Query 005228
Match_columns 707
No_of_seqs 135 out of 354
Neff 2.9
Searched_HMMs 46136
Date Thu Mar 28 20:08:05 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/005228.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/005228hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF00249 Myb_DNA-binding: Myb- 98.6 4E-08 8.6E-13 75.9 4.3 48 644-700 1-48 (48)
2 smart00717 SANT SANT SWI3, AD 98.3 1.7E-06 3.7E-11 63.3 5.4 48 644-701 1-48 (49)
3 cd00167 SANT 'SWI3, ADA2, N-Co 98.2 3.4E-06 7.4E-11 61.1 4.8 45 646-700 1-45 (45)
4 PF13921 Myb_DNA-bind_6: Myb-l 98.1 6.2E-06 1.3E-10 65.6 4.9 44 647-701 1-45 (60)
5 PLN03212 Transcription repress 97.6 9.6E-05 2.1E-09 76.3 6.8 58 635-701 16-73 (249)
6 smart00249 PHD PHD zinc finger 97.6 6.7E-05 1.4E-09 55.0 3.1 43 335-379 1-47 (47)
7 PLN03212 Transcription repress 97.4 0.00012 2.7E-09 75.5 4.3 50 643-703 77-126 (249)
8 PLN03091 hypothetical protein; 97.3 0.00033 7.1E-09 77.2 6.0 53 641-702 11-63 (459)
9 PLN03091 hypothetical protein; 97.3 0.00024 5.2E-09 78.3 4.2 50 643-703 66-115 (459)
10 PF13325 MCRS_N: N-terminal re 97.2 0.00024 5.2E-09 71.4 3.8 61 640-703 69-129 (199)
11 PF00628 PHD: PHD-finger; Int 97.1 0.00027 5.8E-09 54.8 1.6 43 336-380 2-49 (51)
12 TIGR01557 myb_SHAQKYF myb-like 96.9 0.0014 3E-08 54.1 4.6 44 642-694 1-48 (57)
13 KOG4299 PHD Zn-finger protein 96.8 0.0005 1.1E-08 78.0 1.3 91 333-425 253-354 (613)
14 PF13831 PHD_2: PHD-finger; PD 96.1 0.0017 3.6E-08 49.4 0.4 33 344-379 3-35 (36)
15 KOG0383 Predicted helicase [Ge 96.1 0.0022 4.7E-08 74.2 1.5 55 328-384 42-96 (696)
16 PF13837 Myb_DNA-bind_4: Myb/S 96.1 0.0024 5.2E-08 53.7 1.3 59 644-703 1-67 (90)
17 PF13873 Myb_DNA-bind_5: Myb/S 96.0 0.0082 1.8E-07 50.2 3.8 59 644-702 2-71 (78)
18 KOG0048 Transcription factor, 95.6 0.0098 2.1E-07 60.0 3.5 49 643-702 61-109 (238)
19 KOG0048 Transcription factor, 95.3 0.02 4.4E-07 57.8 4.6 49 644-701 9-57 (238)
20 PF09111 SLIDE: SLIDE; InterP 94.6 0.026 5.7E-07 52.7 3.0 60 641-702 46-112 (118)
21 COG5141 PHD zinc finger-contai 94.4 0.018 3.9E-07 64.8 1.5 46 333-382 193-243 (669)
22 KOG0955 PHD finger protein BR1 94.3 0.03 6.5E-07 67.6 3.3 53 328-384 214-271 (1051)
23 KOG0049 Transcription factor, 94.0 0.052 1.1E-06 62.9 4.2 62 632-705 350-411 (939)
24 KOG0051 RNA polymerase I termi 94.0 0.043 9.3E-07 63.0 3.5 50 643-704 383-432 (607)
25 KOG0457 Histone acetyltransfer 93.4 0.084 1.8E-06 58.6 4.3 48 646-703 74-121 (438)
26 KOG1973 Chromatin remodeling p 93.3 0.048 1E-06 56.7 2.2 47 332-380 218-266 (274)
27 KOG0956 PHD finger protein AF1 92.1 0.062 1.3E-06 62.6 1.2 57 327-405 14-70 (900)
28 KOG0049 Transcription factor, 88.4 0.35 7.6E-06 56.4 3.1 48 640-697 408-455 (939)
29 KOG0825 PHD Zn-finger protein 87.1 0.86 1.9E-05 54.3 5.3 51 329-381 211-265 (1134)
30 cd04718 BAH_plant_2 BAH, or Br 86.5 0.22 4.9E-06 48.6 0.2 56 357-414 2-57 (148)
31 PF15446 zf-PHD-like: PHD/FYVE 85.8 0.4 8.7E-06 48.1 1.5 24 341-366 13-36 (175)
32 PLN03142 Probable chromatin-re 84.3 1 2.2E-05 55.0 4.3 55 642-701 924-985 (1033)
33 KOG1244 Predicted transcriptio 83.9 0.65 1.4E-05 49.8 2.2 44 334-379 282-328 (336)
34 KOG1473 Nucleosome remodeling 83.5 0.32 6.9E-06 59.4 -0.3 56 327-383 422-480 (1414)
35 PF12776 Myb_DNA-bind_3: Myb/S 80.8 1.4 2.9E-05 37.8 2.6 57 646-702 1-64 (96)
36 PF13771 zf-HC5HC2H: PHD-like 79.1 1 2.2E-05 38.5 1.3 46 334-379 37-86 (90)
37 PF04504 DUF573: Protein of un 76.3 3.3 7.1E-05 37.6 3.8 58 644-702 4-64 (98)
38 KOG4282 Transcription factor G 75.8 1.8 3.9E-05 45.7 2.3 60 644-705 54-118 (345)
39 COG2824 PhnA Uncharacterized Z 75.7 1 2.3E-05 42.4 0.5 24 364-387 11-34 (112)
40 KOG0957 PHD finger protein [Ge 70.1 6.5 0.00014 45.4 5.0 49 334-384 120-181 (707)
41 KOG2656 DNA methyltransferase 68.8 3.6 7.8E-05 46.0 2.7 53 645-703 131-188 (445)
42 COG5114 Histone acetyltransfer 68.0 4.8 0.0001 44.3 3.3 45 646-700 65-109 (432)
43 KOG1245 Chromatin remodeling c 67.8 1.5 3.2E-05 55.2 -0.5 63 318-382 1090-1158(1404)
44 COG5147 REB1 Myb superfamily p 66.4 2.2 4.8E-05 48.8 0.5 49 643-703 290-338 (512)
45 COG5034 TNG2 Chromatin remodel 66.1 3.7 8E-05 43.7 2.0 41 338-380 225-268 (271)
46 PF08914 Myb_DNA-bind_2: Rap1 64.4 11 0.00025 32.2 4.3 55 644-702 2-59 (65)
47 PF13832 zf-HC5HC2H_2: PHD-zin 63.6 5.2 0.00011 35.6 2.2 33 332-364 54-87 (110)
48 KOG0956 PHD finger protein AF1 63.3 3.2 7E-05 49.2 1.0 49 334-382 118-180 (900)
49 KOG0954 PHD finger protein [Ge 62.3 3.6 7.9E-05 49.0 1.2 48 330-381 268-320 (893)
50 KOG1279 Chromatin remodeling f 61.3 10 0.00023 43.5 4.6 49 640-699 249-297 (506)
51 KOG0050 mRNA splicing protein 57.1 7.4 0.00016 45.0 2.5 44 644-697 7-50 (617)
52 COG5259 RSC8 RSC chromatin rem 56.7 8.3 0.00018 44.1 2.7 30 643-678 278-307 (531)
53 KOG4443 Putative transcription 51.0 8.7 0.00019 45.4 1.8 47 332-380 67-116 (694)
54 KOG0051 RNA polymerase I termi 42.9 28 0.0006 41.1 4.2 58 641-703 433-510 (607)
55 KOG4323 Polycomb-like PHD Zn-f 39.9 14 0.00031 42.2 1.3 50 336-387 171-229 (464)
56 KOG4299 PHD Zn-finger protein 38.7 16 0.00036 42.8 1.6 50 330-383 44-93 (613)
57 KOG1081 Transcription factor N 36.7 19 0.00041 40.8 1.7 39 331-369 87-134 (463)
58 KOG4443 Putative transcription 36.2 11 0.00023 44.7 -0.4 50 333-384 18-73 (694)
59 cd00029 C1 Protein kinase C co 35.6 25 0.00053 26.7 1.6 31 334-366 12-47 (50)
60 PRK14714 DNA polymerase II lar 34.5 28 0.00061 44.1 2.7 39 367-405 703-743 (1337)
61 PF10235 Cript: Microtubule-as 34.0 19 0.0004 33.2 0.9 26 360-385 46-71 (90)
62 PF11287 DUF3088: Protein of u 33.9 20 0.00044 34.1 1.1 8 374-381 22-29 (112)
63 TIGR00686 phnA alkylphosphonat 33.2 15 0.00033 34.9 0.2 25 363-387 9-33 (109)
64 KOG0957 PHD finger protein [Ge 31.9 21 0.00046 41.5 1.0 47 331-379 542-595 (707)
65 COG5118 BDP1 Transcription ini 31.9 64 0.0014 36.7 4.6 54 640-704 361-414 (507)
66 PLN03162 golden-2 like transcr 30.5 1.6E+02 0.0036 33.6 7.4 61 636-702 229-292 (526)
67 COG1645 Uncharacterized Zn-fin 30.3 23 0.0005 34.5 0.8 17 368-384 39-55 (131)
68 PF08074 CHDCT2: CHDCT2 (NUC03 28.2 45 0.00098 33.9 2.5 29 645-678 4-32 (173)
69 PF00130 C1_1: Phorbol esters/ 27.6 54 0.0012 25.6 2.4 33 333-367 11-48 (53)
70 KOG1473 Nucleosome remodeling 27.1 29 0.00062 43.7 1.1 83 297-381 304-390 (1414)
71 COG5147 REB1 Myb superfamily p 26.7 42 0.00091 38.9 2.3 47 640-696 16-62 (512)
72 TIGR00570 cdk7 CDK-activating 26.3 51 0.0011 36.1 2.7 68 332-407 2-84 (309)
73 PF07649 C1_3: C1-like domain; 25.8 29 0.00064 25.0 0.6 26 335-362 2-30 (30)
74 smart00109 C1 Protein kinase C 24.8 28 0.0006 26.0 0.3 31 334-366 12-46 (49)
75 PF03367 zf-ZPR1: ZPR1 zinc-fi 24.7 34 0.00073 33.7 0.9 12 334-345 2-13 (161)
76 smart00451 ZnF_U1 U1-like zinc 24.5 30 0.00066 24.7 0.4 14 371-384 1-14 (35)
77 smart00709 Zpr1 Duplicated dom 24.3 38 0.00083 33.5 1.2 39 335-384 2-40 (160)
78 KOG3476 Microtubule-associated 22.8 18 0.0004 33.5 -1.2 28 360-387 56-83 (100)
79 KOG0384 Chromodomain-helicase 22.7 47 0.001 42.3 1.8 31 643-678 1132-1162(1373)
80 KOG1512 PHD Zn-finger protein 21.7 49 0.0011 36.4 1.5 45 332-380 313-361 (381)
81 PF08746 zf-RING-like: RING-li 21.7 21 0.00046 28.2 -0.9 32 346-379 12-43 (43)
82 PRK10220 hypothetical protein; 21.6 33 0.00071 32.8 0.2 25 363-387 10-34 (111)
83 PF13901 DUF4206: Domain of un 21.3 71 0.0015 32.3 2.4 36 334-380 153-196 (202)
84 PF06524 NOA36: NOA36 protein; 21.1 48 0.001 36.0 1.3 50 331-384 169-220 (314)
85 cd03019 DsbA_DsbA DsbA family, 20.9 39 0.00084 31.1 0.5 18 364-381 15-32 (178)
No 1
>PF00249 Myb_DNA-binding: Myb-like DNA-binding domain; InterPro: IPR014778 The retroviral oncogene v-myb, and its cellular counterpart c-myb, encode nuclear DNA-binding proteins. These belong to the SANT domain family that specifically recognise the sequence YAAC(G/T)G [, ]. In myb, one of the most conserved regions consisting of three tandem repeats has been shown to be involved in DNA-binding [].; PDB: 1X41_A 2XAF_B 2XAG_B 2XAH_B 2UXN_B 2Y48_B 2XAQ_B 2X0L_B 2IW5_B 2XAJ_B ....
Probab=98.61 E-value=4e-08 Score=75.93 Aligned_cols=48 Identities=35% Similarity=0.639 Sum_probs=41.4
Q ss_pred CCCCCHHHHHHHHHHHHhhcCCCCCccchhhhhhhcCCCCCCCCCchhhHHHHHHhc
Q 005228 644 KVPWTAKEEEILKKGVQKFASVDDRIIPWKKILEFGSSVFFSGRTAIDLKDKWRNMC 700 (707)
Q Consensus 644 Rr~WT~EEeeAL~eGV~KfGp~~d~~GkWkkILe~~~~vF~~~RT~VDLKDKWRNL~ 700 (707)
|.+||.+|++.|++||.+|| .++|..|....+ .+||..+++.+|+++.
T Consensus 1 r~~Wt~eE~~~l~~~v~~~g-----~~~W~~Ia~~~~----~~Rt~~qc~~~~~~~~ 48 (48)
T PF00249_consen 1 RGPWTEEEDEKLLEAVKKYG-----KDNWKKIAKRMP----GGRTAKQCRSRYQNLL 48 (48)
T ss_dssp S-SS-HHHHHHHHHHHHHST-----TTHHHHHHHHHS----SSSTHHHHHHHHHHHT
T ss_pred CCCCCHHHHHHHHHHHHHhC-----CcHHHHHHHHcC----CCCCHHHHHHHHHhhC
Confidence 56899999999999999999 568999999754 4899999999999874
No 2
>smart00717 SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains.
Probab=98.27 E-value=1.7e-06 Score=63.32 Aligned_cols=48 Identities=38% Similarity=0.661 Sum_probs=43.3
Q ss_pred CCCCCHHHHHHHHHHHHhhcCCCCCccchhhhhhhcCCCCCCCCCchhhHHHHHHhcc
Q 005228 644 KVPWTAKEEEILKKGVQKFASVDDRIIPWKKILEFGSSVFFSGRTAIDLKDKWRNMCK 701 (707)
Q Consensus 644 Rr~WT~EEeeAL~eGV~KfGp~~d~~GkWkkILe~~~~vF~~~RT~VDLKDKWRNL~K 701 (707)
+.+||.+|+..|+.+|.+|| .+.|..|.... +.||..+++.+|+++.+
T Consensus 1 ~~~Wt~~E~~~l~~~~~~~g-----~~~w~~Ia~~~-----~~rt~~~~~~~~~~~~~ 48 (49)
T smart00717 1 KGEWTEEEDELLIELVKKYG-----KNNWEKIAKEL-----PGRTAEQCRERWNNLLK 48 (49)
T ss_pred CCCCCHHHHHHHHHHHHHHC-----cCCHHHHHHHc-----CCCCHHHHHHHHHHHcC
Confidence 35899999999999999999 58999999864 48999999999999875
No 3
>cd00167 SANT 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The domain is also found in regulatory transcriptional repressor complexes where it also binds DNA.
Probab=98.15 E-value=3.4e-06 Score=61.10 Aligned_cols=45 Identities=38% Similarity=0.799 Sum_probs=40.7
Q ss_pred CCCHHHHHHHHHHHHhhcCCCCCccchhhhhhhcCCCCCCCCCchhhHHHHHHhc
Q 005228 646 PWTAKEEEILKKGVQKFASVDDRIIPWKKILEFGSSVFFSGRTAIDLKDKWRNMC 700 (707)
Q Consensus 646 ~WT~EEeeAL~eGV~KfGp~~d~~GkWkkILe~~~~vF~~~RT~VDLKDKWRNL~ 700 (707)
+||.+|+..|+.++.+|| .+.|..|.... ..||..+++++|.++.
T Consensus 1 ~Wt~eE~~~l~~~~~~~g-----~~~w~~Ia~~~-----~~rs~~~~~~~~~~~~ 45 (45)
T cd00167 1 PWTEEEDELLLEAVKKYG-----KNNWEKIAKEL-----PGRTPKQCRERWRNLL 45 (45)
T ss_pred CCCHHHHHHHHHHHHHHC-----cCCHHHHHhHc-----CCCCHHHHHHHHHHhC
Confidence 599999999999999999 68999999964 4699999999999874
No 4
>PF13921 Myb_DNA-bind_6: Myb-like DNA-binding domain; PDB: 1A5J_A 1MBH_A 1GV5_A 1H89_C 1IDY_A 1MBK_A 1IDZ_A 1H88_C 1GVD_A 1MBG_A ....
Probab=98.06 E-value=6.2e-06 Score=65.62 Aligned_cols=44 Identities=39% Similarity=0.739 Sum_probs=36.4
Q ss_pred CCHHHHHHHHHHHHhhcCCCCCccchhhhhhhcCCCCCCCCCchhhHHHHHH-hcc
Q 005228 647 WTAKEEEILKKGVQKFASVDDRIIPWKKILEFGSSVFFSGRTAIDLKDKWRN-MCK 701 (707)
Q Consensus 647 WT~EEeeAL~eGV~KfGp~~d~~GkWkkILe~~~~vF~~~RT~VDLKDKWRN-L~K 701 (707)
||.+|++.|+.+|.+|| .+|+.|-... +.||..++++||++ |..
T Consensus 1 WT~eEd~~L~~~~~~~g------~~W~~Ia~~l-----~~Rt~~~~~~r~~~~l~~ 45 (60)
T PF13921_consen 1 WTKEEDELLLELVKKYG------NDWKKIAEHL-----GNRTPKQCRNRWRNHLRP 45 (60)
T ss_dssp S-HHHHHHHHHHHHHHT------S-HHHHHHHS-----TTS-HHHHHHHHHHTTST
T ss_pred CCHHHHHHHHHHHHHHC------cCHHHHHHHH-----CcCCHHHHHHHHHHHCcc
Confidence 99999999999999999 4899998863 47999999999999 543
No 5
>PLN03212 Transcription repressor MYB5; Provisional
Probab=97.65 E-value=9.6e-05 Score=76.25 Aligned_cols=58 Identities=24% Similarity=0.377 Sum_probs=47.6
Q ss_pred CCCCCCCCCCCCCCHHHHHHHHHHHHhhcCCCCCccchhhhhhhcCCCCCCCCCchhhHHHHHHhcc
Q 005228 635 PPIPQLRRKKVPWTAKEEEILKKGVQKFASVDDRIIPWKKILEFGSSVFFSGRTAIDLKDKWRNMCK 701 (707)
Q Consensus 635 P~~p~~RRkRr~WT~EEeeAL~eGV~KfGp~~d~~GkWkkILe~~~~vF~~~RT~VDLKDKWRNL~K 701 (707)
|-..+..-+|.+||.||.+.|+..|++|| .++|+.|.... ..+||.-+.+++|.|...
T Consensus 16 pcc~K~glKRg~WT~EEDe~L~~lV~kyG-----~~nW~~IAk~~----g~gRT~KQCReRW~N~L~ 73 (249)
T PLN03212 16 PCCTKMGMKRGPWTVEEDEILVSFIKKEG-----EGRWRSLPKRA----GLLRCGKSCRLRWMNYLR 73 (249)
T ss_pred CCcccCCCcCCCCCHHHHHHHHHHHHHhC-----cccHHHHHHhh----hcCCCcchHHHHHHHhhc
Confidence 43444455678999999999999999999 68999998752 258999999999998764
No 6
>smart00249 PHD PHD zinc finger. The plant homeodomain (PHD) finger is a C4HC3 zinc-finger-like motif found in nuclear proteins thought to be involved in epigenetics and chromatin-mediated transcriptional regulation. The PHD finger binds two zinc ions using the so-called 'cross-brace' motif and is thus structurally related to the PLN03212 Transcription repressor MYB5; Provisional
Probab=97.43 E-value=0.00012 Score=75.50 Aligned_cols=50 Identities=22% Similarity=0.381 Sum_probs=44.2
Q ss_pred CCCCCCHHHHHHHHHHHHhhcCCCCCccchhhhhhhcCCCCCCCCCchhhHHHHHHhccCC
Q 005228 643 KKVPWTAKEEEILKKGVQKFASVDDRIIPWKKILEFGSSVFFSGRTAIDLKDKWRNMCKGS 703 (707)
Q Consensus 643 kRr~WT~EEeeAL~eGV~KfGp~~d~~GkWkkILe~~~~vF~~~RT~VDLKDKWRNL~Kks 703 (707)
++.+||.||++.|++.|.+|| .+|+.|... +++||..++|.+|.++.++.
T Consensus 77 ~kgpWT~EED~lLlel~~~~G------nKWs~IAk~-----LpGRTDnqIKNRWns~LrK~ 126 (249)
T PLN03212 77 KRGGITSDEEDLILRLHRLLG------NRWSLIAGR-----IPGRTDNEIKNYWNTHLRKK 126 (249)
T ss_pred ccCCCChHHHHHHHHHHHhcc------ccHHHHHhh-----cCCCCHHHHHHHHHHHHhHH
Confidence 456999999999999999999 589999984 47999999999999877664
No 8
>PLN03091 hypothetical protein; Provisional
Probab=97.31 E-value=0.00033 Score=77.23 Aligned_cols=53 Identities=19% Similarity=0.348 Sum_probs=45.1
Q ss_pred CCCCCCCCHHHHHHHHHHHHhhcCCCCCccchhhhhhhcCCCCCCCCCchhhHHHHHHhccC
Q 005228 641 RRKKVPWTAKEEEILKKGVQKFASVDDRIIPWKKILEFGSSVFFSGRTAIDLKDKWRNMCKG 702 (707)
Q Consensus 641 RRkRr~WT~EEeeAL~eGV~KfGp~~d~~GkWkkILe~~~~vF~~~RT~VDLKDKWRNL~Kk 702 (707)
+.+|.+||.||.+.|++.|++|| .++|+.|.... ..+||.-+.+++|.|...-
T Consensus 11 klrKg~WTpEEDe~L~~~V~kyG-----~~nWs~IAk~~----g~gRT~KQCRERW~NyLdP 63 (459)
T PLN03091 11 KLRKGLWSPEEDEKLLRHITKYG-----HGCWSSVPKQA----GLQRCGKSCRLRWINYLRP 63 (459)
T ss_pred CCcCCCCCHHHHHHHHHHHHHhC-----cCCHHHHhhhh----ccCcCcchHhHHHHhccCC
Confidence 44567899999999999999999 68999998642 2589999999999987653
No 9
>PLN03091 hypothetical protein; Provisional
Probab=97.25 E-value=0.00024 Score=78.25 Aligned_cols=50 Identities=22% Similarity=0.438 Sum_probs=44.3
Q ss_pred CCCCCCHHHHHHHHHHHHhhcCCCCCccchhhhhhhcCCCCCCCCCchhhHHHHHHhccCC
Q 005228 643 KKVPWTAKEEEILKKGVQKFASVDDRIIPWKKILEFGSSVFFSGRTAIDLKDKWRNMCKGS 703 (707)
Q Consensus 643 kRr~WT~EEeeAL~eGV~KfGp~~d~~GkWkkILe~~~~vF~~~RT~VDLKDKWRNL~Kks 703 (707)
++.+||.||++.|++.|++|| .+|++|-.. +++||..++|.+|+.+.|+.
T Consensus 66 kKgpWT~EED~lLLeL~k~~G------nKWskIAk~-----LPGRTDnqIKNRWnslLKKk 115 (459)
T PLN03091 66 KRGTFSQQEENLIIELHAVLG------NRWSQIAAQ-----LPGRTDNEIKNLWNSCLKKK 115 (459)
T ss_pred cCCCCCHHHHHHHHHHHHHhC------cchHHHHHh-----cCCCCHHHHHHHHHHHHHHH
Confidence 456999999999999999999 599999984 47999999999999887653
No 10
>PF13325 MCRS_N: N-terminal region of micro-spherule protein
Probab=97.24 E-value=0.00024 Score=71.35 Aligned_cols=61 Identities=26% Similarity=0.399 Sum_probs=54.1
Q ss_pred CCCCCCCCCHHHHHHHHHHHHhhcCCCCCccchhhhhhhcCCCCCCCCCchhhHHHHHHhccCC
Q 005228 640 LRRKKVPWTAKEEEILKKGVQKFASVDDRIIPWKKILEFGSSVFFSGRTAIDLKDKWRNMCKGS 703 (707)
Q Consensus 640 ~RRkRr~WT~EEeeAL~eGV~KfGp~~d~~GkWkkILe~~~~vF~~~RT~VDLKDKWRNL~Kks 703 (707)
.-..+.+||.+|++.|..+.....|. ...+.+||..++.+|...||+-.|.+.||.|.++.
T Consensus 69 ~iq~kalfS~~EE~lL~~v~s~~~p~---le~Fq~LL~~n~~vFh~sRTak~L~~HW~lmkqy~ 129 (199)
T PF13325_consen 69 AIQSKALFSKEEEQLLGTVASSSQPS---LETFQELLDKNRSVFHPSRTAKSLQDHWRLMKQYH 129 (199)
T ss_pred cccccCCCCHHHHHHHHhhhhccCCc---HHHHHHHHHhChhhhccccCHHHHHHHHHHHHHhc
Confidence 34577899999999999988887654 78999999999999999999999999999998764
No 11
>PF00628 PHD: PHD-finger; InterPro: IPR019787 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the PHD (homeodomain) zinc finger domain [,], which is a C4HC3 zinc-finger-like motif found in nuclear proteins thought to be involved in chromatin-mediated transcriptional regulation. The PHD finger motif is reminiscent of, but distinct from the C3HC4 type RING finger. The function of this domain is not yet known but in analogy with the LIM domain it could be involved in protein-protein interaction and be important for the assembly or activity of multicomponent complexes involved in transcriptional activation or repression. Alternatively, the interactions could be intra-molecular and be important in maintaining the structural integrity of the protein. In similarity to the RING finger and the LIM domain, the PHD finger is thought to bind two zinc ions. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0005515 protein binding; PDB: 3ZVY_A 2LGG_A 3SOW_A 3SOU_B 3ASL_A 3ASK_A 3ZVZ_B 3T6R_A 2LGK_A 3SOX_B ....
Probab=97.06 E-value=0.00027 Score=54.78 Aligned_cols=43 Identities=35% Similarity=0.923 Sum_probs=35.9
Q ss_pred cccccC---CCcEEecCCCCCcccccccccCCCcc--cCCCCCccCccch
Q 005228 336 CVKCNK---DGQLLSCSSSTCPLAVHENCLGFPVK--FDEKGNFHCPFCA 380 (707)
Q Consensus 336 CikC~k---dGqLL~Cs~~gCplavH~~Clg~s~~--fDd~GnFyCP~C~ 380 (707)
|..|+. ++.||.|+ +|...+|..|++.+.. -...+.|+||.|.
T Consensus 2 C~vC~~~~~~~~~i~C~--~C~~~~H~~C~~~~~~~~~~~~~~w~C~~C~ 49 (51)
T PF00628_consen 2 CPVCGQSDDDGDMIQCD--SCNRWYHQECVGPPEKAEEIPSGDWYCPNCR 49 (51)
T ss_dssp BTTTTSSCTTSSEEEBS--TTSCEEETTTSTSSHSHHSHHSSSBSSHHHH
T ss_pred CcCCCCcCCCCCeEEcC--CCChhhCcccCCCChhhccCCCCcEECcCCc
Confidence 666777 68899999 9999999999999976 2234599999994
No 12
>TIGR01557 myb_SHAQKYF myb-like DNA-binding domain, SHAQKYF class. This model describes a DNA-binding domain restricted to (but common in) plant proteins, many of which also contain a response regulator domain. The domain appears related to the Myb-like DNA-binding domain described by Pfam model pfam00249. It is distinguished in part by a well-conserved motif SH[AL]QKY[RF] at the C-terminal end of the motif.
Probab=96.91 E-value=0.0014 Score=54.15 Aligned_cols=44 Identities=27% Similarity=0.422 Sum_probs=36.8
Q ss_pred CCCCCCCHHHHHHHHHHHHhhcCCCCCccch---hhhhhhcCCCCCCCC-CchhhHH
Q 005228 642 RKKVPWTAKEEEILKKGVQKFASVDDRIIPW---KKILEFGSSVFFSGR-TAIDLKD 694 (707)
Q Consensus 642 RkRr~WT~EEeeAL~eGV~KfGp~~d~~GkW---kkILe~~~~vF~~~R-T~VDLKD 694 (707)
++|..||+||...+++||+.|| .|.| +.|++.+. ..| |..+++-
T Consensus 1 k~r~~WT~eeh~~Fl~ai~~~G-----~g~~a~pk~I~~~~~----~~~lT~~qV~S 48 (57)
T TIGR01557 1 KPRVVWTEDLHDRFLQAVQKLG-----GPDWATPKRILELMV----VDGLTRDQVAS 48 (57)
T ss_pred CCCCCCCHHHHHHHHHHHHHhC-----CCcccchHHHHHHcC----CCCCCHHHHHH
Confidence 4678999999999999999999 7899 99998654 244 8777764
No 13
>KOG4299 consensus PHD Zn-finger protein [General function prediction only]
Probab=96.77 E-value=0.0005 Score=78.02 Aligned_cols=91 Identities=19% Similarity=0.443 Sum_probs=62.8
Q ss_pred ccccccccCCCcE---EecCCCCCcccccccccCCC--cccCCCCCccCccchhhhhHHH---HHHHHHHHHHHHHHHHH
Q 005228 333 QNLCVKCNKDGQL---LSCSSSTCPLAVHENCLGFP--VKFDEKGNFHCPFCAYTLSISE---YLEAKKRASVARKELAA 404 (707)
Q Consensus 333 qn~CikC~kdGqL---L~Cs~~gCplavH~~Clg~s--~~fDd~GnFyCP~C~Y~~a~~e---y~eaKk~a~~AKK~L~~ 404 (707)
.+.|-.|+..|+. |+|+ |||.++|..||-.+ +.--..|.||||.|-++--+.. ..+++-+...-=-.|..
T Consensus 253 ~~fCsaCn~~~~F~~~i~CD--~Cp~sFH~~CLePPl~~eniP~g~W~C~ec~~k~~in~~~~t~~~~~~~~~i~t~~~~ 330 (613)
T KOG4299|consen 253 EDFCSACNGSGLFNDIICCD--GCPRSFHQTCLEPPLEPENIPPGSWFCPECKIKSVINPKMETLSNRGTVVDIFTQFVS 330 (613)
T ss_pred HHHHHHhCCccccccceeec--CCchHHHHhhcCCCCCcccCCCCccccCCCeeeeecccchhhhhhccchHHHHHHHHH
Confidence 5789999999998 9999 89999999999998 7777899999999988765433 33333333333333433
Q ss_pred Hhhc---cchhhhhhhhhhccCCC
Q 005228 405 FMQM---GSVCHQMDLANKLHSKD 425 (707)
Q Consensus 405 Fl~~---~q~~h~~~~~~k~h~~~ 425 (707)
.|+. -|..+-...+.-++|.+
T Consensus 331 ~IDs~np~q~~lPe~i~~~~~~v~ 354 (613)
T KOG4299|consen 331 KIDSHNPIQKILPENISESFGGVS 354 (613)
T ss_pred hhhccchhhhhCCHHHHhhccccc
Confidence 3443 34444455444455554
No 14
>PF13831 PHD_2: PHD-finger; PDB: 2L43_A 2KU3_A.
Probab=96.14 E-value=0.0017 Score=49.36 Aligned_cols=33 Identities=36% Similarity=0.837 Sum_probs=19.9
Q ss_pred cEEecCCCCCcccccccccCCCcccCCCCCccCccc
Q 005228 344 QLLSCSSSTCPLAVHENCLGFPVKFDEKGNFHCPFC 379 (707)
Q Consensus 344 qLL~Cs~~gCplavH~~Clg~s~~fDd~GnFyCP~C 379 (707)
+||+|+ +|.++||..|-|.....++. .|+|-.|
T Consensus 3 ~ll~C~--~C~v~VH~~CYGv~~~~~~~-~W~C~~C 35 (36)
T PF13831_consen 3 PLLFCD--NCNVAVHQSCYGVSEVPDGD-DWLCDRC 35 (36)
T ss_dssp EEEE-S--SS--EEEHHHHT-SS--SS------HHH
T ss_pred ceEEeC--CCCCcCChhhCCcccCCCCC-cEECCcC
Confidence 699999 99999999999999976554 4999887
No 15
>KOG0383 consensus Predicted helicase [General function prediction only]
Probab=96.13 E-value=0.0022 Score=74.21 Aligned_cols=55 Identities=38% Similarity=0.799 Sum_probs=50.3
Q ss_pred CCCccccccccccCCCcEEecCCCCCcccccccccCCCcccCCCCCccCccchhhhh
Q 005228 328 SGWTEQNLCVKCNKDGQLLSCSSSTCPLAVHENCLGFPVKFDEKGNFHCPFCAYTLS 384 (707)
Q Consensus 328 ~~~~eqn~CikC~kdGqLL~Cs~~gCplavH~~Clg~s~~fDd~GnFyCP~C~Y~~a 384 (707)
-+|.+++.|-.|+..|.||.|. .||.++|..|++-+..=...|.|.||.|....-
T Consensus 42 ~~~~~~e~c~ic~~~g~~l~c~--tC~~s~h~~cl~~pl~~~p~~~~~c~Rc~~p~~ 96 (696)
T KOG0383|consen 42 WDDAEQEACRICADGGELLWCD--TCPASFHASCLGPPLTPQPNGEFICPRCFCPKN 96 (696)
T ss_pred cchhhhhhhhhhcCCCcEEEec--cccHHHHHHccCCCCCcCCccceeeeeeccCCC
Confidence 5688999999999999999999 999999999999999999999999999955443
No 16
>PF13837 Myb_DNA-bind_4: Myb/SANT-like DNA-binding domain; PDB: 2EBI_A 2JMW_A.
Probab=96.11 E-value=0.0024 Score=53.74 Aligned_cols=59 Identities=25% Similarity=0.389 Sum_probs=36.4
Q ss_pred CCCCCHHHHHHHHHHHHh------hcCCCCCcc--chhhhhhhcCCCCCCCCCchhhHHHHHHhccCC
Q 005228 644 KVPWTAKEEEILKKGVQK------FASVDDRII--PWKKILEFGSSVFFSGRTAIDLKDKWRNMCKGS 703 (707)
Q Consensus 644 Rr~WT~EEeeAL~eGV~K------fGp~~d~~G--kWkkILe~~~~vF~~~RT~VDLKDKWRNL~Kks 703 (707)
|..||.+|+.+|+.-+.. |+..+...+ -|..|...... +.-.||..++++||.||.+.-
T Consensus 1 R~~Wt~~et~~Li~~~~~~~~~~~~~~~~~~~~~~~w~~Ia~~l~~-~G~~rt~~qc~~Kw~~L~~~Y 67 (90)
T PF13837_consen 1 RRNWTDEETKLLIELWKENLMELRFDNGGKKRNKKVWKEIAEELAE-HGYNRTPEQCRNKWKNLKKKY 67 (90)
T ss_dssp --SS-HHHHHHHHHHHHH--HHHHHHH--SS--HHHHHHHHHHHHH-HC----HHHHHHHHHHHHHHH
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHhhhccccchHHHHHHHHHHHH-cCCCCCHHHHHHHHHHHHHHH
Confidence 568999999999999887 331012223 69999875221 112799999999999998753
No 17
>PF13873 Myb_DNA-bind_5: Myb/SANT-like DNA-binding domain
Probab=95.96 E-value=0.0082 Score=50.16 Aligned_cols=59 Identities=27% Similarity=0.390 Sum_probs=47.2
Q ss_pred CCCCCHHHHHHHHHHHHhhc-----CCC------CCccchhhhhhhcCCCCCCCCCchhhHHHHHHhccC
Q 005228 644 KVPWTAKEEEILKKGVQKFA-----SVD------DRIIPWKKILEFGSSVFFSGRTAIDLKDKWRNMCKG 702 (707)
Q Consensus 644 Rr~WT~EEeeAL~eGV~KfG-----p~~------d~~GkWkkILe~~~~vF~~~RT~VDLKDKWRNL~Kk 702 (707)
...||.+|.+.|++-|.+|- ... ....-|..|...+-.++...||..+||.+|.||...
T Consensus 2 ~~~fs~~E~~~Lv~~v~~~~~il~~k~~~~~~~~~k~~~W~~I~~~lN~~~~~~Rs~~~lkkkW~nlk~~ 71 (78)
T PF13873_consen 2 KPNFSEEEKEILVELVEKHKDILENKFSDSVSNKEKRKAWEEIAEELNALGPGKRSWKQLKKKWKNLKSK 71 (78)
T ss_pred CCCCCHHHHHHHHHHHHHhHHHHhcccccHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHHH
Confidence 45899999999999999982 101 124579999998766666799999999999999754
No 18
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=95.62 E-value=0.0098 Score=60.05 Aligned_cols=49 Identities=24% Similarity=0.432 Sum_probs=42.8
Q ss_pred CCCCCCHHHHHHHHHHHHhhcCCCCCccchhhhhhhcCCCCCCCCCchhhHHHHHHhccC
Q 005228 643 KKVPWTAKEEEILKKGVQKFASVDDRIIPWKKILEFGSSVFFSGRTAIDLKDKWRNMCKG 702 (707)
Q Consensus 643 kRr~WT~EEeeAL~eGV~KfGp~~d~~GkWkkILe~~~~vF~~~RT~VDLKDKWRNL~Kk 702 (707)
+|..||.||++.|+++-.+|| -+|+.|... +++||--.+|--|..-.|+
T Consensus 61 krg~fT~eEe~~Ii~lH~~~G------NrWs~IA~~-----LPGRTDNeIKN~Wnt~lkk 109 (238)
T KOG0048|consen 61 KRGNFSDEEEDLIIKLHALLG------NRWSLIAGR-----LPGRTDNEVKNHWNTHLKK 109 (238)
T ss_pred cCCCCCHHHHHHHHHHHHHHC------cHHHHHHhh-----CCCcCHHHHHHHHHHHHHH
Confidence 477999999999999999999 479999985 5799999999999766544
No 19
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=95.33 E-value=0.02 Score=57.81 Aligned_cols=49 Identities=18% Similarity=0.365 Sum_probs=43.9
Q ss_pred CCCCCHHHHHHHHHHHHhhcCCCCCccchhhhhhhcCCCCCCCCCchhhHHHHHHhcc
Q 005228 644 KVPWTAKEEEILKKGVQKFASVDDRIIPWKKILEFGSSVFFSGRTAIDLKDKWRNMCK 701 (707)
Q Consensus 644 Rr~WT~EEeeAL~eGV~KfGp~~d~~GkWkkILe~~~~vF~~~RT~VDLKDKWRNL~K 701 (707)
+-+||.||.+.|++=|++|| .|+|..|-+... -.|+.-...-+|-|-.+
T Consensus 9 kGpWt~EED~~L~~~V~~~G-----~~~W~~i~k~~g----l~R~GKSCRlRW~NyLr 57 (238)
T KOG0048|consen 9 KGPWTQEEDLTQIRSIKSFG-----KHNGTALPKLAG----LRRCGKSCRLRWTNYLR 57 (238)
T ss_pred CCCCChHHHHHHHHHHHHhC-----CCCcchhhhhcC----CCccchHHHHHhhcccC
Confidence 58999999999999999999 789999998754 27999999999998765
No 20
>PF09111 SLIDE: SLIDE; InterPro: IPR015195 The SLIDE domain adopts a secondary structure comprising a main core of three alpha-helices. It has a role in DNA binding, contacting DNA target sites similar to c-Myb (IPR014778 from INTERPRO) repeats or homeodomains []. ; GO: 0003676 nucleic acid binding, 0005524 ATP binding, 0016818 hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides, 0006338 chromatin remodeling, 0005634 nucleus; PDB: 2NOG_A 2Y9Y_A 2Y9Z_A 1OFC_X.
Probab=94.64 E-value=0.026 Score=52.73 Aligned_cols=60 Identities=27% Similarity=0.395 Sum_probs=46.2
Q ss_pred CCCCCCCCHHHHHHHHHHHHhhcCCCCCccchhhhhh-------hcCCCCCCCCCchhhHHHHHHhccC
Q 005228 641 RRKKVPWTAKEEEILKKGVQKFASVDDRIIPWKKILE-------FGSSVFFSGRTAIDLKDKWRNMCKG 702 (707)
Q Consensus 641 RRkRr~WT~EEeeAL~eGV~KfGp~~d~~GkWkkILe-------~~~~vF~~~RT~VDLKDKWRNL~Kk 702 (707)
..+++.||.+|...|+--|.+||. +..|.|-.|+. +-++.|+..||+.+|+.+-..|.+.
T Consensus 46 ~~~~k~yseeEDRfLl~~~~~~G~--~~~~~~e~Ik~~Ir~~p~FrFDwf~kSRt~~el~rR~~tLi~~ 112 (118)
T PF09111_consen 46 NNKKKVYSEEEDRFLLCMLYKYGY--DAEGNWEKIKQEIRESPLFRFDWFFKSRTPQELQRRCNTLIKL 112 (118)
T ss_dssp TSS-SSS-HHHHHHHHHHHHHHTT--TSTTHHHHHHHHHHH-CGGCT-HHHHTS-HHHHHHHHHHHHHH
T ss_pred CCCCCCcCcHHHHHHHHHHHHhCC--CCCchHHHHHHHHHhCCCcccchhcccCCHHHHHHHHHHHHHH
Confidence 345779999999999999999992 33599999985 3466677999999999998888654
No 21
>COG5141 PHD zinc finger-containing protein [General function prediction only]
Probab=94.38 E-value=0.018 Score=64.84 Aligned_cols=46 Identities=30% Similarity=0.900 Sum_probs=39.8
Q ss_pred ccccccccCCC-----cEEecCCCCCcccccccccCCCcccCCCCCccCccchhh
Q 005228 333 QNLCVKCNKDG-----QLLSCSSSTCPLAVHENCLGFPVKFDEKGNFHCPFCAYT 382 (707)
Q Consensus 333 qn~CikC~kdG-----qLL~Cs~~gCplavH~~Clg~s~~fDd~GnFyCP~C~Y~ 382 (707)
.+.|.+|..-- -+++|+ ||-++||++|-|- .|-.+|.|+|-.|-|.
T Consensus 193 d~~C~~c~~t~~eN~naiVfCd--gC~i~VHq~CYGI--~f~peG~WlCrkCi~~ 243 (669)
T COG5141 193 DDICTKCTSTHNENSNAIVFCD--GCEICVHQSCYGI--QFLPEGFWLCRKCIYG 243 (669)
T ss_pred hhhhHhccccccCCcceEEEec--Ccchhhhhhcccc--eecCcchhhhhhhccc
Confidence 36899997653 399999 9999999999996 5899999999999774
No 22
>KOG0955 consensus PHD finger protein BR140/LIN-49 [General function prediction only]
Probab=94.33 E-value=0.03 Score=67.62 Aligned_cols=53 Identities=30% Similarity=0.703 Sum_probs=45.1
Q ss_pred CCCccccccccccCC-Cc----EEecCCCCCcccccccccCCCcccCCCCCccCccchhhhh
Q 005228 328 SGWTEQNLCVKCNKD-GQ----LLSCSSSTCPLAVHENCLGFPVKFDEKGNFHCPFCAYTLS 384 (707)
Q Consensus 328 ~~~~eqn~CikC~kd-Gq----LL~Cs~~gCplavH~~Clg~s~~fDd~GnFyCP~C~Y~~a 384 (707)
.+.-+...|.-|.+. .+ +|+|+ +|-++||..|.| ..|..+|.|.|--|-++.+
T Consensus 214 ~~~~~D~~C~iC~~~~~~n~n~ivfCD--~Cnl~VHq~Cyg--i~~ipeg~WlCr~Cl~s~~ 271 (1051)
T KOG0955|consen 214 ALLEEDAVCCICLDGECQNSNVIVFCD--GCNLAVHQECYG--IPFIPEGQWLCRRCLQSPQ 271 (1051)
T ss_pred cccCCCccceeecccccCCCceEEEcC--CCcchhhhhccC--CCCCCCCcEeehhhccCcC
Confidence 455566789999876 44 99999 999999999999 7899999999999977654
No 23
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription]
Probab=94.02 E-value=0.052 Score=62.93 Aligned_cols=62 Identities=19% Similarity=0.412 Sum_probs=51.8
Q ss_pred CCCCCCCCCCCCCCCCCHHHHHHHHHHHHhhcCCCCCccchhhhhhhcCCCCCCCCCchhhHHHHHHhccCCCC
Q 005228 632 YTYPPIPQLRRKKVPWTAKEEEILKKGVQKFASVDDRIIPWKKILEFGSSVFFSGRTAIDLKDKWRNMCKGSPR 705 (707)
Q Consensus 632 ~t~P~~p~~RRkRr~WT~EEeeAL~eGV~KfGp~~d~~GkWkkILe~~~~vF~~~RT~VDLKDKWRNL~Kks~k 705 (707)
|+|-+.|. -++-+||.+|...|+.+|.+|| ..-|.+|.... ++|+-.++.++|-|....+.|
T Consensus 350 ~~~~LdPs--ikhg~wt~~ED~~L~~AV~~Yg-----~kdw~k~R~~v-----PnRSdsQcR~RY~nvL~~s~K 411 (939)
T KOG0049|consen 350 FSHTLDPS--VKHGRWTDQEDVLLVCAVSRYG-----AKDWAKVRQAV-----PNRSDSQCRERYTNVLNRSAK 411 (939)
T ss_pred heeccCcc--ccCCCCCCHHHHHHHHHHHHhC-----ccchhhHHHhc-----CCccHHHHHHHHHHHHHHhhc
Confidence 55555664 3667999999999999999999 78999999863 689999999999888776654
No 24
>KOG0051 consensus RNA polymerase I termination factor, Myb superfamily [Transcription]
Probab=93.97 E-value=0.043 Score=63.01 Aligned_cols=50 Identities=40% Similarity=0.650 Sum_probs=45.9
Q ss_pred CCCCCCHHHHHHHHHHHHhhcCCCCCccchhhhhhhcCCCCCCCCCchhhHHHHHHhccCCC
Q 005228 643 KKVPWTAKEEEILKKGVQKFASVDDRIIPWKKILEFGSSVFFSGRTAIDLKDKWRNMCKGSP 704 (707)
Q Consensus 643 kRr~WT~EEeeAL~eGV~KfGp~~d~~GkWkkILe~~~~vF~~~RT~VDLKDKWRNL~Kks~ 704 (707)
++-.||.+|++.|..-|..+| +.|+.|-.. -+|.+.+.+|+||++.+.+.
T Consensus 383 ~rg~wt~ee~eeL~~l~~~~g------~~W~~Ig~~------lgr~P~~crd~wr~~~~~g~ 432 (607)
T KOG0051|consen 383 KRGKWTPEEEEELKKLVVEHG------NDWKEIGKA------LGRMPMDCRDRWRQYVKCGS 432 (607)
T ss_pred ccCCCCcchHHHHHHHHHHhc------ccHHHHHHH------HccCcHHHHHHHHHhhcccc
Confidence 677999999999999999999 899999985 37999999999999998875
No 25
>KOG0457 consensus Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=93.36 E-value=0.084 Score=58.65 Aligned_cols=48 Identities=23% Similarity=0.430 Sum_probs=42.7
Q ss_pred CCCHHHHHHHHHHHHhhcCCCCCccchhhhhhhcCCCCCCCCCchhhHHHHHHhccCC
Q 005228 646 PWTAKEEEILKKGVQKFASVDDRIIPWKKILEFGSSVFFSGRTAIDLKDKWRNMCKGS 703 (707)
Q Consensus 646 ~WT~EEeeAL~eGV~KfGp~~d~~GkWkkILe~~~~vF~~~RT~VDLKDKWRNL~Kks 703 (707)
-||.+||-.|++|+..|| .|+|..|.++-. .||.-+.|+.|.++.-.+
T Consensus 74 ~WtadEEilLLea~~t~G-----~GNW~dIA~hIG-----tKtkeeck~hy~k~fv~s 121 (438)
T KOG0457|consen 74 SWTADEEILLLEAAETYG-----FGNWQDIADHIG-----TKTKEECKEHYLKHFVNS 121 (438)
T ss_pred CCChHHHHHHHHHHHHhC-----CCcHHHHHHHHc-----ccchHHHHHHHHHHHhcC
Confidence 799999999999999999 999999999743 699999999998876544
No 26
>KOG1973 consensus Chromatin remodeling protein, contains PHD Zn-finger [Chromatin structure and dynamics]
Probab=93.29 E-value=0.048 Score=56.70 Aligned_cols=47 Identities=30% Similarity=0.767 Sum_probs=38.4
Q ss_pred ccccccc-ccCCCcEEecCCCCCc-ccccccccCCCcccCCCCCccCccch
Q 005228 332 EQNLCVK-CNKDGQLLSCSSSTCP-LAVHENCLGFPVKFDEKGNFHCPFCA 380 (707)
Q Consensus 332 eqn~Cik-C~kdGqLL~Cs~~gCp-lavH~~Clg~s~~fDd~GnFyCP~C~ 380 (707)
+.-.|+= |..-|+.+-|+..+|| ==+|=.|+|-. +-+.|.||||.|.
T Consensus 218 e~~yC~Cnqvsyg~Mi~CDn~~C~~eWFH~~CVGL~--~~PkgkWyC~~C~ 266 (274)
T KOG1973|consen 218 EPTYCICNQVSYGKMIGCDNPGCPIEWFHFTCVGLK--TKPKGKWYCPRCK 266 (274)
T ss_pred CCEEEEecccccccccccCCCCCCcceEEEeccccc--cCCCCcccchhhh
Confidence 4444442 6666999999999999 67999999987 6788999999994
No 27
>KOG0956 consensus PHD finger protein AF10 [General function prediction only]
Probab=92.07 E-value=0.062 Score=62.57 Aligned_cols=57 Identities=35% Similarity=0.776 Sum_probs=45.1
Q ss_pred CCCCccccccccccCCCcEEecCCCCCcccccccccCCCcccCCCCCccCccchhhhhHHHHHHHHHHHHHHHHHHHHH
Q 005228 327 TSGWTEQNLCVKCNKDGQLLSCSSSTCPLAVHENCLGFPVKFDEKGNFHCPFCAYTLSISEYLEAKKRASVARKELAAF 405 (707)
Q Consensus 327 ~~~~~eqn~CikC~kdGqLL~Cs~~gCplavH~~Clg~s~~fDd~GnFyCP~C~Y~~a~~ey~eaKk~a~~AKK~L~~F 405 (707)
+++|.| -=|++|++-+|.||||+-|.|--. =..|-|||-.| |.++.+++-|=+|==|
T Consensus 14 ErGWae----------NPLVYCDG~nCsVAVHQaCYGIvq--VPtGpWfCrKC----------esqeraarvrCeLCP~ 70 (900)
T KOG0956|consen 14 ERGWAE----------NPLVYCDGHNCSVAVHQACYGIVQ--VPTGPWFCRKC----------ESQERAARVRCELCPH 70 (900)
T ss_pred cCCCcc----------CceeeecCCCceeeeehhcceeEe--cCCCchhhhhh----------hhhhhhccceeecccC
Confidence 577877 669999999999999999998533 36899999999 5666666666666444
No 28
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription]
Probab=88.37 E-value=0.35 Score=56.45 Aligned_cols=48 Identities=23% Similarity=0.315 Sum_probs=39.6
Q ss_pred CCCCCCCCCHHHHHHHHHHHHhhcCCCCCccchhhhhhhcCCCCCCCCCchhhHHHHH
Q 005228 640 LRRKKVPWTAKEEEILKKGVQKFASVDDRIIPWKKILEFGSSVFFSGRTAIDLKDKWR 697 (707)
Q Consensus 640 ~RRkRr~WT~EEeeAL~eGV~KfGp~~d~~GkWkkILe~~~~vF~~~RT~VDLKDKWR 697 (707)
.+-|.-+||-.|++-|+..|++|| .|+|.+|.. |++.||.-+|-.+-+
T Consensus 408 ~s~K~~rW~l~edeqL~~~V~~YG-----~g~WakcA~-----~Lp~~t~~q~~rrR~ 455 (939)
T KOG0049|consen 408 RSAKVERWTLVEDEQLLYAVKVYG-----KGNWAKCAM-----LLPKKTSRQLRRRRL 455 (939)
T ss_pred HhhccCceeecchHHHHHHHHHHc-----cchHHHHHH-----HccccchhHHHHHHH
Confidence 455778999999999999999999 999999987 466788866654443
No 29
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=87.12 E-value=0.86 Score=54.32 Aligned_cols=51 Identities=24% Similarity=0.458 Sum_probs=41.9
Q ss_pred CCccccccccccCCC---cEEecCCCCCccc-ccccccCCCcccCCCCCccCccchh
Q 005228 329 GWTEQNLCVKCNKDG---QLLSCSSSTCPLA-VHENCLGFPVKFDEKGNFHCPFCAY 381 (707)
Q Consensus 329 ~~~eqn~CikC~kdG---qLL~Cs~~gCpla-vH~~Clg~s~~fDd~GnFyCP~C~Y 381 (707)
...+.-.|.-|.--- -||.|. +|-.+ ||.-||.....-=.-|-|||+-|..
T Consensus 211 ~~~E~~~C~IC~~~DpEdVLLLCD--sCN~~~YH~YCLDPdl~eiP~~eWYC~NC~d 265 (1134)
T KOG0825|consen 211 LSQEEVKCDICTVHDPEDVLLLCD--SCNKVYYHVYCLDPDLSESPVNEWYCTNCSL 265 (1134)
T ss_pred cccccccceeeccCChHHhheeec--ccccceeeccccCcccccccccceecCcchh
Confidence 345677899998764 399999 99999 9999999866555679999999964
No 30
>cd04718 BAH_plant_2 BAH, or Bromo Adjacent Homology domain, plant-specific sub-family with unknown function. BAH domains are found in a variety of proteins playing roles in transcriptional silencing and the remodeling of chromatin. It is assumed that in most or all of these instances the BAH domain mediates protein-protein interactions.
Probab=86.49 E-value=0.22 Score=48.63 Aligned_cols=56 Identities=21% Similarity=0.345 Sum_probs=39.4
Q ss_pred ccccccCCCcccCCCCCccCccchhhhhHHHHHHHHHHHHHHHHHHHHHhhccchhhh
Q 005228 357 VHENCLGFPVKFDEKGNFHCPFCAYTLSISEYLEAKKRASVARKELAAFMQMGSVCHQ 414 (707)
Q Consensus 357 vH~~Clg~s~~fDd~GnFyCP~C~Y~~a~~ey~eaKk~a~~AKK~L~~Fl~~~q~~h~ 414 (707)
+|-.||..+.+--..|+|+||.|..+.....+...... .+|..=..||...+-+-.
T Consensus 2 ~H~~CL~Ppl~~~P~g~W~Cp~C~~~~~~~~~~~~~~~--~~~~~~~~~l~~~~~vAr 57 (148)
T cd04718 2 FHLCCLRPPLKEVPEGDWICPFCEVEKSGQSAMPQLPP--TSRSACEKLLSGDLWLAR 57 (148)
T ss_pred cccccCCCCCCCCCCCCcCCCCCcCCCCCCcccccCCC--cchhhhhhhccCchHHHH
Confidence 79999999999999999999999887766555432111 233445567777774333
No 31
>PF15446 zf-PHD-like: PHD/FYVE-zinc-finger like domain
Probab=85.77 E-value=0.4 Score=48.06 Aligned_cols=24 Identities=33% Similarity=0.768 Sum_probs=21.7
Q ss_pred CCCcEEecCCCCCcccccccccCCCc
Q 005228 341 KDGQLLSCSSSTCPLAVHENCLGFPV 366 (707)
Q Consensus 341 kdGqLL~Cs~~gCplavH~~Clg~s~ 366 (707)
..|.|+.|- ||.++||+.|||.-.
T Consensus 13 ~kG~Lv~CQ--GCs~sYHk~CLG~Rs 36 (175)
T PF15446_consen 13 NKGPLVYCQ--GCSSSYHKACLGPRS 36 (175)
T ss_pred cCCCeEEcC--ccChHHHhhhcCCcc
Confidence 459999999 999999999999765
No 32
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=84.32 E-value=1 Score=55.03 Aligned_cols=55 Identities=16% Similarity=0.287 Sum_probs=47.5
Q ss_pred CCCCCCCHHHHHHHHHHHHhhcCCCCCccchhhhhh-------hcCCCCCCCCCchhhHHHHHHhcc
Q 005228 642 RKKVPWTAKEEEILKKGVQKFASVDDRIIPWKKILE-------FGSSVFFSGRTAIDLKDKWRNMCK 701 (707)
Q Consensus 642 RkRr~WT~EEeeAL~eGV~KfGp~~d~~GkWkkILe-------~~~~vF~~~RT~VDLKDKWRNL~K 701 (707)
.+++.||.+|...|+-.+.+|| .|+|-.|+. +-++.|+..||+.+|+.+-..|.+
T Consensus 924 ~~~~~~~~~~d~~~~~~~~~~g-----~~~~~~~~~~i~~~~~f~fd~~~~srt~~~~~~r~~~l~~ 985 (1033)
T PLN03142 924 NKGKLYNEECDRFMLCMVHKLG-----YGNWDELKAAFRTSPLFRFDWFVKSRTPQELARRCDTLIR 985 (1033)
T ss_pred CCCCcCCHHHHHHHHHHHHHhc-----cchHHHHHHHHHhCCceeeehhhccCCHHHHHHHHHHHHH
Confidence 4566899999999999999999 789999974 346677899999999999988765
No 33
>KOG1244 consensus Predicted transcription factor Requiem/NEURO-D4 [Transcription]
Probab=83.94 E-value=0.65 Score=49.76 Aligned_cols=44 Identities=34% Similarity=0.816 Sum_probs=38.5
Q ss_pred ccccccc---CCCcEEecCCCCCcccccccccCCCcccCCCCCccCccc
Q 005228 334 NLCVKCN---KDGQLLSCSSSTCPLAVHENCLGFPVKFDEKGNFHCPFC 379 (707)
Q Consensus 334 n~CikC~---kdGqLL~Cs~~gCplavH~~Clg~s~~fDd~GnFyCP~C 379 (707)
..|.-|| .|-|||+|+ .|--.||--||..+..--.+|-|.|-+|
T Consensus 282 k~csicgtsenddqllfcd--dcdrgyhmyclsppm~eppegswsc~KO 328 (336)
T KOG1244|consen 282 KYCSICGTSENDDQLLFCD--DCDRGYHMYCLSPPMVEPPEGSWSCHLC 328 (336)
T ss_pred ceeccccCcCCCceeEeec--ccCCceeeEecCCCcCCCCCCchhHHHH
Confidence 3444444 568999999 9999999999999999999999999999
No 34
>KOG1473 consensus Nucleosome remodeling factor, subunit NURF301/BPTF [Chromatin structure and dynamics; Transcription]
Probab=83.51 E-value=0.32 Score=59.42 Aligned_cols=56 Identities=21% Similarity=0.193 Sum_probs=49.2
Q ss_pred CCCCccccccccccCCCcEEecCCCCCcccccc-cccC--CCcccCCCCCccCccchhhh
Q 005228 327 TSGWTEQNLCVKCNKDGQLLSCSSSTCPLAVHE-NCLG--FPVKFDEKGNFHCPFCAYTL 383 (707)
Q Consensus 327 ~~~~~eqn~CikC~kdGqLL~Cs~~gCplavH~-~Clg--~s~~fDd~GnFyCP~C~Y~~ 383 (707)
.--|.-...|+-|+++|.||.|. ++||.++|- .||+ .--.|.-+|-|+||.|....
T Consensus 422 r~ywfi~rrl~Ie~~det~l~yy-sT~pqly~ll~cLd~~~~e~~L~d~i~~~~ee~~rq 480 (1414)
T KOG1473|consen 422 RKYWFISRRLRIEGMDETLLWYY-STCPQLYHLLRCLDRTYVEMYLCDGIWERREEIIRQ 480 (1414)
T ss_pred cchhceeeeeEEecCCCcEEEEe-cCcHHHHHHHHHhchHHHHHhhccchhhhHHHHHHh
Confidence 33488999999999999999999 249999999 9999 66789999999999998764
No 35
>PF12776 Myb_DNA-bind_3: Myb/SANT-like DNA-binding domain; InterPro: IPR024752 This domain, found in a range of uncharacterised proteins, may be related to Myb/SANT-like DNA binding domains.
Probab=80.75 E-value=1.4 Score=37.76 Aligned_cols=57 Identities=21% Similarity=0.262 Sum_probs=42.0
Q ss_pred CCCHHHHHHHHHHHHhh---cCC--CCC--ccchhhhhhhcCCCCCCCCCchhhHHHHHHhccC
Q 005228 646 PWTAKEEEILKKGVQKF---ASV--DDR--IIPWKKILEFGSSVFFSGRTAIDLKDKWRNMCKG 702 (707)
Q Consensus 646 ~WT~EEeeAL~eGV~Kf---Gp~--~d~--~GkWkkILe~~~~vF~~~RT~VDLKDKWRNL~Kk 702 (707)
.||.+.+++|++.+... |.. +.+ ..-|..|...+...|...-|.-+||.||+.|.+.
T Consensus 1 ~Wt~~~~~~ll~~~~e~~~~g~~~~~~~fk~~~w~~i~~~~~~~~~~~~t~~qlknk~~~lk~~ 64 (96)
T PF12776_consen 1 SWTPEMTRFLLDLLIEQINKGNRPTNGGFKKEGWNNIAEEFNEKTGLNYTKKQLKNKWKTLKKD 64 (96)
T ss_pred CCChHHHHHHHHHHHHHHHhCCCCCCCCcCHHHHHHHHHHHHHHhCCcccHHHHHHHHHHHHHH
Confidence 59999999999998665 222 111 3458889987665666677889999999988763
No 36
>PF13771 zf-HC5HC2H: PHD-like zinc-binding domain
Probab=79.13 E-value=1 Score=38.54 Aligned_cols=46 Identities=30% Similarity=0.619 Sum_probs=36.3
Q ss_pred cccccccCC-CcEEecCCCCCcccccccccCCCc---ccCCCCCccCccc
Q 005228 334 NLCVKCNKD-GQLLSCSSSTCPLAVHENCLGFPV---KFDEKGNFHCPFC 379 (707)
Q Consensus 334 n~CikC~kd-GqLL~Cs~~gCplavH~~Clg~s~---~fDd~GnFyCP~C 379 (707)
..|.-|++. |-.+.|...+|...+|..|.-.+. .|++....+..||
T Consensus 37 ~~C~~C~~~~Ga~i~C~~~~C~~~fH~~CA~~~~~~~~~~~~~~~~~~~C 86 (90)
T PF13771_consen 37 LKCSICKKKGGACIGCSHPGCSRSFHVPCARKAGCFIEFDEDNGKFRIFC 86 (90)
T ss_pred CCCcCCCCCCCeEEEEeCCCCCcEEChHHHccCCeEEEEccCCCceEEEC
Confidence 589999999 999999999999999999976544 4454444555555
No 37
>PF04504 DUF573: Protein of unknown function, DUF573; InterPro: IPR007592 This is a family of uncharacterised proteins.
Probab=76.29 E-value=3.3 Score=37.56 Aligned_cols=58 Identities=17% Similarity=0.262 Sum_probs=38.3
Q ss_pred CCCCCHHHHHHHHHHHHhhcCCCCCcc---chhhhhhhcCCCCCCCCCchhhHHHHHHhccC
Q 005228 644 KVPWTAKEEEILKKGVQKFASVDDRII---PWKKILEFGSSVFFSGRTAIDLKDKWRNMCKG 702 (707)
Q Consensus 644 Rr~WT~EEeeAL~eGV~KfGp~~d~~G---kWkkILe~~~~vF~~~RT~VDLKDKWRNL~Kk 702 (707)
.+.||.++|-.|++|+--|-.. .|.. .|..+.+.-...+...=|..+|.+|-|.|.++
T Consensus 4 qR~WS~eDEi~iL~gl~~~~~~-~G~~p~~d~~~f~~~vk~~l~~~~s~~Ql~~KirrLK~K 64 (98)
T PF04504_consen 4 QRLWSEEDEIVILQGLIDFRAK-TGKSPQPDMNAFYDFVKGSLSFDVSKNQLYDKIRRLKKK 64 (98)
T ss_pred cCCCCchHHHHHHHHHHHHHHh-cCCCCCccHHHHHHHHHHHccCCCCHHHHHHHHHHHHHH
Confidence 4679999999999999999311 1122 45555544222222345778999999888765
No 38
>KOG4282 consensus Transcription factor GT-2 and related proteins, contains trihelix DNA-binding/SANT domain [Transcription]
Probab=75.82 E-value=1.8 Score=45.74 Aligned_cols=60 Identities=15% Similarity=0.161 Sum_probs=42.7
Q ss_pred CCCCCHHHHHHHHHHHHhh----cCCCCCccchhhhhhh-cCCCCCCCCCchhhHHHHHHhccCCCC
Q 005228 644 KVPWTAKEEEILKKGVQKF----ASVDDRIIPWKKILEF-GSSVFFSGRTAIDLKDKWRNMCKGSPR 705 (707)
Q Consensus 644 Rr~WT~EEeeAL~eGV~Kf----Gp~~d~~GkWkkILe~-~~~vF~~~RT~VDLKDKWRNL~Kks~k 705 (707)
..+||.+|+.+|++...+. .-.-...-.|..|-.. -..-| .||.++.|.||.||.|+..+
T Consensus 54 ~~~Ws~~et~~Li~~~~~~~~~~~~~~~k~~~We~va~k~~~~g~--~rs~~qck~K~~nl~k~Yk~ 118 (345)
T KOG4282|consen 54 EPRWSEEETLTLIEIRGEMDVALRRGKLKGPLWEEVARKMAELGY--PRSPKQCKAKIENLKKKYKK 118 (345)
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHhhhhcccHHHHHHHHHHHhCC--CCCHHHHHHHHHHHHHHHHH
Confidence 7899999999999876543 2000113349999873 22223 79999999999999987543
No 39
>COG2824 PhnA Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]
Probab=75.69 E-value=1 Score=42.42 Aligned_cols=24 Identities=25% Similarity=0.570 Sum_probs=20.5
Q ss_pred CCcccCCCCCccCccchhhhhHHH
Q 005228 364 FPVKFDEKGNFHCPFCAYTLSISE 387 (707)
Q Consensus 364 ~s~~fDd~GnFyCP~C~Y~~a~~e 387 (707)
+.-.|++.+.|+||.|||.+.-.+
T Consensus 11 sEytYed~~~~~cpec~~ew~~~~ 34 (112)
T COG2824 11 SEYTYEDGGQLICPECAHEWNENE 34 (112)
T ss_pred CceEEecCceEeCchhcccccccc
Confidence 556799999999999999988544
No 40
>KOG0957 consensus PHD finger protein [General function prediction only]
Probab=70.10 E-value=6.5 Score=45.43 Aligned_cols=49 Identities=31% Similarity=0.773 Sum_probs=37.3
Q ss_pred cccccccCC-----CcEEecCCCCCcccccccccCCC-----cccCCC---CCccCccchhhhh
Q 005228 334 NLCVKCNKD-----GQLLSCSSSTCPLAVHENCLGFP-----VKFDEK---GNFHCPFCAYTLS 384 (707)
Q Consensus 334 n~CikC~kd-----GqLL~Cs~~gCplavH~~Clg~s-----~~fDd~---GnFyCP~C~Y~~a 384 (707)
++|.-|-.. |.+|.|+ .|-|.||+.|.|.. +.--.. .-|||--|.|--.
T Consensus 120 ~iCcVClg~rs~da~ei~qCd--~CGi~VHEgCYGv~dn~si~s~~s~~stepWfCeaC~~Gvs 181 (707)
T KOG0957|consen 120 VICCVCLGQRSVDAGEILQCD--KCGINVHEGCYGVLDNVSIPSGSSDCSTEPWFCEACLYGVS 181 (707)
T ss_pred eEEEEeecCccccccceeecc--ccCceecccccccccccccCCCCccCCCCchhhhhHhcCCC
Confidence 378777543 7899999 99999999999987 333233 5799988877543
No 41
>KOG2656 consensus DNA methyltransferase 1-associated protein-1 [Chromatin structure and dynamics; Transcription]
Probab=68.85 E-value=3.6 Score=46.03 Aligned_cols=53 Identities=23% Similarity=0.411 Sum_probs=44.0
Q ss_pred CCCCHHHHHHHHHHHHhhcCCCCCccchhhhhhhcCC-CCCCCCCchhhHHHH----HHhccCC
Q 005228 645 VPWTAKEEEILKKGVQKFASVDDRIIPWKKILEFGSS-VFFSGRTAIDLKDKW----RNMCKGS 703 (707)
Q Consensus 645 r~WT~EEeeAL~eGV~KfGp~~d~~GkWkkILe~~~~-vF~~~RT~VDLKDKW----RNL~Kks 703 (707)
-.||.+|.+.|-+-.++|- -+|--|.+.|.. -|...||-=|||||| |+|.|.+
T Consensus 131 n~WskeETD~LF~lck~fD------LRf~VIaDRyd~qq~~~sRTvEdLKeRyY~v~r~l~kAr 188 (445)
T KOG2656|consen 131 NSWSKEETDYLFDLCKRFD------LRFFVIADRYDNQQYKKSRTVEDLKERYYSVCRKLLKAR 188 (445)
T ss_pred ccccHHHHHHHHHHHHhcC------eeEEEEeeccchhhccccccHHHHHHHHHHHHHHHHHcc
Confidence 4699999999999999998 699999988733 355679999999999 5555554
No 42
>COG5114 Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=68.00 E-value=4.8 Score=44.30 Aligned_cols=45 Identities=22% Similarity=0.495 Sum_probs=40.1
Q ss_pred CCCHHHHHHHHHHHHhhcCCCCCccchhhhhhhcCCCCCCCCCchhhHHHHHHhc
Q 005228 646 PWTAKEEEILKKGVQKFASVDDRIIPWKKILEFGSSVFFSGRTAIDLKDKWRNMC 700 (707)
Q Consensus 646 ~WT~EEeeAL~eGV~KfGp~~d~~GkWkkILe~~~~vF~~~RT~VDLKDKWRNL~ 700 (707)
.|+..||-.|++|....| .|+|..|..+- ..|+.-++|+.|-.|.
T Consensus 65 ~WgadEEllli~~~~TlG-----lGNW~dIadyi-----Gsr~kee~k~HylK~y 109 (432)
T COG5114 65 GWGADEELLLIECLDTLG-----LGNWEDIADYI-----GSRAKEEIKSHYLKMY 109 (432)
T ss_pred CcCchHHHHHHHHHHhcC-----CCcHHHHHHHH-----hhhhhHHHHHHHHHHH
Confidence 799999999999999999 99999999863 2699999999887664
No 43
>KOG1245 consensus Chromatin remodeling complex WSTF-ISWI, large subunit (contains heterochromatin localization, PHD and BROMO domains) [Chromatin structure and dynamics]
Probab=67.79 E-value=1.5 Score=55.18 Aligned_cols=63 Identities=29% Similarity=0.565 Sum_probs=50.9
Q ss_pred hhcCCCcccCCCC---ccccccccccCCCc---EEecCCCCCcccccccccCCCcccCCCCCccCccchhh
Q 005228 318 AALGHDSLATSGW---TEQNLCVKCNKDGQ---LLSCSSSTCPLAVHENCLGFPVKFDEKGNFHCPFCAYT 382 (707)
Q Consensus 318 ~~~~~d~~~~~~~---~eqn~CikC~kdGq---LL~Cs~~gCplavH~~Clg~s~~fDd~GnFyCP~C~Y~ 382 (707)
.....++-...-| ...-+|--|...++ +|.|+ +|.-.+|--|+-.-..-...|+|+||-|.-.
T Consensus 1090 ~~~l~~l~~~i~w~~s~~~~~c~~cr~k~~~~~m~lc~--~c~~~~h~~C~rp~~~~~~~~dW~C~~c~~e 1158 (1404)
T KOG1245|consen 1090 HLLLNDLEAEIKWDRSAVNALCKVCRRKKQDEKMLLCD--ECLSGFHLFCLRPALSSVPPGDWMCPSCRKE 1158 (1404)
T ss_pred HHHHHHHHHHHhhccccchhhhhhhhhcccchhhhhhH--hhhhhHHHHhhhhhhccCCcCCccCCccchh
Confidence 3344455444444 45678999998887 89999 9999999999999999999999999999543
No 44
>COG5147 REB1 Myb superfamily proteins, including transcription factors and mRNA splicing factors [Transcription / RNA processing and modification / Cell division and chromosome partitioning]
Probab=66.40 E-value=2.2 Score=48.83 Aligned_cols=49 Identities=33% Similarity=0.586 Sum_probs=43.7
Q ss_pred CCCCCCHHHHHHHHHHHHhhcCCCCCccchhhhhhhcCCCCCCCCCchhhHHHHHHhccCC
Q 005228 643 KKVPWTAKEEEILKKGVQKFASVDDRIIPWKKILEFGSSVFFSGRTAIDLKDKWRNMCKGS 703 (707)
Q Consensus 643 kRr~WT~EEeeAL~eGV~KfGp~~d~~GkWkkILe~~~~vF~~~RT~VDLKDKWRNL~Kks 703 (707)
.+..||.+|+..|..-|.+.| +.|+.|-.. -+|-+-|+.|.||+.++..
T Consensus 290 ~~~~wt~e~~~eL~~~~~~~~------~~w~~ig~~------~~rmp~~crd~wr~~~~~g 338 (512)
T COG5147 290 QRGKWTKEEEQELAKLVVEHG------GSWTEIGKL------LGRMPNDCRDRWRDYVKCG 338 (512)
T ss_pred hhccCcccccccccccccccc------chhhHhhhh------hccCcHHHHHHHhhhcccc
Confidence 567899999999999999999 899999884 3789999999999998874
No 45
>COG5034 TNG2 Chromatin remodeling protein, contains PhD zinc finger [Chromatin structure and dynamics]
Probab=66.08 E-value=3.7 Score=43.73 Aligned_cols=41 Identities=32% Similarity=0.865 Sum_probs=34.9
Q ss_pred cccCC--CcEEecCCCCCccc-ccccccCCCcccCCCCCccCccch
Q 005228 338 KCNKD--GQLLSCSSSTCPLA-VHENCLGFPVKFDEKGNFHCPFCA 380 (707)
Q Consensus 338 kC~kd--GqLL~Cs~~gCpla-vH~~Clg~s~~fDd~GnFyCP~C~ 380 (707)
.|... ||.+-|++..|+.- +|=.|+|-.. -+.|-||||.|.
T Consensus 225 fCqqvSyGqMVaCDn~nCkrEWFH~~CVGLk~--pPKG~WYC~eCk 268 (271)
T COG5034 225 FCQQVSYGQMVACDNANCKREWFHLECVGLKE--PPKGKWYCPECK 268 (271)
T ss_pred EecccccccceecCCCCCchhheeccccccCC--CCCCcEeCHHhH
Confidence 46655 99999999999985 8999999765 479999999994
No 46
>PF08914 Myb_DNA-bind_2: Rap1 Myb domain; InterPro: IPR015010 Rap1 Myb adopts a canonical three-helix bundle tertiary structure, with the second and third helices forming a helix-turn-helix variant motif. The function is unclear but it may either interact with DNA via an adaptor protein or it may be only involved in protein-protein interactions []. ; PDB: 1FEX_A.
Probab=64.38 E-value=11 Score=32.19 Aligned_cols=55 Identities=18% Similarity=0.299 Sum_probs=32.8
Q ss_pred CCCCCHHHHHHHHHHHHhhcCCC---CCccchhhhhhhcCCCCCCCCCchhhHHHHHHhccC
Q 005228 644 KVPWTAKEEEILKKGVQKFASVD---DRIIPWKKILEFGSSVFFSGRTAIDLKDKWRNMCKG 702 (707)
Q Consensus 644 Rr~WT~EEeeAL~eGV~KfGp~~---d~~GkWkkILe~~~~vF~~~RT~VDLKDKWRNL~Kk 702 (707)
|.++|.+|..+|+.=|..+.+.+ .|.--|+.+-+.+. ..+|---++|+|+.-.+.
T Consensus 2 R~~fT~edD~~l~~~v~~~~~~~~~~~Gn~iwk~le~~~~----t~HtwQSwR~Ry~K~L~~ 59 (65)
T PF08914_consen 2 RTPFTEEDDAALLDYVKENERQGGSVSGNKIWKELEEKHP----TRHTWQSWRDRYLKHLRG 59 (65)
T ss_dssp -----HHHHHHHHHHHHHT--STTTTTSSHHHHHHHHS-S----SS--SHHHHHHHHHHT--
T ss_pred CCCCCHHHHHHHHHHHHHhccCCCCCchHHHHHHHHHHcC----CCCCHHHHHHHHHHHHhc
Confidence 67899999999999998775433 23445877777653 489999999999654443
No 47
>PF13832 zf-HC5HC2H_2: PHD-zinc-finger like domain
Probab=63.58 E-value=5.2 Score=35.60 Aligned_cols=33 Identities=30% Similarity=0.629 Sum_probs=29.1
Q ss_pred cccccccccCC-CcEEecCCCCCcccccccccCC
Q 005228 332 EQNLCVKCNKD-GQLLSCSSSTCPLAVHENCLGF 364 (707)
Q Consensus 332 eqn~CikC~kd-GqLL~Cs~~gCplavH~~Clg~ 364 (707)
-...|.-|++. |-++.|+..+|..++|..|.-.
T Consensus 54 ~~~~C~iC~~~~G~~i~C~~~~C~~~fH~~CA~~ 87 (110)
T PF13832_consen 54 FKLKCSICGKSGGACIKCSHPGCSTAFHPTCARK 87 (110)
T ss_pred cCCcCcCCCCCCceeEEcCCCCCCcCCCHHHHHH
Confidence 35689999995 9999999999999999999744
No 48
>KOG0956 consensus PHD finger protein AF10 [General function prediction only]
Probab=63.28 E-value=3.2 Score=49.17 Aligned_cols=49 Identities=33% Similarity=0.795 Sum_probs=39.5
Q ss_pred cccccccCCCc--------EEecCCCCCcccccccccCCCccc-CCCCC-----ccCccchhh
Q 005228 334 NLCVKCNKDGQ--------LLSCSSSTCPLAVHENCLGFPVKF-DEKGN-----FHCPFCAYT 382 (707)
Q Consensus 334 n~CikC~kdGq--------LL~Cs~~gCplavH~~Clg~s~~f-Dd~Gn-----FyCP~C~Y~ 382 (707)
.+|+-|++-|+ -..|...||--++|.+|.-+.--+ ++.|+ -||-||-|-
T Consensus 118 KtCYIC~E~GrpnkA~~GACMtCNKs~CkqaFHVTCAQ~~GLLCEE~gn~~dNVKYCGYCk~H 180 (900)
T KOG0956|consen 118 KTCYICNEEGRPNKAAKGACMTCNKSGCKQAFHVTCAQRAGLLCEEEGNISDNVKYCGYCKYH 180 (900)
T ss_pred ceeeeecccCCccccccccceecccccchhhhhhhHhhhhccceeccccccccceechhHHHH
Confidence 57999999876 789999999999999998765544 34445 499999874
No 49
>KOG0954 consensus PHD finger protein [General function prediction only]
Probab=62.28 E-value=3.6 Score=49.02 Aligned_cols=48 Identities=27% Similarity=0.767 Sum_probs=38.6
Q ss_pred CccccccccccCC-----CcEEecCCCCCcccccccccCCCcccCCCCCccCccchh
Q 005228 330 WTEQNLCVKCNKD-----GQLLSCSSSTCPLAVHENCLGFPVKFDEKGNFHCPFCAY 381 (707)
Q Consensus 330 ~~eqn~CikC~kd-----GqLL~Cs~~gCplavH~~Clg~s~~fDd~GnFyCP~C~Y 381 (707)
.-+.-+|--|--. -++++|+ -|-+.||..|.|-.. +.+|.|.|--|+.
T Consensus 268 ~dedviCDvCrspD~e~~neMVfCd--~Cn~cVHqaCyGIle--~p~gpWlCr~Cal 320 (893)
T KOG0954|consen 268 YDEDVICDVCRSPDSEEANEMVFCD--KCNICVHQACYGILE--VPEGPWLCRTCAL 320 (893)
T ss_pred ccccceeceecCCCccccceeEEec--cchhHHHHhhhceee--cCCCCeeehhccc
Confidence 3366778777654 5699999 999999999999765 6679999988864
No 50
>KOG1279 consensus Chromatin remodeling factor subunit and related transcription factors [Chromatin structure and dynamics]
Probab=61.30 E-value=10 Score=43.51 Aligned_cols=49 Identities=14% Similarity=0.316 Sum_probs=38.5
Q ss_pred CCCCCCCCCHHHHHHHHHHHHhhcCCCCCccchhhhhhhcCCCCCCCCCchhhHHHHHHh
Q 005228 640 LRRKKVPWTAKEEEILKKGVQKFASVDDRIIPWKKILEFGSSVFFSGRTAIDLKDKWRNM 699 (707)
Q Consensus 640 ~RRkRr~WT~EEeeAL~eGV~KfGp~~d~~GkWkkILe~~~~vF~~~RT~VDLKDKWRNL 699 (707)
+-..+..||..|.-.|++||++|| -.|.+|-..-. .||.=+-=.|++.|
T Consensus 249 ~~~~~~~WT~qE~lLLLE~ie~y~------ddW~kVa~hVg-----~ks~eqCI~kFL~L 297 (506)
T KOG1279|consen 249 GESARPNWTEQETLLLLEAIEMYG------DDWNKVADHVG-----TKSQEQCILKFLRL 297 (506)
T ss_pred cccCCCCccHHHHHHHHHHHHHhc------ccHHHHHhccC-----CCCHHHHHHHHHhc
Confidence 445677999999999999999999 58999988532 67766666666544
No 51
>KOG0050 consensus mRNA splicing protein CDC5 (Myb superfamily) [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning]
Probab=57.09 E-value=7.4 Score=45.03 Aligned_cols=44 Identities=30% Similarity=0.579 Sum_probs=37.3
Q ss_pred CCCCCHHHHHHHHHHHHhhcCCCCCccchhhhhhhcCCCCCCCCCchhhHHHHH
Q 005228 644 KVPWTAKEEEILKKGVQKFASVDDRIIPWKKILEFGSSVFFSGRTAIDLKDKWR 697 (707)
Q Consensus 644 Rr~WT~EEeeAL~eGV~KfGp~~d~~GkWkkILe~~~~vF~~~RT~VDLKDKWR 697 (707)
-.-|+..|++.|..+|.||| ...|+.|..-+ +.-|.-+.+-+|-
T Consensus 7 ggvwrntEdeilkaav~kyg-----~nqws~i~sll-----~~kt~rqC~~rw~ 50 (617)
T KOG0050|consen 7 GGVWRNTEDEVLKAAVMKYG-----KNQWSRIASLL-----NRKTARQCKARWE 50 (617)
T ss_pred cceecccHHHHHHHHHHHcc-----hHHHHHHHHHH-----hhcchhHHHHHHH
Confidence 45799999999999999999 89999999864 3567778888874
No 52
>COG5259 RSC8 RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]
Probab=56.65 E-value=8.3 Score=44.14 Aligned_cols=30 Identities=20% Similarity=0.582 Sum_probs=26.5
Q ss_pred CCCCCCHHHHHHHHHHHHhhcCCCCCccchhhhhhh
Q 005228 643 KKVPWTAKEEEILKKGVQKFASVDDRIIPWKKILEF 678 (707)
Q Consensus 643 kRr~WT~EEeeAL~eGV~KfGp~~d~~GkWkkILe~ 678 (707)
....||.+|.-.|++||+.|| -.|.+|...
T Consensus 278 ~dk~WS~qE~~LLLEGIe~yg------DdW~kVA~H 307 (531)
T COG5259 278 RDKNWSRQELLLLLEGIEMYG------DDWDKVARH 307 (531)
T ss_pred ccccccHHHHHHHHHHHHHhh------hhHHHHHHH
Confidence 456999999999999999999 589998864
No 53
>KOG4443 consensus Putative transcription factor HALR/MLL3, involved in embryonic development [General function prediction only]
Probab=50.99 E-value=8.7 Score=45.40 Aligned_cols=47 Identities=23% Similarity=0.585 Sum_probs=33.4
Q ss_pred cccccccccCC---CcEEecCCCCCcccccccccCCCcccCCCCCccCccch
Q 005228 332 EQNLCVKCNKD---GQLLSCSSSTCPLAVHENCLGFPVKFDEKGNFHCPFCA 380 (707)
Q Consensus 332 eqn~CikC~kd---GqLL~Cs~~gCplavH~~Clg~s~~fDd~GnFyCP~C~ 380 (707)
+--.|.-|+.. +++|+|+ +|-++||--|+-....-=.+|-|.|+.|.
T Consensus 67 ~crvCe~c~~~gD~~kf~~Ck--~cDvsyh~yc~~P~~~~v~sg~~~ckk~~ 116 (694)
T KOG4443|consen 67 SCRVCEACGTTGDPKKFLLCK--RCDVSYHCYCQKPPNDKVPSGPWLCKKCT 116 (694)
T ss_pred CceeeeeccccCCcccccccc--cccccccccccCCccccccCcccccHHHH
Confidence 44566667644 4699999 99999998887766665566666666553
No 54
>KOG0051 consensus RNA polymerase I termination factor, Myb superfamily [Transcription]
Probab=42.93 E-value=28 Score=41.09 Aligned_cols=58 Identities=26% Similarity=0.460 Sum_probs=45.3
Q ss_pred CCCCCCCCHHHHHHHHHHHH-------hh-----------cCCC--CCccchhhhhhhcCCCCCCCCCchhhHHHHHHhc
Q 005228 641 RRKKVPWTAKEEEILKKGVQ-------KF-----------ASVD--DRIIPWKKILEFGSSVFFSGRTAIDLKDKWRNMC 700 (707)
Q Consensus 641 RRkRr~WT~EEeeAL~eGV~-------Kf-----------Gp~~--d~~GkWkkILe~~~~vF~~~RT~VDLKDKWRNL~ 700 (707)
.+.+.+||.||++-|+..|. .| -|.+ ...++|..|-+.. ..|+.+.-+-||-.|+
T Consensus 433 ~~~r~~Ws~eEe~~Llk~V~~~~~~~~q~q~~n~~~~~q~sp~s~~~d~I~Wt~vse~~-----~TR~~~qCr~Kw~kl~ 507 (607)
T KOG0051|consen 433 KRNRGAWSIEEEEKLLKTVNEMIREALQPQASNTDTGLQESPESTLKDDINWTLVSEML-----GTRSRIQCRYKWYKLT 507 (607)
T ss_pred ccccCcchHHHHHHHHHHHHHHHHHhhcccccccchhhhcCccccccCCcchhhhhHhh-----cCCCcchHHHHHHHHH
Confidence 37888999999999999996 22 2221 1368999999843 5899999999998887
Q ss_pred cCC
Q 005228 701 KGS 703 (707)
Q Consensus 701 Kks 703 (707)
+..
T Consensus 508 ~~~ 510 (607)
T KOG0051|consen 508 TSP 510 (607)
T ss_pred hhH
Confidence 653
No 55
>KOG4323 consensus Polycomb-like PHD Zn-finger protein [General function prediction only]
Probab=39.94 E-value=14 Score=42.16 Aligned_cols=50 Identities=24% Similarity=0.495 Sum_probs=38.8
Q ss_pred cccccCC--C---cEEecCCCCCcccccccccCCCccc----CCCCCccCccchhhhhHHH
Q 005228 336 CVKCNKD--G---QLLSCSSSTCPLAVHENCLGFPVKF----DEKGNFHCPFCAYTLSISE 387 (707)
Q Consensus 336 CikC~kd--G---qLL~Cs~~gCplavH~~Clg~s~~f----Dd~GnFyCP~C~Y~~a~~e 387 (707)
|+-|.-+ | ++|.|+ +|--.+|+-|.-+..+- |..+.|||-.|.+......
T Consensus 171 c~vC~~g~~~~~NrmlqC~--~C~~~fHq~Chqp~i~~~l~~D~~~~w~C~~C~~~~~~~~ 229 (464)
T KOG4323|consen 171 CSVCYCGGPGAGNRMLQCD--KCRQWYHQACHQPLIKDELAGDPFYEWFCDVCNRGPKKVP 229 (464)
T ss_pred eeeeecCCcCccceeeeec--ccccHHHHHhccCCCCHhhccCccceEeehhhccchhhcc
Confidence 7766533 2 599999 99999999998776543 4567899999999876554
No 56
>KOG4299 consensus PHD Zn-finger protein [General function prediction only]
Probab=38.74 E-value=16 Score=42.85 Aligned_cols=50 Identities=24% Similarity=0.438 Sum_probs=41.3
Q ss_pred CccccccccccCCCcEEecCCCCCcccccccccCCCcccCCCCCccCccchhhh
Q 005228 330 WTEQNLCVKCNKDGQLLSCSSSTCPLAVHENCLGFPVKFDEKGNFHCPFCAYTL 383 (707)
Q Consensus 330 ~~eqn~CikC~kdGqLL~Cs~~gCplavH~~Clg~s~~fDd~GnFyCP~C~Y~~ 383 (707)
|.--..|--|..+|.+|.|. .||.+.|..|.+.... .+-.|+|-.|.-.-
T Consensus 44 ~k~~ts~~~~~~~gn~~~~~--~~~~s~h~~~~~~~~s--p~~~~~~~~~~~~~ 93 (613)
T KOG4299|consen 44 GKAATSCGICKSGGNLLCCD--HCPASFHLECDKPPLS--PDLKGSEINCSRCP 93 (613)
T ss_pred cchhhhcchhhhcCCccccc--cCccccchhccCcccC--cccccccccccCCC
Confidence 44478999999999999999 9999999999998877 66677776665433
No 57
>KOG1081 consensus Transcription factor NSD1 and related SET domain proteins [Transcription]
Probab=36.75 E-value=19 Score=40.77 Aligned_cols=39 Identities=31% Similarity=0.573 Sum_probs=33.7
Q ss_pred ccccccccccCCCcEEecC------CCCCcccccccccCC---CcccC
Q 005228 331 TEQNLCVKCNKDGQLLSCS------SSTCPLAVHENCLGF---PVKFD 369 (707)
Q Consensus 331 ~eqn~CikC~kdGqLL~Cs------~~gCplavH~~Clg~---s~~fD 369 (707)
.+...|..|.++|-|+.|. -++||.++|+.|.-. ...|.
T Consensus 87 ~~~~~c~vc~~ggs~v~~~s~~~~~~r~c~~~~~~~c~~~~~d~~~~~ 134 (463)
T KOG1081|consen 87 IEPSECFVCFKGGSLVTCKSRIQAPHRKCKPAQLEKCSKRCTDCRAFK 134 (463)
T ss_pred CCcchhccccCCCccceeccccccccccCcCccCcccccCCcceeeec
Confidence 3457899999999999999 999999999999988 55555
No 58
>KOG4443 consensus Putative transcription factor HALR/MLL3, involved in embryonic development [General function prediction only]
Probab=36.17 E-value=11 Score=44.68 Aligned_cols=50 Identities=28% Similarity=0.632 Sum_probs=38.3
Q ss_pred ccccccccCCCc-----EEecCCCCCcccccccccCCCccc-CCCCCccCccchhhhh
Q 005228 333 QNLCVKCNKDGQ-----LLSCSSSTCPLAVHENCLGFPVKF-DEKGNFHCPFCAYTLS 384 (707)
Q Consensus 333 qn~CikC~kdGq-----LL~Cs~~gCplavH~~Clg~s~~f-Dd~GnFyCP~C~Y~~a 384 (707)
..+|..|+-.|+ ||.|+ .|-..+|..|+..-.+- +=+|-|-||-|....+
T Consensus 18 ~~mc~l~~s~G~~~ag~m~ac~--~c~~~yH~~cvt~~~~~~~l~~gWrC~~crvCe~ 73 (694)
T KOG4443|consen 18 CLMCPLCGSSGKGRAGRLLACS--DCGQKYHPYCVTSWAQHAVLSGGWRCPSCRVCEA 73 (694)
T ss_pred hhhhhhhccccccccCcchhhh--hhcccCCcchhhHHHhHHHhcCCcccCCceeeee
Confidence 357888877766 99999 99999999999865443 3345599999976544
No 59
>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=35.57 E-value=25 Score=26.66 Aligned_cols=31 Identities=35% Similarity=0.727 Sum_probs=25.0
Q ss_pred cccccccCC--C---cEEecCCCCCcccccccccCCCc
Q 005228 334 NLCVKCNKD--G---QLLSCSSSTCPLAVHENCLGFPV 366 (707)
Q Consensus 334 n~CikC~kd--G---qLL~Cs~~gCplavH~~Clg~s~ 366 (707)
..|..|++. | +=|.|+ .|-+++|.+|...-+
T Consensus 12 ~~C~~C~~~i~~~~~~~~~C~--~C~~~~H~~C~~~v~ 47 (50)
T cd00029 12 TFCDVCRKSIWGLFKQGLRCS--WCKVKCHKKCADKVP 47 (50)
T ss_pred CChhhcchhhhccccceeEcC--CCCCchhhhhhccCC
Confidence 458888765 4 678999 999999999987654
No 60
>PRK14714 DNA polymerase II large subunit; Provisional
Probab=34.55 E-value=28 Score=44.09 Aligned_cols=39 Identities=23% Similarity=0.333 Sum_probs=25.7
Q ss_pred ccCCCCCccCccchhhhhHHHHHH--HHHHHHHHHHHHHHH
Q 005228 367 KFDEKGNFHCPFCAYTLSISEYLE--AKKRASVARKELAAF 405 (707)
Q Consensus 367 ~fDd~GnFyCP~C~Y~~a~~ey~e--aKk~a~~AKK~L~~F 405 (707)
..|++|.-.||+|-.......+.+ .+..+..|-++|-..
T Consensus 703 ~~des~a~~CP~CGtplv~~~~~~i~~~~~~~~A~~~~g~~ 743 (1337)
T PRK14714 703 PPDESGRVECPRCDVELTPYQRRTINVKEEYRSALENVGER 743 (1337)
T ss_pred CCCccccccCCCCCCcccccceEEecHHHHHHHHHHHhCcc
Confidence 457777889999986554444433 666677776666544
No 61
>PF10235 Cript: Microtubule-associated protein CRIPT; InterPro: IPR019367 The CRIPT protein is a cytoskeletal protein involved in microtubule production. This C-terminal domain is essential for binding to the PDZ3 domain of the SAP90 protein, one of a super-family of PDZ-containing proteins that play an important role in coupling the membrane ion channels with their signalling partners [].
Probab=33.98 E-value=19 Score=33.17 Aligned_cols=26 Identities=31% Similarity=0.553 Sum_probs=19.3
Q ss_pred cccCCCcccCCCCCccCccchhhhhH
Q 005228 360 NCLGFPVKFDEKGNFHCPFCAYTLSI 385 (707)
Q Consensus 360 ~Clg~s~~fDd~GnFyCP~C~Y~~a~ 385 (707)
+|.-+.....-.|..||..|+|++.+
T Consensus 46 ~C~~CK~~v~q~g~~YCq~CAYkkGi 71 (90)
T PF10235_consen 46 KCKICKTKVHQPGAKYCQTCAYKKGI 71 (90)
T ss_pred cccccccccccCCCccChhhhcccCc
Confidence 45555555666799999999998754
No 62
>PF11287 DUF3088: Protein of unknown function (DUF3088); InterPro: IPR021439 This family of proteins with unknown function appears to be restricted to Proteobacteria.
Probab=33.90 E-value=20 Score=34.13 Aligned_cols=8 Identities=63% Similarity=1.476 Sum_probs=7.0
Q ss_pred ccCccchh
Q 005228 374 FHCPFCAY 381 (707)
Q Consensus 374 FyCP~C~Y 381 (707)
||||.|..
T Consensus 22 f~Cp~c~~ 29 (112)
T PF11287_consen 22 FYCPHCAA 29 (112)
T ss_pred EECCchHH
Confidence 99999964
No 63
>TIGR00686 phnA alkylphosphonate utilization operon protein PhnA. The protein family includes an uncharacterized member designated phnA in Escherichia coli, part of a large operon associated with alkylphosphonate uptake and carbon-phosphorus bond cleavage. This protein is not related to the characterized phosphonoacetate hydrolase designated PhnA by Kulakova, et al. (2001, 1997).
Probab=33.21 E-value=15 Score=34.89 Aligned_cols=25 Identities=20% Similarity=0.519 Sum_probs=21.6
Q ss_pred CCCcccCCCCCccCccchhhhhHHH
Q 005228 363 GFPVKFDEKGNFHCPFCAYTLSISE 387 (707)
Q Consensus 363 g~s~~fDd~GnFyCP~C~Y~~a~~e 387 (707)
++.-+|.+...|-||.|.|-++.++
T Consensus 9 ~seytY~dg~~~iCpeC~~EW~~~~ 33 (109)
T TIGR00686 9 NSEYTYHDGTQLICPSCLYEWNENE 33 (109)
T ss_pred CCcceEecCCeeECccccccccccc
Confidence 3567899999999999999998765
No 64
>KOG0957 consensus PHD finger protein [General function prediction only]
Probab=31.94 E-value=21 Score=41.53 Aligned_cols=47 Identities=36% Similarity=0.689 Sum_probs=40.0
Q ss_pred ccccccccccCCC-c--EEecCCCCCcccccccccCCCcccCCCCC----ccCccc
Q 005228 331 TEQNLCVKCNKDG-Q--LLSCSSSTCPLAVHENCLGFPVKFDEKGN----FHCPFC 379 (707)
Q Consensus 331 ~eqn~CikC~kdG-q--LL~Cs~~gCplavH~~Clg~s~~fDd~Gn----FyCP~C 379 (707)
.-.+.|.-|.+.- | |+.|+ .|-+.||=-||..+.+--..-+ |-|..|
T Consensus 542 a~~ysCgiCkks~dQHll~~CD--tC~lhYHlGCL~PPLTR~Pkk~kn~gWqCsEC 595 (707)
T KOG0957|consen 542 AMNYSCGICKKSTDQHLLTQCD--TCHLHYHLGCLSPPLTRLPKKNKNFGWQCSEC 595 (707)
T ss_pred ccceeeeeeccchhhHHHhhcc--hhhceeeccccCCccccCcccccCcceeeccc
Confidence 3457899999873 3 89999 9999999999999988777666 889999
No 65
>COG5118 BDP1 Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=31.94 E-value=64 Score=36.67 Aligned_cols=54 Identities=20% Similarity=0.300 Sum_probs=44.8
Q ss_pred CCCCCCCCCHHHHHHHHHHHHhhcCCCCCccchhhhhhhcCCCCCCCCCchhhHHHHHHhccCCC
Q 005228 640 LRRKKVPWTAKEEEILKKGVQKFASVDDRIIPWKKILEFGSSVFFSGRTAIDLKDKWRNMCKGSP 704 (707)
Q Consensus 640 ~RRkRr~WT~EEeeAL~eGV~KfGp~~d~~GkWkkILe~~~~vF~~~RT~VDLKDKWRNL~Kks~ 704 (707)
++....+||.+|.+.+..++..+| ..+..|-..| +.|..-++|-||-+-.|..|
T Consensus 361 ~~~~~~~Ws~~e~ekFYKALs~wG------tdF~LIs~lf-----P~R~RkqIKaKfi~Eek~nP 414 (507)
T COG5118 361 KKKGALRWSKKEIEKFYKALSIWG------TDFSLISSLF-----PNRERKQIKAKFIKEEKVNP 414 (507)
T ss_pred CCCCCCcccHHHHHHHHHHHHHhc------chHHHHHHhc-----CchhHHHHHHHHHHHhhhCH
Confidence 566778999999999999999999 6889998764 57888888888887666554
No 66
>PLN03162 golden-2 like transcription factor; Provisional
Probab=30.49 E-value=1.6e+02 Score=33.56 Aligned_cols=61 Identities=20% Similarity=0.299 Sum_probs=44.1
Q ss_pred CCCCCCCCCCCCCHHHHHHHHHHHHhhcCCCCCccchhhhhhhcCCCCCCCCCchhhH---HHHHHhccC
Q 005228 636 PIPQLRRKKVPWTAKEEEILKKGVQKFASVDDRIIPWKKILEFGSSVFFSGRTAIDLK---DKWRNMCKG 702 (707)
Q Consensus 636 ~~p~~RRkRr~WT~EEeeAL~eGV~KfGp~~d~~GkWkkILe~~~~vF~~~RT~VDLK---DKWRNL~Kk 702 (707)
..+.++|.|.+||.|==+.++.+|.+.|. + .-.=+.||+... + .+=|.-.+| .|||...|.
T Consensus 229 ~~~g~KKpRLrWTpELH~rFVeAV~qLG~--d-KATPK~ILelMn--V-~GLTRenVKSHLQKYRl~rk~ 292 (526)
T PLN03162 229 AAPGKKKAKVDWTPELHRRFVHAVEQLGV--E-KAFPSRILELMG--V-QCLTRHNIASHLQKYRSHRRH 292 (526)
T ss_pred cCCCCCCCcccCCHHHHHHHHHHHHHhCc--C-ccchHHHHHHcC--C-CCcCHHHHHHHHHHHHHhccc
Confidence 34667889999999999999999999993 2 344577887643 1 344444444 788887764
No 67
>COG1645 Uncharacterized Zn-finger containing protein [General function prediction only]
Probab=30.25 E-value=23 Score=34.55 Aligned_cols=17 Identities=35% Similarity=0.997 Sum_probs=14.3
Q ss_pred cCCCCCccCccchhhhh
Q 005228 368 FDEKGNFHCPFCAYTLS 384 (707)
Q Consensus 368 fDd~GnFyCP~C~Y~~a 384 (707)
|.-.|.-|||.|-|+-.
T Consensus 39 F~KdG~v~CPvC~~~~~ 55 (131)
T COG1645 39 FRKDGEVFCPVCGYREV 55 (131)
T ss_pred eeeCCeEECCCCCceEE
Confidence 77899999999987543
No 68
>PF08074 CHDCT2: CHDCT2 (NUC038) domain; InterPro: IPR012957 The CHDCT2 C-terminal domain is found in PHD/RING fingers and chromo domain-associated CHD-like helicases [].; GO: 0003677 DNA binding, 0005524 ATP binding, 0008270 zinc ion binding, 0016818 hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus
Probab=28.20 E-value=45 Score=33.92 Aligned_cols=29 Identities=21% Similarity=0.373 Sum_probs=25.7
Q ss_pred CCCCHHHHHHHHHHHHhhcCCCCCccchhhhhhh
Q 005228 645 VPWTAKEEEILKKGVQKFASVDDRIIPWKKILEF 678 (707)
Q Consensus 645 r~WT~EEeeAL~eGV~KfGp~~d~~GkWkkILe~ 678 (707)
.-|-..-.-.|+.||.+|| -|+|.+|..+
T Consensus 4 ~iw~r~hdywll~gi~~hg-----y~rwqdi~nd 32 (173)
T PF08074_consen 4 EIWHRRHDYWLLAGIVKHG-----YGRWQDIQND 32 (173)
T ss_pred hhhhhhhhHHHHhHHhhcc-----chhHHHHhcC
Confidence 4577888889999999999 7999999976
No 69
>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=27.59 E-value=54 Score=25.63 Aligned_cols=33 Identities=33% Similarity=0.607 Sum_probs=24.8
Q ss_pred ccccccccC-----CCcEEecCCCCCcccccccccCCCcc
Q 005228 333 QNLCVKCNK-----DGQLLSCSSSTCPLAVHENCLGFPVK 367 (707)
Q Consensus 333 qn~CikC~k-----dGqLL~Cs~~gCplavH~~Clg~s~~ 367 (707)
-..|..|++ .++=+.|+ .|-+.+|.+|+..-+.
T Consensus 11 ~~~C~~C~~~i~g~~~~g~~C~--~C~~~~H~~C~~~~~~ 48 (53)
T PF00130_consen 11 PTYCDVCGKFIWGLGKQGYRCS--WCGLVCHKKCLSKVPP 48 (53)
T ss_dssp TEB-TTSSSBECSSSSCEEEET--TTT-EEETTGGCTSSS
T ss_pred CCCCcccCcccCCCCCCeEEEC--CCCChHhhhhhhhcCC
Confidence 356777765 46789999 9999999999987653
No 70
>KOG1473 consensus Nucleosome remodeling factor, subunit NURF301/BPTF [Chromatin structure and dynamics; Transcription]
Probab=27.13 E-value=29 Score=43.68 Aligned_cols=83 Identities=25% Similarity=0.437 Sum_probs=63.2
Q ss_pred cccccccchhhhhhhcccchhhhcCCCccc----CCCCccccccccccCCCcEEecCCCCCcccccccccCCCcccCCCC
Q 005228 297 DAYHNDRIDVAVKKSHFLSSQAALGHDSLA----TSGWTEQNLCVKCNKDGQLLSCSSSTCPLAVHENCLGFPVKFDEKG 372 (707)
Q Consensus 297 d~Yh~e~~d~~~~k~~fLsS~~~~~~d~~~----~~~~~eqn~CikC~kdGqLL~Cs~~gCplavH~~Clg~s~~fDd~G 372 (707)
++|...-|+.-.+=.+||+-|--...+.-. ....-=.|.|--|...|-||+|- .||..||=.|+--+.-=-.+-
T Consensus 304 ~eY~~~pv~~klkILQ~L~Dq~l~~~s~R~e~~se~~~~~ddhcrf~~d~~~~lc~E--t~prvvhlEcv~hP~~~~~s~ 381 (1414)
T KOG1473|consen 304 DEYPYRPVSNKLKILQFLCDQFLTVNSLRDEIDSEGEIEYDDHCRFCHDLGDLLCCE--TCPRVVHLECVFHPRFAVPSA 381 (1414)
T ss_pred ccccccchhhhHHHHHHHHHHHHHHHHHHHHHhcccceeecccccccCcccceeecc--cCCceEEeeecCCccccCCCc
Confidence 788888899988889999888555444322 22223346899999999999999 999999999986655445667
Q ss_pred CccCccchh
Q 005228 373 NFHCPFCAY 381 (707)
Q Consensus 373 nFyCP~C~Y 381 (707)
.|-|-+|-+
T Consensus 382 ~~e~evc~~ 390 (1414)
T KOG1473|consen 382 FWECEVCNI 390 (1414)
T ss_pred cchhhhhhh
Confidence 788888863
No 71
>COG5147 REB1 Myb superfamily proteins, including transcription factors and mRNA splicing factors [Transcription / RNA processing and modification / Cell division and chromosome partitioning]
Probab=26.70 E-value=42 Score=38.92 Aligned_cols=47 Identities=28% Similarity=0.472 Sum_probs=40.1
Q ss_pred CCCCCCCCCHHHHHHHHHHHHhhcCCCCCccchhhhhhhcCCCCCCCCCchhhHHHH
Q 005228 640 LRRKKVPWTAKEEEILKKGVQKFASVDDRIIPWKKILEFGSSVFFSGRTAIDLKDKW 696 (707)
Q Consensus 640 ~RRkRr~WT~EEeeAL~eGV~KfGp~~d~~GkWkkILe~~~~vF~~~RT~VDLKDKW 696 (707)
..++.-.|+..|.+.|..+|++|| ..+|..|-..|. .||.=|-+-+|
T Consensus 16 ~~~k~gsw~~~EDe~l~~~vk~l~-----~nnws~vas~~~-----~~~~kq~~~rw 62 (512)
T COG5147 16 TKRKGGSWKRTEDEDLKALVKKLG-----PNNWSKVASLLI-----SSTGKQSSNRW 62 (512)
T ss_pred ceecCCCCCCcchhHHHHHHhhcc-----cccHHHHHHHhc-----ccccccccchh
Confidence 455666999999999999999999 467999998754 38999999888
No 72
>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1. All proteins in this family for which functions are known are cyclin dependent protein kinases that are components of TFIIH, a complex that is involved in nucleotide excision repair and transcription initiation. Also known as MAT1 (menage a trois 1). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=26.29 E-value=51 Score=36.07 Aligned_cols=68 Identities=19% Similarity=0.422 Sum_probs=41.9
Q ss_pred cccccccccCC------CcEEe--cCCCCCcccccccccCCCcccCCCCCccCccchhhhhHHH-------HHHHHHHHH
Q 005228 332 EQNLCVKCNKD------GQLLS--CSSSTCPLAVHENCLGFPVKFDEKGNFHCPFCAYTLSISE-------YLEAKKRAS 396 (707)
Q Consensus 332 eqn~CikC~kd------GqLL~--Cs~~gCplavH~~Clg~s~~fDd~GnFyCP~C~Y~~a~~e-------y~eaKk~a~ 396 (707)
+.+.|..|..+ =+||+ |. |.-|..|--.+-..|...||.|.-..--.. =....+++.
T Consensus 2 d~~~CP~Ck~~~y~np~~kl~i~~CG--------H~~C~sCv~~l~~~~~~~CP~C~~~lrk~~fr~q~F~D~~vekEV~ 73 (309)
T TIGR00570 2 DDQGCPRCKTTKYRNPSLKLMVNVCG--------HTLCESCVDLLFVRGSGSCPECDTPLRKNNFRVQLFEDPTVEKEVD 73 (309)
T ss_pred CCCCCCcCCCCCccCcccccccCCCC--------CcccHHHHHHHhcCCCCCCCCCCCccchhhccccccccHHHHHHHH
Confidence 44689999874 23453 65 888887777776778889999954333322 123344555
Q ss_pred HHHHHHHHHhh
Q 005228 397 VARKELAAFMQ 407 (707)
Q Consensus 397 ~AKK~L~~Fl~ 407 (707)
-=|+.|..|=.
T Consensus 74 iRkrv~~i~Nk 84 (309)
T TIGR00570 74 IRKRVLKIYNK 84 (309)
T ss_pred HHHHHHHHHcc
Confidence 44555555533
No 73
>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=25.84 E-value=29 Score=25.03 Aligned_cols=26 Identities=35% Similarity=0.816 Sum_probs=11.7
Q ss_pred ccccccCCC---cEEecCCCCCccccccccc
Q 005228 335 LCVKCNKDG---QLLSCSSSTCPLAVHENCL 362 (707)
Q Consensus 335 ~CikC~kdG---qLL~Cs~~gCplavH~~Cl 362 (707)
.|--|++.+ -...|. .|-+.+|.+|.
T Consensus 2 ~C~~C~~~~~~~~~Y~C~--~Cdf~lH~~Ca 30 (30)
T PF07649_consen 2 RCDACGKPIDGGWFYRCS--ECDFDLHEECA 30 (30)
T ss_dssp --TTTS----S--EEE-T--TT-----HHHH
T ss_pred cCCcCCCcCCCCceEECc--cCCCccChhcC
Confidence 467788775 488998 99999999984
No 74
>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=24.77 E-value=28 Score=25.99 Aligned_cols=31 Identities=35% Similarity=0.704 Sum_probs=24.0
Q ss_pred cccccccCC--C--cEEecCCCCCcccccccccCCCc
Q 005228 334 NLCVKCNKD--G--QLLSCSSSTCPLAVHENCLGFPV 366 (707)
Q Consensus 334 n~CikC~kd--G--qLL~Cs~~gCplavH~~Clg~s~ 366 (707)
..|..|++. | +=|.|. .|.+++|.+|+..-+
T Consensus 12 ~~C~~C~~~i~~~~~~~~C~--~C~~~~H~~C~~~v~ 46 (49)
T smart00109 12 TKCCVCRKSIWGSFQGLRCS--WCKVKCHKKCAEKVP 46 (49)
T ss_pred CCccccccccCcCCCCcCCC--CCCchHHHHHHhhcC
Confidence 458888664 3 468998 999999999986544
No 75
>PF03367 zf-ZPR1: ZPR1 zinc-finger domain; InterPro: IPR004457 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 ZPR1-type zinc finger domains. An orthologous protein found once in each of the completed archaeal genomes corresponds to a zinc finger-containing domain repeated as the N-terminal and C-terminal halves of the mouse protein ZPR1. ZPR1 is an experimentally proven zinc-binding protein that binds the tyrosine kinase domain of the epidermal growth factor receptor (EGFR); binding is inhibited by EGF stimulation and tyrosine phosphorylation, and activation by EGF is followed by some redistribution of ZPR1 to the nucleus. By analogy, other proteins with the ZPR1 zinc finger domain may be regulatory proteins that sense protein phosphorylation state and/or participate in signal transduction (see also IPR004470 from INTERPRO). Deficiencies in ZPR1 may contribute to neurodegenerative disorders. ZPR1 appears to be down-regulated in patients with spinal muscular atrophy (SMA), a disease characterised by degeneration of the alpha-motor neurons in the spinal cord that can arise from mutations affecting the expression of Survival Motor Neurons (SMN) []. ZPR1 interacts with complexes formed by SMN [], and may act as a modifier that effects the severity of SMA. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2QKD_A.
Probab=24.66 E-value=34 Score=33.69 Aligned_cols=12 Identities=33% Similarity=0.999 Sum_probs=8.9
Q ss_pred cccccccCCCcE
Q 005228 334 NLCVKCNKDGQL 345 (707)
Q Consensus 334 n~CikC~kdGqL 345 (707)
..|..|++.|.+
T Consensus 2 s~Cp~C~~~~~~ 13 (161)
T PF03367_consen 2 SLCPNCGENGTT 13 (161)
T ss_dssp EE-TTTSSCCEE
T ss_pred CcCCCCCCCcEE
Confidence 479999999974
No 76
>smart00451 ZnF_U1 U1-like zinc finger. Family of C2H2-type zinc fingers, present in matrin, U1 small nuclear ribonucleoprotein C and other RNA-binding proteins.
Probab=24.46 E-value=30 Score=24.71 Aligned_cols=14 Identities=36% Similarity=0.973 Sum_probs=10.5
Q ss_pred CCCccCccchhhhh
Q 005228 371 KGNFHCPFCAYTLS 384 (707)
Q Consensus 371 ~GnFyCP~C~Y~~a 384 (707)
.|+|||.+|--...
T Consensus 1 ~~~~~C~~C~~~~~ 14 (35)
T smart00451 1 TGGFYCKLCNVTFT 14 (35)
T ss_pred CcCeEccccCCccC
Confidence 47899999965444
No 77
>smart00709 Zpr1 Duplicated domain in the epidermal growth factor- and elongation factor-1alpha-binding protein Zpr1. Also present in archaeal proteins.
Probab=24.35 E-value=38 Score=33.46 Aligned_cols=39 Identities=18% Similarity=0.502 Sum_probs=21.9
Q ss_pred ccccccCCCcEEecCCCCCcccccccccCCCcccCCCCCccCccchhhhh
Q 005228 335 LCVKCNKDGQLLSCSSSTCPLAVHENCLGFPVKFDEKGNFHCPFCAYTLS 384 (707)
Q Consensus 335 ~CikC~kdGqLL~Cs~~gCplavH~~Clg~s~~fDd~GnFyCP~C~Y~~a 384 (707)
.|..|+..|....|-. -+-+...++-. -|.||.|-|+..
T Consensus 2 ~Cp~C~~~~~~~~~~~---~IP~F~evii~--------sf~C~~CGyk~~ 40 (160)
T smart00709 2 DCPSCGGNGTTRMLLT---SIPYFREVIIM--------SFECEHCGYRNN 40 (160)
T ss_pred cCCCCCCCCEEEEEEe---cCCCcceEEEE--------EEECCCCCCccc
Confidence 6999998888333220 01112222221 289999999753
No 78
>KOG3476 consensus Microtubule-associated protein CRIPT [Cytoskeleton]
Probab=22.82 E-value=18 Score=33.52 Aligned_cols=28 Identities=25% Similarity=0.485 Sum_probs=20.4
Q ss_pred cccCCCcccCCCCCccCccchhhhhHHH
Q 005228 360 NCLGFPVKFDEKGNFHCPFCAYTLSISE 387 (707)
Q Consensus 360 ~Clg~s~~fDd~GnFyCP~C~Y~~a~~e 387 (707)
+|.-+.....-.|.-||.-|+|++.+-+
T Consensus 56 kC~iCk~~vHQ~GshYC~tCAY~KgiCA 83 (100)
T KOG3476|consen 56 KCRICKQLVHQPGSHYCQTCAYKKGICA 83 (100)
T ss_pred hhHHHHHHhcCCcchhHhHhhhhhhHHH
Confidence 3334444455689999999999998864
No 79
>KOG0384 consensus Chromodomain-helicase DNA-binding protein [Transcription]
Probab=22.72 E-value=47 Score=42.26 Aligned_cols=31 Identities=19% Similarity=0.378 Sum_probs=28.2
Q ss_pred CCCCCCHHHHHHHHHHHHhhcCCCCCccchhhhhhh
Q 005228 643 KKVPWTAKEEEILKKGVQKFASVDDRIIPWKKILEF 678 (707)
Q Consensus 643 kRr~WT~EEeeAL~eGV~KfGp~~d~~GkWkkILe~ 678 (707)
.-.-|..++..+|+-||-+|| -|+|..|+.+
T Consensus 1132 ~~~~W~~e~Ds~LLiGI~khG-----ygswe~Ir~D 1162 (1373)
T KOG0384|consen 1132 WDCDWGSEDDSMLLIGIFKHG-----YGSWEAIRLD 1162 (1373)
T ss_pred cccCCCchhhhhHhhhhhhcc-----cccHHHhccC
Confidence 446899999999999999999 8999999975
No 80
>KOG1512 consensus PHD Zn-finger protein [General function prediction only]
Probab=21.70 E-value=49 Score=36.42 Aligned_cols=45 Identities=27% Similarity=0.629 Sum_probs=37.7
Q ss_pred cccccccccCC---CcEEecCCCCCcccccccccCCCcccCCCCCccCc-cch
Q 005228 332 EQNLCVKCNKD---GQLLSCSSSTCPLAVHENCLGFPVKFDEKGNFHCP-FCA 380 (707)
Q Consensus 332 eqn~CikC~kd---GqLL~Cs~~gCplavH~~Clg~s~~fDd~GnFyCP-~C~ 380 (707)
+=.+|+-|++. -+.|+|+ -|--.+|--|+|-.. -..|.|.|- ||+
T Consensus 313 ~C~lC~IC~~P~~E~E~~FCD--~CDRG~HT~CVGL~~--lP~G~WICD~~C~ 361 (381)
T KOG1512|consen 313 SCELCRICLGPVIESEHLFCD--VCDRGPHTLCVGLQD--LPRGEWICDMRCR 361 (381)
T ss_pred ccHhhhccCCcccchheeccc--cccCCCCcccccccc--ccCccchhhhHHH
Confidence 44688889876 4599999 999999999999754 789999997 674
No 81
>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=21.65 E-value=21 Score=28.19 Aligned_cols=32 Identities=28% Similarity=0.776 Sum_probs=14.7
Q ss_pred EecCCCCCcccccccccCCCcccCCCCCccCccc
Q 005228 346 LSCSSSTCPLAVHENCLGFPVKFDEKGNFHCPFC 379 (707)
Q Consensus 346 L~Cs~~gCplavH~~Clg~s~~fDd~GnFyCP~C 379 (707)
..|+..+|++.+|.-|+..-. -...+--||.|
T Consensus 12 ~~C~~~~C~~r~H~~C~~~y~--r~~~~~~CP~C 43 (43)
T PF08746_consen 12 QRCSNRDCNVRLHDDCFKKYF--RHRSNPKCPNC 43 (43)
T ss_dssp EE-SS--S--EE-HHHHHHHT--TT-SS-B-TTT
T ss_pred ccCCCCccCchHHHHHHHHHH--hcCCCCCCcCC
Confidence 579999999999999986422 11112257766
No 82
>PRK10220 hypothetical protein; Provisional
Probab=21.59 E-value=33 Score=32.81 Aligned_cols=25 Identities=24% Similarity=0.569 Sum_probs=21.2
Q ss_pred CCCcccCCCCCccCccchhhhhHHH
Q 005228 363 GFPVKFDEKGNFHCPFCAYTLSISE 387 (707)
Q Consensus 363 g~s~~fDd~GnFyCP~C~Y~~a~~e 387 (707)
.+.-+|.+...|-||.|+|-+..++
T Consensus 10 ~seytY~d~~~~vCpeC~hEW~~~~ 34 (111)
T PRK10220 10 NSEYTYEDNGMYICPECAHEWNDAE 34 (111)
T ss_pred CCcceEcCCCeEECCcccCcCCccc
Confidence 3567899999999999999987665
No 83
>PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=21.26 E-value=71 Score=32.28 Aligned_cols=36 Identities=33% Similarity=0.871 Sum_probs=26.9
Q ss_pred cccccccCCC--------cEEecCCCCCcccccccccCCCcccCCCCCccCccch
Q 005228 334 NLCVKCNKDG--------QLLSCSSSTCPLAVHENCLGFPVKFDEKGNFHCPFCA 380 (707)
Q Consensus 334 n~CikC~kdG--------qLL~Cs~~gCplavH~~Clg~s~~fDd~GnFyCP~C~ 380 (707)
-+|--|+.+. ....|. .|-..+|.+|+.... ||.|.
T Consensus 153 fiCe~C~~~~~IfPF~~~~~~~C~--~C~~v~H~~C~~~~~---------CpkC~ 196 (202)
T PF13901_consen 153 FICEICNSDDIIFPFQIDTTVRCP--KCKSVFHKSCFRKKS---------CPKCA 196 (202)
T ss_pred CCCccCCCCCCCCCCCCCCeeeCC--cCccccchhhcCCCC---------CCCcH
Confidence 3566666543 357899 999999999999422 99994
No 84
>PF06524 NOA36: NOA36 protein; InterPro: IPR010531 This family consists of several NOA36 proteins which contain 29 highly conserved cysteine residues. The function of this protein is unknown.; GO: 0008270 zinc ion binding, 0005634 nucleus
Probab=21.07 E-value=48 Score=36.03 Aligned_cols=50 Identities=32% Similarity=0.666 Sum_probs=41.5
Q ss_pred ccccccccccCCCc--EEecCCCCCcccccccccCCCcccCCCCCccCccchhhhh
Q 005228 331 TEQNLCVKCNKDGQ--LLSCSSSTCPLAVHENCLGFPVKFDEKGNFHCPFCAYTLS 384 (707)
Q Consensus 331 ~eqn~CikC~kdGq--LL~Cs~~gCplavH~~Clg~s~~fDd~GnFyCP~C~Y~~a 384 (707)
.|...|+.||.-|| -|.|- .|----|.+--| .+|+-...+-||.|-|...
T Consensus 169 ~E~~KC~SCNrlGq~sCLRCK--~cfCddHvrrKg--~ky~k~k~~PCPKCg~et~ 220 (314)
T PF06524_consen 169 SETFKCQSCNRLGQYSCLRCK--ICFCDDHVRRKG--FKYEKGKPIPCPKCGYETQ 220 (314)
T ss_pred cccccccccccccchhhhhee--eeehhhhhhhcc--cccccCCCCCCCCCCCccc
Confidence 45689999999999 68888 777778888777 5678889999999998654
No 85
>cd03019 DsbA_DsbA DsbA family, DsbA subfamily; DsbA is a monomeric thiol disulfide oxidoreductase protein containing a redox active CXXC motif imbedded in a TRX fold. It is involved in the oxidative protein folding pathway in prokaryotes, and is the strongest thiol oxidant known, due to the unusual stability of the thiolate anion form of the first cysteine in the CXXC motif. The highly unstable oxidized form of DsbA directly donates disulfide bonds to reduced proteins secreted into the bacterial periplasm. This rapid and unidirectional process helps to catalyze the folding of newly-synthesized polypeptides. To regain catalytic activity, reduced DsbA is then reoxidized by the membrane protein DsbB, which generates its disulfides from oxidized quinones, which in turn are reoxidized by the electron transport chain.
Probab=20.86 E-value=39 Score=31.14 Aligned_cols=18 Identities=22% Similarity=0.307 Sum_probs=12.2
Q ss_pred CCcccCCCCCccCccchh
Q 005228 364 FPVKFDEKGNFHCPFCAY 381 (707)
Q Consensus 364 ~s~~fDd~GnFyCP~C~Y 381 (707)
.+++.-.=.+|.||+|+-
T Consensus 15 ~~~~i~~f~D~~Cp~C~~ 32 (178)
T cd03019 15 GKPEVIEFFSYGCPHCYN 32 (178)
T ss_pred CCcEEEEEECCCCcchhh
Confidence 344445556899999954
Done!