCcccccceeecCCCeEEEEeecCCccCcccccccCcccccceeccccceEEccccccccccccCCCCCCCcchhhh
Q psy8311 47 TRRRGAIKHQKVHQVKGHYFVAKFFRQPTFCAFCKDFLWGFGKQGYQCQTCQTAVHKKCHDKLLTKCSGSGRESESTIYL 126 (254)
Q Consensus 47 ~~r~~~~~~~~~~~~~~H~f~~~~~~~p~~C~~C~~~i~g~~~qg~~C~~C~~~~Hk~C~~~~~~~C~~~~~~~~~~~~~ 126 (254)
.-|+||++++.++.+++|.|.+..|++||||++|.+||||+++||++|++|.+++|++|++.+...|++.......+.
T Consensus 29 f~RkGAlrqKnvhevk~HkF~aRFFKqPTfCsHCkDFiwGfgKQGfQCqvC~fvvHkrChefVtF~CPGadkg~dtDd-- 106 (683)
T KOG0696|consen 29 FLRKGALRQKNVHEVKSHKFIARFFKQPTFCSHCKDFIWGFGKQGFQCQVCCFVVHKRCHEFVTFSCPGADKGPDTDD-- 106 (683)
T ss_pred HHhhhhhhhcchhhhccceeeehhccCCchhhhhhhheeccccCceeeeEEeehhhhhhcceEEEECCCCCCCCCCCC--
Confidence 358999999999999999999999999999999999999999999999999999999999999999998876544332
Q ss_pred hhccccccccccccccCCCCccccccccccccccccceecccceeeeeeeeeeeEE
Q psy8311 127 RERFKIDVPHRFKPYNFMSPTFCDHCGSLLYGLFRQGLKCEELQVVDLLYEIYEVI 182 (254)
Q Consensus 127 ~~~~~~~~~H~~~~~~~~~pt~C~~C~~~i~gl~kqgl~C~~C~~~~h~~~~~~~~ 182 (254)
....|.|..+++.+||||+||+.++.|+..||++|+.|++.||+. |++.+
T Consensus 107 -----pr~kHkf~~~tYssPTFCDhCGsLLyGl~HQGmKC~~C~mNVH~r-Cv~nV 156 (683)
T KOG0696|consen 107 -----PRSKHKFKIHTYSSPTFCDHCGSLLYGLIHQGMKCDTCDMNVHHR-CVENV 156 (683)
T ss_pred -----cccccceeeeecCCCchhhhHHHHHHHHHhcccccccccchHHHH-HhhcC
Confidence 236799999999999999999999999999999999999999865 44433
No 2
>KOG4236|consensus
Probab=99.90 E-value=2.2e-25 Score=205.33 Aligned_cols=179 Identities=27% Similarity=0.514 Sum_probs=120.2
Q ss_pred cCcccccceeecCCCeEEEEeecCCccCcccccccCcccccceeccccceEEccccccccccccCCCCCCCcchhhhhhc
Q psy8311 50 RGAIKHQKVHQVKGHYFVAKFFRQPTFCAFCKDFLWGFGKQGYQCQTCQTAVHKKCHDKLLTKCSGSGRESESTIYLRER 129 (254)
Q Consensus 50 ~~~~~~~~~~~~~~H~f~~~~~~~p~~C~~C~~~i~g~~~qg~~C~~C~~~~Hk~C~~~~~~~C~~~~~~~~~~~~~~~~ 129 (254)
..+....+-+.+.+|.+..++|..|+||++|+++||||.+||++|..|++++||+|+.++++.|.+......+...+.+.
T Consensus 132 l~~~at~ed~~i~PH~l~vhSY~~PtFCD~CGEmL~GLvrQGlKC~gCglNyHKRCa~kipNNCsG~r~rr~sa~~l~~~ 211 (888)
T KOG4236|consen 132 LSASATFEDFQIRPHTLFVHSYKAPTFCDFCGEMLFGLVRQGLKCEGCGLNYHKRCAFKIPNNCSGVRKRRLSAVSLQPS 211 (888)
T ss_pred eeccccccceeeecceeeeecccCchHHHHHHHHHHHHHHccccccCCCCcHhhhhhhcCCCCCCcccccCCCCCCCCCC
Confidence 34455566788999999999999999999999999999999999999999999999999999997754322211111110
Q ss_pred c----ccccccccccccCCCCccccccccccccccccce---ecccceeeeeeeeeeeEEeeccccccccccCCCcceee
Q psy8311 130 F----KIDVPHRFKPYNFMSPTFCDHCGSLLYGLFRQGL---KCEELQVVDLLYEIYEVIVFGFQYLRERFKIDVPHRFK 202 (254)
Q Consensus 130 ~----~~~~~H~~~~~~~~~pt~C~~C~~~i~gl~kqgl---~C~~C~~~~h~~~~~~~~~~~~~~~~~~~~~~~~H~f~ 202 (254)
- +....-...+....+|+ +.+.+ .++. --.|-++..+ ++. .....+.+||+|+
T Consensus 212 ~s~~l~~s~~~p~~p~~~~~ps------t~~~~--~~~p~~~~~S~sgrpi~----~ek--------~~~~rvkvPHTf~ 271 (888)
T KOG4236|consen 212 RSNRLNLSPSSPLEPLLPARPS------TELGG--PREPSSAILSWSGRPIW----MEK--------MLMSRVKVPHTFI 271 (888)
T ss_pred CccccccCCCCCCCccccCCCc------ccccC--CCCCCcccccccCCCch----hhh--------hhhhcccCCeeEE
Confidence 0 00000000000011111 00000 0000 0012222221 111 1123457999999
Q ss_pred eccCCCCCccccccccccccccceEeccccCccccCCCccCCCccc
Q psy8311 203 PYNFMSPTFCDHCGSLLYGLFRQGLKCEVCFSFCNTFSPPRLSDEK 248 (254)
Q Consensus 203 ~~~~~~pt~C~~C~~~~~g~~~qg~~C~~C~~~~H~~C~~~~~~~~ 248 (254)
.++|..||+|.+|.+++.|+.+||++|.+|++|||++|...++..|
T Consensus 272 vHSY~rpTVCq~CkkLLkGL~rQGlqCkDCk~NcHkrCa~~v~~dC 317 (888)
T KOG4236|consen 272 VHSYTRPTVCQYCKKLLKGLFRQGLQCKDCKFNCHKRCAMKVPNDC 317 (888)
T ss_pred EeeccCchHHHHHHHHHHHHHhcCcccccCCcchhhhhhhhccccc
Confidence 9999999999999999999999999999999999999998877654
No 3
>KOG0694|consensus
Probab=99.81 E-value=4e-21 Score=181.70 Aligned_cols=135 Identities=50% Similarity=0.902 Sum_probs=120.2
Q ss_pred ccccCcccccceeecCCCeEEEEeecCCccCcccccccCcccccceeccccceEEccccccccccccCCCCC-CCcchhh
Q psy8311 47 TRRRGAIKHQKVHQVKGHYFVAKFFRQPTFCAFCKDFLWGFGKQGYQCQTCQTAVHKKCHDKLLTKCSGSGR-ESESTIY 125 (254)
Q Consensus 47 ~~r~~~~~~~~~~~~~~H~f~~~~~~~p~~C~~C~~~i~g~~~qg~~C~~C~~~~Hk~C~~~~~~~C~~~~~-~~~~~~~ 125 (254)
.+|+++...+|++.+.||.|.++.|++|++|++|.+|||||++|||+|.+|...+||+|+.++...|...+. +..+...
T Consensus 142 ~~rrga~~~~kVhei~gH~F~aT~l~Qpt~Cs~C~kFi~gL~kqGyQCqvC~~vvHKkCh~kvv~~C~~~~~~n~e~q~~ 221 (694)
T KOG0694|consen 142 PRRRGAISQSKVHEIDGHKFGATSLRQPTFCSWCQKFIWGLRKQGYQCQVCWRVVHKKCHVKVVTLCDFLDNLNSEPQGF 221 (694)
T ss_pred cccccccccceeEEeeCcEEEEeeccCcchhhhhhhheeccCCCceEEeeeeehHhhhhHHHHHHhccCcCccCcCCccc
Confidence 457888999999999999999999999999999999999999999999999999999999999999987765 4444444
Q ss_pred hhhccccccccccccccCCCCccccccccccccccccceecccceeeeeeeeeeeEEe
Q psy8311 126 LRERFKIDVPHRFKPYNFMSPTFCDHCGSLLYGLFRQGLKCEELQVVDLLYEIYEVIV 183 (254)
Q Consensus 126 ~~~~~~~~~~H~~~~~~~~~pt~C~~C~~~i~gl~kqgl~C~~C~~~~h~~~~~~~~~ 183 (254)
... ++.++||.+...++..|+||++|++++++..+||++|..|+..+|.. |.+.+.
T Consensus 222 ~~~-~~~~~Phrf~~~~~q~ptFc~hCGs~L~r~~qqGlkCs~Cg~n~H~~-c~~~va 277 (694)
T KOG0694|consen 222 LFE-FTFRNPHRFVKLNRQRPTFCDHCGSVLYRLRQQGLKCSTCGRNVHNR-CVENLA 277 (694)
T ss_pred ccc-ccccCCCcchhhhccCccHHHhcchhhhhhcccCeeehhhhccccHH-HHHhcc
Confidence 444 88999999999999999999999999999999999999999999855 554443
No 4
>KOG0696|consensus
Probab=99.80 E-value=5.7e-21 Score=172.21 Aligned_cols=117 Identities=34% Similarity=0.645 Sum_probs=103.0
Q ss_pred cccccccccCCCCccccccccccccccccceecccceeeeeeeeeeeEEeeccccc---cccccCCCcceeeeccCCCCC
Q psy8311 134 VPHRFKPYNFMSPTFCDHCGSLLYGLFRQGLKCEELQVVDLLYEIYEVIVFGFQYL---RERFKIDVPHRFKPYNFMSPT 210 (254)
Q Consensus 134 ~~H~~~~~~~~~pt~C~~C~~~i~gl~kqgl~C~~C~~~~h~~~~~~~~~~~~~~~---~~~~~~~~~H~f~~~~~~~pt 210 (254)
..|.|.+..+.+||||+||..+|||+++||++|+.|.+++| ++|.+.++|.|.-. .........|.|...+|.+||
T Consensus 44 k~HkF~aRFFKqPTfCsHCkDFiwGfgKQGfQCqvC~fvvH-krChefVtF~CPGadkg~dtDdpr~kHkf~~~tYssPT 122 (683)
T KOG0696|consen 44 KSHKFIARFFKQPTFCSHCKDFIWGFGKQGFQCQVCCFVVH-KRCHEFVTFSCPGADKGPDTDDPRSKHKFKIHTYSSPT 122 (683)
T ss_pred ccceeeehhccCCchhhhhhhheeccccCceeeeEEeehhh-hhhcceEEEECCCCCCCCCCCCcccccceeeeecCCCc
Confidence 46899999999999999999999999999999999999998 55778888877543 333344678999999999999
Q ss_pred ccccccccccccccceEeccccCccccCCCccCCCcccccC
Q psy8311 211 FCDHCGSLLYGLFRQGLKCEVCFSFCNTFSPPRLSDEKALD 251 (254)
Q Consensus 211 ~C~~C~~~~~g~~~qg~~C~~C~~~~H~~C~~~~~~~~~~~ 251 (254)
+|++|++++.|+..||++|..|.+|+|.+|...+|.-+..+
T Consensus 123 FCDhCGsLLyGl~HQGmKC~~C~mNVH~rCv~nVPslCG~D 163 (683)
T KOG0696|consen 123 FCDHCGSLLYGLIHQGMKCDTCDMNVHHRCVENVPSLCGTD 163 (683)
T ss_pred hhhhHHHHHHHHHhcccccccccchHHHHHhhcCCcccCCc
Confidence 99999999999999999999999999999999888766544
No 5
>KOG0695|consensus
Probab=99.60 E-value=7.5e-17 Score=142.65 Aligned_cols=83 Identities=39% Similarity=0.846 Sum_probs=78.3
Q ss_pred CCCCCCcccccccccccccccCcccccceeecCCCeEEEEeecCCccCcccccccCcccccceeccccceEEcccccccc
Q psy8311 30 DSDLPLVDEENVFGRAITRRRGAIKHQKVHQVKGHYFVAKFFRQPTFCAFCKDFLWGFGKQGYQCQTCQTAVHKKCHDKL 109 (254)
Q Consensus 30 ~~~~~~~~~~k~~~~~~~~r~~~~~~~~~~~~~~H~f~~~~~~~p~~C~~C~~~i~g~~~qg~~C~~C~~~~Hk~C~~~~ 109 (254)
.+..|+++++|++ +||+|++|+|++..+||.|+++.|++..+|.+|.+.|||+++|||+|.+|++.+||+|+..+
T Consensus 102 ~pglpc~gedksi-----yrrgarrwrkly~~ngh~fqakr~nrr~~c~ic~d~iwglgrqgyrcinckl~vhkkch~~v 176 (593)
T KOG0695|consen 102 QPGLPCPGEDKSI-----YRRGARRWRKLYRANGHLFQAKRFNRRAYCGICSDRIWGLGRQGYRCINCKLLVHKKCHGLV 176 (593)
T ss_pred CCCCCCCCCcchH-----HHhHHHHHHHHHhhcCcchhhhhhccceeeeechhhhhhcccccceeecceeehhhhhcccc
Confidence 4677999999987 99999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccccCCCC
Q psy8311 110 LTKCSGSG 117 (254)
Q Consensus 110 ~~~C~~~~ 117 (254)
+..|....
T Consensus 177 ~~~cg~~~ 184 (593)
T KOG0695|consen 177 PLTCGKHM 184 (593)
T ss_pred cchhhhhc
Confidence 99997643
No 6
>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=99.42 E-value=1.9e-13 Score=90.87 Aligned_cols=52 Identities=46% Similarity=1.101 Sum_probs=46.9
Q ss_pred CeEEEEeecCCccCcccccccCcccccceeccccceEEccccccccccccCC
Q psy8311 64 HYFVAKFFRQPTFCAFCKDFLWGFGKQGYQCQTCQTAVHKKCHDKLLTKCSG 115 (254)
Q Consensus 64 H~f~~~~~~~p~~C~~C~~~i~g~~~qg~~C~~C~~~~Hk~C~~~~~~~C~~ 115 (254)
|.|+..+|..|++|++|+++|||+..|||+|+.|++.+|++|...++..|..
T Consensus 1 H~f~~~~~~~~~~C~~C~~~i~g~~~~g~~C~~C~~~~H~~C~~~~~~~C~~ 52 (53)
T PF00130_consen 1 HHFVPTTFSKPTYCDVCGKFIWGLGKQGYRCSWCGLVCHKKCLSKVPPSCGC 52 (53)
T ss_dssp -EEEEEESSSTEB-TTSSSBECSSSSCEEEETTTT-EEETTGGCTSSSBSST
T ss_pred CeEEEccCCCCCCCcccCcccCCCCCCeEEECCCCChHhhhhhhhcCCCCCC
Confidence 8999999999999999999999999999999999999999999999988863
No 7
>KOG4236|consensus
Probab=99.34 E-value=3.6e-13 Score=125.21 Aligned_cols=56 Identities=36% Similarity=0.817 Sum_probs=53.4
Q ss_pred CCCeEEEEeecCCccCcccccccCcccccceeccccceEEccccccccccccCCCC
Q psy8311 62 KGHYFVAKFFRQPTFCAFCKDFLWGFGKQGYQCQTCQTAVHKKCHDKLLTKCSGSG 117 (254)
Q Consensus 62 ~~H~f~~~~~~~p~~C~~C~~~i~g~~~qg~~C~~C~~~~Hk~C~~~~~~~C~~~~ 117 (254)
-+|.|..++|.+||.|.+|.++|.||.+||++|.+|+++|||+|+..++.+|.+..
T Consensus 266 vPHTf~vHSY~rpTVCq~CkkLLkGL~rQGlqCkDCk~NcHkrCa~~v~~dClge~ 321 (888)
T KOG4236|consen 266 VPHTFIVHSYTRPTVCQYCKKLLKGLFRQGLQCKDCKFNCHKRCAMKVPNDCLGEV 321 (888)
T ss_pred CCeeEEEeeccCchHHHHHHHHHHHHHhcCcccccCCcchhhhhhhhcccccccce
Confidence 68999999999999999999999999999999999999999999999999997643
No 8
>KOG0694|consensus
Probab=99.34 E-value=8e-14 Score=132.53 Aligned_cols=110 Identities=37% Similarity=0.674 Sum_probs=92.8
Q ss_pred ccccccccCCCCccccccccccccccccceecccceeeeeeeeeeeEEeeccc-----------cccccccCCCcceeee
Q psy8311 135 PHRFKPYNFMSPTFCDHCGSLLYGLFRQGLKCEELQVVDLLYEIYEVIVFGFQ-----------YLRERFKIDVPHRFKP 203 (254)
Q Consensus 135 ~H~~~~~~~~~pt~C~~C~~~i~gl~kqgl~C~~C~~~~h~~~~~~~~~~~~~-----------~~~~~~~~~~~H~f~~ 203 (254)
.|.|....+..|++|++|.+++||+.+|||+|..|..++|++|....+. .|. .+.. +...+||.|..
T Consensus 158 gH~F~aT~l~Qpt~Cs~C~kFi~gL~kqGyQCqvC~~vvHKkCh~kvv~-~C~~~~~~n~e~q~~~~~-~~~~~Phrf~~ 235 (694)
T KOG0694|consen 158 GHKFGATSLRQPTFCSWCQKFIWGLRKQGYQCQVCWRVVHKKCHVKVVT-LCDFLDNLNSEPQGFLFE-FTFRNPHRFVK 235 (694)
T ss_pred CcEEEEeeccCcchhhhhhhheeccCCCceEEeeeeehHhhhhHHHHHH-hccCcCccCcCCcccccc-ccccCCCcchh
Confidence 5888888999999999999999999999999999999998665443332 221 1222 55678899999
Q ss_pred ccCCCCCccccccccccccccceEeccccCccccCCCccCCCc
Q psy8311 204 YNFMSPTFCDHCGSLLYGLFRQGLKCEVCFSFCNTFSPPRLSD 246 (254)
Q Consensus 204 ~~~~~pt~C~~C~~~~~g~~~qg~~C~~C~~~~H~~C~~~~~~ 246 (254)
.++..|+||++|++++|+...+|++|..|++++|.+|...+.+
T Consensus 236 ~~~q~ptFc~hCGs~L~r~~qqGlkCs~Cg~n~H~~c~~~va~ 278 (694)
T KOG0694|consen 236 LNRQRPTFCDHCGSVLYRLRQQGLKCSTCGRNVHNRCVENLAP 278 (694)
T ss_pred hhccCccHHHhcchhhhhhcccCeeehhhhccccHHHHHhccc
Confidence 9999999999999999999999999999999999999776543
No 9
>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=99.28 E-value=2.5e-12 Score=85.42 Aligned_cols=51 Identities=33% Similarity=0.808 Sum_probs=45.7
Q ss_pred ceeeeccCCCCCccccccccccccccceEeccccCccccCCCccCCCcccc
Q psy8311 199 HRFKPYNFMSPTFCDHCGSLLYGLFRQGLKCEVCFSFCNTFSPPRLSDEKA 249 (254)
Q Consensus 199 H~f~~~~~~~pt~C~~C~~~~~g~~~qg~~C~~C~~~~H~~C~~~~~~~~~ 249 (254)
|.|++.++..|++|++|+++|||+..+|++|.+|++.+|++|.+.++..+.
T Consensus 1 H~f~~~~~~~~~~C~~C~~~i~g~~~~g~~C~~C~~~~H~~C~~~~~~~C~ 51 (53)
T PF00130_consen 1 HHFVPTTFSKPTYCDVCGKFIWGLGKQGYRCSWCGLVCHKKCLSKVPPSCG 51 (53)
T ss_dssp -EEEEEESSSTEB-TTSSSBECSSSSCEEEETTTT-EEETTGGCTSSSBSS
T ss_pred CeEEEccCCCCCCCcccCcccCCCCCCeEEECCCCChHhhhhhhhcCCCCC
Confidence 899999999999999999999999999999999999999999999987764
No 10
>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=99.23 E-value=4e-12 Score=83.12 Aligned_cols=50 Identities=48% Similarity=1.048 Sum_probs=47.1
Q ss_pred CeEEEEeecCCccCcccccccCcccccceeccccceEEcccccccccccc
Q psy8311 64 HYFVAKFFRQPTFCAFCKDFLWGFGKQGYQCQTCQTAVHKKCHDKLLTKC 113 (254)
Q Consensus 64 H~f~~~~~~~p~~C~~C~~~i~g~~~qg~~C~~C~~~~Hk~C~~~~~~~C 113 (254)
|.|....+..|++|++|.+.|||+.++||+|++|++.+|++|...++..|
T Consensus 1 H~f~~~~~~~~~~C~~C~~~i~~~~~~~~~C~~C~~~~H~~C~~~v~~~C 50 (50)
T cd00029 1 HRFVRKSFFKPTFCDVCRKSIWGLFKQGLRCSWCKVKCHKKCADKVPPSC 50 (50)
T ss_pred CccEEeeCCCCCChhhcchhhhccccceeEcCCCCCchhhhhhccCCCCC
Confidence 78999999999999999999999889999999999999999999988765
No 11
>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=99.06 E-value=4.4e-11 Score=77.60 Aligned_cols=49 Identities=41% Similarity=0.974 Sum_probs=45.2
Q ss_pred CeEEEEeecCCccCcccccccCcccccceeccccceEEcccccccccccc
Q psy8311 64 HYFVAKFFRQPTFCAFCKDFLWGFGKQGYQCQTCQTAVHKKCHDKLLTKC 113 (254)
Q Consensus 64 H~f~~~~~~~p~~C~~C~~~i~g~~~qg~~C~~C~~~~Hk~C~~~~~~~C 113 (254)
|.|....+..+++|++|++.||++. |||+|..|++.+|++|...++..|
T Consensus 1 H~~~~~~~~~~~~C~~C~~~i~~~~-~~~~C~~C~~~~H~~C~~~v~~~C 49 (49)
T smart00109 1 HHFVERTFKKPTKCCVCRKSIWGSF-QGLRCSWCKVKCHKKCAEKVPQPC 49 (49)
T ss_pred CceEEeccCCCCCccccccccCcCC-CCcCCCCCCchHHHHHHhhcCCCC
Confidence 7888888899999999999999976 899999999999999999988765
No 12
>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=99.04 E-value=9.8e-11 Score=76.44 Aligned_cols=49 Identities=39% Similarity=0.899 Sum_probs=45.9
Q ss_pred ceeeeccCCCCCccccccccccccccceEeccccCccccCCCccCCCcc
Q psy8311 199 HRFKPYNFMSPTFCDHCGSLLYGLFRQGLKCEVCFSFCNTFSPPRLSDE 247 (254)
Q Consensus 199 H~f~~~~~~~pt~C~~C~~~~~g~~~qg~~C~~C~~~~H~~C~~~~~~~ 247 (254)
|.|.+.++..+++|++|.+.||++..+|++|.+|++.+|++|..+++..
T Consensus 1 H~f~~~~~~~~~~C~~C~~~i~~~~~~~~~C~~C~~~~H~~C~~~v~~~ 49 (50)
T cd00029 1 HRFVRKSFFKPTFCDVCRKSIWGLFKQGLRCSWCKVKCHKKCADKVPPS 49 (50)
T ss_pred CccEEeeCCCCCChhhcchhhhccccceeEcCCCCCchhhhhhccCCCC
Confidence 7899999999999999999999988899999999999999999998764
No 13
>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=98.83 E-value=1.1e-09 Score=70.98 Aligned_cols=48 Identities=31% Similarity=0.691 Sum_probs=43.9
Q ss_pred ceeeeccCCCCCccccccccccccccceEeccccCccccCCCccCCCcc
Q psy8311 199 HRFKPYNFMSPTFCDHCGSLLYGLFRQGLKCEVCFSFCNTFSPPRLSDE 247 (254)
Q Consensus 199 H~f~~~~~~~pt~C~~C~~~~~g~~~qg~~C~~C~~~~H~~C~~~~~~~ 247 (254)
|.|...++..+++|++|++.+|+.. +|++|.+|++.+|++|..+++..
T Consensus 1 H~~~~~~~~~~~~C~~C~~~i~~~~-~~~~C~~C~~~~H~~C~~~v~~~ 48 (49)
T smart00109 1 HHFVERTFKKPTKCCVCRKSIWGSF-QGLRCSWCKVKCHKKCAEKVPQP 48 (49)
T ss_pred CceEEeccCCCCCccccccccCcCC-CCcCCCCCCchHHHHHHhhcCCC
Confidence 7888898889999999999999865 89999999999999999998764
No 14
>KOG1169|consensus
Probab=98.57 E-value=5.6e-09 Score=99.69 Aligned_cols=180 Identities=21% Similarity=0.261 Sum_probs=126.6
Q ss_pred CCCeEEEEeecCCccCcccccccCcccccceeccccceEEccccccccccccCCCCCCCcchhhhhhccccccccccccc
Q psy8311 62 KGHYFVAKFFRQPTFCAFCKDFLWGFGKQGYQCQTCQTAVHKKCHDKLLTKCSGSGRESESTIYLRERFKIDVPHRFKPY 141 (254)
Q Consensus 62 ~~H~f~~~~~~~p~~C~~C~~~i~g~~~qg~~C~~C~~~~Hk~C~~~~~~~C~~~~~~~~~~~~~~~~~~~~~~H~~~~~ 141 (254)
..|.|..-...+..+|.+|. |-.......|+.|+...|..|...+...|+....... ...+.+.+..|.|+..
T Consensus 32 ~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~g~~~~~~~~~~~~s~~~~~~~~~~----~~~~~k~~~~~~~~~~ 104 (634)
T KOG1169|consen 32 ILHSSEPDCIIRQMVCCVCL---WSEMAPSVDCDVDGGVSHEECVSGAASDCPLLVLLGF----ENQRHKTDGDHVWRPK 104 (634)
T ss_pred cCcccCCchhHhhhhhhhhh---hcccccccceeccccchhhhhhcccccchHHHHHHHh----hhhhhhccCceeccCC
Confidence 56777655444444777774 4555678999999999999998888777765321110 0112334567889999
Q ss_pred cCCCCcccccccccc--ccc-cccceecccceeeeeeeeeeeEEeec----cccccccccCCCcceeeeccCCCCCcccc
Q psy8311 142 NFMSPTFCDHCGSLL--YGL-FRQGLKCEELQVVDLLYEIYEVIVFG----FQYLRERFKIDVPHRFKPYNFMSPTFCDH 214 (254)
Q Consensus 142 ~~~~pt~C~~C~~~i--~gl-~kqgl~C~~C~~~~h~~~~~~~~~~~----~~~~~~~~~~~~~H~f~~~~~~~pt~C~~ 214 (254)
++..|++|.+|.+.. -++ .+||+.|.||++.+|.. |...+... +..++.. ..-.+|.|..++.. ...|..
T Consensus 105 ~~~~~~~c~~c~~~c~~~~~~~~~g~~C~~C~~~vh~~-C~~~~~~~~~~~~~~~~~r-~~v~~~~~~~~~~~-~~~~~~ 181 (634)
T KOG1169|consen 105 HLWKPAYCFVCPKSCGSCGVGIKQGLCCDWCGRTVHER-CVRRADPECQCKCDLGRLR-KIVLDHPWVKGNAG-EAKCDQ 181 (634)
T ss_pred CCCCCceEEeccccccchhhcccCceeeccccchHHHH-HHhhcCccccccccccccc-ceeecCcccccccC-Cccchh
Confidence 999999999999987 333 47999999999999866 55544433 2222222 23466666666553 456777
Q ss_pred cccccc-ccccceEeccccCccccCCCccCCCcccccC
Q psy8311 215 CGSLLY-GLFRQGLKCEVCFSFCNTFSPPRLSDEKALD 251 (254)
Q Consensus 215 C~~~~~-g~~~qg~~C~~C~~~~H~~C~~~~~~~~~~~ 251 (254)
|..... ....++.+|.||.+.+|.+|.+.++.+++++
T Consensus 182 ~~~~~~~~~~~~~~~c~~~~~~~h~~~~~~~~~~~~~~ 219 (634)
T KOG1169|consen 182 CLKSVKADQGLTGPRCGWCQIRVHDKCKSELSQECDLG 219 (634)
T ss_pred hhccccccccccccccceeeeeeecchHHHHhhhccCh
Confidence 777654 3456799999999999999999888888775
No 15
>KOG1011|consensus
Probab=98.40 E-value=2.1e-08 Score=95.17 Aligned_cols=58 Identities=40% Similarity=0.925 Sum_probs=54.3
Q ss_pred CCCeEEEEeecCCccCcccccccCcccccceeccccceEEccccccccccccCCCCCC
Q psy8311 62 KGHYFVAKFFRQPTFCAFCKDFLWGFGKQGYQCQTCQTAVHKKCHDKLLTKCSGSGRE 119 (254)
Q Consensus 62 ~~H~f~~~~~~~p~~C~~C~~~i~g~~~qg~~C~~C~~~~Hk~C~~~~~~~C~~~~~~ 119 (254)
.+|+|..++|..||||+-|..++||+.+||++|+.|++.+|.+|.+.+..+|.+.+.+
T Consensus 171 tphnf~~~t~~tpt~cyecegllwglarqglrctqc~vk~hdkc~ell~adclqraae 228 (1283)
T KOG1011|consen 171 TPHNFATTTFQTPTFCYECEGLLWGLARQGLRCTQCQVKVHDKCRELLSADCLQRAAE 228 (1283)
T ss_pred CCCceeeeeccCCchhhhhhhHHHHHhhcccchhhccccHHHHHHHHhhhHHHHHHHH
Confidence 6899999999999999999999999999999999999999999999999999765543
No 16
>KOG1011|consensus
Probab=98.28 E-value=8.5e-08 Score=91.11 Aligned_cols=57 Identities=37% Similarity=0.697 Sum_probs=52.5
Q ss_pred cccCCCcceeeeccCCCCCccccccccccccccceEeccccCccccCCCccCCCccc
Q psy8311 192 RFKIDVPHRFKPYNFMSPTFCDHCGSLLYGLFRQGLKCEVCFSFCNTFSPPRLSDEK 248 (254)
Q Consensus 192 ~~~~~~~H~f~~~~~~~pt~C~~C~~~~~g~~~qg~~C~~C~~~~H~~C~~~~~~~~ 248 (254)
+.+...||+|...++..|++|+-|..++||+.+||+||..|+..||++|.+.|++.+
T Consensus 166 pis~ttphnf~~~t~~tpt~cyecegllwglarqglrctqc~vk~hdkc~ell~adc 222 (1283)
T KOG1011|consen 166 PISATTPHNFATTTFQTPTFCYECEGLLWGLARQGLRCTQCQVKVHDKCRELLSADC 222 (1283)
T ss_pred ecccCCCCceeeeeccCCchhhhhhhHHHHHhhcccchhhccccHHHHHHHHhhhHH
Confidence 345679999999999999999999999999999999999999999999999988754
No 17
>KOG0695|consensus
Probab=98.09 E-value=7e-07 Score=79.90 Aligned_cols=53 Identities=23% Similarity=0.428 Sum_probs=50.0
Q ss_pred CCcceeeeccCCCCCccccccccccccccceEeccccCccccCCCccCCCccc
Q psy8311 196 DVPHRFKPYNFMSPTFCDHCGSLLYGLFRQGLKCEVCFSFCNTFSPPRLSDEK 248 (254)
Q Consensus 196 ~~~H~f~~~~~~~pt~C~~C~~~~~g~~~qg~~C~~C~~~~H~~C~~~~~~~~ 248 (254)
..+|.|+...+.....|..|...+||+++||++|.+|++.+|++|...++.++
T Consensus 128 ~ngh~fqakr~nrr~~c~ic~d~iwglgrqgyrcinckl~vhkkch~~v~~~c 180 (593)
T KOG0695|consen 128 ANGHLFQAKRFNRRAYCGICSDRIWGLGRQGYRCINCKLLVHKKCHGLVPLTC 180 (593)
T ss_pred hcCcchhhhhhccceeeeechhhhhhcccccceeecceeehhhhhcccccchh
Confidence 57899999999999999999999999999999999999999999998887765
No 18
>KOG4239|consensus
Probab=98.05 E-value=6.5e-07 Score=78.40 Aligned_cols=60 Identities=28% Similarity=0.714 Sum_probs=55.5
Q ss_pred eeecCCCeEEEEeecCCccCcccccccCcccccceeccccceEEccccccccccccCCCC
Q psy8311 58 VHQVKGHYFVAKFFRQPTFCAFCKDFLWGFGKQGYQCQTCQTAVHKKCHDKLLTKCSGSG 117 (254)
Q Consensus 58 ~~~~~~H~f~~~~~~~p~~C~~C~~~i~g~~~qg~~C~~C~~~~Hk~C~~~~~~~C~~~~ 117 (254)
+...+||+|.......|++|+-|++++||+..+|++|..|++.+|.+|...+..+|....
T Consensus 46 lv~~r~~~~~~~g~~~~~~~~~c~~~~~~vl~egL~c~~c~~tch~rcr~lv~ldc~~p~ 105 (348)
T KOG4239|consen 46 LVPLRGHNFYTAGLLLPTWCDKCGDFIWGVLREGLLCIHCKFTCHIRCRMLVDLDCRSPP 105 (348)
T ss_pred eeeccccccccccccccccchhhhHHHHHHHHHHHhhhhcCCccCHHHHhhhhhhhcCCC
Confidence 445699999999999999999999999999999999999999999999999999997655
No 19
>KOG1169|consensus
Probab=97.89 E-value=3e-06 Score=81.26 Aligned_cols=139 Identities=19% Similarity=0.255 Sum_probs=97.7
Q ss_pred ccceEEccccccccccccCCCCCCCcchhhhhhccccccccccccccCCCCccccccccccccccccceecccceeeeee
Q psy8311 96 TCQTAVHKKCHDKLLTKCSGSGRESESTIYLRERFKIDVPHRFKPYNFMSPTFCDHCGSLLYGLFRQGLKCEELQVVDLL 175 (254)
Q Consensus 96 ~C~~~~Hk~C~~~~~~~C~~~~~~~~~~~~~~~~~~~~~~H~~~~~~~~~pt~C~~C~~~i~gl~kqgl~C~~C~~~~h~ 175 (254)
.|.+..|..|...+...+.+.+.. .+...+.|.|.......-.+|.+|.. ...-..+.|+.|+.+.|.
T Consensus 3 ~~~~~~~~~c~~~~~~~~~~~~~~---------~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~g~~~~~ 70 (634)
T KOG1169|consen 3 EVIYLKDIVCYRSLLETGTPVAKL---------EFKFPILHSSEPDCIIRQMVCCVCLW---SEMAPSVDCDVDGGVSHE 70 (634)
T ss_pred ceEeechhhhhhhhhccCchhhhh---------hhccccCcccCCchhHhhhhhhhhhh---cccccccceeccccchhh
Confidence 455667778877777776654421 23445889998777666668888866 223457889999988875
Q ss_pred eeeeeEEeecccc------ccccccCCCcceeeeccCCCCCcccccccccc--c-cccceEeccccCccccCCCccCCCc
Q psy8311 176 YEIYEVIVFGFQY------LRERFKIDVPHRFKPYNFMSPTFCDHCGSLLY--G-LFRQGLKCEVCFSFCNTFSPPRLSD 246 (254)
Q Consensus 176 ~~~~~~~~~~~~~------~~~~~~~~~~H~f~~~~~~~pt~C~~C~~~~~--g-~~~qg~~C~~C~~~~H~~C~~~~~~ 246 (254)
.+ ...+...+.. ..........|.|.+..+..|++|.+|.+.+. + ...||+.|.||++.+|..|...+..
T Consensus 71 ~~-~~~~~s~~~~~~~~~~~~~~~k~~~~~~~~~~~~~~~~~c~~c~~~c~~~~~~~~~g~~C~~C~~~vh~~C~~~~~~ 149 (634)
T KOG1169|consen 71 EC-VSGAASDCPLLVLLGFENQRHKTDGDHVWRPKHLWKPAYCFVCPKSCGSCGVGIKQGLCCDWCGRTVHERCVRRADP 149 (634)
T ss_pred hh-hcccccchHHHHHHHhhhhhhhccCceeccCCCCCCCceEEeccccccchhhcccCceeeccccchHHHHHHhhcCc
Confidence 43 2222111111 12223456889999999999999999999983 3 3479999999999999999988877
Q ss_pred c
Q psy8311 247 E 247 (254)
Q Consensus 247 ~ 247 (254)
+
T Consensus 150 ~ 150 (634)
T KOG1169|consen 150 E 150 (634)
T ss_pred c
Confidence 6
No 20
>KOG2996|consensus
Probab=97.47 E-value=3.5e-05 Score=72.91 Aligned_cols=53 Identities=32% Similarity=0.743 Sum_probs=49.3
Q ss_pred ecCCCeEEEEeecCCccCcccccccCcccccceeccccceEEcccccccccccc
Q psy8311 60 QVKGHYFVAKFFRQPTFCAFCKDFLWGFGKQGYQCQTCQTAVHKKCHDKLLTKC 113 (254)
Q Consensus 60 ~~~~H~f~~~~~~~p~~C~~C~~~i~g~~~qg~~C~~C~~~~Hk~C~~~~~~~C 113 (254)
..++|.|+.++|..+|.|.+|..+|.|..-|||+|..|+...|+.|...++ +|
T Consensus 520 ~an~H~fqmhtF~~~tsCkvC~mllrGtfYQGY~C~~c~~~ahkecl~~vp-~c 572 (865)
T KOG2996|consen 520 RANNHDFQMHTFKNTTSCKVCQMLLRGTFYQGYKCEKCGADAHKECLGRVP-PC 572 (865)
T ss_pred cccCcceEEEeccCCcchHHHHHHhhhhhhcceeeeeccccHHHHhccCCC-Cc
Confidence 358899999999999999999999999999999999999999999998876 45
No 21
>KOG4239|consensus
Probab=97.20 E-value=3.7e-05 Score=67.55 Aligned_cols=51 Identities=29% Similarity=0.652 Sum_probs=46.0
Q ss_pred CCcceeeeccCCCCCccccccccccccccceEeccccCccccCCCccCCCc
Q psy8311 196 DVPHRFKPYNFMSPTFCDHCGSLLYGLFRQGLKCEVCFSFCNTFSPPRLSD 246 (254)
Q Consensus 196 ~~~H~f~~~~~~~pt~C~~C~~~~~g~~~qg~~C~~C~~~~H~~C~~~~~~ 246 (254)
..+|.|....+..|++|+.|+.++||+.++|++|..|+++||-+|..++-.
T Consensus 49 ~r~~~~~~~g~~~~~~~~~c~~~~~~vl~egL~c~~c~~tch~rcr~lv~l 99 (348)
T KOG4239|consen 49 LRGHNFYTAGLLLPTWCDKCGDFIWGVLREGLLCIHCKFTCHIRCRMLVDL 99 (348)
T ss_pred ccccccccccccccccchhhhHHHHHHHHHHHhhhhcCCccCHHHHhhhhh
Confidence 467888888999999999999999999999999999999999999876543
No 22
>KOG2996|consensus
Probab=97.16 E-value=3.4e-05 Score=72.95 Aligned_cols=71 Identities=25% Similarity=0.367 Sum_probs=60.3
Q ss_pred eeeeeEEeeccccccccccCCCcceeeeccCCCCCccccccccccccccceEeccccCccccCCCccCCCc
Q psy8311 176 YEIYEVIVFGFQYLRERFKIDVPHRFKPYNFMSPTFCDHCGSLLYGLFRQGLKCEVCFSFCNTFSPPRLSD 246 (254)
Q Consensus 176 ~~~~~~~~~~~~~~~~~~~~~~~H~f~~~~~~~pt~C~~C~~~~~g~~~qg~~C~~C~~~~H~~C~~~~~~ 246 (254)
+.+++++..+-+++.+....+..|.|+.++|..++.|.+|..+|.|...||++|.-|+...|+.|...+++
T Consensus 501 kkWmeqfema~SNi~Pdya~an~H~fqmhtF~~~tsCkvC~mllrGtfYQGY~C~~c~~~ahkecl~~vp~ 571 (865)
T KOG2996|consen 501 KKWMEQFEMAKSNISPDYARANNHDFQMHTFKNTTSCKVCQMLLRGTFYQGYKCEKCGADAHKECLGRVPP 571 (865)
T ss_pred HHHHHHHHHHHhcCCcccccccCcceEEEeccCCcchHHHHHHhhhhhhcceeeeeccccHHHHhccCCCC
Confidence 34555555556666666667889999999999999999999999999999999999999999999887764
No 23
>KOG3564|consensus
Probab=97.07 E-value=0.00012 Score=67.97 Aligned_cols=102 Identities=27% Similarity=0.470 Sum_probs=73.9
Q ss_pred CCCeEEEEeecCCccCcccccccCcccccceeccccceEEccccccccccccCCCCCCCcchhhhhhcccccccccccc-
Q psy8311 62 KGHYFVAKFFRQPTFCAFCKDFLWGFGKQGYQCQTCQTAVHKKCHDKLLTKCSGSGRESESTIYLRERFKIDVPHRFKP- 140 (254)
Q Consensus 62 ~~H~f~~~~~~~p~~C~~C~~~i~g~~~qg~~C~~C~~~~Hk~C~~~~~~~C~~~~~~~~~~~~~~~~~~~~~~H~~~~- 140 (254)
..|.|...++..+..|..|++-|- +++-+++|.+|.+.+|..|...+..+|.+....... ..+...-..|.+
T Consensus 285 r~htfi~kt~~~~~~Cv~C~krIk-fg~~sLkCRdC~v~~H~~Cr~~l~lpCIP~l~g~~~------k~geg~L~DF~~s 357 (604)
T KOG3564|consen 285 RLHTFISKTVIKPENCVPCGKRIK-FGKLSLKCRDCPVVCHIECRDKLTLPCIPTLIGPPV------KTGEGMLADFAPS 357 (604)
T ss_pred ccchhhHhhccCcccchhhhhhhh-hhhcccccccCCeeechhHHhcCCCCCcCccCCCCC------ccCceehhhhccc
Confidence 568899999999999999999986 677899999999999999999999999986443221 111112222332
Q ss_pred ccCCCCccccccccccccccccceecccceeee
Q psy8311 141 YNFMSPTFCDHCGSLLYGLFRQGLKCEELQVVD 173 (254)
Q Consensus 141 ~~~~~pt~C~~C~~~i~gl~kqgl~C~~C~~~~ 173 (254)
..-+.|....||..+|+. +|+..++.+++.
T Consensus 358 ~aPMIPalVVHCVneIEa---RGLteeGLYRvs 387 (604)
T KOG3564|consen 358 TAPMIPALVVHCVNEIEA---RGLTEEGLYRVS 387 (604)
T ss_pred ccccchHHHHHHHHHHHH---ccccccceeecc
Confidence 234578889999998852 455555555543
No 24
>KOG1170|consensus
Probab=96.84 E-value=0.00031 Score=68.79 Aligned_cols=56 Identities=20% Similarity=0.259 Sum_probs=51.0
Q ss_pred CCcceeeeccCCCCCccccccccccc-cccceEeccccCccccCCCccCCCcccccC
Q psy8311 196 DVPHRFKPYNFMSPTFCDHCGSLLYG-LFRQGLKCEVCFSFCNTFSPPRLSDEKALD 251 (254)
Q Consensus 196 ~~~H~f~~~~~~~pt~C~~C~~~~~g-~~~qg~~C~~C~~~~H~~C~~~~~~~~~~~ 251 (254)
.+||.|.+++++.+..|.+|...++. +..|.++|-||+-.+|.+|..++..++-++
T Consensus 105 ~mphqw~Egnlpvsskc~vc~k~cgs~~rlqd~rclwc~~~vh~~c~~~~~~~cs~~ 161 (1099)
T KOG1170|consen 105 IMPHQWMEGNLPVSSKCSVCEKPCGSVLRLQDYRCLWCGCCVHDTCIGNLARACSLG 161 (1099)
T ss_pred cCchhhhhcCCCccccccccccccccccccCCcceEeeccEeehhhhhhHHhhcccc
Confidence 79999999999999999999999974 568999999999999999999888877665
No 25
>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=96.19 E-value=0.0036 Score=36.26 Aligned_cols=29 Identities=31% Similarity=0.863 Sum_probs=26.1
Q ss_pred cCcccccccCcccccceeccccceEEccccc
Q psy8311 76 FCAFCKDFLWGFGKQGYQCQTCQTAVHKKCH 106 (254)
Q Consensus 76 ~C~~C~~~i~g~~~qg~~C~~C~~~~Hk~C~ 106 (254)
+|++|++.+-|.. +|.|..|.+.+|.+|+
T Consensus 2 ~C~~C~~~~~~~~--~Y~C~~c~f~lh~~Ca 30 (30)
T PF03107_consen 2 WCDVCRRKIDGFY--FYHCSECCFTLHVRCA 30 (30)
T ss_pred CCCCCCCCcCCCE--eEEeCCCCCeEcCccC
Confidence 6999999998854 9999999999999985
No 26
>KOG0193|consensus
Probab=95.97 E-value=0.0035 Score=60.31 Aligned_cols=53 Identities=32% Similarity=0.698 Sum_probs=45.2
Q ss_pred ecCCCeEEEEeecCCccCcccccccCcccccceeccccceEEccccccccccccCC
Q psy8311 60 QVKGHYFVAKFFRQPTFCAFCKDFLWGFGKQGYQCQTCQTAVHKKCHDKLLTKCSG 115 (254)
Q Consensus 60 ~~~~H~f~~~~~~~p~~C~~C~~~i~g~~~qg~~C~~C~~~~Hk~C~~~~~~~C~~ 115 (254)
....|.|..++|....+|+.|..-+| .+|++|+.|++.+|..|...++..|..
T Consensus 175 pl~~H~~~rktf~~~~fC~~~~~~~l---~~gfrC~~C~~KfHq~Cs~~vp~~C~~ 227 (678)
T KOG0193|consen 175 PLTTHNFVRKTFFPLAFCDSCCNKFL---FTGFRCQTCGYKFHQSCSPRVPTSCVN 227 (678)
T ss_pred Cccceeeeeccccchhhhhhhcchhh---hcccccCCCCCccccccCCCCCCCCCC
Confidence 35679999999999999995544433 489999999999999999999999984
No 27
>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=94.56 E-value=0.0096 Score=34.37 Aligned_cols=29 Identities=28% Similarity=0.686 Sum_probs=13.2
Q ss_pred cCcccccccCcccccceeccccceEEccccc
Q psy8311 76 FCAFCKDFLWGFGKQGYQCQTCQTAVHKKCH 106 (254)
Q Consensus 76 ~C~~C~~~i~g~~~qg~~C~~C~~~~Hk~C~ 106 (254)
.|+.|+..+.+ ...|.|..|.+.+|..|+
T Consensus 2 ~C~~C~~~~~~--~~~Y~C~~Cdf~lH~~Ca 30 (30)
T PF07649_consen 2 RCDACGKPIDG--GWFYRCSECDFDLHEECA 30 (30)
T ss_dssp --TTTS----S----EEE-TTT-----HHHH
T ss_pred cCCcCCCcCCC--CceEECccCCCccChhcC
Confidence 58899998876 468999999999999884
No 28
>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=94.40 E-value=0.035 Score=32.03 Aligned_cols=29 Identities=21% Similarity=0.546 Sum_probs=25.7
Q ss_pred ccccccccccccccceEeccccCccccCCCc
Q psy8311 211 FCDHCGSLLYGLFRQGLKCEVCFSFCNTFSP 241 (254)
Q Consensus 211 ~C~~C~~~~~g~~~qg~~C~~C~~~~H~~C~ 241 (254)
+|++|++.+-|.. .+.|..|.+.+|.+|.
T Consensus 2 ~C~~C~~~~~~~~--~Y~C~~c~f~lh~~Ca 30 (30)
T PF03107_consen 2 WCDVCRRKIDGFY--FYHCSECCFTLHVRCA 30 (30)
T ss_pred CCCCCCCCcCCCE--eEEeCCCCCeEcCccC
Confidence 6999999888764 8999999999999984
No 29
>KOG0193|consensus
Probab=93.66 E-value=0.04 Score=53.26 Aligned_cols=55 Identities=22% Similarity=0.447 Sum_probs=44.1
Q ss_pred CCcceeeeccCCCCCccccccccccccccceEeccccCccccCCCccCCCcccccCCC
Q psy8311 196 DVPHRFKPYNFMSPTFCDHCGSLLYGLFRQGLKCEVCFSFCNTFSPPRLSDEKALDVP 253 (254)
Q Consensus 196 ~~~H~f~~~~~~~pt~C~~C~~~~~g~~~qg~~C~~C~~~~H~~C~~~~~~~~~~~~~ 253 (254)
...|.|...++....+|+.|.. .+...|++|..|++.+|..|...++.-|....|
T Consensus 176 l~~H~~~rktf~~~~fC~~~~~---~~l~~gfrC~~C~~KfHq~Cs~~vp~~C~~~~~ 230 (678)
T KOG0193|consen 176 LTTHNFVRKTFFPLAFCDSCCN---KFLFTGFRCQTCGYKFHQSCSPRVPTSCVNPDH 230 (678)
T ss_pred ccceeeeeccccchhhhhhhcc---hhhhcccccCCCCCccccccCCCCCCCCCCcch
Confidence 4678899999988899995544 333478999999999999999999887765544
No 30
>KOG1453|consensus
Probab=92.93 E-value=0.023 Score=58.28 Aligned_cols=83 Identities=18% Similarity=0.392 Sum_probs=62.2
Q ss_pred eEEEEeecC--CccCcccccccCcccccceeccccceEEccccccccccccCCCCCCCcchhhhhhcccccccccccccc
Q psy8311 65 YFVAKFFRQ--PTFCAFCKDFLWGFGKQGYQCQTCQTAVHKKCHDKLLTKCSGSGRESESTIYLRERFKIDVPHRFKPYN 142 (254)
Q Consensus 65 ~f~~~~~~~--p~~C~~C~~~i~g~~~qg~~C~~C~~~~Hk~C~~~~~~~C~~~~~~~~~~~~~~~~~~~~~~H~~~~~~ 142 (254)
.|....... |+.|..|..++|. +++.|..|.+.||++|...+...|......... .|+..+........
T Consensus 545 ~~~~~~r~~~~P~~c~~c~~~~~~---~~~~c~~c~~~chkkc~~~~~~~~~~~~l~~~~------~fG~~l~~~~~~e~ 615 (918)
T KOG1453|consen 545 ALKHYLRSLRKPAPCRTCETYSWF---MELECELCRLVCHKKCLEALKSLCGHERLPGRP------LFGVSLSELARYEP 615 (918)
T ss_pred cchhhhhcccCCcccccccccchh---hhcccceeeeeccccchhhccccCccccccccc------cccHHHHHhhccCC
Confidence 444444444 9999999999996 559999999999999999999999866543222 56666666666566
Q ss_pred CCCCcccccccccc
Q psy8311 143 FMSPTFCDHCGSLL 156 (254)
Q Consensus 143 ~~~pt~C~~C~~~i 156 (254)
+..|..-..|...|
T Consensus 616 ~~vP~i~~~c~~~i 629 (918)
T KOG1453|consen 616 STVPFILKKCLREI 629 (918)
T ss_pred CCCCHHHHHHHHHH
Confidence 67788777775555
No 31
>KOG1170|consensus
Probab=91.44 E-value=0.076 Score=52.72 Aligned_cols=83 Identities=12% Similarity=0.078 Sum_probs=56.8
Q ss_pred cccceEEccccccccccccCCCCCCCcchhh-hhhccccccccccccccCCCCcccccccccccccc-ccceecccceee
Q psy8311 95 QTCQTAVHKKCHDKLLTKCSGSGRESESTIY-LRERFKIDVPHRFKPYNFMSPTFCDHCGSLLYGLF-RQGLKCEELQVV 172 (254)
Q Consensus 95 ~~C~~~~Hk~C~~~~~~~C~~~~~~~~~~~~-~~~~~~~~~~H~~~~~~~~~pt~C~~C~~~i~gl~-kqgl~C~~C~~~ 172 (254)
..+...-|+.|++.-...+.+.+..+..... ..+.-+..++|+|.+.+.+.+..|.+|......+. -|.++|-||+.+
T Consensus 66 vi~~~rk~r~~adn~ke~e~wi~~~kt~q~~e~~s~~~a~mphqw~Egnlpvsskc~vc~k~cgs~~rlqd~rclwc~~~ 145 (1099)
T KOG1170|consen 66 VITPVRKHRLCADNRKEMEKWINQSKTPQHLEFISPENAIMPHQWMEGNLPVSSKCSVCEKPCGSVLRLQDYRCLWCGCC 145 (1099)
T ss_pred EecccHHhhhhccchhHHHHhhccccchhhccccCCCcccCchhhhhcCCCccccccccccccccccccCCcceEeeccE
Confidence 4445556777877776666665543321110 00012347999999999999999999988765443 489999999999
Q ss_pred eeeee
Q psy8311 173 DLLYE 177 (254)
Q Consensus 173 ~h~~~ 177 (254)
+|..+
T Consensus 146 vh~~c 150 (1099)
T KOG1170|consen 146 VHDTC 150 (1099)
T ss_pred eehhh
Confidence 98664
No 32
>KOG1453|consensus
Probab=91.31 E-value=0.087 Score=54.18 Aligned_cols=56 Identities=27% Similarity=0.395 Sum_probs=44.5
Q ss_pred CCCeEEEE-eecCC-ccCcccccccCcc-cccceeccccc----eEEccccccccccccCCCC
Q psy8311 62 KGHYFVAK-FFRQP-TFCAFCKDFLWGF-GKQGYQCQTCQ----TAVHKKCHDKLLTKCSGSG 117 (254)
Q Consensus 62 ~~H~f~~~-~~~~p-~~C~~C~~~i~g~-~~qg~~C~~C~----~~~Hk~C~~~~~~~C~~~~ 117 (254)
..|.+... .+..+ .||..|..++||. .-++.+|..|+ ...|..|...+...|....
T Consensus 390 ~~~~~r~~~~~~~~~s~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 452 (918)
T KOG1453|consen 390 KSHMFRAGNTVRGPRSWCESCATFLPGQRILQSVKEPLCGRVSLENSNSACSDLVPNVFKQLL 452 (918)
T ss_pred HHHHhhcccccCcchhcccchhhhchhhhhhhcccccccccccccccccchhcccchhhHHHH
Confidence 34555554 55567 9999999999998 77889999999 7899999888888776543
No 33
>KOG3564|consensus
Probab=91.13 E-value=0.075 Score=49.83 Aligned_cols=50 Identities=26% Similarity=0.502 Sum_probs=43.2
Q ss_pred CcceeeeccCCCCCcccccccccc-ccccceEeccccCccccCCCccCCCccc
Q psy8311 197 VPHRFKPYNFMSPTFCDHCGSLLY-GLFRQGLKCEVCFSFCNTFSPPRLSDEK 248 (254)
Q Consensus 197 ~~H~f~~~~~~~pt~C~~C~~~~~-g~~~qg~~C~~C~~~~H~~C~~~~~~~~ 248 (254)
-.|.|+..++..+-+|..|++-|. | ..+++|.+|...||..|.++++..|
T Consensus 285 r~htfi~kt~~~~~~Cv~C~krIkfg--~~sLkCRdC~v~~H~~Cr~~l~lpC 335 (604)
T KOG3564|consen 285 RLHTFISKTVIKPENCVPCGKRIKFG--KLSLKCRDCPVVCHIECRDKLTLPC 335 (604)
T ss_pred ccchhhHhhccCcccchhhhhhhhhh--hcccccccCCeeechhHHhcCCCCC
Confidence 458899999999999999999885 4 4689999999999999999876544
No 34
>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=90.31 E-value=0.066 Score=30.78 Aligned_cols=29 Identities=24% Similarity=0.393 Sum_probs=12.7
Q ss_pred ccccccccccccccceEeccccCccccCCCc
Q psy8311 211 FCDHCGSLLYGLFRQGLKCEVCFSFCNTFSP 241 (254)
Q Consensus 211 ~C~~C~~~~~g~~~qg~~C~~C~~~~H~~C~ 241 (254)
.|+.|+..+.+ ...+.|..|.+..|..|+
T Consensus 2 ~C~~C~~~~~~--~~~Y~C~~Cdf~lH~~Ca 30 (30)
T PF07649_consen 2 RCDACGKPIDG--GWFYRCSECDFDLHEECA 30 (30)
T ss_dssp --TTTS----S----EEE-TTT-----HHHH
T ss_pred cCCcCCCcCCC--CceEECccCCCccChhcC
Confidence 48889888776 457999999999998874
No 35
>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=88.40 E-value=0.16 Score=31.84 Aligned_cols=29 Identities=34% Similarity=0.944 Sum_probs=17.5
Q ss_pred CcccccccCcccccceecc--ccceEEcccccccc
Q psy8311 77 CAFCKDFLWGFGKQGYQCQ--TCQTAVHKKCHDKL 109 (254)
Q Consensus 77 C~~C~~~i~g~~~qg~~C~--~C~~~~Hk~C~~~~ 109 (254)
|.+|.+++. ||.+|. +|+...|..|....
T Consensus 1 C~~C~~iv~----~G~~C~~~~C~~r~H~~C~~~y 31 (43)
T PF08746_consen 1 CEACKEIVT----QGQRCSNRDCNVRLHDDCFKKY 31 (43)
T ss_dssp -TTT-SB-S----SSEE-SS--S--EE-HHHHHHH
T ss_pred CcccchhHe----eeccCCCCccCchHHHHHHHHH
Confidence 678888775 999999 69999999997543
No 36
>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=84.08 E-value=0.98 Score=28.86 Aligned_cols=31 Identities=23% Similarity=0.623 Sum_probs=24.6
Q ss_pred cCcccccccCcccccceeccccceEEccccccc
Q psy8311 76 FCAFCKDFLWGFGKQGYQCQTCQTAVHKKCHDK 108 (254)
Q Consensus 76 ~C~~C~~~i~g~~~qg~~C~~C~~~~Hk~C~~~ 108 (254)
+|.+|++ .+-...-+.|+.|+..+|..|...
T Consensus 1 ~C~vC~~--~~~~~~~i~C~~C~~~~H~~C~~~ 31 (51)
T PF00628_consen 1 YCPVCGQ--SDDDGDMIQCDSCNRWYHQECVGP 31 (51)
T ss_dssp EBTTTTS--SCTTSSEEEBSTTSCEEETTTSTS
T ss_pred eCcCCCC--cCCCCCeEEcCCCChhhCcccCCC
Confidence 5778888 333567789999999999999754
No 37
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=77.16 E-value=1 Score=29.67 Aligned_cols=35 Identities=23% Similarity=0.526 Sum_probs=28.4
Q ss_pred CccCcccccccCcccccceeccccceEEcccccccc
Q psy8311 74 PTFCAFCKDFLWGFGKQGYQCQTCQTAVHKKCHDKL 109 (254)
Q Consensus 74 p~~C~~C~~~i~g~~~qg~~C~~C~~~~Hk~C~~~~ 109 (254)
...|..|++-+. ..-..+.|..|+-..|+.|....
T Consensus 5 ~~~C~~Cg~~~~-~~dDiVvCp~CgapyHR~C~~~~ 39 (54)
T PF14446_consen 5 GCKCPVCGKKFK-DGDDIVVCPECGAPYHRDCWEKA 39 (54)
T ss_pred CccChhhCCccc-CCCCEEECCCCCCcccHHHHhhC
Confidence 467999998874 13588999999999999998553
No 38
>KOG0957|consensus
Probab=72.52 E-value=2.3 Score=40.49 Aligned_cols=36 Identities=14% Similarity=0.504 Sum_probs=25.3
Q ss_pred CCccccccccccccccceEec--cccCccccCCCccCC
Q psy8311 209 PTFCDHCGSLLYGLFRQGLKC--EVCFSFCNTFSPPRL 244 (254)
Q Consensus 209 pt~C~~C~~~~~g~~~qg~~C--~~C~~~~H~~C~~~~ 244 (254)
...|..|..-++...-.--+| ..|+...|..|.+.+
T Consensus 238 ak~Cs~Ced~~fARtGvci~CdaGMCk~YfHVTCAQk~ 275 (707)
T KOG0957|consen 238 AKTCSACEDKIFARTGVCIRCDAGMCKEYFHVTCAQKL 275 (707)
T ss_pred cchhccccchhhhhcceeeeccchhhhhhhhhhHHhhh
Confidence 356999988776422223466 589999999998853
No 39
>PF13831 PHD_2: PHD-finger; PDB: 2L43_A 2KU3_A.
Probab=72.48 E-value=1.4 Score=26.54 Aligned_cols=20 Identities=30% Similarity=0.615 Sum_probs=13.3
Q ss_pred cceeccccceEEcccccccc
Q psy8311 90 QGYQCQTCQTAVHKKCHDKL 109 (254)
Q Consensus 90 qg~~C~~C~~~~Hk~C~~~~ 109 (254)
+-++|+.|++.+|..|....
T Consensus 3 ~ll~C~~C~v~VH~~CYGv~ 22 (36)
T PF13831_consen 3 PLLFCDNCNVAVHQSCYGVS 22 (36)
T ss_dssp EEEE-SSS--EEEHHHHT-S
T ss_pred ceEEeCCCCCcCChhhCCcc
Confidence 45799999999999997543
No 40
>KOG2807|consensus
Probab=72.17 E-value=5.1 Score=36.14 Aligned_cols=86 Identities=30% Similarity=0.558 Sum_probs=48.0
Q ss_pred CCccCcccccccCcccccceeccccceEEccccccccccccCCCCCCCcchhhhhhcccccccccccc--------ccCC
Q psy8311 73 QPTFCAFCKDFLWGFGKQGYQCQTCQTAVHKKCHDKLLTKCSGSGRESESTIYLRERFKIDVPHRFKP--------YNFM 144 (254)
Q Consensus 73 ~p~~C~~C~~~i~g~~~qg~~C~~C~~~~Hk~C~~~~~~~C~~~~~~~~~~~~~~~~~~~~~~H~~~~--------~~~~ 144 (254)
.|++|. |...+-| .||.|..|+-.+ | .++..|+.-.+.-.+...+. ....|.|.. ..+.
T Consensus 262 ~ps~C~-CH~~~~~---~Gy~CP~Ckakv---C--sLP~eCpiC~ltLVss~hLA----RSyhhL~PL~~F~Eip~~~~~ 328 (378)
T KOG2807|consen 262 TPSFCA-CHSELSG---GGYFCPQCKAKV---C--SLPIECPICSLTLVSSPHLA----RSYHHLFPLKPFVEIPETEYN 328 (378)
T ss_pred Ccchhe-ecccccc---CceeCCcccCee---e--cCCccCCccceeEecchHHH----HHHHhhcCCcchhhccccccC
Confidence 577876 6654443 799999998665 4 35667765443221111111 112222221 2223
Q ss_pred CCccccccccccccccccceecccceeee
Q psy8311 145 SPTFCDHCGSLLYGLFRQGLKCEELQVVD 173 (254)
Q Consensus 145 ~pt~C~~C~~~i~gl~kqgl~C~~C~~~~ 173 (254)
.-.+|-.|...+. ...+|+|+.|+.+.
T Consensus 329 ~~~~Cf~C~~~~~--~~~~y~C~~Ck~~F 355 (378)
T KOG2807|consen 329 GSRFCFACQGELL--SSGRYRCESCKNVF 355 (378)
T ss_pred CCcceeeeccccC--CCCcEEchhcccee
Confidence 4456999954443 34588999998665
No 41
>PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=71.42 E-value=3.2 Score=34.98 Aligned_cols=42 Identities=26% Similarity=0.778 Sum_probs=33.6
Q ss_pred CCccCcccc--cccCcccc-cceeccccceEEccccccccccccCCC
Q psy8311 73 QPTFCAFCK--DFLWGFGK-QGYQCQTCQTAVHKKCHDKLLTKCSGS 116 (254)
Q Consensus 73 ~p~~C~~C~--~~i~g~~~-qg~~C~~C~~~~Hk~C~~~~~~~C~~~ 116 (254)
+...|.+|. ++|+.+.. ...+|..|+-.+|+.|... ..|+.-
T Consensus 151 kGfiCe~C~~~~~IfPF~~~~~~~C~~C~~v~H~~C~~~--~~CpkC 195 (202)
T PF13901_consen 151 KGFICEICNSDDIIFPFQIDTTVRCPKCKSVFHKSCFRK--KSCPKC 195 (202)
T ss_pred CCCCCccCCCCCCCCCCCCCCeeeCCcCccccchhhcCC--CCCCCc
Confidence 567899997 67777655 6689999999999999875 567653
No 42
>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=69.28 E-value=4.7 Score=25.58 Aligned_cols=31 Identities=16% Similarity=0.433 Sum_probs=24.6
Q ss_pred ccccccccccccccceEeccccCccccCCCccC
Q psy8311 211 FCDHCGSLLYGLFRQGLKCEVCFSFCNTFSPPR 243 (254)
Q Consensus 211 ~C~~C~~~~~g~~~qg~~C~~C~~~~H~~C~~~ 243 (254)
+|.+|++ .+....-+.|..|+...|..|...
T Consensus 1 ~C~vC~~--~~~~~~~i~C~~C~~~~H~~C~~~ 31 (51)
T PF00628_consen 1 YCPVCGQ--SDDDGDMIQCDSCNRWYHQECVGP 31 (51)
T ss_dssp EBTTTTS--SCTTSSEEEBSTTSCEEETTTSTS
T ss_pred eCcCCCC--cCCCCCeEEcCCCChhhCcccCCC
Confidence 4778888 333456789999999999999875
No 43
>cd02340 ZZ_NBR1_like Zinc finger, ZZ type. Zinc finger present in Drosophila ref(2)P, NBR1, Human sequestosome 1 and related proteins. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding. Drosophila ref(2)P appears to control the multiplication of sigma rhabdovirus. NBR1 (Next to BRCA1 gene 1 protein) interacts with fasciculation and elongation protein zeta-1 (FEZ1) and calcium and integrin binding protein (CIB), and may function in cell signalling pathways. Sequestosome 1 is a phosphotyrosine independent ligand for the Lck SH2 domain and binds noncovalently to ubiquitin via its UBA domain.
Probab=62.98 E-value=4.2 Score=25.38 Aligned_cols=29 Identities=24% Similarity=0.729 Sum_probs=22.6
Q ss_pred cCcccccccCcccccceecccc-ceEEcccccc
Q psy8311 76 FCAFCKDFLWGFGKQGYQCQTC-QTAVHKKCHD 107 (254)
Q Consensus 76 ~C~~C~~~i~g~~~qg~~C~~C-~~~~Hk~C~~ 107 (254)
.|+.|...|.| .-|+|..| .+.....|..
T Consensus 2 ~Cd~C~~~i~G---~ry~C~~C~d~dLC~~C~~ 31 (43)
T cd02340 2 ICDGCQGPIVG---VRYKCLVCPDYDLCESCEA 31 (43)
T ss_pred CCCCCCCcCcC---CeEECCCCCCccchHHhhC
Confidence 69999998877 47899999 5667666654
No 44
>KOG0612|consensus
Probab=61.38 E-value=1.5 Score=45.76 Aligned_cols=53 Identities=36% Similarity=0.809 Sum_probs=48.2
Q ss_pred cCCCeEEEEeecCCccCcccccccCcccccceeccccceEEccccccccccccC
Q psy8311 61 VKGHYFVAKFFRQPTFCAFCKDFLWGFGKQGYQCQTCQTAVHKKCHDKLLTKCS 114 (254)
Q Consensus 61 ~~~H~f~~~~~~~p~~C~~C~~~i~g~~~qg~~C~~C~~~~Hk~C~~~~~~~C~ 114 (254)
..+|.|....+..|++|..|...+|+.++ .|.|..|.+.+|+.=..++..+|.
T Consensus 1207 ~~~~~~~~~l~~~~~~~~~~~k~l~~~~~-~ye~~~~~~~~~~d~~~k~m~p~k 1259 (1317)
T KOG0612|consen 1207 HKGHEFIPFLYHFPTNCEACIKPLWHMFK-AYECRRCHIKCHKDHMDKIMAPCK 1259 (1317)
T ss_pred CCCCcchHHHhhcchhHHHHhhhcccchh-HHHHHHhhccccccccccccCccc
Confidence 47899999999999999999999999877 999999999999988888777777
No 45
>KOG3532|consensus
Probab=57.22 E-value=2.6 Score=41.69 Aligned_cols=48 Identities=6% Similarity=-0.110 Sum_probs=42.2
Q ss_pred ecCCCeEEEEeecCCccCcccccccCcccccceeccccceEEcccccccc
Q psy8311 60 QVKGHYFVAKFFRQPTFCAFCKDFLWGFGKQGYQCQTCQTAVHKKCHDKL 109 (254)
Q Consensus 60 ~~~~H~f~~~~~~~p~~C~~C~~~i~g~~~qg~~C~~C~~~~Hk~C~~~~ 109 (254)
...||.|....|.+.+.|+.|+.-||. +-+..|..|.+.+|++|...-
T Consensus 743 ~~~~~d~~~~h~~r~~~~~~~~~ki~~--~~a~~~~~~~~~~~~k~~~~~ 790 (1051)
T KOG3532|consen 743 TEDGGDDEEAHLDRKRSASTRKAKIQA--TFAAGKKKVLDLMPQKRKNTD 790 (1051)
T ss_pred CCCCCchHHhhhhhhcccchhccceee--hhhhcccHHHHhcchhhhcch
Confidence 357899999999999999999999995 678899999999999996443
No 46
>PF07282 OrfB_Zn_ribbon: Putative transposase DNA-binding domain; InterPro: IPR010095 This entry represents a region of a sequence similarity between a family of putative transposases of Thermoanaerobacter tengcongensis, smaller related proteins from Bacillus anthracis, putative transposes described by IPR001959 from INTERPRO, and other proteins. More information about these proteins can be found at Protein of the Month: Transposase [].
Probab=51.51 E-value=23 Score=23.91 Aligned_cols=35 Identities=11% Similarity=0.226 Sum_probs=28.2
Q ss_pred eecCCccCcccccccCc-ccccceeccccceEEccc
Q psy8311 70 FFRQPTFCAFCKDFLWG-FGKQGYQCQTCQTAVHKK 104 (254)
Q Consensus 70 ~~~~p~~C~~C~~~i~g-~~~qg~~C~~C~~~~Hk~ 104 (254)
.......|..|+...-. +....+.|..||+..|+.
T Consensus 24 ~~~TSq~C~~CG~~~~~~~~~r~~~C~~Cg~~~~rD 59 (69)
T PF07282_consen 24 EAYTSQTCPRCGHRNKKRRSGRVFTCPNCGFEMDRD 59 (69)
T ss_pred CCCCccCccCcccccccccccceEEcCCCCCEECcH
Confidence 34577889999988876 667789999999988764
No 47
>KOG4323|consensus
Probab=49.19 E-value=8.8 Score=36.42 Aligned_cols=34 Identities=32% Similarity=0.679 Sum_probs=30.5
Q ss_pred CcccccccCcccccceeccccceEEccccccccc
Q psy8311 77 CAFCKDFLWGFGKQGYQCQTCQTAVHKKCHDKLL 110 (254)
Q Consensus 77 C~~C~~~i~g~~~qg~~C~~C~~~~Hk~C~~~~~ 110 (254)
|.+|.....|.+.+-++|..|+-.+|..|++-..
T Consensus 171 c~vC~~g~~~~~NrmlqC~~C~~~fHq~Chqp~i 204 (464)
T KOG4323|consen 171 CSVCYCGGPGAGNRMLQCDKCRQWYHQACHQPLI 204 (464)
T ss_pred eeeeecCCcCccceeeeecccccHHHHHhccCCC
Confidence 9999999999888999999999999999986443
No 48
>TIGR01053 LSD1 zinc finger domain, LSD1 subclass. This model describes a putative zinc finger domain found in three closely spaced copies in Arabidopsis protein LSD1 and in two copies in other proteins from the same species. The motif resembles CxxCRxxLMYxxGASxVxCxxC
Probab=47.55 E-value=17 Score=21.05 Aligned_cols=26 Identities=23% Similarity=0.603 Sum_probs=20.8
Q ss_pred Cccccccccccc-cccceEeccccCcc
Q psy8311 210 TFCDHCGSLLYG-LFRQGLKCEVCFSF 235 (254)
Q Consensus 210 t~C~~C~~~~~g-~~~qg~~C~~C~~~ 235 (254)
.+|..|+.+++. .+...++|..|...
T Consensus 2 ~~C~~C~t~L~yP~gA~~vrCs~C~~v 28 (31)
T TIGR01053 2 VVCGGCRTLLMYPRGASSVRCALCQTV 28 (31)
T ss_pred cCcCCCCcEeecCCCCCeEECCCCCeE
Confidence 369999998874 56789999999754
No 49
>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 KOG3532|consensus
Probab=45.85 E-value=3.4 Score=40.84 Aligned_cols=48 Identities=10% Similarity=-0.023 Sum_probs=41.2
Q ss_pred ecCCCeEEEEeecCCccCcccccccCcccccceeccccceEEcccccccc
Q psy8311 60 QVKGHYFVAKFFRQPTFCAFCKDFLWGFGKQGYQCQTCQTAVHKKCHDKL 109 (254)
Q Consensus 60 ~~~~H~f~~~~~~~p~~C~~C~~~i~g~~~qg~~C~~C~~~~Hk~C~~~~ 109 (254)
..+.|.|+...+..++||+.|.+-.| .+.+-.|..|.+.+|+.|.+.-
T Consensus 69 ~~N~~r~~~t~~~~~t~~~~~~~~~~--~~~AS~c~s~~~V~h~lfqE~k 116 (1051)
T KOG3532|consen 69 PINQFRPAQIPEELRTFLKSGEDGQG--ISKASSCNSISLVLHMLFQEHK 116 (1051)
T ss_pred chhhcChhcCcccccccccccccchh--hHHHHHHHHHHHHHHHHHHHhh
Confidence 35779999999999999999999888 4678899999999999887543
No 51
>PF13922 PHD_3: PHD domain of transcriptional enhancer, Asx
Probab=45.21 E-value=8.1 Score=26.45 Aligned_cols=16 Identities=25% Similarity=0.621 Sum_probs=14.0
Q ss_pred EeccccCccccCCCcc
Q psy8311 227 LKCEVCFSFCNTFSPP 242 (254)
Q Consensus 227 ~~C~~C~~~~H~~C~~ 242 (254)
..|.-||..||++|+-
T Consensus 44 i~Cq~CGAFCHDDCIg 59 (69)
T PF13922_consen 44 IMCQGCGAFCHDDCIG 59 (69)
T ss_pred HHHhhccchhcccccc
Confidence 4699999999999974
No 52
>KOG4718|consensus
Probab=41.28 E-value=6.3 Score=33.42 Aligned_cols=32 Identities=28% Similarity=0.785 Sum_probs=27.0
Q ss_pred ccCcccccccCcccccceeccccceEEccccccccc
Q psy8311 75 TFCAFCKDFLWGFGKQGYQCQTCQTAVHKKCHDKLL 110 (254)
Q Consensus 75 ~~C~~C~~~i~g~~~qg~~C~~C~~~~Hk~C~~~~~ 110 (254)
..|..|..++- ||.+|..|+...|..|...-.
T Consensus 182 k~Cn~Ch~LvI----qg~rCg~c~i~~h~~c~qty~ 213 (235)
T KOG4718|consen 182 KNCNLCHCLVI----QGIRCGSCNIQYHRGCIQTYL 213 (235)
T ss_pred HHHhHhHHHhh----eeeccCcccchhhhHHHHHHh
Confidence 35999999875 899999999999999976543
No 53
>PF09297 zf-NADH-PPase: NADH pyrophosphatase zinc ribbon domain; InterPro: IPR015376 This domain has a zinc ribbon structure and is often found between two NUDIX domains.; GO: 0016787 hydrolase activity, 0046872 metal ion binding; PDB: 1VK6_A 2GB5_A.
Probab=39.92 E-value=21 Score=20.49 Aligned_cols=26 Identities=23% Similarity=0.450 Sum_probs=14.8
Q ss_pred Ccccccccccc-ccccceEeccccCcc
Q psy8311 210 TFCDHCGSLLY-GLFRQGLKCEVCFSF 235 (254)
Q Consensus 210 t~C~~C~~~~~-g~~~qg~~C~~C~~~ 235 (254)
.+|..|+..+. ....-.++|..|+..
T Consensus 4 rfC~~CG~~t~~~~~g~~r~C~~Cg~~ 30 (32)
T PF09297_consen 4 RFCGRCGAPTKPAPGGWARRCPSCGHE 30 (32)
T ss_dssp SB-TTT--BEEE-SSSS-EEESSSS-E
T ss_pred cccCcCCccccCCCCcCEeECCCCcCE
Confidence 57999999874 333467899999853
No 54
>PF07754 DUF1610: Domain of unknown function (DUF1610); InterPro: IPR011668 This domain is found in archaeal species. It is likely to bind zinc via its four well-conserved cysteine residues.
Probab=38.98 E-value=27 Score=19.02 Aligned_cols=23 Identities=22% Similarity=0.433 Sum_probs=15.2
Q ss_pred cccccccccccc-cceEeccccCc
Q psy8311 212 CDHCGSLLYGLF-RQGLKCEVCFS 234 (254)
Q Consensus 212 C~~C~~~~~g~~-~qg~~C~~C~~ 234 (254)
|..|+..|-+.. -..|.|..||+
T Consensus 1 C~sC~~~i~~r~~~v~f~CPnCG~ 24 (24)
T PF07754_consen 1 CTSCGRPIAPREQAVPFPCPNCGF 24 (24)
T ss_pred CccCCCcccCcccCceEeCCCCCC
Confidence 556766665433 35788999874
No 55
>COG1571 Predicted DNA-binding protein containing a Zn-ribbon domain [General function prediction only]
Probab=34.48 E-value=28 Score=32.72 Aligned_cols=39 Identities=21% Similarity=0.557 Sum_probs=30.0
Q ss_pred CeEEEEeecCCccCcccccccCcccccceeccccceEEcc
Q psy8311 64 HYFVAKFFRQPTFCAFCKDFLWGFGKQGYQCQTCQTAVHK 103 (254)
Q Consensus 64 H~f~~~~~~~p~~C~~C~~~i~g~~~qg~~C~~C~~~~Hk 103 (254)
|.+.. .....+.|..|+..|-..++.||+|..|+...-.
T Consensus 341 ~~l~~-~~~~~p~Cp~Cg~~m~S~G~~g~rC~kCg~~~~~ 379 (421)
T COG1571 341 LKLAR-YERVNPVCPRCGGRMKSAGRNGFRCKKCGTRARE 379 (421)
T ss_pred EEeee-eEEcCCCCCccCCchhhcCCCCcccccccccCCc
Confidence 44444 4456779999999998887779999999976543
No 56
>COG1571 Predicted DNA-binding protein containing a Zn-ribbon domain [General function prediction only]
Probab=34.11 E-value=30 Score=32.48 Aligned_cols=34 Identities=21% Similarity=0.476 Sum_probs=27.4
Q ss_pred CccccccccccccccceEeccccCccccCCCccC
Q psy8311 210 TFCDHCGSLLYGLFRQGLKCEVCFSFCNTFSPPR 243 (254)
Q Consensus 210 t~C~~C~~~~~g~~~qg~~C~~C~~~~H~~C~~~ 243 (254)
..|-.|+..|...++.||+|..|++..-..=+..
T Consensus 351 p~Cp~Cg~~m~S~G~~g~rC~kCg~~~~~~~~~~ 384 (421)
T COG1571 351 PVCPRCGGRMKSAGRNGFRCKKCGTRARETLIKE 384 (421)
T ss_pred CCCCccCCchhhcCCCCcccccccccCCcccccc
Confidence 4799999999877777999999998876654433
No 57
>smart00661 RPOL9 RNA polymerase subunit 9.
Probab=32.66 E-value=36 Score=21.48 Aligned_cols=27 Identities=30% Similarity=0.736 Sum_probs=18.7
Q ss_pred cCcccccccCcc-cc--cceeccccceEEc
Q psy8311 76 FCAFCKDFLWGF-GK--QGYQCQTCQTAVH 102 (254)
Q Consensus 76 ~C~~C~~~i~g~-~~--qg~~C~~C~~~~H 102 (254)
||..|+.+|.-- .. .-+.|..|++...
T Consensus 2 FCp~Cg~~l~~~~~~~~~~~vC~~Cg~~~~ 31 (52)
T smart00661 2 FCPKCGNMLIPKEGKEKRRFVCRKCGYEEP 31 (52)
T ss_pred CCCCCCCccccccCCCCCEEECCcCCCeEE
Confidence 899999988532 11 2478999997543
No 58
>KOG0782|consensus
Probab=32.54 E-value=9.3 Score=37.18 Aligned_cols=116 Identities=16% Similarity=0.135 Sum_probs=66.1
Q ss_pred ccccccccccCCCCccccccccccc-ccccc--ceecccceeeeeeeeeee---EEeecccccccc-----c--cCCCcc
Q psy8311 133 DVPHRFKPYNFMSPTFCDHCGSLLY-GLFRQ--GLKCEELQVVDLLYEIYE---VIVFGFQYLRER-----F--KIDVPH 199 (254)
Q Consensus 133 ~~~H~~~~~~~~~pt~C~~C~~~i~-gl~kq--gl~C~~C~~~~h~~~~~~---~~~~~~~~~~~~-----~--~~~~~H 199 (254)
+-.|.|.+.+.. ..+|.+=.+... ...+. --+|..|..++|.. |++ .+.|.|+..-+. . ..-+.|
T Consensus 167 ~gEHvWletnvs-gd~CYvGE~~C~~r~~kS~~rRkCAaCkIVvHT~-CieqLeKiNfrCKptFRe~gsr~~rE~~fvrH 244 (1004)
T KOG0782|consen 167 DGEHVWLETNVS-GDECYVGEKDCRVRFAKSGERRKCAACKIVVHTN-CIEQLEKINFRCKPTFREYGSRKTRESGFVRH 244 (1004)
T ss_pred CceeEEEecccC-CceeeechHHHHHHHhhhhhhccceeeeEEEech-HHHHHHHhccccccchhhccccCcccccchHH
Confidence 456888876653 344544111110 01122 23799999999855 444 456777543221 1 124668
Q ss_pred eeeeccCCCCCccccccccc-----c-ccccceEeccccCccccCC--Cc--cCCCcccccC
Q psy8311 200 RFKPYNFMSPTFCDHCGSLL-----Y-GLFRQGLKCEVCFSFCNTF--SP--PRLSDEKALD 251 (254)
Q Consensus 200 ~f~~~~~~~pt~C~~C~~~~-----~-g~~~qg~~C~~C~~~~H~~--C~--~~~~~~~~~~ 251 (254)
+|+...- .-..|..|++-+ + +...-...|.||+...|.+ |. +++...+.+|
T Consensus 245 HWVHrrR-qeGkC~~CgKgFQQKf~FhsKEivAisCSWCKqayH~KvtCFml~~iEEpCslG 305 (1004)
T KOG0782|consen 245 HWVHRRR-QEGKCNTCGKGFQQKFFFHSKEIVAISCSWCKQAYHLKVTCFMLDKIEEPCSLG 305 (1004)
T ss_pred hHhhHhh-hccccchhhhhhhhheeeccccEEEEEehHHHHHhhcchhhhhhhhhhcccccc
Confidence 8876543 446799998743 1 3233577999999999976 53 3444444443
No 59
>KOG0782|consensus
Probab=32.10 E-value=13 Score=36.25 Aligned_cols=111 Identities=21% Similarity=0.279 Sum_probs=62.0
Q ss_pred cCCCeEEEEeecCCccCcccccccC-cccccc--eeccccceEEcccccc---ccccccCCCCCCCcchhhhhhcccccc
Q psy8311 61 VKGHYFVAKFFRQPTFCAFCKDFLW-GFGKQG--YQCQTCQTAVHKKCHD---KLLTKCSGSGRESESTIYLRERFKIDV 134 (254)
Q Consensus 61 ~~~H~f~~~~~~~p~~C~~C~~~i~-g~~~qg--~~C~~C~~~~Hk~C~~---~~~~~C~~~~~~~~~~~~~~~~~~~~~ 134 (254)
...|.|..+.... .+|++=.+... .+.+.| -+|..|+..+|..|++ ++...|+..-.+..+... +-+.-+
T Consensus 167 ~gEHvWletnvsg-d~CYvGE~~C~~r~~kS~~rRkCAaCkIVvHT~CieqLeKiNfrCKptFRe~gsr~~---rE~~fv 242 (1004)
T KOG0782|consen 167 DGEHVWLETNVSG-DECYVGEKDCRVRFAKSGERRKCAACKIVVHTNCIEQLEKINFRCKPTFREYGSRKT---RESGFV 242 (1004)
T ss_pred CceeEEEecccCC-ceeeechHHHHHHHhhhhhhccceeeeEEEechHHHHHHHhccccccchhhccccCc---ccccch
Confidence 4568888875554 56765322221 122344 4799999999999974 556888876543322111 111123
Q ss_pred ccccccccCCCCcccccccccccc------ccccceecccceeeeeee
Q psy8311 135 PHRFKPYNFMSPTFCDHCGSLLYG------LFRQGLKCEELQVVDLLY 176 (254)
Q Consensus 135 ~H~~~~~~~~~pt~C~~C~~~i~g------l~kqgl~C~~C~~~~h~~ 176 (254)
.|+|+-.- ..--.|..|+..... -.--...|.||+-..|.+
T Consensus 243 rHHWVHrr-RqeGkC~~CgKgFQQKf~FhsKEivAisCSWCKqayH~K 289 (1004)
T KOG0782|consen 243 RHHWVHRR-RQEGKCNTCGKGFQQKFFFHSKEIVAISCSWCKQAYHLK 289 (1004)
T ss_pred HHhHhhHh-hhccccchhhhhhhhheeeccccEEEEEehHHHHHhhcc
Confidence 45555211 123458888765421 111356799998876653
No 60
>PF11781 RRN7: RNA polymerase I-specific transcription initiation factor Rrn7; InterPro: IPR021752 Rrn7 is a transcription binding factor that associates strongly with both Rrn6 and Rrn11 to form a complex which itself binds the TATA-binding protein and is required for transcription by the core domain of the RNA PolI promoter [],[].
Probab=31.81 E-value=23 Score=21.22 Aligned_cols=24 Identities=29% Similarity=0.926 Sum_probs=18.0
Q ss_pred ccCcccccccCcccccc-eeccccce
Q psy8311 75 TFCAFCKDFLWGFGKQG-YQCQTCQT 99 (254)
Q Consensus 75 ~~C~~C~~~i~g~~~qg-~~C~~C~~ 99 (254)
..|.+|+.. |+....| |.|..|+-
T Consensus 9 ~~C~~C~~~-~~~~~dG~~yC~~cG~ 33 (36)
T PF11781_consen 9 EPCPVCGSR-WFYSDDGFYYCDRCGH 33 (36)
T ss_pred CcCCCCCCe-EeEccCCEEEhhhCce
Confidence 459999998 6666777 56888874
No 61
>PF06943 zf-LSD1: LSD1 zinc finger; InterPro: IPR005735 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 model describes a putative zinc finger domain found in three closely spaced copies in Arabidopsis protein LSD1 and in two copies in other proteins from the same species. The motif resembles CxxCRxxLMYxxGASxVxCxxC []. This domain may play a role in the regulation of transcription, via either repression of a prodeath pathway or activation of an antideath pathway, in response to signals emanating from cells undergoing pathogen-induced hypersensitive cell death. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].
Probab=31.52 E-value=37 Score=18.66 Aligned_cols=23 Identities=26% Similarity=0.717 Sum_probs=16.8
Q ss_pred ccccccccc-ccccceEeccccCc
Q psy8311 212 CDHCGSLLY-GLFRQGLKCEVCFS 234 (254)
Q Consensus 212 C~~C~~~~~-g~~~qg~~C~~C~~ 234 (254)
|..|+.++- -.+....+|..|..
T Consensus 1 C~~Cr~~L~yp~GA~sVrCa~C~~ 24 (25)
T PF06943_consen 1 CGGCRTLLMYPRGAPSVRCACCHT 24 (25)
T ss_pred CCCCCceEEcCCCCCCeECCccCc
Confidence 667887664 45678899998874
No 62
>smart00659 RPOLCX RNA polymerase subunit CX. present in RNA polymerase I, II and III
Probab=31.02 E-value=35 Score=21.36 Aligned_cols=26 Identities=19% Similarity=0.359 Sum_probs=17.1
Q ss_pred ccccccccccccccceEeccccCccc
Q psy8311 211 FCDHCGSLLYGLFRQGLKCEVCFSFC 236 (254)
Q Consensus 211 ~C~~C~~~~~g~~~qg~~C~~C~~~~ 236 (254)
.|..|+...-.....+.+|..||..+
T Consensus 4 ~C~~Cg~~~~~~~~~~irC~~CG~rI 29 (44)
T smart00659 4 ICGECGRENEIKSKDVVRCRECGYRI 29 (44)
T ss_pred ECCCCCCEeecCCCCceECCCCCceE
Confidence 47777775543345678888888654
No 63
>PF03604 DNA_RNApol_7kD: DNA directed RNA polymerase, 7 kDa subunit; InterPro: IPR006591 DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. Each class of RNA polymerase is assembled from 9 to 15 different polypeptides. Rbp10 (RNA polymerase CX) is a domain found in RNA polymerase subunit 10; present in RNA polymerase I, II and III.; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 2PMZ_Z 3HKZ_X 2NVX_L 3S1Q_L 2JA6_L 3S17_L 3HOW_L 3HOV_L 3PO2_L 3HOZ_L ....
Probab=30.96 E-value=26 Score=20.46 Aligned_cols=24 Identities=21% Similarity=0.459 Sum_probs=13.8
Q ss_pred cccccccccccccceEeccccCcc
Q psy8311 212 CDHCGSLLYGLFRQGLKCEVCFSF 235 (254)
Q Consensus 212 C~~C~~~~~g~~~qg~~C~~C~~~ 235 (254)
|..|+...........+|..||..
T Consensus 3 C~~Cg~~~~~~~~~~irC~~CG~R 26 (32)
T PF03604_consen 3 CGECGAEVELKPGDPIRCPECGHR 26 (32)
T ss_dssp ESSSSSSE-BSTSSTSSBSSSS-S
T ss_pred CCcCCCeeEcCCCCcEECCcCCCe
Confidence 666766554333456788888754
No 64
>KOG0612|consensus
Probab=30.86 E-value=11 Score=39.74 Aligned_cols=50 Identities=24% Similarity=0.620 Sum_probs=44.3
Q ss_pred cCCCcceeeeccCCCCCccccccccccccccceEeccccCccccCCCccCC
Q psy8311 194 KIDVPHRFKPYNFMSPTFCDHCGSLLYGLFRQGLKCEVCFSFCNTFSPPRL 244 (254)
Q Consensus 194 ~~~~~H~f~~~~~~~pt~C~~C~~~~~g~~~qg~~C~~C~~~~H~~C~~~~ 244 (254)
.+...|.|.+..+..|+.|..|...+|+... .+.|.-|.+.+|++-.+++
T Consensus 1205 ~v~~~~~~~~~l~~~~~~~~~~~k~l~~~~~-~ye~~~~~~~~~~d~~~k~ 1254 (1317)
T KOG0612|consen 1205 LVHKGHEFIPFLYHFPTNCEACIKPLWHMFK-AYECRRCHIKCHKDHMDKI 1254 (1317)
T ss_pred hcCCCCcchHHHhhcchhHHHHhhhcccchh-HHHHHHhhccccccccccc
Confidence 3567899999999999999999999998665 8999999999999988774
No 65
>COG5151 SSL1 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription / DNA replication, recombination, and repair]
Probab=30.26 E-value=46 Score=30.04 Aligned_cols=36 Identities=39% Similarity=0.932 Sum_probs=24.9
Q ss_pred CCccCcccccccCcccccceeccccceEEccccccccccccCCCC
Q psy8311 73 QPTFCAFCKDFLWGFGKQGYQCQTCQTAVHKKCHDKLLTKCSGSG 117 (254)
Q Consensus 73 ~p~~C~~C~~~i~g~~~qg~~C~~C~~~~Hk~C~~~~~~~C~~~~ 117 (254)
.|++|+ |...+.| -||.|.+|+-.+ | .++..|+.-+
T Consensus 294 ~Ps~Ca-CHs~~~~---gGy~CP~CktkV---C--sLPi~CP~Cs 329 (421)
T COG5151 294 LPSVCA-CHSEVKG---GGYECPVCKTKV---C--SLPISCPICS 329 (421)
T ss_pred Ccccee-eeeeecc---CceeCCccccee---e--cCCccCcchh
Confidence 488887 6665554 699999998665 4 3566776544
No 66
>PF14803 Nudix_N_2: Nudix N-terminal; PDB: 3CNG_C.
Probab=30.09 E-value=33 Score=20.27 Aligned_cols=25 Identities=24% Similarity=0.470 Sum_probs=12.0
Q ss_pred cCcccccccCccc-----ccceeccccceE
Q psy8311 76 FCAFCKDFLWGFG-----KQGYQCQTCQTA 100 (254)
Q Consensus 76 ~C~~C~~~i~g~~-----~qg~~C~~C~~~ 100 (254)
||..|+..+--.. +.-+.|..|++.
T Consensus 2 fC~~CG~~l~~~ip~gd~r~R~vC~~Cg~I 31 (34)
T PF14803_consen 2 FCPQCGGPLERRIPEGDDRERLVCPACGFI 31 (34)
T ss_dssp B-TTT--B-EEE--TT-SS-EEEETTTTEE
T ss_pred ccccccChhhhhcCCCCCccceECCCCCCE
Confidence 6778876653222 233678888864
No 67
>KOG0957|consensus
Probab=29.40 E-value=26 Score=33.61 Aligned_cols=35 Identities=17% Similarity=0.082 Sum_probs=23.6
Q ss_pred CccccccccccccccceEeccccCccccCCCccCC
Q psy8311 210 TFCDHCGSLLYGLFRQGLKCEVCFSFCNTFSPPRL 244 (254)
Q Consensus 210 t~C~~C~~~~~g~~~qg~~C~~C~~~~H~~C~~~~ 244 (254)
..|.||-..=---.-.-++|..||+++|..|+-.+
T Consensus 120 ~iCcVClg~rs~da~ei~qCd~CGi~VHEgCYGv~ 154 (707)
T KOG0957|consen 120 VICCVCLGQRSVDAGEILQCDKCGINVHEGCYGVL 154 (707)
T ss_pred eEEEEeecCccccccceeeccccCceecccccccc
Confidence 46888844321112235799999999999998543
No 68
>KOG0954|consensus
Probab=28.26 E-value=26 Score=35.16 Aligned_cols=44 Identities=16% Similarity=0.164 Sum_probs=33.6
Q ss_pred CCCCccccccccccccccceEeccccCccccCCCccC--CCccccc
Q psy8311 207 MSPTFCDHCGSLLYGLFRQGLKCEVCFSFCNTFSPPR--LSDEKAL 250 (254)
Q Consensus 207 ~~pt~C~~C~~~~~g~~~qg~~C~~C~~~~H~~C~~~--~~~~~~~ 250 (254)
.....|++|...-.....+-..|-.|...||..|+-. +|...|+
T Consensus 269 dedviCDvCrspD~e~~neMVfCd~Cn~cVHqaCyGIle~p~gpWl 314 (893)
T KOG0954|consen 269 DEDVICDVCRSPDSEEANEMVFCDKCNICVHQACYGILEVPEGPWL 314 (893)
T ss_pred cccceeceecCCCccccceeEEeccchhHHHHhhhceeecCCCCee
Confidence 3567899999875555567789999999999999864 5555543
No 69
>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=27.53 E-value=51 Score=25.08 Aligned_cols=36 Identities=22% Similarity=0.321 Sum_probs=27.2
Q ss_pred CCccccccccccccccceEeccccCccccCCCccCC
Q psy8311 209 PTFCDHCGSLLYGLFRQGLKCEVCFSFCNTFSPPRL 244 (254)
Q Consensus 209 pt~C~~C~~~~~g~~~qg~~C~~C~~~~H~~C~~~~ 244 (254)
...|..|...+.-+...|..|..|+..+=.+|....
T Consensus 54 ~~~C~~C~~~fg~l~~~~~~C~~C~~~VC~~C~~~~ 89 (118)
T PF02318_consen 54 ERHCARCGKPFGFLFNRGRVCVDCKHRVCKKCGVYS 89 (118)
T ss_dssp CSB-TTTS-BCSCTSTTCEEETTTTEEEETTSEEET
T ss_pred CcchhhhCCcccccCCCCCcCCcCCccccCccCCcC
Confidence 457999998776666678999999999988886553
No 70
>smart00291 ZnF_ZZ Zinc-binding domain, present in Dystrophin, CREB-binding protein. Putative zinc-binding domain present in dystrophin-like proteins, and CREB-binding protein/p300 homologues. The ZZ in dystrophin appears to bind calmodulin. A missense mutation of one of the conserved cysteines in dystrophin results in a patient with Duchenne muscular dystrophy [3].
Probab=27.26 E-value=49 Score=20.41 Aligned_cols=22 Identities=27% Similarity=0.702 Sum_probs=17.0
Q ss_pred CccCcccccccCcccccceeccccc
Q psy8311 74 PTFCAFCKDFLWGFGKQGYQCQTCQ 98 (254)
Q Consensus 74 p~~C~~C~~~i~g~~~qg~~C~~C~ 98 (254)
...|+.|+..|.| .-|+|..|.
T Consensus 4 ~~~C~~C~~~i~g---~ry~C~~C~ 25 (44)
T smart00291 4 SYSCDTCGKPIVG---VRYHCLVCP 25 (44)
T ss_pred CcCCCCCCCCCcC---CEEECCCCC
Confidence 4679999997776 467888873
No 71
>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=26.98 E-value=61 Score=24.64 Aligned_cols=36 Identities=28% Similarity=0.435 Sum_probs=25.5
Q ss_pred CCccCcccccccCcccccceeccccceEEccccccc
Q psy8311 73 QPTFCAFCKDFLWGFGKQGYQCQTCQTAVHKKCHDK 108 (254)
Q Consensus 73 ~p~~C~~C~~~i~g~~~qg~~C~~C~~~~Hk~C~~~ 108 (254)
....|..|...+--+...|..|.+|+..+=++|...
T Consensus 53 ~~~~C~~C~~~fg~l~~~~~~C~~C~~~VC~~C~~~ 88 (118)
T PF02318_consen 53 GERHCARCGKPFGFLFNRGRVCVDCKHRVCKKCGVY 88 (118)
T ss_dssp CCSB-TTTS-BCSCTSTTCEEETTTTEEEETTSEEE
T ss_pred CCcchhhhCCcccccCCCCCcCCcCCccccCccCCc
Confidence 356899998754334568899999999988888654
No 72
>KOG0955|consensus
Probab=26.51 E-value=41 Score=35.37 Aligned_cols=38 Identities=11% Similarity=-0.026 Sum_probs=31.8
Q ss_pred cCCCCCccccccccccccccceEeccccCccccCCCcc
Q psy8311 205 NFMSPTFCDHCGSLLYGLFRQGLKCEVCFSFCNTFSPP 242 (254)
Q Consensus 205 ~~~~pt~C~~C~~~~~g~~~qg~~C~~C~~~~H~~C~~ 242 (254)
.+..+.+|.+|......-....+.|..|++.+|.+|+.
T Consensus 215 ~~~~D~~C~iC~~~~~~n~n~ivfCD~Cnl~VHq~Cyg 252 (1051)
T KOG0955|consen 215 LLEEDAVCCICLDGECQNSNVIVFCDGCNLAVHQECYG 252 (1051)
T ss_pred ccCCCccceeecccccCCCceEEEcCCCcchhhhhccC
Confidence 34567899999886655557899999999999999987
No 73
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=25.82 E-value=30 Score=18.47 Aligned_cols=21 Identities=24% Similarity=0.643 Sum_probs=13.6
Q ss_pred cCcccccccCcccccceeccccce
Q psy8311 76 FCAFCKDFLWGFGKQGYQCQTCQT 99 (254)
Q Consensus 76 ~C~~C~~~i~g~~~qg~~C~~C~~ 99 (254)
+|..|+.-|. ..+-.|..||.
T Consensus 1 ~Cp~CG~~~~---~~~~fC~~CG~ 21 (23)
T PF13240_consen 1 YCPNCGAEIE---DDAKFCPNCGT 21 (23)
T ss_pred CCcccCCCCC---CcCcchhhhCC
Confidence 5677777665 35566777764
No 74
>COG4306 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=25.59 E-value=36 Score=26.51 Aligned_cols=50 Identities=24% Similarity=0.527 Sum_probs=30.1
Q ss_pred ccccccccccccccccceecccceeeeeeeeeeeEEeeccccccccccCCCcceeeeccCCCCCccccccccc
Q psy8311 147 TFCDHCGSLLYGLFRQGLKCEELQVVDLLYEIYEVIVFGFQYLRERFKIDVPHRFKPYNFMSPTFCDHCGSLL 219 (254)
Q Consensus 147 t~C~~C~~~i~gl~kqgl~C~~C~~~~h~~~~~~~~~~~~~~~~~~~~~~~~H~f~~~~~~~pt~C~~C~~~~ 219 (254)
.||++|++. ..++|..|+..+--.-.++.+ -+.+ +.|..|++|..|++..
T Consensus 29 afcskcgea------ti~qcp~csasirgd~~vegv------------lglg-----~dye~psfchncgs~f 78 (160)
T COG4306 29 AFCSKCGEA------TITQCPICSASIRGDYYVEGV------------LGLG-----GDYEPPSFCHNCGSRF 78 (160)
T ss_pred HHHhhhchH------HHhcCCccCCcccccceeeee------------eccC-----CCCCCcchhhcCCCCC
Confidence 589999885 367888887443101011110 0122 4667789999999865
No 75
>PRK00432 30S ribosomal protein S27ae; Validated
Probab=25.54 E-value=57 Score=21.00 Aligned_cols=28 Identities=21% Similarity=0.603 Sum_probs=20.9
Q ss_pred CccCccccc-ccCcccccceeccccceEEc
Q psy8311 74 PTFCAFCKD-FLWGFGKQGYQCQTCQTAVH 102 (254)
Q Consensus 74 p~~C~~C~~-~i~g~~~qg~~C~~C~~~~H 102 (254)
..+|..|+. +|.- ....+.|..|++..-
T Consensus 20 ~~fCP~Cg~~~m~~-~~~r~~C~~Cgyt~~ 48 (50)
T PRK00432 20 NKFCPRCGSGFMAE-HLDRWHCGKCGYTEF 48 (50)
T ss_pred cCcCcCCCcchhec-cCCcEECCCcCCEEe
Confidence 459999988 7763 345689999998753
No 76
>cd02249 ZZ Zinc finger, ZZ type. Zinc finger present in dystrophin, CBP/p300 and many other proteins. The ZZ motif coordinates one or two zinc ions and most likely participates in ligand binding or molecular scaffolding. Many proteins containing ZZ motifs have other zinc-binding motifs as well, and the majority serve as scaffolds in pathways involving acetyltransferase, protein kinase, or ubiqitin-related activity. ZZ proteins can be grouped into the following functional classes: chromatin modifying, cytoskeletal scaffolding, ubiquitin binding or conjugating, and membrane receptor or ion-channel modifying proteins.
Probab=25.42 E-value=46 Score=20.71 Aligned_cols=28 Identities=25% Similarity=0.634 Sum_probs=20.5
Q ss_pred cCcccccccCcccccceeccccc-eEEccccc
Q psy8311 76 FCAFCKDFLWGFGKQGYQCQTCQ-TAVHKKCH 106 (254)
Q Consensus 76 ~C~~C~~~i~g~~~qg~~C~~C~-~~~Hk~C~ 106 (254)
.|+.|...|+| .-|+|..|. +..-..|.
T Consensus 2 ~C~~C~~~i~g---~r~~C~~C~d~dLC~~Cf 30 (46)
T cd02249 2 SCDGCLKPIVG---VRYHCLVCEDFDLCSSCY 30 (46)
T ss_pred CCcCCCCCCcC---CEEECCCCCCCcCHHHHH
Confidence 59999998887 568899887 44444444
No 77
>KOG3362|consensus
Probab=24.17 E-value=25 Score=28.04 Aligned_cols=22 Identities=36% Similarity=0.818 Sum_probs=17.3
Q ss_pred CCccCcccccccCcccccceeccccceE
Q psy8311 73 QPTFCAFCKDFLWGFGKQGYQCQTCQTA 100 (254)
Q Consensus 73 ~p~~C~~C~~~i~g~~~qg~~C~~C~~~ 100 (254)
..+||++|+ +| .-|.|.+||-.
T Consensus 117 ~r~fCaVCG--~~----S~ysC~~CG~k 138 (156)
T KOG3362|consen 117 LRKFCAVCG--YD----SKYSCVNCGTK 138 (156)
T ss_pred cchhhhhcC--CC----chhHHHhcCCc
Confidence 358999998 55 35899999964
No 78
>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=23.82 E-value=35 Score=19.52 Aligned_cols=22 Identities=23% Similarity=0.757 Sum_probs=13.3
Q ss_pred CccCcccccccCcccccceeccccceEE
Q psy8311 74 PTFCAFCKDFLWGFGKQGYQCQTCQTAV 101 (254)
Q Consensus 74 p~~C~~C~~~i~g~~~qg~~C~~C~~~~ 101 (254)
...|.+|+. + .-|.|..|+..+
T Consensus 2 ~~~C~vC~~--~----~kY~Cp~C~~~~ 23 (30)
T PF04438_consen 2 RKLCSVCGN--P----AKYRCPRCGARY 23 (30)
T ss_dssp -EEETSSSS--E----ESEE-TTT--EE
T ss_pred cCCCccCcC--C----CEEECCCcCCce
Confidence 457888877 4 468999888653
No 79
>cd02339 ZZ_Mind_bomb Zinc finger, ZZ type. Zinc finger present in Drosophila Mind bomb (D-mib) and related proteins. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding. Mind bomb is an E3 ubiqitin ligase that has been shown to regulate signaling by the Notch ligand Delta in Drosophila melanogaster.
Probab=23.68 E-value=41 Score=21.13 Aligned_cols=29 Identities=21% Similarity=0.710 Sum_probs=21.0
Q ss_pred cCcccc-cccCcccccceecccc-ceEEcccccc
Q psy8311 76 FCAFCK-DFLWGFGKQGYQCQTC-QTAVHKKCHD 107 (254)
Q Consensus 76 ~C~~C~-~~i~g~~~qg~~C~~C-~~~~Hk~C~~ 107 (254)
.|+.|. ..|.| --|+|..| .+-....|..
T Consensus 2 ~Cd~C~~~~i~G---~RykC~~C~dyDLC~~C~~ 32 (45)
T cd02339 2 ICDTCRKQGIIG---IRWKCAECPNYDLCTTCYH 32 (45)
T ss_pred CCCCCCCCCccc---CeEECCCCCCccchHHHhC
Confidence 689999 56666 45889988 5666666654
No 80
>PF01363 FYVE: FYVE zinc finger; InterPro: IPR000306 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. The FYVE zinc finger is named after four proteins that it has been found in: Fab1, YOTB/ZK632.12, Vac1, and EEA1. The FYVE finger has been shown to bind two zinc ions []. The FYVE finger has eight potential zinc coordinating cysteine positions. Many members of this family also include two histidines in a motif R+HHC+XCG, where + represents a charged residue and X any residue. FYVE-type domains are divided into two known classes: FYVE domains that specifically bind to phosphatidylinositol 3-phosphate in lipid bilayers and FYVE-related domains of undetermined function []. Those that bind to phosphatidylinositol 3-phosphate are often found in proteins targeted to lipid membranes that are involved in regulating membrane traffic [, , ]. Most FYVE domains target proteins to endosomes by binding specifically to phosphatidylinositol-3-phosphate at the membrane surface. By contrast, the CARP2 FYVE-like domain is not optimized to bind to phosphoinositides or insert into lipid bilayers. FYVE domains are distinguished from other zinc fingers by three signature sequences: an N-terminal WxxD motif, a basic R(R/K)HHCR patch, and a C-terminal RVC motif. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0046872 metal ion binding; PDB: 1HYI_A 1JOC_B 1HYJ_A 1DVP_A 3ZYQ_A 4AVX_A 1VFY_A 3T7L_A 1X4U_A 1WFK_A ....
Probab=23.62 E-value=70 Score=21.45 Aligned_cols=34 Identities=18% Similarity=0.581 Sum_probs=19.5
Q ss_pred CCccCcccccccCcccccceeccccceEEcccccc
Q psy8311 73 QPTFCAFCKDFLWGFGKQGYQCQTCQTAVHKKCHD 107 (254)
Q Consensus 73 ~p~~C~~C~~~i~g~~~qg~~C~~C~~~~Hk~C~~ 107 (254)
....|..|..-. ++...-+.|..||..+=..|..
T Consensus 8 ~~~~C~~C~~~F-~~~~rrhhCr~CG~~vC~~Cs~ 41 (69)
T PF01363_consen 8 EASNCMICGKKF-SLFRRRHHCRNCGRVVCSSCSS 41 (69)
T ss_dssp G-SB-TTT--B--BSSS-EEE-TTT--EEECCCS-
T ss_pred CCCcCcCcCCcC-CCceeeEccCCCCCEECCchhC
Confidence 357899999877 6778889999999988777763
No 81
>PF08271 TF_Zn_Ribbon: TFIIB zinc-binding; InterPro: IPR013137 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 a zinc finger motif found in transcription factor IIB (TFIIB). In eukaryotes the initiation of transcription of protein encoding genes by the polymerase II complexe (Pol II) is modulated by general and specific transcription factors. The general transcription factors operate through common promoters elements (such as the TATA box). At least seven different proteins associate to form the general transcription factors: TFIIA, -IIB, -IID, -IIE, -IIF, -IIG, and -IIH []. TFIIB and TFIID are responsible for promoter recognition and interaction with pol II; together with Pol II, they form a minimal initiation complex capable of transcription under certain conditions. The TATA box of a Pol II promoter is bound in the initiation complex by the TBP subunit of TFIID, which bends the DNA around the C-terminal domain of TFIIB whereas the N-terminal zinc finger of TFIIB interacts with Pol II [, ]. The TFIIB zinc finger adopts a zinc ribbon fold characterised by two beta-hairpins forming two structurally similar zinc-binding sub-sites []. The zinc finger contacts the rbp1 subunit of Pol II through its dock domain, a conserved region of about 70 amino acids located close to the polymerase active site []. In the Pol II complex this surface is located near the RNA exit groove. Interestingly this sequence is best conserved in the three polymerases that utilise a TFIIB-like general transcription factor (Pol II, Pol III, and archaeal RNA polymerase) but not in Pol I []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0006355 regulation of transcription, DNA-dependent; PDB: 1VD4_A 1PFT_A 3K1F_M 3K7A_M 1RO4_A 1RLY_A 1DL6_A.
Probab=23.50 E-value=1e+02 Score=18.79 Aligned_cols=36 Identities=22% Similarity=0.337 Sum_probs=22.9
Q ss_pred cccccccc--ccccccceEeccccCccccCCCccCCCc
Q psy8311 211 FCDHCGSL--LYGLFRQGLKCEVCFSFCNTFSPPRLSD 246 (254)
Q Consensus 211 ~C~~C~~~--~~g~~~qg~~C~~C~~~~H~~C~~~~~~ 246 (254)
.|-.|++. +....+-.+.|..||......-.+..+.
T Consensus 2 ~Cp~Cg~~~~~~D~~~g~~vC~~CG~Vl~e~~i~~~~e 39 (43)
T PF08271_consen 2 KCPNCGSKEIVFDPERGELVCPNCGLVLEENIIDEGPE 39 (43)
T ss_dssp SBTTTSSSEEEEETTTTEEEETTT-BBEE-TTBSCCCS
T ss_pred CCcCCcCCceEEcCCCCeEECCCCCCEeecccccCCcc
Confidence 46777774 2344456779999999988877665443
No 82
>PF10083 DUF2321: Uncharacterized protein conserved in bacteria (DUF2321); InterPro: IPR016891 This entry is represented by Bacteriophage 'Lactobacillus prophage Lj928', Orf-Ljo1454. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=23.38 E-value=28 Score=28.09 Aligned_cols=51 Identities=22% Similarity=0.517 Sum_probs=30.7
Q ss_pred CccccccccccccccccceecccceeeeeeeeeeeEEeeccccccccccCCCcceeee-ccCCCCCccccccccc-c
Q psy8311 146 PTFCDHCGSLLYGLFRQGLKCEELQVVDLLYEIYEVIVFGFQYLRERFKIDVPHRFKP-YNFMSPTFCDHCGSLL-Y 220 (254)
Q Consensus 146 pt~C~~C~~~i~gl~kqgl~C~~C~~~~h~~~~~~~~~~~~~~~~~~~~~~~~H~f~~-~~~~~pt~C~~C~~~~-~ 220 (254)
-.||+.|++.. ...|..|+..+- -. ...+-.|.. .++..|++|..|++.. |
T Consensus 28 ~~fC~kCG~~t------I~~Cp~C~~~Ir--G~----------------y~v~gv~~~g~~~~~PsYC~~CGkpyPW 80 (158)
T PF10083_consen 28 EKFCSKCGAKT------ITSCPNCSTPIR--GD----------------YHVEGVFGLGGHYEAPSYCHNCGKPYPW 80 (158)
T ss_pred HHHHHHhhHHH------HHHCcCCCCCCC--Cc----------------eecCCeeeeCCCCCCChhHHhCCCCCch
Confidence 35899998854 567888875431 00 001111122 4556899999999976 5
No 83
>TIGR01384 TFS_arch transcription factor S, archaeal. There has been an apparent duplication event in the Halobacteriaceae lineage (Haloarcula, Haloferax, Haloquadratum, Halobacterium and Natromonas). There appears to be a separate duplication in Methanosphaera stadtmanae.
Probab=23.24 E-value=50 Score=24.27 Aligned_cols=27 Identities=26% Similarity=0.631 Sum_probs=20.8
Q ss_pred cCcccccccCcccccceeccccceEEcc
Q psy8311 76 FCAFCKDFLWGFGKQGYQCQTCQTAVHK 103 (254)
Q Consensus 76 ~C~~C~~~i~g~~~qg~~C~~C~~~~Hk 103 (254)
||..|+.+|.- ....+.|..|++....
T Consensus 2 fC~~Cg~~l~~-~~~~~~C~~C~~~~~~ 28 (104)
T TIGR01384 2 FCPKCGSLMTP-KNGVYVCPSCGYEKEK 28 (104)
T ss_pred CCcccCccccc-CCCeEECcCCCCcccc
Confidence 89999999963 3356899999977554
No 84
>PF13824 zf-Mss51: Zinc-finger of mitochondrial splicing suppressor 51
Probab=22.51 E-value=50 Score=21.84 Aligned_cols=24 Identities=29% Similarity=0.776 Sum_probs=16.6
Q ss_pred CcccccccCcccccceeccccceEEc
Q psy8311 77 CAFCKDFLWGFGKQGYQCQTCQTAVH 102 (254)
Q Consensus 77 C~~C~~~i~g~~~qg~~C~~C~~~~H 102 (254)
|.+|..-.. ..+.|.|..||+..|
T Consensus 2 Cpv~~~~~~--~~v~~~Cp~cGipth 25 (55)
T PF13824_consen 2 CPVCKKDLP--AHVNFECPDCGIPTH 25 (55)
T ss_pred CCCCccccc--cccCCcCCCCCCcCc
Confidence 556655443 357789999998777
No 85
>KOG3520|consensus
Probab=22.06 E-value=45 Score=35.29 Aligned_cols=51 Identities=31% Similarity=0.512 Sum_probs=43.7
Q ss_pred eeecCCCeEEEEeecCCccCcccccccCcccccceeccccceEEccccccccc
Q psy8311 58 VHQVKGHYFVAKFFRQPTFCAFCKDFLWGFGKQGYQCQTCQTAVHKKCHDKLL 110 (254)
Q Consensus 58 ~~~~~~H~f~~~~~~~p~~C~~C~~~i~g~~~qg~~C~~C~~~~Hk~C~~~~~ 110 (254)
...+++|.|.......|.-|..|..-+- .++.|.|..|+...|+.|.....
T Consensus 182 ~~~~~~H~~~~~~~~~~~~~a~~~k~l~--~~~a~~~p~~~s~~~~~~~~~~~ 232 (1167)
T KOG3520|consen 182 SSTINFHSFSSIPVVGPGSCAACNKSLT--TKQAYTCPNCSSSVLKGCRAFLE 232 (1167)
T ss_pred cccccccccccccccCccchhhcccccc--hhhhccCCCccchhhhhhhhhhh
Confidence 3347889999999999999999998886 47999999999999999976543
No 86
>PF04770 ZF-HD_dimer: ZF-HD protein dimerisation region; InterPro: IPR006456 The homeodomain (HD) is a 60-amino acid DNA-binding domain found in many transcription factors. HD-containing proteins are found in diverse organisms such as humans, Drosophila, nematode worms, and plants, where they play important roles in development. Zinc-finger-homeodomain (ZF- HD) subfamily proteins have only been identified in plants, and likely play plant specific roles. ZF-HD proteins are expressed predominantly or exclusively in floral tissue, indicating a likely regulatory role during floral development []. The ZF-HD class of homeodomain proteins may also be involved in the photosynthesis-related mesophyll-specific gene expression of phosphoenolpyruvate carboxylase in C4 species [] and in pathogen signaling and plant defense mechanisms []. These proteins share three domains of high sequence similarity: the homeodomain (II) located at the carboxy-terminus, and two other segments (Ia and Ib) located in the amino-terminal part. These N-terminal domains contain five conserved cysteine residues and at least three conserved histidine residues whose spacing ressembles zinc-binding domains involved in dimerization of transcription factors. Although the two domains contain at least eight potential zinc-binding amino-acids, the unique spacing of the conserved cysteine and histidine residues within domain Ib suggests that both domains form one rather than two zinc finger structures. The two conserved motifs Ia and Ib constitute a dimerization domain which is sufficient for the formation of homo- and heterodimers []. This entry represents the N-terminal Cysteine/Histidine-rich dimerization domain. The companion ZF-HD homeobox domain is described in IPR006455 from INTERPRO.
Probab=21.53 E-value=55 Score=22.02 Aligned_cols=21 Identities=24% Similarity=0.653 Sum_probs=16.4
Q ss_pred cccccccCccc----ccceeccccc
Q psy8311 78 AFCKDFLWGFG----KQGYQCQTCQ 98 (254)
Q Consensus 78 ~~C~~~i~g~~----~qg~~C~~C~ 98 (254)
|-|.+||...+ ...++|..|+
T Consensus 23 DGCgEFm~~~g~eg~~~al~CaACg 47 (60)
T PF04770_consen 23 DGCGEFMPSPGEEGTPEALKCAACG 47 (60)
T ss_pred ccccccccCCCCCCCcccceecccC
Confidence 66999998644 4579999887
No 87
>PF10367 Vps39_2: Vacuolar sorting protein 39 domain 2; InterPro: IPR019453 This entry represents a domain found in the vacuolar sorting protein Vps39 and transforming growth factor beta receptor-associated protein Trap1. Vps39, a component of the C-Vps complex, is thought to be required for the fusion of endosomes and other types of transport intermediates with the vacuole [, ]. In Saccharomyces cerevisiae (Baker's yeast), Vps39 has been shown to stimulate nucleotide exchange []. Trap1 plays a role in the TGF-beta/activin signaling pathway. It associates with inactive heteromeric TGF-beta and activin receptor complexes, mainly through the type II receptor, and is released upon activation of signaling [, ]. The precise function of this domain has not been characterised In Vps39 this domain is involved in localisation and in mediating the interactions with Vps11 [].
Probab=21.50 E-value=1.1e+02 Score=22.03 Aligned_cols=35 Identities=23% Similarity=0.457 Sum_probs=23.8
Q ss_pred eecCCccCcccccccCcccccceeccccceEEcccccc
Q psy8311 70 FFRQPTFCAFCKDFLWGFGKQGYQCQTCQTAVHKKCHD 107 (254)
Q Consensus 70 ~~~~p~~C~~C~~~i~g~~~qg~~C~~C~~~~Hk~C~~ 107 (254)
.+..-+.|.+|++.|.. ..+.=--|+-.+|..|..
T Consensus 74 ~i~~~~~C~vC~k~l~~---~~f~~~p~~~v~H~~C~~ 108 (109)
T PF10367_consen 74 VITESTKCSVCGKPLGN---SVFVVFPCGHVVHYSCIK 108 (109)
T ss_pred EECCCCCccCcCCcCCC---ceEEEeCCCeEEeccccc
Confidence 44567789999998853 222223446889999975
No 88
>PF02150 RNA_POL_M_15KD: RNA polymerases M/15 Kd subunit; InterPro: IPR001529 DNA-directed RNA polymerases 2.7.7.6 from EC (also known as DNA-dependent RNA polymerases) are responsible for the polymerisation of ribonucleotides into a sequence complementary to the template DNA. In eukaryotes, there are three different forms of DNA-directed RNA polymerases transcribing different sets of genes. Most RNA polymerases are multimeric enzymes and are composed of a variable number of subunits. The core RNA polymerase complex consists of five subunits (two alpha, one beta, one beta-prime and one omega) and is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. The core RNA polymerase complex forms a "crab claw"-like structure with an internal channel running along the full length []. The key functional sites of the enzyme, as defined by mutational and cross-linking analysis, are located on the inner wall of this channel. RNA synthesis follows after the attachment of RNA polymerase to a specific site, the promoter, on the template DNA strand. The RNA synthesis process continues until a termination sequence is reached. The RNA product, which is synthesised in the 5' to 3'direction, is known as the primary transcript. Eukaryotic nuclei contain three distinct types of RNA polymerases that differ in the RNA they synthesise: RNA polymerase I: located in the nucleoli, synthesises precursors of most ribosomal RNAs. RNA polymerase II: occurs in the nucleoplasm, synthesises mRNA precursors. RNA polymerase III: also occurs in the nucleoplasm, synthesises the precursors of 5S ribosomal RNA, the tRNAs, and a variety of other small nuclear and cytosolic RNAs. Eukaryotic cells are also known to contain separate mitochondrial and chloroplast RNA polymerases. Eukaryotic RNA polymerases, whose molecular masses vary in size from 500 to 700 kDa, contain two non-identical large (>100 kDa) subunits and an array of up to 12 different small (less than 50 kDa) subunits. In archaebacteria, there is generally a single form of RNA polymerase which also consist of an oligomeric assemblage of 10 to 13 polypeptides. It has recently been shown [], [] that small subunits of about 15 kDa, found in polymerase types I and II, are highly conserved. These proteins contain a probable zinc finger in their N-terminal region and a C-terminal zinc ribbon domain (see IPR001222 from INTERPRO).; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 3H0G_I 3M4O_I 3S14_I 2E2J_I 4A3J_I 3HOZ_I 1TWA_I 3S1Q_I 3S1N_I 1TWG_I ....
Probab=20.98 E-value=44 Score=19.74 Aligned_cols=27 Identities=26% Similarity=0.664 Sum_probs=16.1
Q ss_pred ccCcccccccCcccccc--eeccccceEE
Q psy8311 75 TFCAFCKDFLWGFGKQG--YQCQTCQTAV 101 (254)
Q Consensus 75 ~~C~~C~~~i~g~~~qg--~~C~~C~~~~ 101 (254)
.||..|+++|.--.... ..|..|++..
T Consensus 2 ~FCp~C~nlL~p~~~~~~~~~C~~C~Y~~ 30 (35)
T PF02150_consen 2 RFCPECGNLLYPKEDKEKRVACRTCGYEE 30 (35)
T ss_dssp -BETTTTSBEEEEEETTTTEEESSSS-EE
T ss_pred eeCCCCCccceEcCCCccCcCCCCCCCcc
Confidence 48999999986311111 1588888764
No 89
>COG1996 RPC10 DNA-directed RNA polymerase, subunit RPC10 (contains C4-type Zn-finger) [Transcription]
Probab=20.37 E-value=58 Score=21.00 Aligned_cols=26 Identities=27% Similarity=0.517 Sum_probs=18.8
Q ss_pred ccccccccccc-cccceEeccccCccc
Q psy8311 211 FCDHCGSLLYG-LFRQGLKCEVCFSFC 236 (254)
Q Consensus 211 ~C~~C~~~~~g-~~~qg~~C~~C~~~~ 236 (254)
.|..|+..+-. ....+.+|..|+.-+
T Consensus 8 ~C~~Cg~~~~~~~~~~~irCp~Cg~rI 34 (49)
T COG1996 8 KCARCGREVELDQETRGIRCPYCGSRI 34 (49)
T ss_pred EhhhcCCeeehhhccCceeCCCCCcEE
Confidence 48888887753 345788999998654
No 90
>KOG0955|consensus
Probab=20.09 E-value=56 Score=34.42 Aligned_cols=38 Identities=24% Similarity=0.507 Sum_probs=29.4
Q ss_pred eecCCccCcccccccCcccccceeccccceEEcccccc
Q psy8311 70 FFRQPTFCAFCKDFLWGFGKQGYQCQTCQTAVHKKCHD 107 (254)
Q Consensus 70 ~~~~p~~C~~C~~~i~g~~~qg~~C~~C~~~~Hk~C~~ 107 (254)
.+.-...|.+|.+-=---....+.|+.|++.+|..|..
T Consensus 215 ~~~~D~~C~iC~~~~~~n~n~ivfCD~Cnl~VHq~Cyg 252 (1051)
T KOG0955|consen 215 LLEEDAVCCICLDGECQNSNVIVFCDGCNLAVHQECYG 252 (1051)
T ss_pred ccCCCccceeecccccCCCceEEEcCCCcchhhhhccC
Confidence 34567899999774332336779999999999999987
Done!