Query 046513
Match_columns 660
No_of_seqs 229 out of 729
Neff 4.3
Searched_HMMs 46136
Date Fri Mar 29 12:53:09 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/046513.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/046513hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1844 PHD Zn-finger proteins 100.0 1.3E-30 2.9E-35 285.2 5.3 479 90-613 13-507 (508)
2 PF00628 PHD: PHD-finger; Int 98.6 8.5E-09 1.8E-13 80.7 -0.2 47 602-649 1-50 (51)
3 smart00249 PHD PHD zinc finger 98.4 1.9E-07 4E-12 69.8 3.6 44 603-647 2-47 (47)
4 KOG1844 PHD Zn-finger proteins 98.3 4.1E-07 8.8E-12 100.8 2.6 56 597-654 83-139 (508)
5 KOG1973 Chromatin remodeling p 98.2 9.3E-07 2E-11 92.3 3.3 53 597-653 216-271 (274)
6 COG5034 TNG2 Chromatin remodel 97.8 1.4E-05 3E-10 82.6 3.5 50 596-649 217-269 (271)
7 KOG4323 Polycomb-like PHD Zn-f 97.0 0.00028 6.2E-09 78.6 1.9 56 600-656 171-230 (464)
8 PF13831 PHD_2: PHD-finger; PD 96.5 0.00045 9.7E-09 52.0 -0.6 34 614-648 3-36 (36)
9 KOG0825 PHD Zn-finger protein 95.5 0.0073 1.6E-07 70.6 2.4 53 596-649 211-265 (1134)
10 KOG0954 PHD finger protein [Ge 95.3 0.0099 2.2E-07 69.2 2.6 50 599-650 270-321 (893)
11 KOG0957 PHD finger protein [Ge 94.6 0.025 5.5E-07 63.7 3.3 54 594-648 114-177 (707)
12 KOG1632 Uncharacterized PHD Zn 94.6 0.013 2.8E-07 63.7 0.9 51 601-651 61-114 (345)
13 KOG1512 PHD Zn-finger protein 93.3 0.029 6.2E-07 59.6 0.7 71 577-651 287-364 (381)
14 KOG1244 Predicted transcriptio 92.3 0.074 1.6E-06 56.3 2.0 50 601-651 282-332 (336)
15 KOG1632 Uncharacterized PHD Zn 90.7 0.029 6.3E-07 61.0 -3.0 54 596-649 235-294 (345)
16 KOG0955 PHD finger protein BR1 89.3 0.32 6.9E-06 59.7 3.8 56 596-654 216-273 (1051)
17 PF07227 DUF1423: Protein of u 85.4 0.75 1.6E-05 51.8 3.6 47 604-650 133-192 (446)
18 COG5141 PHD zinc finger-contai 82.0 0.53 1.2E-05 53.4 0.7 54 599-655 192-248 (669)
19 KOG0957 PHD finger protein [Ge 81.6 0.83 1.8E-05 52.1 2.0 50 598-648 542-596 (707)
20 PF10407 Cytokin_check_N: Cdc1 80.1 4.6 0.0001 35.3 5.6 59 520-578 6-66 (73)
21 PF07496 zf-CW: CW-type Zinc F 79.7 1.2 2.6E-05 35.7 1.8 33 614-647 2-35 (50)
22 KOG4443 Putative transcription 78.0 0.38 8.3E-06 56.1 -2.1 50 601-650 146-202 (694)
23 KOG1245 Chromatin remodeling c 76.7 0.6 1.3E-05 59.2 -1.1 55 596-651 1104-1159(1404)
24 KOG0956 PHD finger protein AF1 75.9 1.5 3.2E-05 51.8 1.8 45 601-649 7-56 (900)
25 KOG2752 Uncharacterized conser 73.5 1.9 4.2E-05 46.7 1.9 35 599-633 127-167 (345)
26 KOG0383 Predicted helicase [Ge 70.9 2 4.4E-05 51.0 1.4 43 604-650 52-94 (696)
27 PF05207 zf-CSL: CSL zinc fing 70.1 2.4 5.1E-05 34.8 1.2 36 591-626 9-51 (55)
28 KOG4299 PHD Zn-finger protein 59.0 5.4 0.00012 46.7 1.8 51 600-651 253-306 (613)
29 PF13832 zf-HC5HC2H_2: PHD-zin 58.8 4.3 9.3E-05 36.5 0.8 33 598-633 53-88 (110)
30 PF07649 C1_3: C1-like domain; 58.3 3.4 7.4E-05 29.5 0.1 28 602-630 2-30 (30)
31 PF14446 Prok-RING_1: Prokaryo 55.0 7.3 0.00016 32.4 1.5 34 599-632 4-38 (54)
32 cd01791 Ubl5 UBL5 ubiquitin-li 54.4 23 0.00049 30.4 4.5 30 521-551 16-45 (73)
33 KOG2626 Histone H3 (Lys4) meth 52.4 10 0.00022 43.8 2.7 53 598-650 18-76 (544)
34 cd01804 midnolin_N Ubiquitin-l 46.6 33 0.00071 29.5 4.3 20 521-540 16-35 (78)
35 KOG4443 Putative transcription 46.6 13 0.00028 44.0 2.3 48 601-649 69-117 (694)
36 PRK03988 translation initiatio 46.2 13 0.00029 36.0 2.0 96 514-625 29-133 (138)
37 PRK09706 transcriptional repre 46.1 71 0.0015 29.9 6.8 100 166-280 3-118 (135)
38 cd01801 Tsc13_N Ubiquitin-like 44.1 29 0.00064 29.5 3.6 18 524-541 20-37 (77)
39 smart00653 eIF2B_5 domain pres 44.1 13 0.00027 34.8 1.5 95 514-623 5-109 (110)
40 TIGR00311 aIF-2beta translatio 43.2 16 0.00034 35.3 2.0 95 514-624 24-127 (133)
41 cd05030 calgranulins Calgranul 43.0 51 0.0011 28.9 5.0 53 337-390 2-61 (88)
42 PLN02400 cellulose synthase 38.6 41 0.00088 42.3 4.9 47 602-651 38-88 (1085)
43 cd05025 S-100A1 S-100A1: S-100 37.0 68 0.0015 27.9 4.9 52 336-390 2-62 (92)
44 PLN02436 cellulose synthase A 36.6 39 0.00086 42.4 4.4 47 602-651 38-88 (1094)
45 PF13901 DUF4206: Domain of un 33.8 29 0.00064 35.2 2.4 40 602-651 154-199 (202)
46 PF01506 HCV_NS5a: Hepatitis C 33.4 20 0.00043 25.1 0.7 14 166-179 4-17 (23)
47 cd01812 BAG1_N Ubiquitin-like 33.3 80 0.0017 25.7 4.5 20 521-540 14-33 (71)
48 PF15446 zf-PHD-like: PHD/FYVE 32.8 28 0.00061 35.1 2.0 32 604-636 4-38 (175)
49 PRK12336 translation initiatio 31.8 35 0.00076 34.8 2.5 99 514-628 25-132 (201)
50 PLN02638 cellulose synthase A 31.7 31 0.00067 43.3 2.4 46 602-650 19-68 (1079)
51 TIGR00043 metalloprotein, YbeY 31.3 16 0.00034 33.9 -0.0 14 135-148 77-90 (110)
52 PF14569 zf-UDP: Zinc-binding 30.7 9.8 0.00021 33.9 -1.4 45 603-650 12-60 (80)
53 COG1120 FepC ABC-type cobalami 30.6 28 0.0006 37.1 1.6 95 135-244 29-133 (258)
54 PF10764 Gin: Inhibitor of sig 29.5 32 0.00069 27.6 1.4 18 640-657 17-34 (46)
55 COG3046 Uncharacterized protei 28.9 35 0.00077 38.9 2.1 50 514-563 185-250 (505)
56 PF10367 Vps39_2: Vacuolar sor 28.9 45 0.00097 29.2 2.4 35 515-549 11-46 (109)
57 PLN02195 cellulose synthase A 28.4 38 0.00082 42.1 2.4 46 602-650 8-57 (977)
58 PLN02560 enoyl-CoA reductase 28.3 79 0.0017 34.4 4.6 67 519-585 16-86 (308)
59 PLN02915 cellulose synthase A 28.3 38 0.00082 42.4 2.4 46 603-651 18-67 (1044)
60 PF13771 zf-HC5HC2H: PHD-like 27.6 29 0.00063 29.9 1.0 34 598-634 34-70 (90)
61 PRK14559 putative protein seri 27.4 42 0.00092 40.0 2.6 54 601-657 2-57 (645)
62 cd01792 ISG15_repeat1 ISG15 ub 27.4 56 0.0012 28.0 2.7 24 522-546 18-41 (80)
63 KOG2266 Chromatin-associated p 26.6 86 0.0019 36.4 4.6 81 186-282 211-304 (594)
64 PF03107 C1_2: C1 domain; Int 26.2 56 0.0012 23.5 2.1 26 603-630 3-30 (30)
65 KOG3277 Uncharacterized conser 25.9 44 0.00094 33.4 1.9 25 599-623 78-112 (165)
66 cd01769 UBL Ubiquitin-like dom 25.9 71 0.0015 25.3 2.9 21 521-541 12-32 (69)
67 PRK08154 anaerobic benzoate ca 25.5 1.7E+02 0.0037 31.3 6.5 108 171-295 31-138 (309)
68 PLN02189 cellulose synthase 24.0 51 0.0011 41.3 2.4 47 602-651 36-86 (1040)
69 KOG2041 WD40 repeat protein [G 23.5 73 0.0016 38.7 3.4 54 596-652 1113-1167(1189)
70 PF06224 HTH_42: Winged helix 23.5 1.3E+02 0.0028 31.8 5.1 51 331-389 76-131 (327)
71 cd00730 rubredoxin Rubredoxin; 23.4 64 0.0014 26.3 2.1 14 637-650 30-43 (50)
72 smart00213 UBQ Ubiquitin homol 22.9 90 0.002 24.3 2.9 20 521-540 14-33 (64)
73 PRK00016 metal-binding heat sh 22.8 30 0.00064 34.1 0.2 14 135-148 117-130 (159)
74 PF02130 UPF0054: Uncharacteri 21.7 28 0.00062 33.5 -0.2 14 135-148 112-125 (145)
75 PRK10219 DNA-binding transcrip 21.6 88 0.0019 27.7 2.9 81 174-270 15-103 (107)
76 PF04216 FdhE: Protein involve 21.2 40 0.00086 35.8 0.7 10 640-649 237-246 (290)
77 PF05180 zf-DNL: DNL zinc fing 20.8 33 0.00071 29.7 -0.0 17 609-625 23-39 (66)
78 PF00301 Rubredoxin: Rubredoxi 20.4 78 0.0017 25.5 2.1 14 637-650 30-43 (47)
79 TIGR03853 matur_matur probable 20.4 1.4E+02 0.0031 26.6 3.9 42 345-395 7-62 (77)
No 1
>KOG1844 consensus PHD Zn-finger proteins [General function prediction only]
Probab=99.96 E-value=1.3e-30 Score=285.20 Aligned_cols=479 Identities=22% Similarity=0.249 Sum_probs=340.2
Q ss_pred CCCCCccccCCCCCcccCCceEEEeecCCCCCCcccccccccccchhcccccccCccceEEeccccCCCccccccchhhh
Q 046513 90 PYCDQCRCSGWANHYMSKRKYHWIIPIDCDWNKPLEDGVFDLQTHILHGLIHCNGFGHLLSINGIEGGSGYLCGREIMDL 169 (660)
Q Consensus 90 ~~Cd~Cr~vGWs~H~Vc~krYHFIip~~~~~~~~~~~~~l~~~~HlLHG~iH~NGfGHLl~vNGrEgGS~~LsG~~iMd~ 169 (660)
++|++|++.||+.|.||+++||||||++..|....+..+++.++|.+||.+|+||+||++++||+|.|+.
T Consensus 13 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~---------- 82 (508)
T KOG1844|consen 13 PRCSHCCKFGWSPHLVANKKYEHIIPADAELFEESTSQSNEPSTASPHGTAHEPGKGVLLSLNGSEAGSE---------- 82 (508)
T ss_pred cccccccccCCcccccccccccccccCCcccccCCchhhccccccccccccccCCCCccccccccccccC----------
Confidence 8999999999999999999999999999999988888999999999999999999999999999999998
Q ss_pred HHHHhhhccceeeeeeeccccccchhhhhhhhhcCCcccccccccccccccccch-HHHHHHHHHhhcCchhhhhhcccC
Q 046513 170 WDRICTNLRTCKVTVEDVSKKKSMDLRLLHGVAYGHSWFGRWGYKFFHGSFGVRE-QNYNRAIEILSSLELDNIIQDFCG 248 (660)
Q Consensus 170 WDrlC~~LraRkVSv~DvSkK~gmdlRLLh~Va~G~sWyG~WGY~fg~GsFgvt~-~~Y~~Aie~Lss~pL~~~~~~~~~ 248 (660)
+++++..|.+.+.+| |+++.+++|+|+|+|+||-|+|+.+. +.|..++...++++++........
T Consensus 83 ---------~~~~~~c~c~~~~~~-----~g~~i~c~~c~~Wqh~~C~g~~~~~~p~~y~c~~c~~~~~~~~~~~~~~~~ 148 (508)
T KOG1844|consen 83 ---------AREISRCDCGLEDDM-----EGLMIQCDWCGRWQHKICCGSFKSTKPDKYVCEICTPRNKEVERALALKRQ 148 (508)
T ss_pred ---------cCcccccccccccCC-----CceeeCCcccCcccCceeeeecCCCCchhceeeeeccccccchhhhhcccc
Confidence 899999999999999 99999999999999999999999999 999999999999999977777665
Q ss_pred CcchhhHHHHHHHhhccchhhhhhHHHHHHHHHHhhcccccccccccccCCCcccccccccc--------c-cccccccc
Q 046513 249 TDLCREMKQIFHHYRDMSETLLLTLKDLLRFMLTVKSCASAQKKTIMTTTKPSKRMTLRIKS--------V-VKDKSVNY 319 (660)
Q Consensus 249 ~~~~~~~~~ii~~Y~~lS~~~L~Tl~dL~~fmL~l~s~~~~~~~~~~~~~~~~~~~~l~~~~--------~-~~~~~~~~ 319 (660)
......+..+..+|++++..++.+..+++++|+.+.+..+..+-....+..+..+..+.... . +-.+.+..
T Consensus 149 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 228 (508)
T KOG1844|consen 149 SIEPEVLEPIRSTYRSLSQDSLDTTSDLKSFMLALISLSTKVKDHASDPELPKDRNISPSSTPFRCSTGNDEDIKKDSSD 228 (508)
T ss_pred cccccccCccchhhhhhcccCCCchHHHHHHHhhccccCccccccccCcccccccccccccccccccccchhhhcccccc
Confidence 55456788899999999999999999999999999987741111111110000000000000 0 00001111
Q ss_pred chhhhhcccccCcccHHHHHHHHHHHHHHHHHhhhcccCCCCCccHHHHHHHHhcccCCchhHHHHHHhcCcceecCcEE
Q 046513 320 KRFSAVVAKMDSRWSARRLESAAEVIVNALQEQKAENLGHGGGMSRQKLRDAARMHIGDTGLLDYVLKSMNNVIVGSHIV 399 (660)
Q Consensus 320 ~~~~~~~~~~~~rWs~~r~~~A~~~~v~vLr~~~a~~~~~~~wvsR~~LR~aar~~IGdtgLLD~~LK~l~~~vv~~~vv 399 (660)
+.-....++...+|..+...+..+.....+...... ... |+....+|...+..|+|++..+.......+...++..+
T Consensus 229 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 305 (508)
T KOG1844|consen 229 PDSDAVTSGSLGPELKELLIRRREDAGSFLLSNEVK--DQQ-QVVCVRVRTSCRPDIEDKEYSNEDNQGESDVLNGDVSS 305 (508)
T ss_pred ccccccccccccchhhHHHHhhhhhhhhhhhhhhcc--ccc-cccceeeeeccCcccccccchhhccccccccccCcccc
Confidence 112233344444444444444444333333322222 133 99999999999999999999999999999999999999
Q ss_pred EEeecCCCCceEEEeeccCCCCCCCCCCCC----C--CCCCCCCCCCCchhhHhhHHHHHHHhhhcCCCchhHHHHHHHH
Q 046513 400 HRAVNPATRLLEYTIHDLCDGAGISEPGPE----I--SDEPLPPLALETGSDVYSEVVYLYMNVLLNYPESELVALATQA 473 (660)
Q Consensus 400 rrr~Np~t~~lEy~Le~~~~~~~~~~~~~~----~--~~~~~~~~~~~~~~~v~~Dl~~lY~~vL~~yp~~~~~~~Aa~~ 473 (660)
++-.++.+..+.+.+-.++.....+..... + .....-.....+ .-+..|+..++..++..+++......+.+.
T Consensus 306 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 384 (508)
T KOG1844|consen 306 RKSVHSKGRKLPQYLNELDFGNKAENRFQLEKRSLGVAKPKPSFTEHSP-QYVGSDLLGLSTRLPLVEPHSDRRKVASQL 384 (508)
T ss_pred ccccccccccccccccccchhhhcccchhhhhhchhhhcccccccCCCc-cccccccccccccceeeccCCccccccccc
Confidence 999998887777776666543221111000 0 000011111113 556777888888888788888888899999
Q ss_pred hhccccccccCCCCCCCCceeEEEEEEeeCCCCcccccCCCCCCCceeeecCCCCHHHHHHHHHHHHHHHHhhhcceeee
Q 046513 474 VLDSKHFVKEWPFRDEDDQFLRFKCQVMPSFVDSETDLTGKLPPGELVMIPLHSTVLELKEAAESALRDTYCIMENLGVT 553 (660)
Q Consensus 474 iLD~K~FvK~y~~~~~~~~~l~~~c~v~~~~~~~~~e~~~~~pP~Elvvlp~~ATv~dLK~ea~~afrDtY~~~~~f~ve 553 (660)
+++.|++++.|.-. ....-|.+-+.......+.....+++.+..+|+.+|+..++..+...+.+.| ..+
T Consensus 385 ~~~~~~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~------~~~ 453 (508)
T KOG1844|consen 385 ILRAKRFDKAVRGM-----HKLRAIRIAPNLEEVRPEAATVSDKPILKEKPPEATSASLKSPEVEELLGSY------ETT 453 (508)
T ss_pred ccccccccccccch-----hhhhhcccCchhhhhhhhhhhccCCccccccCcccccccccchhHHHhhcce------eee
Confidence 99999999995421 1222233333322221222245789999999999999999999999998888 222
Q ss_pred eecccccCCcchhhcceeccCCeEEEeeecCCCCcccccccCCCCccEEeecCCCCCCCC
Q 046513 554 DVVNMQKLDDGELLFGAVESGSQVWIQGYGIDSDSKLRYEGGNDKWIVKCECGAQDDDGE 613 (660)
Q Consensus 554 ~l~~~~~~~d~~~~~g~i~sg~~v~vrG~~~d~~~~~r~e~g~d~~~VrCiCG~~dDDGe 613 (660)
.+ . +....+...+....+.+++...+...+.+.+.+...|.+.|.|+..++||+
T Consensus 454 ~~---~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 507 (508)
T KOG1844|consen 454 RI---R---KELDKKNLKGECPRFEVKSFTRHEEKEVKDERPKDSRRVDCKCGATDDDGE 507 (508)
T ss_pred cc---C---cchhhccccccceeeeeeeeehhhhhhhhhhCCchhhhHhhhccCcCCCCC
Confidence 22 1 111122233322234444444555566777888899999999999999985
No 2
>PF00628 PHD: PHD-finger; InterPro: IPR019787 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the PHD (homeodomain) zinc finger domain [,], which is a C4HC3 zinc-finger-like motif found in nuclear proteins thought to be involved in chromatin-mediated transcriptional regulation. The PHD finger motif is reminiscent of, but distinct from the C3HC4 type RING finger. The function of this domain is not yet known but in analogy with the LIM domain it could be involved in protein-protein interaction and be important for the assembly or activity of multicomponent complexes involved in transcriptional activation or repression. Alternatively, the interactions could be intra-molecular and be important in maintaining the structural integrity of the protein. In similarity to the RING finger and the LIM domain, the PHD finger is thought to bind two zinc ions. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0005515 protein binding; PDB: 3ZVY_A 2LGG_A 3SOW_A 3SOU_B 3ASL_A 3ASK_A 3ZVZ_B 3T6R_A 2LGK_A 3SOX_B ....
Probab=98.58 E-value=8.5e-09 Score=80.69 Aligned_cols=47 Identities=38% Similarity=0.976 Sum_probs=38.5
Q ss_pred Ee-ecCCCCCCCCceeecCCCCceecccccccCCCCC--CCCceecCCCCC
Q 046513 602 KC-ECGAQDDDGERMVACDICEVWQHTRCHGIEDSGT--VPPLFVCPRCCS 649 (660)
Q Consensus 602 rC-iCG~~dDDGe~MIqCD~C~vWQH~~CvgI~~~~~--~pd~fvC~~C~~ 649 (660)
+| +|+..++++ .||+||.|+.|+|..|++++.... ....|+|+.|.+
T Consensus 1 ~C~vC~~~~~~~-~~i~C~~C~~~~H~~C~~~~~~~~~~~~~~w~C~~C~~ 50 (51)
T PF00628_consen 1 YCPVCGQSDDDG-DMIQCDSCNRWYHQECVGPPEKAEEIPSGDWYCPNCRP 50 (51)
T ss_dssp EBTTTTSSCTTS-SEEEBSTTSCEEETTTSTSSHSHHSHHSSSBSSHHHHH
T ss_pred eCcCCCCcCCCC-CeEEcCCCChhhCcccCCCChhhccCCCCcEECcCCcC
Confidence 58 899966665 899999999999999999996522 235999999864
No 3
>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 KOG1844 consensus PHD Zn-finger proteins [General function prediction only]
Probab=98.25 E-value=4.1e-07 Score=100.80 Aligned_cols=56 Identities=38% Similarity=0.862 Sum_probs=49.9
Q ss_pred CCccEEeecCCCCC-CCCceeecCCCCceecccccccCCCCCCCCceecCCCCCCCCCC
Q 046513 597 DKWIVKCECGAQDD-DGERMVACDICEVWQHTRCHGIEDSGTVPPLFVCPRCCSSFAPS 654 (660)
Q Consensus 597 d~~~VrCiCG~~dD-DGe~MIqCD~C~vWQH~~CvgI~~~~~~pd~fvC~~C~~~~~~~ 654 (660)
..++++|+||..++ +| +||+|+.|..|||..|+|+..... |+.|.|..|.++....
T Consensus 83 ~~~~~~c~c~~~~~~~g-~~i~c~~c~~Wqh~~C~g~~~~~~-p~~y~c~~c~~~~~~~ 139 (508)
T KOG1844|consen 83 AREISRCDCGLEDDMEG-LMIQCDWCGRWQHKICCGSFKSTK-PDKYVCEICTPRNKEV 139 (508)
T ss_pred cCcccccccccccCCCc-eeeCCcccCcccCceeeeecCCCC-chhceeeeeccccccc
Confidence 46899999999998 88 999999999999999999997654 9999999999876543
No 5
>KOG1973 consensus Chromatin remodeling protein, contains PHD Zn-finger [Chromatin structure and dynamics]
Probab=98.18 E-value=9.3e-07 Score=92.30 Aligned_cols=53 Identities=28% Similarity=0.675 Sum_probs=43.3
Q ss_pred CCccEEeecCCCCCCCCceeecCC--CC-ceecccccccCCCCCCCCceecCCCCCCCCC
Q 046513 597 DKWIVKCECGAQDDDGERMVACDI--CE-VWQHTRCHGIEDSGTVPPLFVCPRCCSSFAP 653 (660)
Q Consensus 597 d~~~VrCiCG~~dDDGe~MIqCD~--C~-vWQH~~CvgI~~~~~~pd~fvC~~C~~~~~~ 653 (660)
.+...+|+|.. ..-| -||.||. |. .|+|..||||.. +..+.|+|+.|.....+
T Consensus 216 ~~e~~yC~Cnq-vsyg-~Mi~CDn~~C~~eWFH~~CVGL~~--~PkgkWyC~~C~~~~~~ 271 (274)
T KOG1973|consen 216 PDEPTYCICNQ-VSYG-KMIGCDNPGCPIEWFHFTCVGLKT--KPKGKWYCPRCKAENKK 271 (274)
T ss_pred CCCCEEEEecc-cccc-cccccCCCCCCcceEEEecccccc--CCCCcccchhhhhhhhc
Confidence 46789999994 4667 6999998 99 999999999994 23477999999866543
No 6
>COG5034 TNG2 Chromatin remodeling protein, contains PhD zinc finger [Chromatin structure and dynamics]
Probab=97.80 E-value=1.4e-05 Score=82.61 Aligned_cols=50 Identities=32% Similarity=0.773 Sum_probs=41.7
Q ss_pred CCCccEEeecCCCCCCCCceeecCC--CC-ceecccccccCCCCCCCCceecCCCCC
Q 046513 596 NDKWIVKCECGAQDDDGERMVACDI--CE-VWQHTRCHGIEDSGTVPPLFVCPRCCS 649 (660)
Q Consensus 596 ~d~~~VrCiCG~~dDDGe~MIqCD~--C~-vWQH~~CvgI~~~~~~pd~fvC~~C~~ 649 (660)
++...++|-|.+. .-| .||+||+ |. .|+|..|||+.. +....|+|+.|..
T Consensus 217 se~e~lYCfCqqv-SyG-qMVaCDn~nCkrEWFH~~CVGLk~--pPKG~WYC~eCk~ 269 (271)
T COG5034 217 SEGEELYCFCQQV-SYG-QMVACDNANCKREWFHLECVGLKE--PPKGKWYCPECKK 269 (271)
T ss_pred ccCceeEEEeccc-ccc-cceecCCCCCchhheeccccccCC--CCCCcEeCHHhHh
Confidence 3568899999996 678 6999995 98 899999999984 2347999999974
No 7
>KOG4323 consensus Polycomb-like PHD Zn-finger protein [General function prediction only]
Probab=97.01 E-value=0.00028 Score=78.55 Aligned_cols=56 Identities=27% Similarity=0.614 Sum_probs=44.3
Q ss_pred cEEeecCCCCCCCCceeecCCCCceecccccccCCCCCC---C-CceecCCCCCCCCCCcc
Q 046513 600 IVKCECGAQDDDGERMVACDICEVWQHTRCHGIEDSGTV---P-PLFVCPRCCSSFAPSRT 656 (660)
Q Consensus 600 ~VrCiCG~~dDDGe~MIqCD~C~vWQH~~CvgI~~~~~~---p-d~fvC~~C~~~~~~~~~ 656 (660)
-..|-||...+-. +||||++|+.|||..|..-..++.. + ..|+|..|.+.....+.
T Consensus 171 c~vC~~g~~~~~N-rmlqC~~C~~~fHq~Chqp~i~~~l~~D~~~~w~C~~C~~~~~~~~r 230 (464)
T KOG4323|consen 171 CSVCYCGGPGAGN-RMLQCDKCRQWYHQACHQPLIKDELAGDPFYEWFCDVCNRGPKKVPR 230 (464)
T ss_pred eeeeecCCcCccc-eeeeecccccHHHHHhccCCCCHhhccCccceEeehhhccchhhccc
Confidence 5667788876555 9999999999999999987765432 3 69999999988766543
No 8
>PF13831 PHD_2: PHD-finger; PDB: 2L43_A 2KU3_A.
Probab=96.55 E-value=0.00045 Score=51.99 Aligned_cols=34 Identities=29% Similarity=0.694 Sum_probs=19.5
Q ss_pred ceeecCCCCceecccccccCCCCCCCCceecCCCC
Q 046513 614 RMVACDICEVWQHTRCHGIEDSGTVPPLFVCPRCC 648 (660)
Q Consensus 614 ~MIqCD~C~vWQH~~CvgI~~~~~~pd~fvC~~C~ 648 (660)
.||+|+.|++..|..|+|+...+ ..+.|+|..|+
T Consensus 3 ~ll~C~~C~v~VH~~CYGv~~~~-~~~~W~C~~C~ 36 (36)
T PF13831_consen 3 PLLFCDNCNVAVHQSCYGVSEVP-DGDDWLCDRCE 36 (36)
T ss_dssp EEEE-SSS--EEEHHHHT-SS---SS-----HHH-
T ss_pred ceEEeCCCCCcCChhhCCcccCC-CCCcEECCcCC
Confidence 79999999999999999999643 33459998874
No 9
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=95.50 E-value=0.0073 Score=70.64 Aligned_cols=53 Identities=25% Similarity=0.505 Sum_probs=43.4
Q ss_pred CCCccEEe-ecCCCCCCCCceeecCCCCce-ecccccccCCCCCCCCceecCCCCC
Q 046513 596 NDKWIVKC-ECGAQDDDGERMVACDICEVW-QHTRCHGIEDSGTVPPLFVCPRCCS 649 (660)
Q Consensus 596 ~d~~~VrC-iCG~~dDDGe~MIqCD~C~vW-QH~~CvgI~~~~~~pd~fvC~~C~~ 649 (660)
..+..+.| ||+.+|.. +.||-||.|+.- +|+.|...+-.+.....|+|+.|..
T Consensus 211 ~~~E~~~C~IC~~~DpE-dVLLLCDsCN~~~YH~YCLDPdl~eiP~~eWYC~NC~d 265 (1134)
T KOG0825|consen 211 LSQEEVKCDICTVHDPE-DVLLLCDSCNKVYYHVYCLDPDLSESPVNEWYCTNCSL 265 (1134)
T ss_pred cccccccceeeccCChH-HhheeecccccceeeccccCcccccccccceecCcchh
Confidence 45678899 79998655 599999999987 9999999875443348999999964
No 10
>KOG0954 consensus PHD finger protein [General function prediction only]
Probab=95.29 E-value=0.0099 Score=69.23 Aligned_cols=50 Identities=30% Similarity=0.686 Sum_probs=40.8
Q ss_pred ccEEe-ecCCCC-CCCCceeecCCCCceecccccccCCCCCCCCceecCCCCCC
Q 046513 599 WIVKC-ECGAQD-DDGERMVACDICEVWQHTRCHGIEDSGTVPPLFVCPRCCSS 650 (660)
Q Consensus 599 ~~VrC-iCG~~d-DDGe~MIqCD~C~vWQH~~CvgI~~~~~~pd~fvC~~C~~~ 650 (660)
..+-| +|..+| +++.-||.||.|+.--|..|+||...+ ...|.|..|...
T Consensus 270 edviCDvCrspD~e~~neMVfCd~Cn~cVHqaCyGIle~p--~gpWlCr~Calg 321 (893)
T KOG0954|consen 270 EDVICDVCRSPDSEEANEMVFCDKCNICVHQACYGILEVP--EGPWLCRTCALG 321 (893)
T ss_pred ccceeceecCCCccccceeEEeccchhHHHHhhhceeecC--CCCeeehhcccc
Confidence 55778 899985 556789999999999999999999532 278999988654
No 11
>KOG0957 consensus PHD finger protein [General function prediction only]
Probab=94.62 E-value=0.025 Score=63.65 Aligned_cols=54 Identities=28% Similarity=0.724 Sum_probs=41.7
Q ss_pred cCCCCccEEeec-CCC-CCCCCceeecCCCCceecccccccCCCCCC--------CCceecCCCC
Q 046513 594 GGNDKWIVKCEC-GAQ-DDDGERMVACDICEVWQHTRCHGIEDSGTV--------PPLFVCPRCC 648 (660)
Q Consensus 594 ~g~d~~~VrCiC-G~~-dDDGe~MIqCD~C~vWQH~~CvgI~~~~~~--------pd~fvC~~C~ 648 (660)
+++..|.+-|+| |.. +|-| -.||||+|++-.|-.|+|..++..+ ...|+|+-|.
T Consensus 114 Sapkk~~iCcVClg~rs~da~-ei~qCd~CGi~VHEgCYGv~dn~si~s~~s~~stepWfCeaC~ 177 (707)
T KOG0957|consen 114 SAPKKAVICCVCLGQRSVDAG-EILQCDKCGINVHEGCYGVLDNVSIPSGSSDCSTEPWFCEACL 177 (707)
T ss_pred CccccceEEEEeecCcccccc-ceeeccccCceecccccccccccccCCCCccCCCCchhhhhHh
Confidence 345678899999 443 4445 6999999999999999999864432 3689998885
No 12
>KOG1632 consensus Uncharacterized PHD Zn-finger protein [General function prediction only]
Probab=94.56 E-value=0.013 Score=63.73 Aligned_cols=51 Identities=29% Similarity=0.651 Sum_probs=42.2
Q ss_pred EEeecCCCCCCCCceeecCCCCceecccc--cccCCCCCC-CCceecCCCCCCC
Q 046513 601 VKCECGAQDDDGERMVACDICEVWQHTRC--HGIEDSGTV-PPLFVCPRCCSSF 651 (660)
Q Consensus 601 VrCiCG~~dDDGe~MIqCD~C~vWQH~~C--vgI~~~~~~-pd~fvC~~C~~~~ 651 (660)
-.|.|-...+-..+|++||.|..|+|+.| +++...+.. ++.|+|..|....
T Consensus 61 ~~~~~~~~~~p~~~~~~cd~C~~~~~~ec~~v~~~~~e~p~~~~~~c~~c~~~~ 114 (345)
T KOG1632|consen 61 RYCKCYKPCDPDDLMEQCDLCEDWYHGECWEVGTAEKEAPKEDPKVCDECKEAQ 114 (345)
T ss_pred chhhcccccCchhhhhccccccccccccccccCchhhcCCccccccccccchhh
Confidence 37888887554449999999999999999 999976554 5999999998655
No 13
>KOG1512 consensus PHD Zn-finger protein [General function prediction only]
Probab=93.34 E-value=0.029 Score=59.60 Aligned_cols=71 Identities=24% Similarity=0.505 Sum_probs=45.3
Q ss_pred EEEeeecCCCCcccccccCCCCc-cEEe----ecCCCCCCCCceeecCCCCceecccccccCCCCCCC-CceecC-CCCC
Q 046513 577 VWIQGYGIDSDSKLRYEGGNDKW-IVKC----ECGAQDDDGERMVACDICEVWQHTRCHGIEDSGTVP-PLFVCP-RCCS 649 (660)
Q Consensus 577 v~vrG~~~d~~~~~r~e~g~d~~-~VrC----iCG~~dDDGe~MIqCD~C~vWQH~~CvgI~~~~~~p-d~fvC~-~C~~ 649 (660)
+..+-.|.+|..++.-.--.=.| -+.| ||+.+.-.. -|+.||.|+.=+|+-|||+.+ +| ..|+|. .|..
T Consensus 287 ~~~HP~Ci~M~~elv~~~KTY~W~C~~C~lC~IC~~P~~E~-E~~FCD~CDRG~HT~CVGL~~---lP~G~WICD~~C~~ 362 (381)
T KOG1512|consen 287 TRPHPYCVAMIPELVGQYKTYFWKCSSCELCRICLGPVIES-EHLFCDVCDRGPHTLCVGLQD---LPRGEWICDMRCRE 362 (381)
T ss_pred cCCCCcchhcCHHHHhHHhhcchhhcccHhhhccCCcccch-heeccccccCCCCcccccccc---ccCccchhhhHHHH
Confidence 33444566665544311111123 2334 688886554 599999999999999999984 44 799998 3544
Q ss_pred CC
Q 046513 650 SF 651 (660)
Q Consensus 650 ~~ 651 (660)
+.
T Consensus 363 ~~ 364 (381)
T KOG1512|consen 363 AT 364 (381)
T ss_pred hc
Confidence 33
No 14
>KOG1244 consensus Predicted transcription factor Requiem/NEURO-D4 [Transcription]
Probab=92.29 E-value=0.074 Score=56.29 Aligned_cols=50 Identities=22% Similarity=0.529 Sum_probs=40.4
Q ss_pred EEe-ecCCCCCCCCceeecCCCCceecccccccCCCCCCCCceecCCCCCCC
Q 046513 601 VKC-ECGAQDDDGERMVACDICEVWQHTRCHGIEDSGTVPPLFVCPRCCSSF 651 (660)
Q Consensus 601 VrC-iCG~~dDDGe~MIqCD~C~vWQH~~CvgI~~~~~~pd~fvC~~C~~~~ 651 (660)
-.| +||.+++|. ..+.||.|+.=+|.-|...+-.++....|.|..|-...
T Consensus 282 k~csicgtsendd-qllfcddcdrgyhmyclsppm~eppegswsc~KOG~~~ 332 (336)
T KOG1244|consen 282 KYCSICGTSENDD-QLLFCDDCDRGYHMYCLSPPMVEPPEGSWSCHLCLEEL 332 (336)
T ss_pred ceeccccCcCCCc-eeEeecccCCceeeEecCCCcCCCCCCchhHHHHHHHH
Confidence 346 799998887 79999999999999999887544444789999996544
No 15
>KOG1632 consensus Uncharacterized PHD Zn-finger protein [General function prediction only]
Probab=90.73 E-value=0.029 Score=61.01 Aligned_cols=54 Identities=30% Similarity=0.756 Sum_probs=42.6
Q ss_pred CCCccEEe-ecCCCCCCCCceeecCCCCceecccccccCCCCCC-CCc----eecCCCCC
Q 046513 596 NDKWIVKC-ECGAQDDDGERMVACDICEVWQHTRCHGIEDSGTV-PPL----FVCPRCCS 649 (660)
Q Consensus 596 ~d~~~VrC-iCG~~dDDGe~MIqCD~C~vWQH~~CvgI~~~~~~-pd~----fvC~~C~~ 649 (660)
.+...+-| .||.++-...+||.|+.|..|||+.|+.|...... ... |.|+.|..
T Consensus 235 ~~~~~~~~~~cg~~~~~~~~~~~~~~~e~w~~~~~v~~~~a~~~~~~~~~~~~~c~~~~~ 294 (345)
T KOG1632|consen 235 PDYSKLICDPCGLSDANKKFEICCDLCESWFHGDCVQIFEARKRLNEIRNEVYKCPHCTV 294 (345)
T ss_pred cccccccccccCcchHHHHHHHHHHHHHHHhcccccccccchhhhhhhhccceecCceee
Confidence 45566778 59987543379999999999999999999975432 455 99999986
No 16
>KOG0955 consensus PHD finger protein BR140/LIN-49 [General function prediction only]
Probab=89.29 E-value=0.32 Score=59.70 Aligned_cols=56 Identities=29% Similarity=0.560 Sum_probs=42.5
Q ss_pred CCCccEEeecCCCCCC-CCceeecCCCCceecccccccCCCCCCC-CceecCCCCCCCCCC
Q 046513 596 NDKWIVKCECGAQDDD-GERMVACDICEVWQHTRCHGIEDSGTVP-PLFVCPRCCSSFAPS 654 (660)
Q Consensus 596 ~d~~~VrCiCG~~dDD-Ge~MIqCD~C~vWQH~~CvgI~~~~~~p-d~fvC~~C~~~~~~~ 654 (660)
.+...+-|||-..+-+ -+.-|.||.|+.-.|..|+||+ .+| ..|.|-.|-.+....
T Consensus 216 ~~~D~~C~iC~~~~~~n~n~ivfCD~Cnl~VHq~Cygi~---~ipeg~WlCr~Cl~s~~~~ 273 (1051)
T KOG0955|consen 216 LEEDAVCCICLDGECQNSNVIVFCDGCNLAVHQECYGIP---FIPEGQWLCRRCLQSPQRP 273 (1051)
T ss_pred cCCCccceeecccccCCCceEEEcCCCcchhhhhccCCC---CCCCCcEeehhhccCcCcc
Confidence 3555666799876433 2489999999999999999977 344 799999997665443
No 17
>PF07227 DUF1423: Protein of unknown function (DUF1423); InterPro: IPR004082 A total of 715 potential protein-coding genes have been identified in the nucleotide sequence of Arabidopsis thaliana chromosome 5, with an average gene density of 1 gene per 4001 bp []. Amongst the gene products is a well-conserved family of 130.7kDa proteins that share no sequence similarity with any other known proteins, other than in plants. The sequences are characterised by an N-terminal domain of variable length, a central cysteine-rich region and a relatively acidic C-terminal domain. The sequences may possess a PHD finger.
Probab=85.36 E-value=0.75 Score=51.77 Aligned_cols=47 Identities=28% Similarity=0.661 Sum_probs=34.0
Q ss_pred ecCCCCC--CCCceeecCCCCceecccccccC--------CCCC---CCCceecCCCCCC
Q 046513 604 ECGAQDD--DGERMVACDICEVWQHTRCHGIE--------DSGT---VPPLFVCPRCCSS 650 (660)
Q Consensus 604 iCG~~dD--DGe~MIqCD~C~vWQH~~CvgI~--------~~~~---~pd~fvC~~C~~~ 650 (660)
+|+.-|+ |+-.||-||.|+-|-|+.|.--. .... ..-.|+|-.|...
T Consensus 133 iC~kfD~~~n~~~Wi~Cd~CgH~cH~dCALr~~~i~~G~s~~g~~g~~d~~f~C~~C~~~ 192 (446)
T PF07227_consen 133 ICSKFDDNKNTCSWIGCDVCGHWCHLDCALRHELIGTGPSVKGSIGTLDMQFHCRACGKT 192 (446)
T ss_pred ccCCcccCCCCeeEEeccCCCceehhhhhcccccccCCccCCCCCccCceEEEccCCCCh
Confidence 6877543 45699999999999999996432 2221 2358999999864
No 18
>COG5141 PHD zinc finger-containing protein [General function prediction only]
Probab=81.97 E-value=0.53 Score=53.43 Aligned_cols=54 Identities=28% Similarity=0.704 Sum_probs=39.2
Q ss_pred ccEEe-ecCCCCCC-CCceeecCCCCceecccccccCCCCCCCC-ceecCCCCCCCCCCc
Q 046513 599 WIVKC-ECGAQDDD-GERMVACDICEVWQHTRCHGIEDSGTVPP-LFVCPRCCSSFAPSR 655 (660)
Q Consensus 599 ~~VrC-iCG~~dDD-Ge~MIqCD~C~vWQH~~CvgI~~~~~~pd-~fvC~~C~~~~~~~~ 655 (660)
-.-.| +|..++.| .+-.|-||+|+.--|..|+||.. +|+ .|.|.+|--.....+
T Consensus 192 ~d~~C~~c~~t~~eN~naiVfCdgC~i~VHq~CYGI~f---~peG~WlCrkCi~~~~~i~ 248 (669)
T COG5141 192 FDDICTKCTSTHNENSNAIVFCDGCEICVHQSCYGIQF---LPEGFWLCRKCIYGEYQIR 248 (669)
T ss_pred hhhhhHhccccccCCcceEEEecCcchhhhhhccccee---cCcchhhhhhhccccccee
Confidence 33457 58776544 36899999999999999999994 454 777777765544433
No 19
>KOG0957 consensus PHD finger protein [General function prediction only]
Probab=81.57 E-value=0.83 Score=52.06 Aligned_cols=50 Identities=20% Similarity=0.420 Sum_probs=40.5
Q ss_pred CccEEe-ecCCCCCCCCceeecCCCCceecccccccCCCCC----CCCceecCCCC
Q 046513 598 KWIVKC-ECGAQDDDGERMVACDICEVWQHTRCHGIEDSGT----VPPLFVCPRCC 648 (660)
Q Consensus 598 ~~~VrC-iCG~~dDDGe~MIqCD~C~vWQH~~CvgI~~~~~----~pd~fvC~~C~ 648 (660)
.-.+.| ||..+.|.- +.++||.|+.-||..|...+-... ...-|.|..|.
T Consensus 542 a~~ysCgiCkks~dQH-ll~~CDtC~lhYHlGCL~PPLTR~Pkk~kn~gWqCsECd 596 (707)
T KOG0957|consen 542 AMNYSCGICKKSTDQH-LLTQCDTCHLHYHLGCLSPPLTRLPKKNKNFGWQCSECD 596 (707)
T ss_pred ccceeeeeeccchhhH-HHhhcchhhceeeccccCCccccCcccccCcceeecccc
Confidence 456789 799987775 999999999999999999775432 24679999994
No 20
>PF10407 Cytokin_check_N: Cdc14 phosphatase binding protein N-terminus ; InterPro: IPR018844 Cytokinesis in yeasts involves a family of proteins whose essential function is to bind Cdc14-family phosphatase and prevent this from being sequestered and inhibited in the nucleolus. This is the highly conserved N terminus of a family of proteins which act as cytokinesis checkpoint controls by allowing cells to cope with cytokinesis defects. These proteins are required for rDNA silencing and mini-chromosome maintenance [].
Probab=80.15 E-value=4.6 Score=35.27 Aligned_cols=59 Identities=20% Similarity=0.193 Sum_probs=44.6
Q ss_pred eeeecCCCCHHHHHHHHHHHHHHHHhhhcceeeeeecccccCCcc--hhhcceeccCCeEE
Q 046513 520 LVMIPLHSTVLELKEAAESALRDTYCIMENLGVTDVVNMQKLDDG--ELLFGAVESGSQVW 578 (660)
Q Consensus 520 lvvlp~~ATv~dLK~ea~~afrDtY~~~~~f~ve~l~~~~~~~d~--~~~~g~i~sg~~v~ 578 (660)
|++.+++.|+++|+++.+..|..+|=-.+.+....|++-.++|-. -.+.-...+|..|+
T Consensus 6 Lhlt~~~~tl~~L~~eI~~~f~kLYP~~~~~~I~~LQD~~~cDLD~d~~V~DVf~~~~~vr 66 (73)
T PF10407_consen 6 LHLTDPNNTLSQLKEEIEERFKKLYPNEPELEILSLQDSDGCDLDPDFLVKDVFNSNNVVR 66 (73)
T ss_pred EEEeCCCCcHHHHHHHHHHHHHHHCCCCCCceEEEeecCCCCCCCcccEeeeeeccCCEEE
Confidence 456778999999999999999999999999999999875555432 34445555555433
No 21
>PF07496 zf-CW: CW-type Zinc Finger; InterPro: IPR011124 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 CW-type zinc finger motif, named for its conserved cysteine and tryptophan residues. It is predicted to be a highly specialised mononuclear four-cysteine (C4) zinc finger that plays a role in DNA binding and/or promoting protein-protein interactions in complicated eukaryotic processes including chromatin methylation status and early embryonic development. Weak homology to members of IPR001965 from INTERPRO further evidences these predictions. The domain is found exclusively in vertebrates, vertebrate-infecting parasites and higher plants []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2RR4_A 2E61_A 2L7P_A.
Probab=79.75 E-value=1.2 Score=35.74 Aligned_cols=33 Identities=21% Similarity=0.558 Sum_probs=19.3
Q ss_pred ceeecCCCCceecccccccCCC-CCCCCceecCCC
Q 046513 614 RMVACDICEVWQHTRCHGIEDS-GTVPPLFVCPRC 647 (660)
Q Consensus 614 ~MIqCD~C~vWQH~~CvgI~~~-~~~pd~fvC~~C 647 (660)
..||||.|..|-... .++... ...|+.|+|..=
T Consensus 2 ~WVQCd~C~KWR~lp-~~~~~~~~~~~d~W~C~~n 35 (50)
T PF07496_consen 2 YWVQCDSCLKWRRLP-EEVDPIREELPDPWYCSMN 35 (50)
T ss_dssp EEEE-TTT--EEEE--CCHHCTSCCSSTT--GGGS
T ss_pred eEEECCCCCceeeCC-hhhCcccccCCCeEEcCCC
Confidence 589999999999888 444432 346789999873
No 22
>KOG4443 consensus Putative transcription factor HALR/MLL3, involved in embryonic development [General function prediction only]
Probab=78.01 E-value=0.38 Score=56.07 Aligned_cols=50 Identities=32% Similarity=0.742 Sum_probs=37.1
Q ss_pred EEe-ecCCCCCCC--CceeecCCCCceecccccccCCCC---CCCC-ceecCCCCCC
Q 046513 601 VKC-ECGAQDDDG--ERMVACDICEVWQHTRCHGIEDSG---TVPP-LFVCPRCCSS 650 (660)
Q Consensus 601 VrC-iCG~~dDDG--e~MIqCD~C~vWQH~~CvgI~~~~---~~pd-~fvC~~C~~~ 650 (660)
-+| +|-..+.+. ..|++|+.|.+|+|+.|-++.+.. +..+ .|.|..|...
T Consensus 146 ~~cPvc~~~Y~~~e~~~~~~c~~c~rwsh~~c~~~sdd~~~q~~vD~~~~CS~CR~e 202 (694)
T KOG4443|consen 146 SYCPVCLIVYQDSESLPMVCCSICQRWSHGGCDGISDDKYMQAQVDLQYKCSTCRGE 202 (694)
T ss_pred ccCchHHHhhhhccchhhHHHHHhcccccCCCCccchHHHHHHhhhhhcccceeehh
Confidence 445 366655443 467999999999999999999742 1235 9999999743
No 23
>KOG1245 consensus Chromatin remodeling complex WSTF-ISWI, large subunit (contains heterochromatin localization, PHD and BROMO domains) [Chromatin structure and dynamics]
Probab=76.68 E-value=0.6 Score=59.16 Aligned_cols=55 Identities=27% Similarity=0.521 Sum_probs=46.0
Q ss_pred CCCccEEe-ecCCCCCCCCceeecCCCCceecccccccCCCCCCCCceecCCCCCCC
Q 046513 596 NDKWIVKC-ECGAQDDDGERMVACDICEVWQHTRCHGIEDSGTVPPLFVCPRCCSSF 651 (660)
Q Consensus 596 ~d~~~VrC-iCG~~dDDGe~MIqCD~C~vWQH~~CvgI~~~~~~pd~fvC~~C~~~~ 651 (660)
.......| +|....++ +.|+-||.|..|.|..|....-....+..|.|+.|....
T Consensus 1104 ~s~~~~~c~~cr~k~~~-~~m~lc~~c~~~~h~~C~rp~~~~~~~~dW~C~~c~~e~ 1159 (1404)
T KOG1245|consen 1104 RSAVNALCKVCRRKKQD-EKMLLCDECLSGFHLFCLRPALSSVPPGDWMCPSCRKEH 1159 (1404)
T ss_pred cccchhhhhhhhhcccc-hhhhhhHhhhhhHHHHhhhhhhccCCcCCccCCccchhh
Confidence 35567889 79998777 489999999999999999988655556889999998765
No 24
>KOG0956 consensus PHD finger protein AF10 [General function prediction only]
Probab=75.91 E-value=1.5 Score=51.80 Aligned_cols=45 Identities=36% Similarity=0.744 Sum_probs=34.6
Q ss_pred EEeecCCC--CCCCCceeecC--CCCceecccccccCCCCCCC-CceecCCCCC
Q 046513 601 VKCECGAQ--DDDGERMVACD--ICEVWQHTRCHGIEDSGTVP-PLFVCPRCCS 649 (660)
Q Consensus 601 VrCiCG~~--dDDGe~MIqCD--~C~vWQH~~CvgI~~~~~~p-d~fvC~~C~~ 649 (660)
--|+|..- ..+ ...|.|| .|.|-.|-.|+||-+ +| -.|+|-+|..
T Consensus 7 GCCVCSDErGWae-NPLVYCDG~nCsVAVHQaCYGIvq---VPtGpWfCrKCes 56 (900)
T KOG0956|consen 7 GCCVCSDERGWAE-NPLVYCDGHNCSVAVHQACYGIVQ---VPTGPWFCRKCES 56 (900)
T ss_pred ceeeecCcCCCcc-CceeeecCCCceeeeehhcceeEe---cCCCchhhhhhhh
Confidence 35888652 123 3899999 499999999999984 44 6899998864
No 25
>KOG2752 consensus Uncharacterized conserved protein, contains N-recognin-type Zn-finger [General function prediction only]
Probab=73.52 E-value=1.9 Score=46.73 Aligned_cols=35 Identities=31% Similarity=0.694 Sum_probs=27.8
Q ss_pred ccEEeecCCCCCC-----CCceeecCCCCceec-ccccccC
Q 046513 599 WIVKCECGAQDDD-----GERMVACDICEVWQH-TRCHGIE 633 (660)
Q Consensus 599 ~~VrCiCG~~dDD-----Ge~MIqCD~C~vWQH-~~CvgI~ 633 (660)
....|.|...++| +..|+||..|.-|+| -.|+-..
T Consensus 127 qG~~C~Cd~~Ypdp~~~~e~~m~QC~iCEDWFHce~c~~~~ 167 (345)
T KOG2752|consen 127 QGLFCKCDTPYPDPVRTEEGEMLQCVICEDWFHCEGCMQAK 167 (345)
T ss_pred cceeEEecCCCCCccccccceeeeEEeccchhcccccCccc
Confidence 3578999998766 347999999999999 6676544
No 26
>KOG0383 consensus Predicted helicase [General function prediction only]
Probab=70.85 E-value=2 Score=51.00 Aligned_cols=43 Identities=33% Similarity=0.746 Sum_probs=32.4
Q ss_pred ecCCCCCCCCceeecCCCCceecccccccCCCCCCCCceecCCCCCC
Q 046513 604 ECGAQDDDGERMVACDICEVWQHTRCHGIEDSGTVPPLFVCPRCCSS 650 (660)
Q Consensus 604 iCG~~dDDGe~MIqCD~C~vWQH~~CvgI~~~~~~pd~fvC~~C~~~ 650 (660)
+|+ +.| -.+.||.|-.|+|..|.+.+-.+.....|+|++|...
T Consensus 52 ic~---~~g-~~l~c~tC~~s~h~~cl~~pl~~~p~~~~~c~Rc~~p 94 (696)
T KOG0383|consen 52 ICA---DGG-ELLWCDTCPASFHASCLGPPLTPQPNGEFICPRCFCP 94 (696)
T ss_pred hhc---CCC-cEEEeccccHHHHHHccCCCCCcCCccceeeeeeccC
Confidence 565 455 5788999999999999998864433233999999543
No 27
>PF05207 zf-CSL: CSL zinc finger; InterPro: IPR007872 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 probable zinc binding motif that contains four cysteines and may chelate zinc, known as the DPH-type after the diphthamide (DPH) biosynthesis protein in which it was first characterised, including the proteins DPH3 and DPH4. This domain is also found associated with N-terminal domain of heat shock protein DnaJ IPR001623 from INTERPRO domain. Diphthamide is a unique post-translationally modified histidine residue found only in translation elongation factor 2 (eEF-2). It is conserved from archaea to humans and serves as the target for diphteria toxin and Pseudomonas exotoxin A. These two toxins catalyse the transfer of ADP-ribose to diphtamide on eEF-2, thus inactivating eEF-2, halting cellular protein synthesis, and causing cell death []. The biosynthesis of diphtamide is dependent on at least five proteins, DPH1 to -5, and a still unidentified amidating enzyme. DPH3 and DPH4 share a conserved region, which encode a putative zinc finger, the DPH-type or CSL-type (after the conserved motif of the final cysteine) zinc finger [, ]. The function of this motif is unknown. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 2L6L_A 1WGE_A 2JR7_A 1YOP_A 1YWS_A.
Probab=70.08 E-value=2.4 Score=34.84 Aligned_cols=36 Identities=28% Similarity=0.873 Sum_probs=26.0
Q ss_pred ccccCCCCccEEeecCCCC-------CCCCceeecCCCCceec
Q 046513 591 RYEGGNDKWIVKCECGAQD-------DDGERMVACDICEVWQH 626 (660)
Q Consensus 591 r~e~g~d~~~VrCiCG~~d-------DDGe~MIqCD~C~vWQH 626 (660)
.+..+.+.+...|.||... .+|+..|+|+.|..|-.
T Consensus 9 ~~~~~~~~~~y~CRCG~~f~i~e~~l~~~~~iv~C~sCSL~I~ 51 (55)
T PF05207_consen 9 EFDEEEGVYSYPCRCGGEFEISEEDLEEGEVIVQCDSCSLWIR 51 (55)
T ss_dssp EEETTTTEEEEEETTSSEEEEEHHHHHCT--EEEETTTTEEEE
T ss_pred eecCCCCEEEEcCCCCCEEEEcchhccCcCEEEECCCCccEEE
Confidence 3344556799999999862 45678999999999865
No 28
>KOG4299 consensus PHD Zn-finger protein [General function prediction only]
Probab=58.95 E-value=5.4 Score=46.72 Aligned_cols=51 Identities=22% Similarity=0.456 Sum_probs=37.9
Q ss_pred cEEe-ecCCCCCCCCceeecCCCCceecccccccCCC-CCC-CCceecCCCCCCC
Q 046513 600 IVKC-ECGAQDDDGERMVACDICEVWQHTRCHGIEDS-GTV-PPLFVCPRCCSSF 651 (660)
Q Consensus 600 ~VrC-iCG~~dDDGe~MIqCD~C~vWQH~~CvgI~~~-~~~-pd~fvC~~C~~~~ 651 (660)
...| -|+.+..=. ..|+||.|..=+|..|..-+-. +.+ +..|+|+.|.-..
T Consensus 253 ~~fCsaCn~~~~F~-~~i~CD~Cp~sFH~~CLePPl~~eniP~g~W~C~ec~~k~ 306 (613)
T KOG4299|consen 253 EDFCSACNGSGLFN-DIICCDGCPRSFHQTCLEPPLEPENIPPGSWFCPECKIKS 306 (613)
T ss_pred HHHHHHhCCccccc-cceeecCCchHHHHhhcCCCCCcccCCCCccccCCCeeee
Confidence 4478 498874221 3599999999999999998732 234 4899999997544
No 29
>PF13832 zf-HC5HC2H_2: PHD-zinc-finger like domain
Probab=58.84 E-value=4.3 Score=36.55 Aligned_cols=33 Identities=27% Similarity=0.733 Sum_probs=27.8
Q ss_pred CccEEe-ecCCCCCCCCceeecCC--CCceecccccccC
Q 046513 598 KWIVKC-ECGAQDDDGERMVACDI--CEVWQHTRCHGIE 633 (660)
Q Consensus 598 ~~~VrC-iCG~~dDDGe~MIqCD~--C~vWQH~~CvgI~ 633 (660)
.+...| +|+.+ .| ..|+|.. |..++|..|....
T Consensus 53 ~~~~~C~iC~~~--~G-~~i~C~~~~C~~~fH~~CA~~~ 88 (110)
T PF13832_consen 53 RFKLKCSICGKS--GG-ACIKCSHPGCSTAFHPTCARKA 88 (110)
T ss_pred hcCCcCcCCCCC--Cc-eeEEcCCCCCCcCCCHHHHHHC
Confidence 467788 79997 67 7999998 9999999997654
No 30
>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=58.34 E-value=3.4 Score=29.55 Aligned_cols=28 Identities=29% Similarity=0.762 Sum_probs=11.8
Q ss_pred Ee-ecCCCCCCCCceeecCCCCceeccccc
Q 046513 602 KC-ECGAQDDDGERMVACDICEVWQHTRCH 630 (660)
Q Consensus 602 rC-iCG~~dDDGe~MIqCD~C~vWQH~~Cv 630 (660)
.| .|+.+.+. .....|..|+...|..|+
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 46 58887655 489999999999999884
No 31
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=54.97 E-value=7.3 Score=32.38 Aligned_cols=34 Identities=32% Similarity=0.632 Sum_probs=27.5
Q ss_pred ccEEe-ecCCCCCCCCceeecCCCCceeccccccc
Q 046513 599 WIVKC-ECGAQDDDGERMVACDICEVWQHTRCHGI 632 (660)
Q Consensus 599 ~~VrC-iCG~~dDDGe~MIqCD~C~vWQH~~CvgI 632 (660)
....| +||...-+++--|.|..|+.-+|-.|..-
T Consensus 4 ~~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~ 38 (54)
T PF14446_consen 4 EGCKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEK 38 (54)
T ss_pred cCccChhhCCcccCCCCEEECCCCCCcccHHHHhh
Confidence 34568 59998755557899999999999999843
No 32
>cd01791 Ubl5 UBL5 ubiquitin-like modifier. UBL5 (also known as HUB1) is a ubiquitin-like modifier that is both widely expressed and highly phylogenetically conserved. At the C-terminal end of the ubiquitin-like fold of UBL5 is a di-tyrosine motif followed by a single variable residue instead of the characteristic di-glycine found in all other ubiquitin-like modifiers. ULB5 interacts with a cyclin-like kinase called CLK4 but not with other cyclin-like kinase family members.
Probab=54.44 E-value=23 Score=30.41 Aligned_cols=30 Identities=20% Similarity=0.004 Sum_probs=22.5
Q ss_pred eeecCCCCHHHHHHHHHHHHHHHHhhhccee
Q 046513 521 VMIPLHSTVLELKEAAESALRDTYCIMENLG 551 (660)
Q Consensus 521 vvlp~~ATv~dLK~ea~~afrDtY~~~~~f~ 551 (660)
+-+++.+||+|||...+..+ .++.--++..
T Consensus 16 ~~v~~~~TV~~LK~~I~~~~-~~~~~~qrLi 45 (73)
T cd01791 16 VKCNPDDTIGDLKKLIAAQT-GTRPEKIVLK 45 (73)
T ss_pred EEeCCCCcHHHHHHHHHHHh-CCChHHEEEE
Confidence 36789999999999999887 4555555443
No 33
>KOG2626 consensus Histone H3 (Lys4) methyltransferase complex, subunit CPS60/ASH2/BRE2 [Chromatin structure and dynamics; Transcription]
Probab=52.35 E-value=10 Score=43.81 Aligned_cols=53 Identities=25% Similarity=0.453 Sum_probs=41.5
Q ss_pred CccEEeecCCCCCCCCceeecCCCCceecccccccCCCC--CC----CCceecCCCCCC
Q 046513 598 KWIVKCECGAQDDDGERMVACDICEVWQHTRCHGIEDSG--TV----PPLFVCPRCCSS 650 (660)
Q Consensus 598 ~~~VrCiCG~~dDDGe~MIqCD~C~vWQH~~CvgI~~~~--~~----pd~fvC~~C~~~ 650 (660)
.-.+.|.|+....-+..-+||-.|..|.|+.|+-..... .. -..|+|..|.+.
T Consensus 18 ~~~~~~y~e~~r~l~~~elqcs~clk~~~~~~~~~~~~~~s~~pf~t~y~fvc~~c~~~ 76 (544)
T KOG2626|consen 18 KQATVCYCEGERNLGIVELQCSTCLKWFHLPTLEAFHLIKSSLPFMTSYEFVCKECTPS 76 (544)
T ss_pred cCccccccccccccCceeeEeeecccccccccccccccccccCCcccceeEEeccccCc
Confidence 456789999987777888999999999998776554321 22 368999999877
No 34
>cd01804 midnolin_N Ubiquitin-like domain of midnolin. midnolin_N Midnolin (midbrain nucleolar protein) is expressed in the nucleolus and is thought to regulate genes involved in neurogenesis. Midnolin contains an amino-terminal ubiquitin-like domain.
Probab=46.64 E-value=33 Score=29.45 Aligned_cols=20 Identities=30% Similarity=0.376 Sum_probs=17.6
Q ss_pred eeecCCCCHHHHHHHHHHHH
Q 046513 521 VMIPLHSTVLELKEAAESAL 540 (660)
Q Consensus 521 vvlp~~ATv~dLK~ea~~af 540 (660)
|-+++.+||+|||...+..+
T Consensus 16 l~v~~~~TV~~LK~~I~~~~ 35 (78)
T cd01804 16 LSVPPDETVEGLKKRISQRL 35 (78)
T ss_pred EEECCcCHHHHHHHHHHHHh
Confidence 66789999999999998776
No 35
>KOG4443 consensus Putative transcription factor HALR/MLL3, involved in embryonic development [General function prediction only]
Probab=46.57 E-value=13 Score=44.02 Aligned_cols=48 Identities=23% Similarity=0.659 Sum_probs=35.8
Q ss_pred EEe-ecCCCCCCCCceeecCCCCceecccccccCCCCCCCCceecCCCCC
Q 046513 601 VKC-ECGAQDDDGERMVACDICEVWQHTRCHGIEDSGTVPPLFVCPRCCS 649 (660)
Q Consensus 601 VrC-iCG~~dDDGe~MIqCD~C~vWQH~~CvgI~~~~~~pd~fvC~~C~~ 649 (660)
+-| .||...|-+ ....|+.|.+-+|+.|..-.........|+|+.|-.
T Consensus 69 rvCe~c~~~gD~~-kf~~Ck~cDvsyh~yc~~P~~~~v~sg~~~ckk~~~ 117 (694)
T KOG4443|consen 69 RVCEACGTTGDPK-KFLLCKRCDVSYHCYCQKPPNDKVPSGPWLCKKCTR 117 (694)
T ss_pred eeeeeccccCCcc-cccccccccccccccccCCccccccCcccccHHHHh
Confidence 456 488777777 567799999999999998775433347788777643
No 36
>PRK03988 translation initiation factor IF-2 subunit beta; Validated
Probab=46.17 E-value=13 Score=35.97 Aligned_cols=96 Identities=23% Similarity=0.396 Sum_probs=58.2
Q ss_pred CCCCCceeeecCCCCHHHHHHHHHHHHHHHHhhhcceeeeeecccccCCcchhhcceeccCCeEEEeeecCC--CCcccc
Q 046513 514 KLPPGELVMIPLHSTVLELKEAAESALRDTYCIMENLGVTDVVNMQKLDDGELLFGAVESGSQVWIQGYGID--SDSKLR 591 (660)
Q Consensus 514 ~~pP~Elvvlp~~ATv~dLK~ea~~afrDtY~~~~~f~ve~l~~~~~~~d~~~~~g~i~sg~~v~vrG~~~d--~~~~~r 591 (660)
.+|||++.+--....+--+++-+...=|+--..++=|.. +| + ..|.+ .|..+.++|.-.. ++..++
T Consensus 29 ~~p~~~v~~eG~kTvi~Nf~~I~~~L~R~~~hv~ky~~~-EL---g-------t~g~i-~~~~lii~G~~~~~~i~~~L~ 96 (138)
T PRK03988 29 EVPKPDVRIEGNRTIIRNFKEIADRLNRDPKHVAKFLLK-EL---G-------TAGNI-EGGRLILQGKFSPRVINEKID 96 (138)
T ss_pred eCCCCeEEEEcCcEEEecHHHHHHHHCCCHHHHHHHHHH-Hh---C-------Cceee-cCCEEEEEEeeCHHHHHHHHH
Confidence 489999998886544545565565555555555544433 34 2 14555 3567889996422 222111
Q ss_pred -cccCCCCccEEe-ecCCCC-----CCCCceeecCCCCcee
Q 046513 592 -YEGGNDKWIVKC-ECGAQD-----DDGERMVACDICEVWQ 625 (660)
Q Consensus 592 -~e~g~d~~~VrC-iCG~~d-----DDGe~MIqCD~C~vWQ 625 (660)
|- ..-|-| .||.+| ++.-.++.|+.|+...
T Consensus 97 ~yI----~~yVlC~~C~spdT~l~k~~r~~~l~C~ACGa~~ 133 (138)
T PRK03988 97 RYV----KEYVICPECGSPDTKLIKEGRIWVLKCEACGAET 133 (138)
T ss_pred HHH----HhcEECCCCCCCCcEEEEcCCeEEEEcccCCCCC
Confidence 21 245889 599985 4444789999998654
No 37
>PRK09706 transcriptional repressor DicA; Reviewed
Probab=46.05 E-value=71 Score=29.90 Aligned_cols=100 Identities=11% Similarity=0.094 Sum_probs=67.6
Q ss_pred hhhhHHHHhhhccceeeeeeeccccccchhhhhhhhhcCCcccccccccccccccccchHHHHHHHHHhhcCchhhhhhc
Q 046513 166 IMDLWDRICTNLRTCKVTVEDVSKKKSMDLRLLHGVAYGHSWFGRWGYKFFHGSFGVREQNYNRAIEILSSLELDNIIQD 245 (660)
Q Consensus 166 iMd~WDrlC~~LraRkVSv~DvSkK~gmdlRLLh~Va~G~sWyG~WGY~fg~GsFgvt~~~Y~~Aie~Lss~pL~~~~~~ 245 (660)
.|.|-+||-.....+.+|..+++++-|+...-+.-+-+|. -..+.++..+-.++| +++++.|+..
T Consensus 3 ~~~~g~rlk~~R~~~gltq~~lA~~~gvs~~~is~~E~g~--------------~~p~~~~l~~la~~l-~vs~~~l~~g 67 (135)
T PRK09706 3 NLTLGQRIRYRRKQLKLSQRSLAKAVKVSHVSISQWERDE--------------TEPTGKNLFALAKAL-QCSPTWLLFG 67 (135)
T ss_pred hhhHHHHHHHHHHHcCCCHHHHHHHhCCCHHHHHHHHcCC--------------CCCCHHHHHHHHHHH-CcCHHHHhcC
Confidence 4668899998888899999999999999988777555443 345666666666665 5777776643
Q ss_pred ccCCc------------chhhHHHHHHHhhccchh----hhhhHHHHHHHH
Q 046513 246 FCGTD------------LCREMKQIFHHYRDMSET----LLLTLKDLLRFM 280 (660)
Q Consensus 246 ~~~~~------------~~~~~~~ii~~Y~~lS~~----~L~Tl~dL~~fm 280 (660)
..... -..+-+.++..|+.|++. -|..++.++.+|
T Consensus 68 ~~~~~~~~~~~~~~~~~l~~~~~~ll~~~~~L~~~~~~~~l~~l~~~~~~~ 118 (135)
T PRK09706 68 DEDKQPTPPVPLNQPVELSEDQKELLELFDALPESEQDAQLSEMRARVENF 118 (135)
T ss_pred CCcCCCCCcccccCCCCCCHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHH
Confidence 22111 013568899999999975 344444444444
No 38
>cd01801 Tsc13_N Ubiquitin-like domain of Tsc13. Tsc13_N N-terminal domain of Tsc13. Tsc13 is an enoyl reductase involved in elongation of long chain fatty acids that localizes to the endoplasmic reticulum and is highly enriched in a novel structure marking nuclear-vacuolar junctions.
Probab=44.14 E-value=29 Score=29.53 Aligned_cols=18 Identities=17% Similarity=0.172 Sum_probs=15.9
Q ss_pred cCCCCHHHHHHHHHHHHH
Q 046513 524 PLHSTVLELKEAAESALR 541 (660)
Q Consensus 524 p~~ATv~dLK~ea~~afr 541 (660)
|++|||.|||.+.++..+
T Consensus 20 ~~~aTV~dlk~~i~~~~~ 37 (77)
T cd01801 20 SGDATIADLKKLIAKSSP 37 (77)
T ss_pred CCCccHHHHHHHHHHHcC
Confidence 899999999999888753
No 39
>smart00653 eIF2B_5 domain present in translation initiation factor eIF2B and eIF5.
Probab=44.14 E-value=13 Score=34.78 Aligned_cols=95 Identities=21% Similarity=0.431 Sum_probs=57.7
Q ss_pred CCCCCceeeecCC-CCHHHHHHHHHHHHHHHHhhhcceeeeeecccccCCcchhhcceeccCCeEEEeeecCC--CCccc
Q 046513 514 KLPPGELVMIPLH-STVLELKEAAESALRDTYCIMENLGVTDVVNMQKLDDGELLFGAVESGSQVWIQGYGID--SDSKL 590 (660)
Q Consensus 514 ~~pP~Elvvlp~~-ATv~dLK~ea~~afrDtY~~~~~f~ve~l~~~~~~~d~~~~~g~i~sg~~v~vrG~~~d--~~~~~ 590 (660)
.+|||++..--.. ..+.-++.-|...=|+--..++-|.. +| +. .|.+.....+.++|.-.. ++..+
T Consensus 5 ~~p~~~v~~eG~~kTvi~Nf~~I~~~L~R~p~hv~kyl~~-EL---gt-------~g~id~~~rlii~G~~~~~~i~~~l 73 (110)
T smart00653 5 KMPPPQVLREGKGKTVIVNFADIAKALNRPPDHVLKFLLA-EL---GT-------QGSIDGKGRLIVNGRFTPKKLQDLL 73 (110)
T ss_pred ccCCCeEEEEcCCeEEEEcHHHHHHHHCCCHHHHHHHHHH-Hh---CC-------ceeECCCCeEEEEEeeCHHHHHHHH
Confidence 4899999988884 44455666666666666555554443 33 21 344433357888886422 22211
Q ss_pred c-cccCCCCccEEe-ecCCCC-----CCCCceeecCCCCc
Q 046513 591 R-YEGGNDKWIVKC-ECGAQD-----DDGERMVACDICEV 623 (660)
Q Consensus 591 r-~e~g~d~~~VrC-iCG~~d-----DDGe~MIqCD~C~v 623 (660)
+ |- ..-|-| .|+.+| +++-.++.|+.|+.
T Consensus 74 ~~yI----~~yVlC~~C~spdT~l~k~~r~~~l~C~aCGa 109 (110)
T smart00653 74 RRYI----KEYVLCPECGSPDTELIKENRLFFLKCEACGA 109 (110)
T ss_pred HHHH----HhcEECCCCCCCCcEEEEeCCeEEEEccccCC
Confidence 1 22 245889 599985 45667888999974
No 40
>TIGR00311 aIF-2beta translation initiation factor aIF-2, beta subunit, putative.
Probab=43.25 E-value=16 Score=35.26 Aligned_cols=95 Identities=21% Similarity=0.440 Sum_probs=59.3
Q ss_pred CCCCCceeeecCCCCHHHHHHHHHHHHHHHHhhhcceeeeeecccccCCcchhhcceeccCCeEEEeeecCC--CCcccc
Q 046513 514 KLPPGELVMIPLHSTVLELKEAAESALRDTYCIMENLGVTDVVNMQKLDDGELLFGAVESGSQVWIQGYGID--SDSKLR 591 (660)
Q Consensus 514 ~~pP~Elvvlp~~ATv~dLK~ea~~afrDtY~~~~~f~ve~l~~~~~~~d~~~~~g~i~sg~~v~vrG~~~d--~~~~~r 591 (660)
.+|||++.+--....+.-++.-|...=|+--..++-|.. +| +. .|.++ ++.+.++|.-.. ++..++
T Consensus 24 ~mP~~~v~~eG~kTvi~Nf~~Ia~~L~R~~~~v~ky~~~-EL---gt-------~g~i~-~~rlii~G~~~~~~i~~~L~ 91 (133)
T TIGR00311 24 EVPKAYIVIEGNRTIIQNFREVAKALNRDEQHLLKYLLK-EL---GT-------AGNLE-GGRLILQGKFTHFLLNERIE 91 (133)
T ss_pred cCCCceEEEEcCcEEEecHHHHHHHHCCCHHHHHHHHHH-Hh---CC-------Cceec-CCEEEEEeecCHHHHHHHHH
Confidence 589999999887655656777777777766666655544 34 21 34444 457888996422 111111
Q ss_pred -cccCCCCccEEe-ecCCCC-----CCCCceeecCCCCce
Q 046513 592 -YEGGNDKWIVKC-ECGAQD-----DDGERMVACDICEVW 624 (660)
Q Consensus 592 -~e~g~d~~~VrC-iCG~~d-----DDGe~MIqCD~C~vW 624 (660)
|- ..-|-| .|+.+| ++.-.++.|+.|+..
T Consensus 92 ~yI----~~yVlC~~C~sPdT~l~k~~r~~~l~C~ACGa~ 127 (133)
T TIGR00311 92 DYV----RKYVICRECNRPDTRIIKEGRVSLLKCEACGAK 127 (133)
T ss_pred HHH----hheEECCCCCCCCcEEEEeCCeEEEecccCCCC
Confidence 11 245889 599985 334357899999864
No 41
>cd05030 calgranulins Calgranulins: S-100 domain found in proteins belonging to the Calgranulin subgroup of the S100 family of EF-hand calcium-modulated proteins, including S100A8, S100A9, and S100A12 . Note that the S-100 hierarchy, to which this Calgranulin group belongs, contains only S-100 EF-hand domains, other EF-hands have been modeled separately. These proteins are expressed mainly in granulocytes, and are involved in inflammation, allergy, and neuritogenesis, as well as in host-parasite response. Calgranulins are modulated not only by calcium, but also by other metals such as zinc and copper. Structural data suggested that calgranulins may exist in multiple structural forms, homodimers, as well as hetero-oligomers. For example, the S100A8/S100A9 complex called calprotectin plays important roles in the regulation of inflammatory processes, wound repair, and regulating zinc-dependent enzymes as well as microbial growth.
Probab=42.95 E-value=51 Score=28.87 Aligned_cols=53 Identities=17% Similarity=0.425 Sum_probs=39.6
Q ss_pred HHHHHHHHHHHHHHHhhhcccCCCCCccHHHHHHHHhcccCC-------chhHHHHHHhcC
Q 046513 337 RLESAAEVIVNALQEQKAENLGHGGGMSRQKLRDAARMHIGD-------TGLLDYVLKSMN 390 (660)
Q Consensus 337 r~~~A~~~~v~vLr~~~a~~~~~~~wvsR~~LR~aar~~IGd-------tgLLD~~LK~l~ 390 (660)
++|.|-+.|+.+.++--++. +.++.|++.+||..+.+..|+ ..-+|.+++.++
T Consensus 2 ~~e~~i~~~~~~f~~y~~~~-~~~~~Is~~El~~ll~~~~g~~~t~~~~~~~v~~i~~~~D 61 (88)
T cd05030 2 ELEKAIETIINVFHQYSVRK-GHPDTLYKKEFKQLVEKELPNFLKKEKNQKAIDKIFEDLD 61 (88)
T ss_pred hHHHHHHHHHHHHHHHhccC-CCcccCCHHHHHHHHHHHhhHhhccCCCHHHHHHHHHHcC
Confidence 68899999999997665332 334589999999999764554 567888887763
No 42
>PLN02400 cellulose synthase
Probab=38.57 E-value=41 Score=42.29 Aligned_cols=47 Identities=28% Similarity=0.695 Sum_probs=37.6
Q ss_pred Ee-ecCCC---CCCCCceeecCCCCceecccccccCCCCCCCCceecCCCCCCC
Q 046513 602 KC-ECGAQ---DDDGERMVACDICEVWQHTRCHGIEDSGTVPPLFVCPRCCSSF 651 (660)
Q Consensus 602 rC-iCG~~---dDDGe~MIqCD~C~vWQH~~CvgI~~~~~~pd~fvC~~C~~~~ 651 (660)
-| |||-. ..|||+.|+|..|..--=-.|+....++ ..=.||.|+-+-
T Consensus 38 iCqICGD~VG~t~dGe~FVAC~eCaFPVCRpCYEYERke---Gnq~CPQCkTrY 88 (1085)
T PLN02400 38 ICQICGDDVGVTETGDVFVACNECAFPVCRPCYEYERKD---GTQCCPQCKTRY 88 (1085)
T ss_pred eeeecccccCcCCCCCEEEEEccCCCccccchhheeccc---CCccCcccCCcc
Confidence 46 89985 5899999999999999989999776543 455899997543
No 43
>cd05025 S-100A1 S-100A1: S-100A1 domain found in proteins similar to S100A1. S100A1 is a calcium-binding protein belonging to a large S100 vertebrate-specific protein family within the EF-hand superfamily of calcium-binding proteins. Note that the S-100 hierarchy, to which this S-100A1 group belongs, contains only S-100 EF-hand domains, other EF-hands have been modeled separately. As is the case with many other members of S100 protein family, S100A1 is implicated in intracellular and extracellular regulatory activities, including interaction with myosin-associated twitchin kinase, actin-capping protein CapZ, sinapsin I, and tubulin. Structural data suggests that S100A1 proteins exist within cells as antiparallel homodimers, while heterodimers with S100A4 and S100B also has been reported. Upon binding calcium S100A1 changes conformation to expose a hydrophobic cleft which is the interaction site of S100A1 with its more that 20 known target proteins.
Probab=37.02 E-value=68 Score=27.89 Aligned_cols=52 Identities=23% Similarity=0.484 Sum_probs=39.1
Q ss_pred HHHHHHHHHHHHHHHHhh-hcccCCCC-CccHHHHHHHHhcccC-------CchhHHHHHHhcC
Q 046513 336 RRLESAAEVIVNALQEQK-AENLGHGG-GMSRQKLRDAARMHIG-------DTGLLDYVLKSMN 390 (660)
Q Consensus 336 ~r~~~A~~~~v~vLr~~~-a~~~~~~~-wvsR~~LR~aar~~IG-------dtgLLD~~LK~l~ 390 (660)
.++|.|++.+.++.+.-- .. +++ .|++.+||.+.+..+| +..-++-+++.++
T Consensus 2 ~~~e~~~~~l~~~F~~fDd~d---g~G~~Is~~El~~~l~~~lg~~~~~~~s~~~v~~i~~~~D 62 (92)
T cd05025 2 SELETAMETLINVFHAHSGKE---GDKYKLSKKELKDLLQTELSDFLDAQKDADAVDKIMKELD 62 (92)
T ss_pred ChHHHHHHHHHHHHHHHhccc---CCCCeECHHHHHHHHHHHHHHHccCCCCHHHHHHHHHHHC
Confidence 478999999999997763 32 443 4999999999987444 3566888887764
No 44
>PLN02436 cellulose synthase A
Probab=36.61 E-value=39 Score=42.37 Aligned_cols=47 Identities=32% Similarity=0.704 Sum_probs=37.2
Q ss_pred Ee-ecCCC---CCCCCceeecCCCCceecccccccCCCCCCCCceecCCCCCCC
Q 046513 602 KC-ECGAQ---DDDGERMVACDICEVWQHTRCHGIEDSGTVPPLFVCPRCCSSF 651 (660)
Q Consensus 602 rC-iCG~~---dDDGe~MIqCD~C~vWQH~~CvgI~~~~~~pd~fvC~~C~~~~ 651 (660)
-| |||-. ..|||+.|+|..|..--=-.|+....++ ..=.||.|+.+-
T Consensus 38 iCqICGD~Vg~t~dGe~FVACn~C~fpvCr~Cyeyer~e---g~~~Cpqckt~Y 88 (1094)
T PLN02436 38 TCQICGDEIELTVDGEPFVACNECAFPVCRPCYEYERRE---GNQACPQCKTRY 88 (1094)
T ss_pred cccccccccCcCCCCCEEEeeccCCCccccchhhhhhhc---CCccCcccCCch
Confidence 47 89986 6899999999999999888898665433 456899997543
No 45
>PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=33.82 E-value=29 Score=35.20 Aligned_cols=40 Identities=28% Similarity=0.708 Sum_probs=29.4
Q ss_pred Ee-ecCCCC-----CCCCceeecCCCCceecccccccCCCCCCCCceecCCCCCCC
Q 046513 602 KC-ECGAQD-----DDGERMVACDICEVWQHTRCHGIEDSGTVPPLFVCPRCCSSF 651 (660)
Q Consensus 602 rC-iCG~~d-----DDGe~MIqCD~C~vWQH~~CvgI~~~~~~pd~fvC~~C~~~~ 651 (660)
-| +|+.++ +.. -.+.|+.|+.-+|..|..-. .||+|.+..
T Consensus 154 iCe~C~~~~~IfPF~~~-~~~~C~~C~~v~H~~C~~~~---------~CpkC~R~~ 199 (202)
T PF13901_consen 154 ICEICNSDDIIFPFQID-TTVRCPKCKSVFHKSCFRKK---------SCPKCARRQ 199 (202)
T ss_pred CCccCCCCCCCCCCCCC-CeeeCCcCccccchhhcCCC---------CCCCcHhHh
Confidence 35 576642 332 58999999999999999831 299997654
No 46
>PF01506 HCV_NS5a: Hepatitis C virus non-structural 5a protein membrane anchor; InterPro: IPR002868 The molecular function of the non-structural 5a viral protein is uncertain. The NS5a protein is phosphorylated when expressed in mammalian cells. It is thought to interact with the dsRNA-dependent (interferon inducible) kinase PKR, P19525 from SWISSPROT [, ].; GO: 0003968 RNA-directed RNA polymerase activity, 0004197 cysteine-type endopeptidase activity, 0004252 serine-type endopeptidase activity, 0017111 nucleoside-triphosphatase activity; PDB: 1R7F_A 1R7E_A 1R7C_A 1R7G_A 1R7D_A.
Probab=33.40 E-value=20 Score=25.10 Aligned_cols=14 Identities=43% Similarity=1.130 Sum_probs=11.5
Q ss_pred hhhhHHHHhhhccc
Q 046513 166 IMDLWDRICTNLRT 179 (660)
Q Consensus 166 iMd~WDrlC~~Lra 179 (660)
+-|+||-+|+.|+-
T Consensus 4 l~diWdWvc~~l~~ 17 (23)
T PF01506_consen 4 LWDIWDWVCRVLRD 17 (23)
T ss_dssp HHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHH
Confidence 45899999998863
No 47
>cd01812 BAG1_N Ubiquitin-like domain of BAG1. BAG1_N N-terminal ubiquitin-like (Ubl) domain of the BAG1 protein. This domain occurs together with the BAG domain and is closely related to the Ubl domain of a family of deubiquitinases that includes Rpn11, UBP6 (USP14), USP7 (HAUSP).
Probab=33.35 E-value=80 Score=25.69 Aligned_cols=20 Identities=20% Similarity=0.195 Sum_probs=16.6
Q ss_pred eeecCCCCHHHHHHHHHHHH
Q 046513 521 VMIPLHSTVLELKEAAESAL 540 (660)
Q Consensus 521 vvlp~~ATv~dLK~ea~~af 540 (660)
+-+++++||+|||...+...
T Consensus 14 i~v~~~~tv~~lK~~i~~~~ 33 (71)
T cd01812 14 LSISSQATFGDLKKMLAPVT 33 (71)
T ss_pred EEECCCCcHHHHHHHHHHhh
Confidence 44788999999999888764
No 48
>PF15446 zf-PHD-like: PHD/FYVE-zinc-finger like domain
Probab=32.79 E-value=28 Score=35.13 Aligned_cols=32 Identities=28% Similarity=0.642 Sum_probs=25.6
Q ss_pred ecCC---CCCCCCceeecCCCCceecccccccCCCC
Q 046513 604 ECGA---QDDDGERMVACDICEVWQHTRCHGIEDSG 636 (660)
Q Consensus 604 iCG~---~dDDGe~MIqCD~C~vWQH~~CvgI~~~~ 636 (660)
+|+. ..+-| .||-|-.|..-+|-.|.|.....
T Consensus 4 ~C~~~g~~~~kG-~Lv~CQGCs~sYHk~CLG~Rs~R 38 (175)
T PF15446_consen 4 TCGYEGDDRNKG-PLVYCQGCSSSYHKACLGPRSQR 38 (175)
T ss_pred cccCCCCCccCC-CeEEcCccChHHHhhhcCCcccc
Confidence 5743 34557 99999999999999999987643
No 49
>PRK12336 translation initiation factor IF-2 subunit beta; Provisional
Probab=31.82 E-value=35 Score=34.81 Aligned_cols=99 Identities=23% Similarity=0.435 Sum_probs=62.3
Q ss_pred CCCCCceeeecCCCCHHHHHHHHHHHHHHHHhhhcceeeeeecccccCCcchhhcceeccCCeEEEeeecCC--CCcccc
Q 046513 514 KLPPGELVMIPLHSTVLELKEAAESALRDTYCIMENLGVTDVVNMQKLDDGELLFGAVESGSQVWIQGYGID--SDSKLR 591 (660)
Q Consensus 514 ~~pP~Elvvlp~~ATv~dLK~ea~~afrDtY~~~~~f~ve~l~~~~~~~d~~~~~g~i~sg~~v~vrG~~~d--~~~~~r 591 (660)
.+|||++.+--....+--++.-+...=|+--..++-|.. +| +. .|.++ +..+.++|.-.. ++..++
T Consensus 25 ~~p~~~v~~eG~kT~i~N~~~i~~~l~R~~~~~~ky~~~-EL---gt-------~~~~~-~~~~ii~G~~~~~~i~~~l~ 92 (201)
T PRK12336 25 SIPEPKIFIEGKTTILTNFGEIADALNRDPDHLMKFLQR-EL---GT-------AGKIE-GGRAVFNGKFTEEDIQAAID 92 (201)
T ss_pred ecCCceEEEEcCcEEEecHHHHHHHHCCCHHHHHHHHHH-Hh---CC-------cceec-CCEEEEEeeeCHHHHHHHHH
Confidence 489999998886555556777777777777666655544 33 21 34444 347888886422 222111
Q ss_pred -cccCCCCccEEe-ecCCCC-----CCCCceeecCCCCceeccc
Q 046513 592 -YEGGNDKWIVKC-ECGAQD-----DDGERMVACDICEVWQHTR 628 (660)
Q Consensus 592 -~e~g~d~~~VrC-iCG~~d-----DDGe~MIqCD~C~vWQH~~ 628 (660)
|- ..-|-| .|+.++ +++-.++.|+.|+...-..
T Consensus 93 ~yi----~~yV~C~~C~~pdT~l~k~~~~~~l~C~aCGa~~~v~ 132 (201)
T PRK12336 93 AYV----DEYVICSECGLPDTRLVKEDRVLMLRCDACGAHRPVK 132 (201)
T ss_pred HHH----HheEECCCCCCCCcEEEEcCCeEEEEcccCCCCcccc
Confidence 11 356889 599985 4555688999999775444
No 50
>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=31.68 E-value=31 Score=43.27 Aligned_cols=46 Identities=35% Similarity=0.725 Sum_probs=36.9
Q ss_pred Ee-ecCCC---CCCCCceeecCCCCceecccccccCCCCCCCCceecCCCCCC
Q 046513 602 KC-ECGAQ---DDDGERMVACDICEVWQHTRCHGIEDSGTVPPLFVCPRCCSS 650 (660)
Q Consensus 602 rC-iCG~~---dDDGe~MIqCD~C~vWQH~~CvgI~~~~~~pd~fvC~~C~~~ 650 (660)
-| |||-. ..|||+.|+|..|..--=-.|+....++ ..=.||.|+-+
T Consensus 19 iCqICGD~vg~~~~Ge~FVAC~eC~FPVCrpCYEYEr~e---G~q~CPqCktr 68 (1079)
T PLN02638 19 VCQICGDNVGKTVDGEPFVACDVCAFPVCRPCYEYERKD---GNQSCPQCKTK 68 (1079)
T ss_pred eeeecccccCcCCCCCEEEEeccCCCccccchhhhhhhc---CCccCCccCCc
Confidence 47 89985 5899999999999999999999776543 45589999754
No 51
>TIGR00043 metalloprotein, YbeY/UPF0054 family. This minimally protein family is represented by a single member sequence only in nearly every bacterium. Crystallography demonstrates metal-binding activity, possibly to nickel. It is a predicted to be a metallohydrolase, and somewhat more weakly to be a metalloproteinase.
Probab=31.31 E-value=16 Score=33.90 Aligned_cols=14 Identities=43% Similarity=0.883 Sum_probs=12.7
Q ss_pred hhcccccccCccce
Q 046513 135 ILHGLIHCNGFGHL 148 (660)
Q Consensus 135 lLHG~iH~NGfGHL 148 (660)
+.||+.|..||-|-
T Consensus 77 ~iHG~LHLlGyDH~ 90 (110)
T TIGR00043 77 TVHGLLHLLGYDHE 90 (110)
T ss_pred HHHHHHHHcCCCCC
Confidence 67999999999995
No 52
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=30.69 E-value=9.8 Score=33.89 Aligned_cols=45 Identities=33% Similarity=0.719 Sum_probs=22.4
Q ss_pred e-ecCCC---CCCCCceeecCCCCceecccccccCCCCCCCCceecCCCCCC
Q 046513 603 C-ECGAQ---DDDGERMVACDICEVWQHTRCHGIEDSGTVPPLFVCPRCCSS 650 (660)
Q Consensus 603 C-iCG~~---dDDGe~MIqCD~C~vWQH~~CvgI~~~~~~pd~fvC~~C~~~ 650 (660)
| |||-. ..+|++.|+|..|..--=-.|+....++ ..=.|+.|..+
T Consensus 12 CqiCGD~VGl~~~Ge~FVAC~eC~fPvCr~CyEYErke---g~q~CpqCkt~ 60 (80)
T PF14569_consen 12 CQICGDDVGLTENGEVFVACHECAFPVCRPCYEYERKE---GNQVCPQCKTR 60 (80)
T ss_dssp -SSS--B--B-SSSSB--S-SSS-----HHHHHHHHHT---S-SB-TTT--B
T ss_pred cccccCccccCCCCCEEEEEcccCCccchhHHHHHhhc---CcccccccCCC
Confidence 6 78874 4789999999999998888888776433 45589999743
No 53
>COG1120 FepC ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]
Probab=30.61 E-value=28 Score=37.05 Aligned_cols=95 Identities=23% Similarity=0.322 Sum_probs=74.7
Q ss_pred hhcccccccCccc---eEEecc---ccCCCccccccchhhhHHHHhhhccceeeeeeeccccccchhhhhhhhhcC----
Q 046513 135 ILHGLIHCNGFGH---LLSING---IEGGSGYLCGREIMDLWDRICTNLRTCKVTVEDVSKKKSMDLRLLHGVAYG---- 204 (660)
Q Consensus 135 lLHG~iH~NGfGH---Ll~vNG---rEgGS~~LsG~~iMd~WDrlC~~LraRkVSv~DvSkK~gmdlRLLh~Va~G---- 204 (660)
=+=++|=-||.|. |-+++| -.+|.=+|.|..|.+ +=..=.||++++.-=+.-....|...-.|+.|
T Consensus 29 ~i~~iiGpNG~GKSTLLk~l~g~l~p~~G~V~l~g~~i~~----~~~kelAk~ia~vpQ~~~~~~~~tV~d~V~~GR~p~ 104 (258)
T COG1120 29 EITGILGPNGSGKSTLLKCLAGLLKPKSGEVLLDGKDIAS----LSPKELAKKLAYVPQSPSAPFGLTVYELVLLGRYPH 104 (258)
T ss_pred cEEEEECCCCCCHHHHHHHHhccCCCCCCEEEECCCchhh----cCHHHHhhhEEEeccCCCCCCCcEEeehHhhcCCcc
Confidence 3457888899997 556666 467888899998876 23334578999988888889999999999999
Q ss_pred CcccccccccccccccccchHHHHHHHHHhhcCchhhhhh
Q 046513 205 HSWFGRWGYKFFHGSFGVREQNYNRAIEILSSLELDNIIQ 244 (660)
Q Consensus 205 ~sWyG~WGY~fg~GsFgvt~~~Y~~Aie~Lss~pL~~~~~ 244 (660)
.+||++| +++.++.+.++|..+-+..+..
T Consensus 105 ~~~~~~~-----------~~~D~~~v~~aL~~~~~~~la~ 133 (258)
T COG1120 105 LGLFGRP-----------SKEDEEIVEEALELLGLEHLAD 133 (258)
T ss_pred cccccCC-----------CHhHHHHHHHHHHHhCcHHHhc
Confidence 5677766 5778889999999999988864
No 54
>PF10764 Gin: Inhibitor of sigma-G Gin; InterPro: IPR019700 Gin allows sigma-F to delay late forespore transcription by preventing sigma-G to take over before the cell has reached a critical stage of development. Gin is also known as CsfB [].
Probab=29.46 E-value=32 Score=27.60 Aligned_cols=18 Identities=22% Similarity=0.632 Sum_probs=13.3
Q ss_pred CceecCCCCCCCCCCccC
Q 046513 640 PLFVCPRCCSSFAPSRTE 657 (660)
Q Consensus 640 d~fvC~~C~~~~~~~~~~ 657 (660)
..|+|..|..+..+..+.
T Consensus 17 ~~fIC~~CE~~iv~~~~~ 34 (46)
T PF10764_consen 17 GKFICSDCEKEIVNTETD 34 (46)
T ss_pred CeEehHHHHHHhccCCCC
Confidence 588999998877665543
No 55
>COG3046 Uncharacterized protein related to deoxyribodipyrimidine photolyase [General function prediction only]
Probab=28.89 E-value=35 Score=38.87 Aligned_cols=50 Identities=24% Similarity=0.340 Sum_probs=37.8
Q ss_pred CCCCCceeeecCCCCHHHHHHHHHHHHHHHHhhhc----------------ceeeeeecccccCCc
Q 046513 514 KLPPGELVMIPLHSTVLELKEAAESALRDTYCIME----------------NLGVTDVVNMQKLDD 563 (660)
Q Consensus 514 ~~pP~Elvvlp~~ATv~dLK~ea~~afrDtY~~~~----------------~f~ve~l~~~~~~~d 563 (660)
.+-||+-+.+|++-++.+.|+.|++.|.|-|-.++ .|.+..|.+++.-+|
T Consensus 185 dL~~P~pl~fppd~~vq~v~e~Ve~~f~~~~G~~e~F~wpvtr~~A~~~L~~Fi~~~L~nFG~yQD 250 (505)
T COG3046 185 DLLPPKPLKFPPDEIVQEVKERVERLFPDNFGQVEGFGWPVTRTQALRALKHFIADRLPNFGSYQD 250 (505)
T ss_pred cCCCCCCCCCCCcchhHHHHHHHHhhCCCCCCccccCCCCCCHHHHHHHHHHHHHHhhhcCCcHHH
Confidence 35568889999999999999999999998665544 456666666655433
No 56
>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=28.86 E-value=45 Score=29.18 Aligned_cols=35 Identities=17% Similarity=0.231 Sum_probs=26.0
Q ss_pred CCCCcee-eecCCCCHHHHHHHHHHHHHHHHhhhcc
Q 046513 515 LPPGELV-MIPLHSTVLELKEAAESALRDTYCIMEN 549 (660)
Q Consensus 515 ~pP~Elv-vlp~~ATv~dLK~ea~~afrDtY~~~~~ 549 (660)
++|-+++ .||.+.++++|+....+++++.--..+.
T Consensus 11 ld~~~vL~~LP~~~~l~~l~~fl~~~l~~~~~~~~~ 46 (109)
T PF10367_consen 11 LDPIDVLKLLPDDWPLSDLSDFLCKSLRKYSNRKRE 46 (109)
T ss_pred CCHHHHHHhCcCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence 3444443 5899999999999999999876544443
No 57
>PLN02195 cellulose synthase A
Probab=28.41 E-value=38 Score=42.12 Aligned_cols=46 Identities=35% Similarity=0.671 Sum_probs=36.7
Q ss_pred Ee-ecCCC---CCCCCceeecCCCCceecccccccCCCCCCCCceecCCCCCC
Q 046513 602 KC-ECGAQ---DDDGERMVACDICEVWQHTRCHGIEDSGTVPPLFVCPRCCSS 650 (660)
Q Consensus 602 rC-iCG~~---dDDGe~MIqCD~C~vWQH~~CvgI~~~~~~pd~fvC~~C~~~ 650 (660)
-| +||-. +.||+..|+|..|..--=-.|.....++ ..=.||.|+.+
T Consensus 8 ~c~~cgd~~~~~~~g~~fvaC~eC~~pvCrpCyeyer~e---g~q~CpqCkt~ 57 (977)
T PLN02195 8 ICATCGEEVGVDSNGEAFVACHECSYPLCKACLEYEIKE---GRKVCLRCGGP 57 (977)
T ss_pred cceecccccCcCCCCCeEEEeccCCCccccchhhhhhhc---CCccCCccCCc
Confidence 36 89984 5889999999999999988999776543 45579999754
No 58
>PLN02560 enoyl-CoA reductase
Probab=28.34 E-value=79 Score=34.39 Aligned_cols=67 Identities=19% Similarity=0.127 Sum_probs=37.3
Q ss_pred ceeeecCCCCHHHHHHHHHHHHHHHHhhhcceeeeeec----ccccCCcchhhcceeccCCeEEEeeecCC
Q 046513 519 ELVMIPLHSTVLELKEAAESALRDTYCIMENLGVTDVV----NMQKLDDGELLFGAVESGSQVWIQGYGID 585 (660)
Q Consensus 519 Elvvlp~~ATv~dLK~ea~~afrDtY~~~~~f~ve~l~----~~~~~~d~~~~~g~i~sg~~v~vrG~~~d 585 (660)
+.|-+|+++||+|||.+.+++..-.+.-=++...++-. +..-.|+..+-.-.+.+|+++.|+-.+.-
T Consensus 16 ~~lev~~~aTV~dLK~~Isk~~~~~~~~RqRL~~~~~~gk~~g~~L~d~ktL~d~gv~~gstLy~kDLGpQ 86 (308)
T PLN02560 16 GGLEVPDSATVADLKKAIHKRKKKYYPSRQRLTLPLPPGKTRPTVLDDSKSLKDYGLGDGGTVVFKDLGPQ 86 (308)
T ss_pred eeEEcCCCCcHHHHHHHHHHHcCCCChhheEEEEecCCCCcCccccCCCCCHHhcCCCCCceEEEEeCCCc
Confidence 45667999999999999999854333222444322100 01112222233333456777888866544
No 59
>PLN02915 cellulose synthase A [UDP-forming], catalytic subunit
Probab=28.26 E-value=38 Score=42.41 Aligned_cols=46 Identities=33% Similarity=0.804 Sum_probs=36.4
Q ss_pred e-ecCCC---CCCCCceeecCCCCceecccccccCCCCCCCCceecCCCCCCC
Q 046513 603 C-ECGAQ---DDDGERMVACDICEVWQHTRCHGIEDSGTVPPLFVCPRCCSSF 651 (660)
Q Consensus 603 C-iCG~~---dDDGe~MIqCD~C~vWQH~~CvgI~~~~~~pd~fvC~~C~~~~ 651 (660)
| |||-. ..|||+.|+|..|..--=-.|+....++ ..=.|+.|+.+-
T Consensus 18 c~iCGd~vg~~~~Ge~FVAC~eC~fpvCr~cyeye~~~---g~~~cp~c~t~y 67 (1044)
T PLN02915 18 CRVCGDEVGVKEDGQPFVACHVCGFPVCKPCYEYERSE---GNQCCPQCNTRY 67 (1044)
T ss_pred hhccccccCcCCCCCEEEEeccCCCccccchhhhhhhc---CCccCCccCCch
Confidence 6 79875 5889999999999999988999666433 455899997543
No 60
>PF13771 zf-HC5HC2H: PHD-like zinc-binding domain
Probab=27.58 E-value=29 Score=29.93 Aligned_cols=34 Identities=24% Similarity=0.584 Sum_probs=27.3
Q ss_pred CccEEe-ecCCCCCCCCceeecCC--CCceecccccccCC
Q 046513 598 KWIVKC-ECGAQDDDGERMVACDI--CEVWQHTRCHGIED 634 (660)
Q Consensus 598 ~~~VrC-iCG~~dDDGe~MIqCD~--C~vWQH~~CvgI~~ 634 (660)
.+...| +|+.+ .| ..|+|.. |...+|..|.-...
T Consensus 34 ~~~~~C~~C~~~--~G-a~i~C~~~~C~~~fH~~CA~~~~ 70 (90)
T PF13771_consen 34 RRKLKCSICKKK--GG-ACIGCSHPGCSRSFHVPCARKAG 70 (90)
T ss_pred HhCCCCcCCCCC--CC-eEEEEeCCCCCcEEChHHHccCC
Confidence 455678 69876 57 8999985 99999999987654
No 61
>PRK14559 putative protein serine/threonine phosphatase; Provisional
Probab=27.42 E-value=42 Score=40.00 Aligned_cols=54 Identities=17% Similarity=0.356 Sum_probs=36.1
Q ss_pred EEee-cCCCCCCCCceeecCCCCcee-cccccccCCCCCCCCceecCCCCCCCCCCccC
Q 046513 601 VKCE-CGAQDDDGERMVACDICEVWQ-HTRCHGIEDSGTVPPLFVCPRCCSSFAPSRTE 657 (660)
Q Consensus 601 VrCi-CG~~dDDGe~MIqCD~C~vWQ-H~~CvgI~~~~~~pd~fvC~~C~~~~~~~~~~ 657 (660)
+.|+ ||....+| .-.|..|+.-. +..|-.-... ..++.-+|+.|..+....|+|
T Consensus 2 ~~Cp~Cg~~n~~~--akFC~~CG~~l~~~~Cp~CG~~-~~~~~~fC~~CG~~~~~~~~~ 57 (645)
T PRK14559 2 LICPQCQFENPNN--NRFCQKCGTSLTHKPCPQCGTE-VPVDEAHCPNCGAETGTIWWA 57 (645)
T ss_pred CcCCCCCCcCCCC--CccccccCCCCCCCcCCCCCCC-CCcccccccccCCcccchhhh
Confidence 3574 88876665 45788887763 3556555432 335677999999888777765
No 62
>cd01792 ISG15_repeat1 ISG15 ubiquitin-like protein, first repeat of 2. ISG15 is a ubiquitin-like protein containing two ubiquitin homology domains that becomes conjugated to a variety of proteins when cells are treated with type I interferon or lipopolysaccharide. Although ISG15 has properties similar to those of other ubiquitin-like molecules, it is a unique member of the ubiquitin-like superfamily, whose expression and conjugation to target proteins are tightly regulated by specific signaling pathways, indicating it may have specialized functions in the immune system.
Probab=27.37 E-value=56 Score=27.99 Aligned_cols=24 Identities=21% Similarity=0.144 Sum_probs=18.6
Q ss_pred eecCCCCHHHHHHHHHHHHHHHHhh
Q 046513 522 MIPLHSTVLELKEAAESALRDTYCI 546 (660)
Q Consensus 522 vlp~~ATv~dLK~ea~~afrDtY~~ 546 (660)
-+++++||+|||.+++..+. ++..
T Consensus 18 ~v~~~~TV~~lK~~I~~~~~-i~~~ 41 (80)
T cd01792 18 SLRDSMTVSELKQQIAQKIG-VPAF 41 (80)
T ss_pred EcCCCCcHHHHHHHHHHHhC-CCHH
Confidence 35789999999999998873 4433
No 63
>KOG2266 consensus Chromatin-associated protein Dek and related proteins, contains SAP DNA binding domain [Chromatin structure and dynamics]
Probab=26.64 E-value=86 Score=36.43 Aligned_cols=81 Identities=27% Similarity=0.456 Sum_probs=57.9
Q ss_pred eccccccch-hhhhhhhhcCCcc--------ccc-ccccccccccccchHHHHHHHHHhhcCchhhhhhcccCCcchhhH
Q 046513 186 DVSKKKSMD-LRLLHGVAYGHSW--------FGR-WGYKFFHGSFGVREQNYNRAIEILSSLELDNIIQDFCGTDLCREM 255 (660)
Q Consensus 186 DvSkK~gmd-lRLLh~Va~G~sW--------yG~-WGY~fg~GsFgvt~~~Y~~Aie~Lss~pL~~~~~~~~~~~~~~~~ 255 (660)
-||||+.=+ |+|||.|-||..= .|+ =||.|.. --.-+|.+..|.|-.+-=..|+. +
T Consensus 211 klskkk~De~L~~LHtIlfGk~gKa~~lKkNi~~FSGF~w~~----~eekq~~K~kEkl~K~~kekL~~----------f 276 (594)
T KOG2266|consen 211 KLSKKKSDENLKLLHTILFGKKGKAQMLKKNIGQFSGFVWSK----EEEKQYAKKKEKLKKCDKEKLIS----------F 276 (594)
T ss_pred HhhhcccchHHHHHHHHHhCChhHHHHHHHhhhcccCccccc----chHHHHHHHHHHHHHHHHHHHHH----------H
Confidence 478999999 9999999998542 222 3777765 35678999999998777666653 6
Q ss_pred HHHHHHhhccchh---hhhhHHHHHHHHHH
Q 046513 256 KQIFHHYRDMSET---LLLTLKDLLRFMLT 282 (660)
Q Consensus 256 ~~ii~~Y~~lS~~---~L~Tl~dL~~fmL~ 282 (660)
=+|+++-++-|.. .|+ --||.||+.
T Consensus 277 CdvLdi~~~kst~kkeelv--~rvleFL~~ 304 (594)
T KOG2266|consen 277 CDVLDIPRSKSTVKKEELV--VRVLEFLEK 304 (594)
T ss_pred HhhhccccccccchHHHHH--HHHHHHHhC
Confidence 6777777777765 444 356666664
No 64
>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=26.22 E-value=56 Score=23.53 Aligned_cols=26 Identities=35% Similarity=0.759 Sum_probs=20.3
Q ss_pred e-ecCCCCCCCCc-eeecCCCCceeccccc
Q 046513 603 C-ECGAQDDDGER-MVACDICEVWQHTRCH 630 (660)
Q Consensus 603 C-iCG~~dDDGe~-MIqCD~C~vWQH~~Cv 630 (660)
| +|+..- +| + +..|+.|..-.|.+|.
T Consensus 3 C~~C~~~~-~~-~~~Y~C~~c~f~lh~~Ca 30 (30)
T PF03107_consen 3 CDVCRRKI-DG-FYFYHCSECCFTLHVRCA 30 (30)
T ss_pred CCCCCCCc-CC-CEeEEeCCCCCeEcCccC
Confidence 5 587764 44 4 8999999999999885
No 65
>KOG3277 consensus Uncharacterized conserved protein [Function unknown]
Probab=25.92 E-value=44 Score=33.43 Aligned_cols=25 Identities=24% Similarity=0.623 Sum_probs=21.0
Q ss_pred ccEEe-ecCCC---------CCCCCceeecCCCCc
Q 046513 599 WIVKC-ECGAQ---------DDDGERMVACDICEV 623 (660)
Q Consensus 599 ~~VrC-iCG~~---------dDDGe~MIqCD~C~v 623 (660)
-...| +|+.. +.+|...|||++|++
T Consensus 78 l~yTCkvCntRs~ktisk~AY~~GvVivqC~gC~~ 112 (165)
T KOG3277|consen 78 LAYTCKVCNTRSTKTISKQAYEKGVVIVQCPGCKN 112 (165)
T ss_pred EEEEeeccCCccccccChhhhhCceEEEECCCCcc
Confidence 46789 79884 588999999999987
No 66
>cd01769 UBL Ubiquitin-like domain of UBL. UBLs function by remodeling the surface of their target proteins, changing their target's half-life, enzymatic activity, protein-protein interactions, subcellular localization or other properties. At least 10 different ubiquitin-like modifications exist in mammals, and attachment of different ubls to a target leads to different biological consequences. Ubl-conjugation cascades are initiated by activating enzymes, which also coordinate the ubls with their downstream pathways.
Probab=25.86 E-value=71 Score=25.28 Aligned_cols=21 Identities=24% Similarity=0.210 Sum_probs=17.5
Q ss_pred eeecCCCCHHHHHHHHHHHHH
Q 046513 521 VMIPLHSTVLELKEAAESALR 541 (660)
Q Consensus 521 vvlp~~ATv~dLK~ea~~afr 541 (660)
+-+++++||++||...++.+.
T Consensus 12 ~~~~~~~ti~~lK~~i~~~~~ 32 (69)
T cd01769 12 LEVSPDDTVAELKAKIAAKEG 32 (69)
T ss_pred EEECCCChHHHHHHHHHHHHC
Confidence 457889999999999888763
No 67
>PRK08154 anaerobic benzoate catabolism transcriptional regulator; Reviewed
Probab=25.52 E-value=1.7e+02 Score=31.29 Aligned_cols=108 Identities=17% Similarity=0.160 Sum_probs=79.3
Q ss_pred HHHhhhccceeeeeeeccccccchhhhhhhhhcCCcccccccccccccccccchHHHHHHHHHhhcCchhhhhhcccCCc
Q 046513 171 DRICTNLRTCKVTVEDVSKKKSMDLRLLHGVAYGHSWFGRWGYKFFHGSFGVREQNYNRAIEILSSLELDNIIQDFCGTD 250 (660)
Q Consensus 171 DrlC~~LraRkVSv~DvSkK~gmdlRLLh~Va~G~sWyG~WGY~fg~GsFgvt~~~Y~~Aie~Lss~pL~~~~~~~~~~~ 250 (660)
+||=..-..++.|.++++++-|+.-.-+.-+-+| .-..+.++..+-.++| +++++.|+..-....
T Consensus 31 ~rl~~~R~~~gltq~~lA~~~gvs~~~i~~~E~g--------------~~~ps~~~l~~ia~~l-~v~~~~l~~~~~~~~ 95 (309)
T PRK08154 31 ERVRTLRARRGMSRKVLAQASGVSERYLAQLESG--------------QGNVSILLLRRVARAL-GCSLADLLGDVDTSS 95 (309)
T ss_pred HHHHHHHHHcCCCHHHHHHHHCcCHHHHHHHHCC--------------CCCCCHHHHHHHHHHh-CCCHHHHhCCCCCCC
Confidence 3444444457899999999999987766554444 4467777777777777 678888876543322
Q ss_pred chhhHHHHHHHhhccchhhhhhHHHHHHHHHHhhccccccccccc
Q 046513 251 LCREMKQIFHHYRDMSETLLLTLKDLLRFMLTVKSCASAQKKTIM 295 (660)
Q Consensus 251 ~~~~~~~ii~~Y~~lS~~~L~Tl~dL~~fmL~l~s~~~~~~~~~~ 295 (660)
.+++.+...++.+++.++.-+.+++.-|+.-..+..+...+.+
T Consensus 96 --~~~~~l~~~l~~l~~~~~~~~~~~l~~~~~~~~~~~~~~~I~l 138 (309)
T PRK08154 96 --PDWLLIRELLEQASPAQLARVRDALSGMLGAGRRAARRRRIAL 138 (309)
T ss_pred --hHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhhhhccCCCEEEE
Confidence 4778999999999999999999999998887766655554444
No 68
>PLN02189 cellulose synthase
Probab=23.97 E-value=51 Score=41.34 Aligned_cols=47 Identities=30% Similarity=0.666 Sum_probs=36.9
Q ss_pred Ee-ecCCC---CCCCCceeecCCCCceecccccccCCCCCCCCceecCCCCCCC
Q 046513 602 KC-ECGAQ---DDDGERMVACDICEVWQHTRCHGIEDSGTVPPLFVCPRCCSSF 651 (660)
Q Consensus 602 rC-iCG~~---dDDGe~MIqCD~C~vWQH~~CvgI~~~~~~pd~fvC~~C~~~~ 651 (660)
-| +||-. +.||+..|+|..|..--=-.|+....++ ..=.||.|+.+-
T Consensus 36 ~C~iCgd~vg~~~~g~~fvaC~~C~fpvCr~Cyeyer~e---g~q~CpqCkt~Y 86 (1040)
T PLN02189 36 VCEICGDEIGLTVDGDLFVACNECGFPVCRPCYEYERRE---GTQNCPQCKTRY 86 (1040)
T ss_pred cccccccccCcCCCCCEEEeeccCCCccccchhhhhhhc---CCccCcccCCch
Confidence 47 89985 4789999999999999888898666433 456899997543
No 69
>KOG2041 consensus WD40 repeat protein [General function prediction only]
Probab=23.55 E-value=73 Score=38.75 Aligned_cols=54 Identities=26% Similarity=0.461 Sum_probs=37.3
Q ss_pred CCCccEEe-ecCCCCCCCCceeecCCCCceecccccccCCCCCCCCceecCCCCCCCC
Q 046513 596 NDKWIVKC-ECGAQDDDGERMVACDICEVWQHTRCHGIEDSGTVPPLFVCPRCCSSFA 652 (660)
Q Consensus 596 ~d~~~VrC-iCG~~dDDGe~MIqCD~C~vWQH~~CvgI~~~~~~pd~fvC~~C~~~~~ 652 (660)
.....|+| +||.+-|+- -.||..|+.-+- .|+.-...-..+-.|.|+.|....+
T Consensus 1113 ~~~~~vdc~~cg~~i~~~--~~~c~ec~~kfP-~CiasG~pIt~~~fWlC~~CkH~a~ 1167 (1189)
T KOG2041|consen 1113 PNSAKVDCSVCGAKIDPY--DLQCSECQTKFP-VCIASGRPITDNIFWLCPRCKHRAH 1167 (1189)
T ss_pred CCccceeeeecCCcCCcc--CCCChhhcCcCc-eeeccCCccccceEEEccccccccc
Confidence 34568999 699997775 589999987654 4654433222356889999976543
No 70
>PF06224 HTH_42: Winged helix DNA-binding domain; InterPro: IPR009351 This is a family of conserved bacterial proteins with unknown function.
Probab=23.53 E-value=1.3e+02 Score=31.81 Aligned_cols=51 Identities=24% Similarity=0.328 Sum_probs=38.9
Q ss_pred CcccHHHHHHHHHHHHHHHHHhhhcccCCCCCccHHHHHHHHhcc-----cCCchhHHHHHHhc
Q 046513 331 SRWSARRLESAAEVIVNALQEQKAENLGHGGGMSRQKLRDAARMH-----IGDTGLLDYVLKSM 389 (660)
Q Consensus 331 ~rWs~~r~~~A~~~~v~vLr~~~a~~~~~~~wvsR~~LR~aar~~-----IGdtgLLD~~LK~l 389 (660)
..|+...++.+.+++++.|++.| ++||.+|+++.... -+.....-++|..+
T Consensus 76 ~~~~~~~~~~~~~~v~~~L~~~g--------plt~~eL~~~l~~~~~~~~~~~~~~~~~~l~~l 131 (327)
T PF06224_consen 76 LGLTPEELERLAEAVLDALRADG--------PLTRAELREALAEAGWWGWGGPSSPWKHLLEYL 131 (327)
T ss_pred cccccchHHHHHHHHHHHHHhcC--------CCCHHHHHHHhhhccccCCCCCCchHHHHHHHH
Confidence 57888889999999999997776 89999999998774 12334555666555
No 71
>cd00730 rubredoxin Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are believed to be involved in electron transfer.
Probab=23.45 E-value=64 Score=26.32 Aligned_cols=14 Identities=36% Similarity=0.947 Sum_probs=11.7
Q ss_pred CCCCceecCCCCCC
Q 046513 637 TVPPLFVCPRCCSS 650 (660)
Q Consensus 637 ~~pd~fvC~~C~~~ 650 (660)
.+|+.|.||.|...
T Consensus 30 ~Lp~~w~CP~C~a~ 43 (50)
T cd00730 30 DLPDDWVCPVCGAG 43 (50)
T ss_pred HCCCCCCCCCCCCc
Confidence 46899999999754
No 72
>smart00213 UBQ Ubiquitin homologues. Ubiquitin-mediated proteolysis is involved in the regulated turnover of proteins required for controlling cell cycle progression
Probab=22.89 E-value=90 Score=24.35 Aligned_cols=20 Identities=30% Similarity=0.252 Sum_probs=16.9
Q ss_pred eeecCCCCHHHHHHHHHHHH
Q 046513 521 VMIPLHSTVLELKEAAESAL 540 (660)
Q Consensus 521 vvlp~~ATv~dLK~ea~~af 540 (660)
+-++++.||++||...+..+
T Consensus 14 ~~v~~~~tv~~lk~~i~~~~ 33 (64)
T smart00213 14 LEVKPSDTVSELKEKIAELT 33 (64)
T ss_pred EEECCCCcHHHHHHHHHHHH
Confidence 55889999999999988764
No 73
>PRK00016 metal-binding heat shock protein; Provisional
Probab=22.83 E-value=30 Score=34.07 Aligned_cols=14 Identities=36% Similarity=0.987 Sum_probs=12.6
Q ss_pred hhcccccccCccce
Q 046513 135 ILHGLIHCNGFGHL 148 (660)
Q Consensus 135 lLHG~iH~NGfGHL 148 (660)
+.||+.|..||=|.
T Consensus 117 ~iHG~LHLlGYDH~ 130 (159)
T PRK00016 117 TVHGILHLLGYDHI 130 (159)
T ss_pred HHHhhHHhcCCCCC
Confidence 57999999999995
No 74
>PF02130 UPF0054: Uncharacterized protein family UPF0054; InterPro: IPR002036 These, as yet, uncharacterised proteins are of 17 to 21 kDa. They contain a conserved region with three histidines at the C terminus. The protein family is represented by a single member sequence only in nearly every bacterium. The crystal structure of the protein from the hyperthermophilic bacteria Aquifex aeolicus has been determined. The overall fold consists of one central alpha-helix surrounded by a four-stranded beta-sheet and four other alpha-helices. Structure-based homology analysis reveals a good resemblance to the metal-dependent proteinases such as collagenases and gelatinases. However, experimental tests for collagenase and gelatinase-type function show no detectable activity under standard assay conditions [].; GO: 0046872 metal ion binding; PDB: 1TVI_A 1OZ9_A 1XM5_A 1XAX_A.
Probab=21.71 E-value=28 Score=33.51 Aligned_cols=14 Identities=43% Similarity=0.963 Sum_probs=11.5
Q ss_pred hhcccccccCccce
Q 046513 135 ILHGLIHCNGFGHL 148 (660)
Q Consensus 135 lLHG~iH~NGfGHL 148 (660)
+.||+.|.-||-|.
T Consensus 112 ~vHG~LHLlGyDH~ 125 (145)
T PF02130_consen 112 LVHGLLHLLGYDHE 125 (145)
T ss_dssp HHHHHHHHTT-SST
T ss_pred HHHHHHHHcCCCCC
Confidence 57999999999995
No 75
>PRK10219 DNA-binding transcriptional regulator SoxS; Provisional
Probab=21.59 E-value=88 Score=27.70 Aligned_cols=81 Identities=14% Similarity=0.087 Sum_probs=57.3
Q ss_pred hhhccceeeeeeeccccccchhhhhhhhhcCCcccccccccccccccccchHHHH------HHHHHhhc--Cchhhhhhc
Q 046513 174 CTNLRTCKVTVEDVSKKKSMDLRLLHGVAYGHSWFGRWGYKFFHGSFGVREQNYN------RAIEILSS--LELDNIIQD 245 (660)
Q Consensus 174 C~~LraRkVSv~DvSkK~gmdlRLLh~Va~G~sWyG~WGY~fg~GsFgvt~~~Y~------~Aie~Lss--~pL~~~~~~ 245 (660)
-..+. +.+|++|++++.||-.|-|.-+-+- -||+|..+|- +|.+.|.. +++..+-.+
T Consensus 15 ~~~~~-~~~~~~~lA~~~~~S~~~l~r~f~~--------------~~g~s~~~~i~~~Rl~~a~~~L~~~~~~i~~iA~~ 79 (107)
T PRK10219 15 DEHID-QPLNIDVVAKKSGYSKWYLQRMFRT--------------VTHQTLGDYIRQRRLLLAAVELRTTERPIFDIAMD 79 (107)
T ss_pred HHhcC-CCCCHHHHHHHHCCCHHHHHHHHHH--------------HHCcCHHHHHHHHHHHHHHHHHHccCCCHHHHHHH
Confidence 33443 4699999999999999988765432 3788888874 46666654 677787776
Q ss_pred ccCCcchhhHHHHHHHhhccchhhh
Q 046513 246 FCGTDLCREMKQIFHHYRDMSETLL 270 (660)
Q Consensus 246 ~~~~~~~~~~~~ii~~Y~~lS~~~L 270 (660)
.+-.++ ......+..|-.++..+.
T Consensus 80 ~Gf~~~-s~f~~~Fk~~~G~tP~~~ 103 (107)
T PRK10219 80 LGYVSQ-QTFSRVFRRQFDRTPSDY 103 (107)
T ss_pred HCCCCH-HHHHHHHHHHHCcCHHHH
Confidence 666554 567777777777666544
No 76
>PF04216 FdhE: Protein involved in formate dehydrogenase formation; InterPro: IPR006452 This family of sequences describe an accessory protein required for the assembly of formate dehydrogenase of certain proteobacteria although not present in the final complex []. The exact nature of the function of FdhE in the assembly of the complex is unknown, but considering the presence of selenocysteine, molybdopterin, iron-sulphur clusters and cytochrome b556, it is likely to be involved in the insertion of cofactors. ; GO: 0005737 cytoplasm; PDB: 2FIY_B.
Probab=21.23 E-value=40 Score=35.75 Aligned_cols=10 Identities=40% Similarity=0.763 Sum_probs=8.1
Q ss_pred CceecCCCCC
Q 046513 640 PLFVCPRCCS 649 (660)
Q Consensus 640 d~fvC~~C~~ 649 (660)
..++|..|+.
T Consensus 237 rve~C~~C~~ 246 (290)
T PF04216_consen 237 RVEVCESCGS 246 (290)
T ss_dssp EEEEETTTTE
T ss_pred EEEECCcccc
Confidence 6788999975
No 77
>PF05180 zf-DNL: DNL zinc finger; InterPro: IPR007853 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 DNL-type zinc finger is found in Tim15, a zinc finger protein essential for protein import into mitochondria. Mitochondrial functions rely on the correct transport of resident proteins synthesized in the cytosol to mitochondria. Protein import into mitochondria is mediated by membrane protein complexes, protein translocators, in the outer and inner mitochondrial membranes, in cooperation with their assistant proteins in the cytosol, intermembrane space and matrix. Proteins destined to the mitochondrial matrix cross the outer membrane with the aid of the outer membrane translocator, the tOM40 complex, and then the inner membrane with the aid of the inner membrane translocator, the TIM23 complex, and mitochondrial motor and chaperone (MMC) proteins including mitochondrial heat- shock protein 70 (mtHsp70), and translocase in the inner mitochondrial membrane (Tim)15. Tim15 is also known as zinc finger motif (Zim)17 or mtHsp70 escort protein (Hep)1. Tim15 contains a zinc-finger motif (CXXC and CXXC) of ~100 residues, which has been named DNL after a short C-terminal motif of D(N/H)L [, , ]. The DNL-type zinc finger is an L-shaped molecule. The two CXXC motifs are located at the end of the L, and are sandwiched by two- stranded antiparallel beta-sheets. Two short alpha-helices constitute another leg of the L. The outer (convex) face of the L has a large acidic groove, which is lined with five acidic residues, whereas the inner (concave) face of the L has two positively charged residues, next to the CXXC motifs []. This entry represents the DNL-type zinc finger.; GO: 0008270 zinc ion binding; PDB: 2E2Z_A.
Probab=20.85 E-value=33 Score=29.66 Aligned_cols=17 Identities=24% Similarity=0.450 Sum_probs=11.7
Q ss_pred CCCCCceeecCCCCcee
Q 046513 609 DDDGERMVACDICEVWQ 625 (660)
Q Consensus 609 dDDGe~MIqCD~C~vWQ 625 (660)
+..|-..|+|+.|+.|.
T Consensus 23 Y~~GvViv~C~gC~~~H 39 (66)
T PF05180_consen 23 YHKGVVIVQCPGCKNRH 39 (66)
T ss_dssp HHTSEEEEE-TTS--EE
T ss_pred HhCCeEEEECCCCccee
Confidence 46788999999999985
No 78
>PF00301 Rubredoxin: Rubredoxin; InterPro: IPR004039 Rubredoxin is a low molecular weight iron-containing bacterial protein involved in electron transfer [, ], sometimes replacing ferredoxin as an electron carrier []. The 3-D structures of a number of rubredoxins have been solved [, ]. The fold belongs to the alpha+beta class, with 2 alpha-helices and 2-3 beta-strands. Its active site contains an iron ion which is co-ordinated by the sulphurs of four conserved cysteine residues forming an almost regular tetrahedron. The conserved cysteines reside on two loops, which are the most conserved regions of the protein. In addition, a ring of acidic residues in the proximity of the [Fe(Cys)4] centre is also well-conserved []. ; GO: 0009055 electron carrier activity, 0046872 metal ion binding; PDB: 2RDV_C 1RDV_A 1S24_A 1T9O_B 1B2J_A 1SMW_A 2PVE_B 1BFY_A 1T9P_C 1C09_C ....
Probab=20.44 E-value=78 Score=25.52 Aligned_cols=14 Identities=36% Similarity=0.947 Sum_probs=8.9
Q ss_pred CCCCceecCCCCCC
Q 046513 637 TVPPLFVCPRCCSS 650 (660)
Q Consensus 637 ~~pd~fvC~~C~~~ 650 (660)
.+|+.|.||.|...
T Consensus 30 ~Lp~~w~CP~C~a~ 43 (47)
T PF00301_consen 30 DLPDDWVCPVCGAP 43 (47)
T ss_dssp GS-TT-B-TTTSSB
T ss_pred HCCCCCcCcCCCCc
Confidence 46899999999754
No 79
>TIGR03853 matur_matur probable metal-binding protein. This protein family was identified by searching with a phylogenetic profile based on an anaerobic sulfatase-maturase enzyme, which contains multiple 4Fe-4S clusters. The linkages by phylogenetic profiling and by iron-sulfur cluster-related motifs together suggest this protein may be an accessory protein to certain maturases in sulfatase/maturase systems.
Probab=20.42 E-value=1.4e+02 Score=26.59 Aligned_cols=42 Identities=21% Similarity=0.444 Sum_probs=31.2
Q ss_pred HHHHHHHhhhcccCCCCCccHHHHHHHHhcccCC--------------chhHHHHHHhcCcceec
Q 046513 345 IVNALQEQKAENLGHGGGMSRQKLRDAARMHIGD--------------TGLLDYVLKSMNNVIVG 395 (660)
Q Consensus 345 ~v~vLr~~~a~~~~~~~wvsR~~LR~aar~~IGd--------------tgLLD~~LK~l~~~vv~ 395 (660)
++..|.+.+ + ++|+++|+.++-...|. .+||+|+++- ||++.
T Consensus 7 VL~mml~~~------~-~~t~~~L~~~i~~~FG~~arFhTCSa~~m~a~~Li~FL~~k--gKfi~ 62 (77)
T TIGR03853 7 VLNLMLASG------E-PYTRESLKAAIEQKFGEDARFHTCSAEGMTADELLQFLLKK--GKFIE 62 (77)
T ss_pred HHHHHHHcC------C-CcCHHHHHHHHHHHhCCCceEeecccccCCHHHHHHHHHHC--CCEee
Confidence 445555554 2 79999999999988886 4799998863 66663
Done!