Query 004566
Match_columns 745
No_of_seqs 165 out of 262
Neff 3.3
Searched_HMMs 46136
Date Fri Mar 29 01:30:20 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/004566.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/004566hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 smart00501 BRIGHT BRIGHT, ARID 99.8 1.7E-21 3.6E-26 170.1 8.0 89 570-671 2-91 (93)
2 PF01388 ARID: ARID/BRIGHT DNA 99.8 2.9E-20 6.2E-25 160.8 6.5 86 570-668 6-92 (92)
3 KOG2744 DNA-binding proteins B 99.7 6.1E-17 1.3E-21 179.5 7.0 91 569-672 162-254 (512)
4 KOG2510 SWI-SNF chromatin-remo 98.8 1.3E-08 2.8E-13 112.5 10.5 106 536-671 270-375 (532)
5 PF00628 PHD: PHD-finger; Int 98.3 1.4E-07 3E-12 74.0 0.6 49 678-731 1-50 (51)
6 smart00249 PHD PHD zinc finger 98.2 1.2E-06 2.6E-11 65.3 3.6 46 678-729 1-47 (47)
7 KOG1973 Chromatin remodeling p 97.9 4.4E-06 9.4E-11 87.2 1.8 51 677-737 220-273 (274)
8 KOG0825 PHD Zn-finger protein 97.4 5.1E-05 1.1E-09 88.3 1.9 50 677-733 216-267 (1134)
9 PF12770 CHAT: CHAT domain 97.4 0.0025 5.5E-08 64.0 12.5 137 45-183 116-270 (287)
10 KOG1632 Uncharacterized PHD Zn 96.8 0.00012 2.5E-09 79.3 -2.8 58 674-738 237-301 (345)
11 KOG1244 Predicted transcriptio 96.8 0.0004 8.8E-09 73.5 1.1 49 677-732 282-331 (336)
12 KOG4299 PHD Zn-finger protein 96.4 0.0013 2.8E-08 75.6 1.8 50 677-731 254-304 (613)
13 KOG1512 PHD Zn-finger protein 96.3 0.0011 2.4E-08 70.7 0.5 72 648-734 292-365 (381)
14 KOG4443 Putative transcription 95.5 0.0059 1.3E-07 70.8 1.7 47 677-730 69-116 (694)
15 KOG0957 PHD finger protein [Ge 95.5 0.0057 1.2E-07 69.3 1.4 50 676-729 544-595 (707)
16 KOG1245 Chromatin remodeling c 95.3 0.0056 1.2E-07 76.5 0.6 51 676-733 1108-1159(1404)
17 PF07227 DUF1423: Protein of u 95.2 0.015 3.3E-07 65.2 3.7 54 678-731 130-191 (446)
18 KOG0383 Predicted helicase [Ge 94.6 0.011 2.5E-07 69.3 0.8 46 676-730 47-92 (696)
19 COG5034 TNG2 Chromatin remodel 92.8 0.063 1.4E-06 56.9 2.3 42 681-731 225-269 (271)
20 KOG0955 PHD finger protein BR1 92.4 0.11 2.4E-06 63.7 3.8 63 661-732 200-269 (1051)
21 KOG1246 DNA-binding protein ju 92.3 0.13 2.9E-06 61.9 4.3 61 671-738 150-210 (904)
22 KOG4323 Polycomb-like PHD Zn-f 91.2 0.09 2E-06 59.6 1.3 51 678-732 170-224 (464)
23 COG5141 PHD zinc finger-contai 88.3 0.3 6.5E-06 55.9 2.5 48 677-733 194-244 (669)
24 KOG1844 PHD Zn-finger proteins 83.7 0.6 1.3E-05 52.1 1.9 49 677-734 87-137 (508)
25 KOG1632 Uncharacterized PHD Zn 82.0 0.59 1.3E-05 51.3 1.0 37 689-731 74-112 (345)
26 KOG4443 Putative transcription 70.8 1.2 2.7E-05 52.5 -0.3 52 678-735 20-75 (694)
27 PF14446 Prok-RING_1: Prokaryo 65.8 4.2 9E-05 34.5 1.9 34 676-709 5-40 (54)
28 KOG0954 PHD finger protein [Ge 64.5 5 0.00011 48.4 2.9 71 653-732 232-321 (893)
29 KOG1512 PHD Zn-finger protein 64.4 2.2 4.7E-05 46.6 -0.0 55 677-737 259-323 (381)
30 PF13901 DUF4206: Domain of un 63.7 5.5 0.00012 40.6 2.7 42 676-733 152-199 (202)
31 KOG0956 PHD finger protein AF1 59.9 4.7 0.0001 48.3 1.6 47 679-734 8-59 (900)
32 PF11793 FANCL_C: FANCL C-term 59.2 2.2 4.7E-05 36.8 -0.9 51 678-732 4-64 (70)
33 cd02953 DsbDgamma DsbD gamma f 59.1 23 0.00051 30.8 5.4 76 61-143 2-81 (104)
34 PF13831 PHD_2: PHD-finger; PD 54.9 2.7 5.8E-05 32.4 -1.0 33 689-729 3-35 (36)
35 PF13639 zf-RING_2: Ring finge 54.0 2.7 5.9E-05 32.3 -1.0 41 678-730 2-44 (44)
36 PHA00689 hypothetical protein 52.4 8.5 0.00018 32.6 1.5 34 662-695 2-42 (62)
37 PF02591 DUF164: Putative zinc 49.5 13 0.00028 30.6 2.1 43 657-699 2-55 (56)
38 PF00249 Myb_DNA-binding: Myb- 49.1 24 0.00051 27.7 3.5 38 613-664 11-48 (48)
39 KOG2752 Uncharacterized conser 47.3 7.9 0.00017 42.8 0.7 22 687-708 145-167 (345)
40 cd04883 ACT_AcuB C-terminal AC 46.6 1.6E+02 0.0034 23.9 8.6 69 49-143 3-72 (72)
41 KOG4299 PHD Zn-finger protein 46.1 16 0.00035 43.3 3.0 48 676-731 47-94 (613)
42 PF13986 DUF4224: Domain of un 45.9 31 0.00068 28.1 3.8 37 97-143 1-37 (47)
43 PF15135 UPF0515: Uncharacteri 44.9 26 0.00056 38.0 4.0 61 661-732 92-164 (278)
44 KOG2846 Predicted membrane pro 44.1 15 0.00032 40.8 2.2 41 687-738 217-257 (328)
45 CHL00174 accD acetyl-CoA carbo 43.8 10 0.00022 41.4 0.9 33 684-730 32-64 (296)
46 PF07496 zf-CW: CW-type Zinc F 42.3 11 0.00023 30.8 0.6 16 688-703 1-16 (50)
47 PF14205 Cys_rich_KTR: Cystein 41.9 20 0.00042 30.8 2.1 36 688-732 2-37 (55)
48 PHA02926 zinc finger-like prot 41.8 9.4 0.0002 40.6 0.3 67 661-732 155-228 (242)
49 TIGR00515 accD acetyl-CoA carb 40.7 10 0.00022 40.9 0.4 30 687-730 23-52 (285)
50 KOG0957 PHD finger protein [Ge 39.5 18 0.0004 42.3 2.1 55 677-731 120-178 (707)
51 KOG1829 Uncharacterized conser 39.3 13 0.00028 43.9 0.9 33 676-708 511-549 (580)
52 cd02947 TRX_family TRX family; 39.2 60 0.0013 25.9 4.5 72 61-144 1-73 (93)
53 PF01470 Peptidase_C15: Pyrogl 38.4 1.2E+02 0.0027 30.9 7.6 94 49-143 33-137 (202)
54 smart00594 UAS UAS domain. 38.2 33 0.00072 31.6 3.2 78 59-142 15-94 (122)
55 PRK13195 pyrrolidone-carboxyla 38.0 1.9E+02 0.0042 30.5 9.1 101 49-153 34-156 (222)
56 PRK05654 acetyl-CoA carboxylas 37.7 12 0.00026 40.5 0.3 31 686-730 23-53 (292)
57 PF07649 C1_3: C1-like domain; 37.6 14 0.0003 27.0 0.5 28 678-705 2-30 (30)
58 COG1927 Mtd Coenzyme F420-depe 37.6 1E+02 0.0022 33.2 6.9 116 43-178 25-156 (277)
59 PRK14890 putative Zn-ribbon RN 37.0 34 0.00073 29.7 2.8 45 676-730 7-55 (59)
60 cd03003 PDI_a_ERdj5_N PDIa fam 36.6 82 0.0018 27.3 5.2 81 51-144 2-82 (101)
61 KOG3576 Ovo and related transc 36.1 5.2 0.00011 42.2 -2.6 73 660-732 129-221 (267)
62 PRK09140 2-dehydro-3-deoxy-6-p 35.9 13 0.00029 37.9 0.3 96 338-457 5-100 (206)
63 COG1638 DctP TRAP-type C4-dica 35.6 1E+02 0.0023 33.8 7.0 92 44-146 55-150 (332)
64 KOG1473 Nucleosome remodeling 35.0 35 0.00076 43.3 3.6 57 665-730 331-389 (1414)
65 PF09855 DUF2082: Nucleic-acid 34.7 17 0.00036 31.7 0.6 17 724-740 1-17 (64)
66 cd02996 PDI_a_ERp44 PDIa famil 33.9 72 0.0016 28.1 4.5 82 51-144 2-88 (108)
67 cd00730 rubredoxin Rubredoxin; 33.7 28 0.00061 28.9 1.8 36 692-732 3-43 (50)
68 PF13712 Glyco_tranf_2_5: Glyc 31.7 29 0.00062 35.5 1.9 90 315-411 2-96 (217)
69 cd02958 UAS UAS family; UAS is 31.7 50 0.0011 29.6 3.2 78 60-143 7-85 (114)
70 cd02989 Phd_like_TxnDC9 Phosdu 31.4 97 0.0021 28.3 5.1 81 51-144 5-85 (113)
71 TIGR00269 conserved hypothetic 31.2 55 0.0012 30.1 3.5 61 631-699 41-101 (104)
72 PF10367 Vps39_2: Vacuolar sor 30.1 82 0.0018 27.6 4.2 30 676-707 78-109 (109)
73 PHA02278 thioredoxin-like prot 29.9 1.3E+02 0.0028 27.5 5.6 76 59-144 3-82 (103)
74 cd03006 PDI_a_EFP1_N PDIa fami 29.7 77 0.0017 29.5 4.2 36 47-82 6-41 (113)
75 PF15446 zf-PHD-like: PHD/FYVE 29.3 30 0.00065 35.5 1.5 32 678-709 1-36 (175)
76 PRK11823 DNA repair protein Ra 29.1 32 0.0007 39.0 1.9 28 675-702 6-33 (446)
77 COG2956 Predicted N-acetylgluc 28.9 36 0.00078 38.4 2.1 26 676-701 354-379 (389)
78 PRK13197 pyrrolidone-carboxyla 28.7 3.5E+02 0.0075 28.2 9.0 88 50-140 35-135 (215)
79 COG0777 AccD Acetyl-CoA carbox 28.6 23 0.0005 38.8 0.6 30 687-730 25-54 (294)
80 smart00531 TFIIE Transcription 27.2 44 0.00095 32.4 2.2 36 650-685 70-108 (147)
81 PF05368 NmrA: NmrA-like famil 27.0 1.6E+02 0.0035 29.1 6.2 75 48-143 21-103 (233)
82 TIGR01140 L_thr_O3P_dcar L-thr 26.7 2.1E+02 0.0046 30.2 7.3 71 53-148 89-170 (330)
83 cd02948 TRX_NDPK TRX domain, T 26.6 99 0.0022 27.3 4.2 77 58-144 5-81 (102)
84 PHA02929 N1R/p28-like protein; 26.6 38 0.00082 36.0 1.8 64 659-733 157-226 (238)
85 cd01121 Sms Sms (bacterial rad 26.6 40 0.00087 37.5 2.1 28 677-704 1-28 (372)
86 cd02952 TRP14_like Human TRX-r 26.3 1E+02 0.0023 29.3 4.4 79 59-144 8-100 (119)
87 PF01053 Cys_Met_Meta_PP: Cys/ 26.2 86 0.0019 35.1 4.5 48 97-147 126-182 (386)
88 cd02068 radical_SAM_B12_BD B12 26.0 3E+02 0.0065 25.2 7.3 89 50-143 17-127 (127)
89 cd00167 SANT 'SWI3, ADA2, N-Co 25.8 1.1E+02 0.0024 22.1 3.6 37 613-664 9-45 (45)
90 cd02951 SoxW SoxW family; SoxW 25.7 1E+02 0.0022 27.8 4.2 95 60-161 3-119 (125)
91 PF14445 Prok-RING_2: Prokaryo 25.5 6.8 0.00015 33.2 -3.1 33 676-708 7-40 (57)
92 cd02997 PDI_a_PDIR PDIa family 25.4 1.5E+02 0.0033 25.1 4.9 80 52-144 2-85 (104)
93 PF04216 FdhE: Protein involve 25.1 86 0.0019 33.4 4.1 28 676-703 172-210 (290)
94 PF00085 Thioredoxin: Thioredo 24.3 1.4E+02 0.003 25.1 4.4 75 60-144 6-81 (103)
95 PF13832 zf-HC5HC2H_2: PHD-zin 24.2 38 0.00083 30.6 1.1 33 676-709 55-89 (110)
96 PF00875 DNA_photolyase: DNA p 23.7 1.6E+02 0.0035 28.1 5.3 85 59-162 54-157 (165)
97 PF10497 zf-4CXXC_R1: Zinc-fin 23.2 36 0.00078 31.9 0.8 57 672-731 3-69 (105)
98 PF10058 DUF2296: Predicted in 23.2 57 0.0012 27.4 1.8 32 690-732 22-53 (54)
99 TIGR01068 thioredoxin thioredo 23.0 2.4E+02 0.0053 23.4 5.7 75 60-144 3-78 (101)
100 KOG4718 Non-SMC (structural ma 23.0 34 0.00074 36.3 0.6 41 677-730 182-223 (235)
101 cd02957 Phd_like Phosducin (Ph 22.4 1.8E+02 0.0038 26.2 5.0 72 61-144 12-86 (113)
102 PF07754 DUF1610: Domain of un 22.1 53 0.0012 24.0 1.3 11 720-730 13-23 (24)
103 KOG1283 Serine carboxypeptidas 21.7 82 0.0018 35.7 3.2 89 68-186 28-131 (414)
104 TIGR00416 sms DNA repair prote 21.7 54 0.0012 37.4 1.9 29 675-703 6-34 (454)
105 PRK00109 Holliday junction res 21.6 2.1E+02 0.0045 27.8 5.6 28 125-153 79-107 (138)
106 COG1773 Rubredoxin [Energy pro 21.2 78 0.0017 27.2 2.3 24 703-731 21-44 (55)
107 PF10673 DUF2487: Protein of u 21.0 1.1E+02 0.0023 30.5 3.5 30 111-140 54-90 (142)
108 PRK06176 cystathionine gamma-s 20.6 1.6E+02 0.0035 32.4 5.2 106 37-145 29-173 (380)
109 KOG2824 Glutaredoxin-related p 20.5 1.1E+02 0.0023 33.7 3.7 27 675-708 228-254 (281)
110 cd05126 Mth938 Mth938 domain. 20.4 2.3E+02 0.005 27.0 5.5 69 68-138 3-90 (117)
111 PRK00162 glpE thiosulfate sulf 20.3 2.8E+02 0.006 24.6 5.7 90 56-149 5-97 (108)
112 COG2888 Predicted Zn-ribbon RN 20.0 71 0.0015 28.0 1.8 45 676-730 9-57 (61)
No 1
>smart00501 BRIGHT BRIGHT, ARID (A/T-rich interaction domain) domain. DNA-binding domain containing a helix-turn-helix structure
Probab=99.85 E-value=1.7e-21 Score=170.14 Aligned_cols=89 Identities=30% Similarity=0.568 Sum_probs=81.0
Q ss_pred CHHHHHHHHHHHHHHhCCccccCCCCCCCCCCcccCCeechhhHHHHHHHhcCceeeccC-CCChHHHHhhccCCCCCCc
Q 004566 570 SEEEFLRDVMQFLILRGHTRLVPQGGLAEFPDAILNAKRLDLFNLYREVVSRGGFHVGNG-INWKGQVFSKMRNHTLTNR 648 (745)
Q Consensus 570 ~~EeFL~dL~qFhesRGtp~eiP~G~ls~fP~PvVgGK~LDLykLYreV~sRGGF~kVnk-kkWk~EV~~~Mgn~~~p~t 648 (745)
+.++|+++|++||+.+|+++.. .|+|+|++||||+||++|+++|||++|+. ++|. +|+++|+ ++.+
T Consensus 2 ~~~~F~~~L~~F~~~~g~~~~~---------~P~i~g~~vdL~~Ly~~V~~~GG~~~v~~~~~W~-~Va~~lg---~~~~ 68 (93)
T smart00501 2 ERVLFLDRLYKFMEERGSPLKK---------IPVIGGKPLDLYRLYRLVQERGGYDQVTKDKKWK-EIARELG---IPDT 68 (93)
T ss_pred cHHHHHHHHHHHHHHcCCcCCc---------CCeECCEeCcHHHHHHHHHHccCHHHHcCCCCHH-HHHHHhC---CCcc
Confidence 5789999999999999998753 57999999999999999999999999965 5799 9999999 5566
Q ss_pred cccHHHHHHHHHHHhhhhhhhcc
Q 004566 649 MTGVGNTLKRHYETYLLEYELAH 671 (745)
Q Consensus 649 ~TSag~~LK~hYERyLleYE~aH 671 (745)
++++++.||++|+|||++||..+
T Consensus 69 ~~~~~~~lk~~Y~k~L~~yE~~~ 91 (93)
T smart00501 69 STSAASSLRKHYERYLLPFERFL 91 (93)
T ss_pred cchHHHHHHHHHHHHhHHHHHHh
Confidence 89999999999999999999865
No 2
>PF01388 ARID: ARID/BRIGHT DNA binding domain; InterPro: IPR001606 Members of the recently discovered ARID (AT-rich interaction domain; also known as BRIGHT domain)) family of DNA-binding proteins are found in fungi and invertebrate and vertebrate metazoans. ARID-encoding genes are involved in a variety of biological processes including embryonic development, cell lineage gene regulation and cell cycle control. Although the specific roles of this domain and of ARID-containing proteins in transcriptional regulation are yet to be elucidated, they include both positive and negative transcriptional regulation and a likely involvement in the modification of chromatin structure []. The basic structure of the ARID domain domain appears to be a series of six alpha-helices separated by beta-strands, loops, or turns, but the structured region may extend to an additional helix at either or both ends of the basic six. Based on primary sequence homology, they can be partitioned into three structural classes: Minimal ARID proteins that consist of a core domain formed by six alpha helices; ARID proteins that supplement the core domain with an N-terminal alpha-helix; and Extended-ARID proteins, which contain the core domain and additional alpha-helices at their N- and C-termini. The human SWI-SNF complex protein p270 is an ARID family member with non-sequence-specific DNA binding activity. The ARID consensus and other structural features are common to both p270 and yeast SWI1, suggesting that p270 is a human counterpart of SWI1 []. The approximately 100-residue ARID sequence is present in a series of proteins strongly implicated in the regulation of cell growth, development, and tissue-specific gene expression. Although about a dozen ARID proteins can be identified from database searches, to date, only Bright (a regulator of B-cell-specific gene expression), dead ringer (a Drosophila melanogaster gene product required for normal development), and MRF-2 (which represses expression from the Cytomegalovirus enhancer) have been analyzed directly in regard to their DNA binding properties. Each binds preferentially to AT-rich sites. In contrast, p270 shows no sequence preference in its DNA binding activity, thereby demonstrating that AT-rich binding is not an intrinsic property of ARID domains and that ARID family proteins may be involved in a wider range of DNA interactions [].; GO: 0003677 DNA binding, 0005622 intracellular; PDB: 1C20_A 1KQQ_A 2JRZ_A 2LM1_A 2YQE_A 2JXJ_A 2EH9_A 2CXY_A 2LI6_A 1KN5_A ....
Probab=99.81 E-value=2.9e-20 Score=160.79 Aligned_cols=86 Identities=33% Similarity=0.636 Sum_probs=75.1
Q ss_pred CHHHHHHHHHHHHHHhCCccccCCCCCCCCCCcccCCeechhhHHHHHHHhcCceeeccC-CCChHHHHhhccCCCCCCc
Q 004566 570 SEEEFLRDVMQFLILRGHTRLVPQGGLAEFPDAILNAKRLDLFNLYREVVSRGGFHVGNG-INWKGQVFSKMRNHTLTNR 648 (745)
Q Consensus 570 ~~EeFL~dL~qFhesRGtp~eiP~G~ls~fP~PvVgGK~LDLykLYreV~sRGGF~kVnk-kkWk~EV~~~Mgn~~~p~t 648 (745)
.+++|+++|++||+++|+++.. .|.++|++||||+||++|+++|||++|+. ++|. +|+++|+ ++..
T Consensus 6 ~~~~F~~~L~~f~~~~g~~~~~---------~P~i~g~~vDL~~Ly~~V~~~GG~~~V~~~~~W~-~va~~lg---~~~~ 72 (92)
T PF01388_consen 6 EREQFLEQLREFHESRGTPIDR---------PPVIGGKPVDLYKLYKAVMKRGGFDKVTKNKKWR-EVARKLG---FPPS 72 (92)
T ss_dssp HHHHHHHHHHHHHHHTTSSSSS----------SEETTSE-SHHHHHHHHHHHTSHHHHHHHTTHH-HHHHHTT---S-TT
T ss_pred HHHHHHHHHHHHHHHcCCCCCC---------CCcCCCEeCcHHHHHHHHHhCcCcccCcccchHH-HHHHHhC---CCCC
Confidence 4789999999999999999743 57999999999999999999999999954 5799 9999998 4555
Q ss_pred cccHHHHHHHHHHHhhhhhh
Q 004566 649 MTGVGNTLKRHYETYLLEYE 668 (745)
Q Consensus 649 ~TSag~~LK~hYERyLleYE 668 (745)
.++.++.||++|++||++||
T Consensus 73 ~~~~~~~L~~~Y~~~L~~fE 92 (92)
T PF01388_consen 73 STSAAQQLRQHYEKYLLPFE 92 (92)
T ss_dssp SCHHHHHHHHHHHHHTHHHH
T ss_pred CCcHHHHHHHHHHHHhHhhC
Confidence 66669999999999999998
No 3
>KOG2744 consensus DNA-binding proteins Bright/BRCAA1/RBP1 and related proteins containing BRIGHT domain [Transcription]
Probab=99.66 E-value=6.1e-17 Score=179.46 Aligned_cols=91 Identities=33% Similarity=0.542 Sum_probs=84.1
Q ss_pred CCHHHHHHHHHHHHHHhCCccccCCCCCCCCCCcccCCeechhhHHHHHHHhcCceeec-cCCCChHHHHhhccCCCCCC
Q 004566 569 CSEEEFLRDVMQFLILRGHTRLVPQGGLAEFPDAILNAKRLDLFNLYREVVSRGGFHVG-NGINWKGQVFSKMRNHTLTN 647 (745)
Q Consensus 569 ~~~EeFL~dL~qFhesRGtp~eiP~G~ls~fP~PvVgGK~LDLykLYreV~sRGGF~kV-nkkkWk~EV~~~Mgn~~~p~ 647 (745)
.+.|+||+||++||++||++++ +.|+|+|++||||.||.+|+++||+++| +++.|+ +|...++ +|.
T Consensus 162 ~~~eeF~~dl~~f~~~~~~~~~---------~iPii~~~~ldL~~Ly~lV~s~GG~~~V~~~k~Wr-ev~~~l~---~pt 228 (512)
T KOG2744|consen 162 KSSEEFMEDLRRFMKKRGTKVK---------SIPIIGGQPLDLHWLYALVTSRGGLDEVTNKKLWR-EVIDGLN---FPT 228 (512)
T ss_pred ccHHHHHHHHHHHHHHhCCcce---------eccccCCCcchHHHHHHHHhcCCchhHhhhhhhHH-HHhcccc---CCC
Confidence 4899999999999999999996 2569999999999999999999999999 677999 9999887 666
Q ss_pred -ccccHHHHHHHHHHHhhhhhhhccC
Q 004566 648 -RMTGVGNTLKRHYETYLLEYELAHD 672 (745)
Q Consensus 648 -t~TSag~~LK~hYERyLleYE~aHD 672 (745)
++|+++++||++|.|||++||..|.
T Consensus 229 ~tiTsaaf~lr~~y~K~L~~ye~~~~ 254 (512)
T KOG2744|consen 229 PTITSAAFTLRKQYLKLLFEYECEFE 254 (512)
T ss_pred cccchHHHHHHHHHHHHHHHHHHHHH
Confidence 9999999999999999999999774
No 4
>KOG2510 consensus SWI-SNF chromatin-remodeling complex protein [Chromatin structure and dynamics]
Probab=98.83 E-value=1.3e-08 Score=112.51 Aligned_cols=106 Identities=25% Similarity=0.349 Sum_probs=85.4
Q ss_pred cccCcchhhhhcccccCCCCccCCCCCCCCCcCCCHHHHHHHHHHHHHHhCCccccCCCCCCCCCCcccCCeechhhHHH
Q 004566 536 RKSLSSSYQAQQIISLNPLPLKKHGCGRAPIQVCSEEEFLRDVMQFLILRGHTRLVPQGGLAEFPDAILNAKRLDLFNLY 615 (745)
Q Consensus 536 r~~~~~~~~~~~~~~~~P~p~k~h~~~R~pl~~~~~EeFL~dL~qFhesRGtp~eiP~G~ls~fP~PvVgGK~LDLykLY 615 (745)
|++.+.+.+...|..+|-+-. ....+++.+.|+.|++.|.+++.. -|.++.|+||||+||
T Consensus 270 rss~ssttt~~~iTklYelg~-----------qp~r~~wvDR~raF~ee~~Sp~t~---------~p~~gakPldl~rlY 329 (532)
T KOG2510|consen 270 RSSSSSTTTNEKITKLYELGG-----------QPERKEWVDRLRAFTEERASPMTN---------LPAVGAKPLDLYRLY 329 (532)
T ss_pred cccccceeccccccccccccc-----------CcchhhHHHHHHHHHHhhcCcccc---------cccccccchhHHHHH
Confidence 444444445445666654322 345789999999999999998853 258999999999999
Q ss_pred HHHHhcCceeeccCCCChHHHHhhccCCCCCCccccHHHHHHHHHHHhhhhhhhcc
Q 004566 616 REVVSRGGFHVGNGINWKGQVFSKMRNHTLTNRMTGVGNTLKRHYETYLLEYELAH 671 (745)
Q Consensus 616 reV~sRGGF~kVnkkkWk~EV~~~Mgn~~~p~t~TSag~~LK~hYERyLleYE~aH 671 (745)
..|+.+||+..|++.+ + |++..++ .++++.||++|.+||+.||+.-
T Consensus 330 vsvke~gg~~~v~knk-r-d~a~~lg--------ssaa~~l~k~y~~~lf~fec~f 375 (532)
T KOG2510|consen 330 VSVKEIGGLTQVNKNK-R-DLATNLG--------SSAASSLKKQYIQYLFAFECKF 375 (532)
T ss_pred HHHHHhccceeeccch-h-hhhhccc--------hHHHHHHHHHHHHHHHhhceee
Confidence 9999999999998877 7 8888765 5889999999999999999865
No 5
>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=98.32 E-value=1.4e-07 Score=74.03 Aligned_cols=49 Identities=27% Similarity=0.700 Sum_probs=37.5
Q ss_pred ccccccCC-CCCCeEecCCCCCccccCcccCCCCCcccCccccCCceeecCCCcc
Q 004566 678 CCLLCHSS-AAGDWVNCGICGEWAHFGCDRRQGLGAFKDYAKTDGLEYVCPQCSV 731 (745)
Q Consensus 678 ~C~~C~~~-~~e~wi~CD~Cd~wyH~~C~~~~~~g~fkd~ak~dg~~Y~CP~Cs~ 731 (745)
+|..|+.. +++.||.||.|++|||..|+.++.. .....+ ..|.||.|..
T Consensus 1 ~C~vC~~~~~~~~~i~C~~C~~~~H~~C~~~~~~----~~~~~~-~~w~C~~C~~ 50 (51)
T PF00628_consen 1 YCPVCGQSDDDGDMIQCDSCNRWYHQECVGPPEK----AEEIPS-GDWYCPNCRP 50 (51)
T ss_dssp EBTTTTSSCTTSSEEEBSTTSCEEETTTSTSSHS----HHSHHS-SSBSSHHHHH
T ss_pred eCcCCCCcCCCCCeEEcCCCChhhCcccCCCChh----hccCCC-CcEECcCCcC
Confidence 48899886 4889999999999999999999852 111111 1699999964
No 6
>smart00249 PHD PHD zinc finger. The plant homeodomain (PHD) finger is a C4HC3 zinc-finger-like motif found in nuclear proteins thought to be involved in epigenetics and chromatin-mediated transcriptional regulation. The PHD finger binds two zinc ions using the so-called 'cross-brace' motif and is thus structurally related to the KOG1973 consensus Chromatin remodeling protein, contains PHD Zn-finger [Chromatin structure and dynamics]
Probab=97.90 E-value=4.4e-06 Score=87.20 Aligned_cols=51 Identities=33% Similarity=0.835 Sum_probs=43.5
Q ss_pred cccccccCCCCCCeEecCC--CC-CccccCcccCCCCCcccCccccCCceeecCCCccccccCC
Q 004566 677 ECCLLCHSSAAGDWVNCGI--CG-EWAHFGCDRRQGLGAFKDYAKTDGLEYVCPQCSVTNFKKK 737 (745)
Q Consensus 677 ~~C~~C~~~~~e~wi~CD~--Cd-~wyH~~C~~~~~~g~fkd~ak~dg~~Y~CP~Cs~~~~~k~ 737 (745)
..| .|...+.+.||.||. |. +|||+.|+.++. .||+. |.||.|..+..++.
T Consensus 220 ~yC-~Cnqvsyg~Mi~CDn~~C~~eWFH~~CVGL~~------~Pkgk---WyC~~C~~~~~~~~ 273 (274)
T KOG1973|consen 220 TYC-ICNQVSYGKMIGCDNPGCPIEWFHFTCVGLKT------KPKGK---WYCPRCKAENKKKG 273 (274)
T ss_pred EEE-EecccccccccccCCCCCCcceEEEecccccc------CCCCc---ccchhhhhhhhccC
Confidence 455 466677899999999 99 999999998874 78887 99999999887664
No 8
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=97.44 E-value=5.1e-05 Score=88.28 Aligned_cols=50 Identities=20% Similarity=0.437 Sum_probs=42.1
Q ss_pred cccccccCCC-CCCeEecCCCCCc-cccCcccCCCCCcccCccccCCceeecCCCcccc
Q 004566 677 ECCLLCHSSA-AGDWVNCGICGEW-AHFGCDRRQGLGAFKDYAKTDGLEYVCPQCSVTN 733 (745)
Q Consensus 677 ~~C~~C~~~~-~e~wi~CD~Cd~w-yH~~C~~~~~~g~fkd~ak~dg~~Y~CP~Cs~~~ 733 (745)
.-|.+|+..+ ++.+|+||+|++- ||.+|+-+++. +.+.+ +|.|++|+.-+
T Consensus 216 ~~C~IC~~~DpEdVLLLCDsCN~~~YH~YCLDPdl~----eiP~~---eWYC~NC~dL~ 267 (1134)
T KOG0825|consen 216 VKCDICTVHDPEDVLLLCDSCNKVYYHVYCLDPDLS----ESPVN---EWYCTNCSLLE 267 (1134)
T ss_pred ccceeeccCChHHhheeecccccceeeccccCcccc----ccccc---ceecCcchhhh
Confidence 5799999998 8899999999999 99999999862 44545 49999998543
No 9
>PF12770 CHAT: CHAT domain
Probab=97.35 E-value=0.0025 Score=64.01 Aligned_cols=137 Identities=23% Similarity=0.272 Sum_probs=109.6
Q ss_pred cccCceEEEEccCCCHHHHHHHHHhhCCCEEEEeccccCC--cCceeeeeec-----cCCCCCHHHHhhhhCCCCCcEEE
Q 004566 45 ASSGRLEVHLLSSPSTDEFRRLLESSEPNIVYLQGEKIND--SEEIGSLVWG-----DVDLSTPEALCGLFGSTLPTTVY 117 (745)
Q Consensus 45 ~ssgrlev~~l~~pt~~e~~~~~~~~~p~f~y~~g~~~~~--~~eig~l~~~-----~~d~~~~~~l~~l~~~~~p~~vY 117 (745)
...+..++.+..+.|.++|.+.++..++++|+|.|--..+ ...-+.|.+. +.+..+.++|..+ .-.-+..|+
T Consensus 116 ~~~~~~~~~~~~~at~~~l~~~l~~~~~~ilH~a~Hg~~~~~~~~~~~l~l~~~~~~~~~~l~~~~l~~l-~l~~~~lVv 194 (287)
T PF12770_consen 116 LGAGGLRVLVGPEATKDALLEALERRGPDILHFAGHGTFDPDPPDQSGLVLSDESGQEDGLLSAEELAQL-DLRGPRLVV 194 (287)
T ss_pred hcccceeEeeccCCCHHHHHhhhccCCCCEEEEEcccccCCCCCCCCEEEEeccCCCCCcccCHHHHHhh-cCCCCCEEE
Confidence 4455569999999999999999999999999999866655 3456677776 4567888888883 222289999
Q ss_pred EecCCch-----------hHHHHHHhcCCCEEEEcCCCchhhHHHHHHHHHHHHHhhcCCCcchhHHHhhcceeeee
Q 004566 118 LEIPNGE-----------NFAEALHSRGVPYVIYWKHSFSCYAACHFLQALLSVVQSSCSHTWDAFQLAHASFRLYC 183 (745)
Q Consensus 118 le~~~~e-----------~~a~al~~kGv~yviyW~~~~s~~aA~HFr~Al~s~~qss~s~~~dAFqlA~aSf~lyC 183 (745)
|-.=++. .|+.+|...|++.||.+.-..+-.+|.-|=..|..-+.. .-...+|++.|+...+--.
T Consensus 195 LsaC~s~~~~~~~~~~~~~l~~~~l~aG~~~Vi~~~w~V~d~~a~~f~~~fY~~L~~-g~~~~~Al~~Ar~~l~~~~ 270 (287)
T PF12770_consen 195 LSACESASGDPSDGDEVLGLARAFLQAGAPAVIGMLWPVPDQAAARFMRRFYRALLQ-GQSVAEALRQARRALRRDS 270 (287)
T ss_pred ecCcCCcCCCCCCchHHHHHHHHHHHcCCCEEEecccCcchHHHHHHHHHHHHhhhc-CCCHHHHHHHHHHHHHhcC
Confidence 9777666 799999999999999999998888887777777777776 6788899999988765433
No 10
>KOG1632 consensus Uncharacterized PHD Zn-finger protein [General function prediction only]
Probab=96.84 E-value=0.00012 Score=79.26 Aligned_cols=58 Identities=29% Similarity=0.532 Sum_probs=48.5
Q ss_pred ccccccccccCCC--CCCeEecCCCCCccccCcccCCCCCcccCccccCCc-e----eecCCCccccccCCC
Q 004566 674 VDGECCLLCHSSA--AGDWVNCGICGEWAHFGCDRRQGLGAFKDYAKTDGL-E----YVCPQCSVTNFKKKS 738 (745)
Q Consensus 674 vd~~~C~~C~~~~--~e~wi~CD~Cd~wyH~~C~~~~~~g~fkd~ak~dg~-~----Y~CP~Cs~~~~~k~~ 738 (745)
..+++|..||-.+ ..+|++||.|+.|||+.|+.+. .++..++ . |+||+|....+.|+.
T Consensus 237 ~~~~~~~~cg~~~~~~~~~~~~~~~e~w~~~~~v~~~-------~a~~~~~~~~~~~~~c~~~~~~~~~k~~ 301 (345)
T KOG1632|consen 237 YSKLICDPCGLSDANKKFEICCDLCESWFHGDCVQIF-------EARKRLNEIRNEVYKCPHCTVLKFEKKR 301 (345)
T ss_pred cccccccccCcchHHHHHHHHHHHHHHHhcccccccc-------cchhhhhhhhccceecCceeecccchhh
Confidence 3348999999863 5899999999999999999998 4666665 6 999999998887764
No 11
>KOG1244 consensus Predicted transcription factor Requiem/NEURO-D4 [Transcription]
Probab=96.83 E-value=0.0004 Score=73.50 Aligned_cols=49 Identities=18% Similarity=0.430 Sum_probs=41.9
Q ss_pred cccccccCC-CCCCeEecCCCCCccccCcccCCCCCcccCccccCCceeecCCCccc
Q 004566 677 ECCLLCHSS-AAGDWVNCGICGEWAHFGCDRRQGLGAFKDYAKTDGLEYVCPQCSVT 732 (745)
Q Consensus 677 ~~C~~C~~~-~~e~wi~CD~Cd~wyH~~C~~~~~~g~fkd~ak~dg~~Y~CP~Cs~~ 732 (745)
..|-+||.+ +++.++-||-||+.||.+|+.|+. ..++.|- |-|.-|-.+
T Consensus 282 k~csicgtsenddqllfcddcdrgyhmyclsppm----~eppegs---wsc~KOG~~ 331 (336)
T KOG1244|consen 282 KYCSICGTSENDDQLLFCDDCDRGYHMYCLSPPM----VEPPEGS---WSCHLCLEE 331 (336)
T ss_pred ceeccccCcCCCceeEeecccCCceeeEecCCCc----CCCCCCc---hhHHHHHHH
Confidence 468889888 488999999999999999999997 4788775 999988643
No 12
>KOG4299 consensus PHD Zn-finger protein [General function prediction only]
Probab=96.44 E-value=0.0013 Score=75.59 Aligned_cols=50 Identities=22% Similarity=0.550 Sum_probs=41.7
Q ss_pred cccccccCCC-CCCeEecCCCCCccccCcccCCCCCcccCccccCCceeecCCCcc
Q 004566 677 ECCLLCHSSA-AGDWVNCGICGEWAHFGCDRRQGLGAFKDYAKTDGLEYVCPQCSV 731 (745)
Q Consensus 677 ~~C~~C~~~~-~e~wi~CD~Cd~wyH~~C~~~~~~g~fkd~ak~dg~~Y~CP~Cs~ 731 (745)
.+|-.|++.. --+.|+||+|.+.||+.|+-||+ .=.+.+.+. |.||.|.-
T Consensus 254 ~fCsaCn~~~~F~~~i~CD~Cp~sFH~~CLePPl--~~eniP~g~---W~C~ec~~ 304 (613)
T KOG4299|consen 254 DFCSACNGSGLFNDIICCDGCPRSFHQTCLEPPL--EPENIPPGS---WFCPECKI 304 (613)
T ss_pred HHHHHhCCccccccceeecCCchHHHHhhcCCCC--CcccCCCCc---cccCCCee
Confidence 4999999885 46889999999999999999995 234667775 99999963
No 13
>KOG1512 consensus PHD Zn-finger protein [General function prediction only]
Probab=96.33 E-value=0.0011 Score=70.66 Aligned_cols=72 Identities=19% Similarity=0.518 Sum_probs=54.7
Q ss_pred ccccHHHHHHHHHHHhhhhhhhccCcccccccccccCC-CCCCeEecCCCCCccccCcccCCCCCcccCccccCCceeec
Q 004566 648 RMTGVGNTLKRHYETYLLEYELAHDDVDGECCLLCHSS-AAGDWVNCGICGEWAHFGCDRRQGLGAFKDYAKTDGLEYVC 726 (745)
Q Consensus 648 t~TSag~~LK~hYERyLleYE~aHDDvd~~~C~~C~~~-~~e~wi~CD~Cd~wyH~~C~~~~~~g~fkd~ak~dg~~Y~C 726 (745)
.|-...--|-..|..|.|.-- +=.+|.+|+.. .++-++-||.||+.||++|+.- ++.+.|+ |+|
T Consensus 292 ~Ci~M~~elv~~~KTY~W~C~------~C~lC~IC~~P~~E~E~~FCD~CDRG~HT~CVGL------~~lP~G~---WIC 356 (381)
T KOG1512|consen 292 YCVAMIPELVGQYKTYFWKCS------SCELCRICLGPVIESEHLFCDVCDRGPHTLCVGL------QDLPRGE---WIC 356 (381)
T ss_pred cchhcCHHHHhHHhhcchhhc------ccHhhhccCCcccchheeccccccCCCCcccccc------ccccCcc---chh
Confidence 355556677778888776542 34679999988 4889999999999999999955 4678887 999
Q ss_pred C-CCccccc
Q 004566 727 P-QCSVTNF 734 (745)
Q Consensus 727 P-~Cs~~~~ 734 (745)
- .|..++-
T Consensus 357 D~~C~~~~~ 365 (381)
T KOG1512|consen 357 DMRCREATL 365 (381)
T ss_pred hhHHHHhcC
Confidence 7 4654443
No 14
>KOG4443 consensus Putative transcription factor HALR/MLL3, involved in embryonic development [General function prediction only]
Probab=95.51 E-value=0.0059 Score=70.78 Aligned_cols=47 Identities=17% Similarity=0.571 Sum_probs=39.8
Q ss_pred cccccccCC-CCCCeEecCCCCCccccCcccCCCCCcccCccccCCceeecCCCc
Q 004566 677 ECCLLCHSS-AAGDWVNCGICGEWAHFGCDRRQGLGAFKDYAKTDGLEYVCPQCS 730 (745)
Q Consensus 677 ~~C~~C~~~-~~e~wi~CD~Cd~wyH~~C~~~~~~g~fkd~ak~dg~~Y~CP~Cs 730 (745)
..|..||.. +......|+.||..||.+|..|++ +.+..+. |+|++|.
T Consensus 69 rvCe~c~~~gD~~kf~~Ck~cDvsyh~yc~~P~~----~~v~sg~---~~ckk~~ 116 (694)
T KOG4443|consen 69 RVCEACGTTGDPKKFLLCKRCDVSYHCYCQKPPN----DKVPSGP---WLCKKCT 116 (694)
T ss_pred eeeeeccccCCcccccccccccccccccccCCcc----ccccCcc---cccHHHH
Confidence 467888855 577889999999999999999997 5777776 9999996
No 15
>KOG0957 consensus PHD finger protein [General function prediction only]
Probab=95.49 E-value=0.0057 Score=69.29 Aligned_cols=50 Identities=22% Similarity=0.506 Sum_probs=42.3
Q ss_pred ccccccccCCC-CCCeEecCCCCCccccCcccCCCCCcccCccccCCc-eeecCCC
Q 004566 676 GECCLLCHSSA-AGDWVNCGICGEWAHFGCDRRQGLGAFKDYAKTDGL-EYVCPQC 729 (745)
Q Consensus 676 ~~~C~~C~~~~-~e~wi~CD~Cd~wyH~~C~~~~~~g~fkd~ak~dg~-~Y~CP~C 729 (745)
.|.|++|..+. .-.++.||-|...||.+|+.||++ ..+|-... -|.|-.|
T Consensus 544 ~ysCgiCkks~dQHll~~CDtC~lhYHlGCL~PPLT----R~Pkk~kn~gWqCsEC 595 (707)
T KOG0957|consen 544 NYSCGICKKSTDQHLLTQCDTCHLHYHLGCLSPPLT----RLPKKNKNFGWQCSEC 595 (707)
T ss_pred ceeeeeeccchhhHHHhhcchhhceeeccccCCccc----cCcccccCcceeeccc
Confidence 47999998885 569999999999999999999985 45555533 7999999
No 16
>KOG1245 consensus Chromatin remodeling complex WSTF-ISWI, large subunit (contains heterochromatin localization, PHD and BROMO domains) [Chromatin structure and dynamics]
Probab=95.28 E-value=0.0056 Score=76.51 Aligned_cols=51 Identities=22% Similarity=0.503 Sum_probs=45.0
Q ss_pred ccccccccCCC-CCCeEecCCCCCccccCcccCCCCCcccCccccCCceeecCCCcccc
Q 004566 676 GECCLLCHSSA-AGDWVNCGICGEWAHFGCDRRQGLGAFKDYAKTDGLEYVCPQCSVTN 733 (745)
Q Consensus 676 ~~~C~~C~~~~-~e~wi~CD~Cd~wyH~~C~~~~~~g~fkd~ak~dg~~Y~CP~Cs~~~ 733 (745)
...|..|...+ ++.++.||.|..|||.+|.++.. ..++.+| |-||.|..+-
T Consensus 1108 ~~~c~~cr~k~~~~~m~lc~~c~~~~h~~C~rp~~----~~~~~~d---W~C~~c~~e~ 1159 (1404)
T KOG1245|consen 1108 NALCKVCRRKKQDEKMLLCDECLSGFHLFCLRPAL----SSVPPGD---WMCPSCRKEH 1159 (1404)
T ss_pred hhhhhhhhhcccchhhhhhHhhhhhHHHHhhhhhh----ccCCcCC---ccCCccchhh
Confidence 37999998875 77999999999999999999986 5788887 9999998665
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=95.24 E-value=0.015 Score=65.21 Aligned_cols=54 Identities=28% Similarity=0.882 Sum_probs=37.5
Q ss_pred ccccccCCC----CCCeEecCCCCCccccCcccCCCC-CcccCccccCC---ceeecCCCcc
Q 004566 678 CCLLCHSSA----AGDWVNCGICGEWAHFGCDRRQGL-GAFKDYAKTDG---LEYVCPQCSV 731 (745)
Q Consensus 678 ~C~~C~~~~----~e~wi~CD~Cd~wyH~~C~~~~~~-g~fkd~ak~dg---~~Y~CP~Cs~ 731 (745)
.|.+|+.-| .-.||.||+|+-|-|.-|..+... |++....-+-| ++|.|-.|-.
T Consensus 130 ~C~iC~kfD~~~n~~~Wi~Cd~CgH~cH~dCALr~~~i~~G~s~~g~~g~~d~~f~C~~C~~ 191 (446)
T PF07227_consen 130 MCCICSKFDDNKNTCSWIGCDVCGHWCHLDCALRHELIGTGPSVKGSIGTLDMQFHCRACGK 191 (446)
T ss_pred CccccCCcccCCCCeeEEeccCCCceehhhhhcccccccCCccCCCCCccCceEEEccCCCC
Confidence 344555542 459999999999999999999864 44443322222 3999999963
No 18
>KOG0383 consensus Predicted helicase [General function prediction only]
Probab=94.63 E-value=0.011 Score=69.32 Aligned_cols=46 Identities=24% Similarity=0.652 Sum_probs=36.8
Q ss_pred ccccccccCCCCCCeEecCCCCCccccCcccCCCCCcccCccccCCceeecCCCc
Q 004566 676 GECCLLCHSSAAGDWVNCGICGEWAHFGCDRRQGLGAFKDYAKTDGLEYVCPQCS 730 (745)
Q Consensus 676 ~~~C~~C~~~~~e~wi~CD~Cd~wyH~~C~~~~~~g~fkd~ak~dg~~Y~CP~Cs 730 (745)
-..|.+|+.+..-.| ||.|-.|||.+|+.+++. +.+.++ |+|++|-
T Consensus 47 ~e~c~ic~~~g~~l~--c~tC~~s~h~~cl~~pl~----~~p~~~---~~c~Rc~ 92 (696)
T KOG0383|consen 47 QEACRICADGGELLW--CDTCPASFHASCLGPPLT----PQPNGE---FICPRCF 92 (696)
T ss_pred hhhhhhhcCCCcEEE--eccccHHHHHHccCCCCC----cCCccc---eeeeeec
Confidence 368999998865555 999999999999999973 444444 9999993
No 19
>COG5034 TNG2 Chromatin remodeling protein, contains PhD zinc finger [Chromatin structure and dynamics]
Probab=92.81 E-value=0.063 Score=56.87 Aligned_cols=42 Identities=33% Similarity=0.865 Sum_probs=36.3
Q ss_pred cccCCCCCCeEecCC--CC-CccccCcccCCCCCcccCccccCCceeecCCCcc
Q 004566 681 LCHSSAAGDWVNCGI--CG-EWAHFGCDRRQGLGAFKDYAKTDGLEYVCPQCSV 731 (745)
Q Consensus 681 ~C~~~~~e~wi~CD~--Cd-~wyH~~C~~~~~~g~fkd~ak~dg~~Y~CP~Cs~ 731 (745)
-|...+.|.||.||+ |. +|||..|+.. |.+|||- |.||.|..
T Consensus 225 fCqqvSyGqMVaCDn~nCkrEWFH~~CVGL------k~pPKG~---WYC~eCk~ 269 (271)
T COG5034 225 FCQQVSYGQMVACDNANCKREWFHLECVGL------KEPPKGK---WYCPECKK 269 (271)
T ss_pred EecccccccceecCCCCCchhheecccccc------CCCCCCc---EeCHHhHh
Confidence 688899999999997 54 6999999966 4699997 99999953
No 20
>KOG0955 consensus PHD finger protein BR140/LIN-49 [General function prediction only]
Probab=92.35 E-value=0.11 Score=63.70 Aligned_cols=63 Identities=22% Similarity=0.504 Sum_probs=45.8
Q ss_pred HHhhhhhhhccCc----ccccccccccCCC---CCCeEecCCCCCccccCcccCCCCCcccCccccCCceeecCCCccc
Q 004566 661 ETYLLEYELAHDD----VDGECCLLCHSSA---AGDWVNCGICGEWAHFGCDRRQGLGAFKDYAKTDGLEYVCPQCSVT 732 (745)
Q Consensus 661 ERyLleYE~aHDD----vd~~~C~~C~~~~---~e~wi~CD~Cd~wyH~~C~~~~~~g~fkd~ak~dg~~Y~CP~Cs~~ 732 (745)
|+++..||.-..+ +....|.+|..+. -...+-||+|+..+|..|.-++- .+.+ +|-|-+|.-.
T Consensus 200 e~~f~~~e~~~~~~~~~~~D~~C~iC~~~~~~n~n~ivfCD~Cnl~VHq~Cygi~~------ipeg---~WlCr~Cl~s 269 (1051)
T KOG0955|consen 200 ESYFKNYELGDPKDALLEEDAVCCICLDGECQNSNVIVFCDGCNLAVHQECYGIPF------IPEG---QWLCRRCLQS 269 (1051)
T ss_pred HHHhhhhhccCCCccccCCCccceeecccccCCCceEEEcCCCcchhhhhccCCCC------CCCC---cEeehhhccC
Confidence 3444445543322 4457999998874 37999999999999999998662 4555 4999999743
No 21
>KOG1246 consensus DNA-binding protein jumonji/RBP2/SMCY, contains JmjC domain [General function prediction only]
Probab=92.28 E-value=0.13 Score=61.95 Aligned_cols=61 Identities=23% Similarity=0.403 Sum_probs=48.6
Q ss_pred cCcccccccccccCCCCCCeEecCCCCCccccCcccCCCCCcccCccccCCceeecCCCccccccCCC
Q 004566 671 HDDVDGECCLLCHSSAAGDWVNCGICGEWAHFGCDRRQGLGAFKDYAKTDGLEYVCPQCSVTNFKKKS 738 (745)
Q Consensus 671 HDDvd~~~C~~C~~~~~e~wi~CD~Cd~wyH~~C~~~~~~g~fkd~ak~dg~~Y~CP~Cs~~~~~k~~ 738 (745)
.+-.+...|..|..+.++..+.||+|++.||.+|..++. ...++++ |+|++|...+++++.
T Consensus 150 ~~~~~~~~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~---~~~~~~~~~~~~~~~ 210 (904)
T KOG1246|consen 150 VEFIDYPQCNTCSKGKEEKLLLCDSCDDSYHTYCLRPPL----TRVPDGD---WRCPKCIPTPESKPN 210 (904)
T ss_pred cccccchhhhccccCCCccceecccccCcccccccCCCC----CcCCcCc---ccCCcccccccCCcc
Confidence 444567899999988644555999999999999999985 4566665 999999998877664
No 22
>KOG4323 consensus Polycomb-like PHD Zn-finger protein [General function prediction only]
Probab=91.24 E-value=0.09 Score=59.57 Aligned_cols=51 Identities=27% Similarity=0.661 Sum_probs=38.3
Q ss_pred ccccccCC---CCCCeEecCCCCCccccCcccCCCCCcccCccccCCc-eeecCCCccc
Q 004566 678 CCLLCHSS---AAGDWVNCGICGEWAHFGCDRRQGLGAFKDYAKTDGL-EYVCPQCSVT 732 (745)
Q Consensus 678 ~C~~C~~~---~~e~wi~CD~Cd~wyH~~C~~~~~~g~fkd~ak~dg~-~Y~CP~Cs~~ 732 (745)
.|-.|..+ .-..+|.||.|..|||.-|-.++- +|---+|-- +|.|-.|...
T Consensus 170 qc~vC~~g~~~~~NrmlqC~~C~~~fHq~Chqp~i----~~~l~~D~~~~w~C~~C~~~ 224 (464)
T KOG4323|consen 170 QCSVCYCGGPGAGNRMLQCDKCRQWYHQACHQPLI----KDELAGDPFYEWFCDVCNRG 224 (464)
T ss_pred eeeeeecCCcCccceeeeecccccHHHHHhccCCC----CHhhccCccceEeehhhccc
Confidence 38888654 223999999999999999999985 344444433 8999999743
No 23
>COG5141 PHD zinc finger-containing protein [General function prediction only]
Probab=88.32 E-value=0.3 Score=55.95 Aligned_cols=48 Identities=23% Similarity=0.468 Sum_probs=39.4
Q ss_pred cccccccCCC---CCCeEecCCCCCccccCcccCCCCCcccCccccCCceeecCCCcccc
Q 004566 677 ECCLLCHSSA---AGDWVNCGICGEWAHFGCDRRQGLGAFKDYAKTDGLEYVCPQCSVTN 733 (745)
Q Consensus 677 ~~C~~C~~~~---~e~wi~CD~Cd~wyH~~C~~~~~~g~fkd~ak~dg~~Y~CP~Cs~~~ 733 (745)
+.|..|.+.. ....+-||+|+-..|..|-.|+ +.+.|- |-|-+|.-++
T Consensus 194 ~~C~~c~~t~~eN~naiVfCdgC~i~VHq~CYGI~------f~peG~---WlCrkCi~~~ 244 (669)
T COG5141 194 DICTKCTSTHNENSNAIVFCDGCEICVHQSCYGIQ------FLPEGF---WLCRKCIYGE 244 (669)
T ss_pred hhhHhccccccCCcceEEEecCcchhhhhhcccce------ecCcch---hhhhhhcccc
Confidence 5777776663 4789999999999999999998 478775 9999997554
No 24
>KOG1844 consensus PHD Zn-finger proteins [General function prediction only]
Probab=83.68 E-value=0.6 Score=52.10 Aligned_cols=49 Identities=29% Similarity=0.635 Sum_probs=36.5
Q ss_pred cccccccCC-C-CCCeEecCCCCCccccCcccCCCCCcccCccccCCceeecCCCccccc
Q 004566 677 ECCLLCHSS-A-AGDWVNCGICGEWAHFGCDRRQGLGAFKDYAKTDGLEYVCPQCSVTNF 734 (745)
Q Consensus 677 ~~C~~C~~~-~-~e~wi~CD~Cd~wyH~~C~~~~~~g~fkd~ak~dg~~Y~CP~Cs~~~~ 734 (745)
..| .|+.. + +++++.|+.|..|=|..|..+.. ....- .|+|..|...++
T Consensus 87 ~~c-~c~~~~~~~g~~i~c~~c~~Wqh~~C~g~~~-----~~~p~---~y~c~~c~~~~~ 137 (508)
T KOG1844|consen 87 SRC-DCGLEDDMEGLMIQCDWCGRWQHKICCGSFK-----STKPD---KYVCEICTPRNK 137 (508)
T ss_pred ccc-ccccccCCCceeeCCcccCcccCceeeeecC-----CCCch---hceeeeeccccc
Confidence 444 46555 5 78999999999999999997763 22212 499999986654
No 25
>KOG1632 consensus Uncharacterized PHD Zn-finger protein [General function prediction only]
Probab=81.96 E-value=0.59 Score=51.25 Aligned_cols=37 Identities=27% Similarity=0.596 Sum_probs=29.2
Q ss_pred CeEecCCCCCccccCc--ccCCCCCcccCccccCCceeecCCCcc
Q 004566 689 DWVNCGICGEWAHFGC--DRRQGLGAFKDYAKTDGLEYVCPQCSV 731 (745)
Q Consensus 689 ~wi~CD~Cd~wyH~~C--~~~~~~g~fkd~ak~dg~~Y~CP~Cs~ 731 (745)
+++.||.|.+|||+.| +.++- ++.++- .+|+|..|.-
T Consensus 74 ~~~~cd~C~~~~~~ec~~v~~~~----~e~p~~--~~~~c~~c~~ 112 (345)
T KOG1632|consen 74 LMEQCDLCEDWYHGECWEVGTAE----KEAPKE--DPKVCDECKE 112 (345)
T ss_pred hhhccccccccccccccccCchh----hcCCcc--ccccccccch
Confidence 9999999999999999 88873 233322 3899999963
No 26
>KOG4443 consensus Putative transcription factor HALR/MLL3, involved in embryonic development [General function prediction only]
Probab=70.81 E-value=1.2 Score=52.48 Aligned_cols=52 Identities=31% Similarity=0.576 Sum_probs=35.8
Q ss_pred ccccccCC---CCCCeEecCCCCCccccCcccCCCCCcccCccccCCceeecCCCcc-cccc
Q 004566 678 CCLLCHSS---AAGDWVNCGICGEWAHFGCDRRQGLGAFKDYAKTDGLEYVCPQCSV-TNFK 735 (745)
Q Consensus 678 ~C~~C~~~---~~e~wi~CD~Cd~wyH~~C~~~~~~g~fkd~ak~dg~~Y~CP~Cs~-~~~~ 735 (745)
.|.+|++. .++.++-|--|+.-||.+|+..-.. -.+..++ |+||.|+. +.|.
T Consensus 20 mc~l~~s~G~~~ag~m~ac~~c~~~yH~~cvt~~~~--~~~l~~g----WrC~~crvCe~c~ 75 (694)
T KOG4443|consen 20 MCPLCGSSGKGRAGRLLACSDCGQKYHPYCVTSWAQ--HAVLSGG----WRCPSCRVCEACG 75 (694)
T ss_pred hhhhhccccccccCcchhhhhhcccCCcchhhHHHh--HHHhcCC----cccCCceeeeecc
Confidence 56666554 4889999999999999999985321 0112333 99999973 3443
No 27
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=65.84 E-value=4.2 Score=34.48 Aligned_cols=34 Identities=32% Similarity=0.621 Sum_probs=29.6
Q ss_pred ccccccccCC--CCCCeEecCCCCCccccCcccCCC
Q 004566 676 GECCLLCHSS--AAGDWVNCGICGEWAHFGCDRRQG 709 (745)
Q Consensus 676 ~~~C~~C~~~--~~e~wi~CD~Cd~wyH~~C~~~~~ 709 (745)
+..|..|+.. +.++.+.|..|+--||..|-..-+
T Consensus 5 ~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~~g 40 (54)
T PF14446_consen 5 GCKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEKAG 40 (54)
T ss_pred CccChhhCCcccCCCCEEECCCCCCcccHHHHhhCC
Confidence 5789999998 489999999999999999986653
No 28
>KOG0954 consensus PHD finger protein [General function prediction only]
Probab=64.53 E-value=5 Score=48.36 Aligned_cols=71 Identities=20% Similarity=0.376 Sum_probs=50.3
Q ss_pred HHHHHHHHHHhhhhhhhcc---------Ccc-------cccccccccCCC---CCCeEecCCCCCccccCcccCCCCCcc
Q 004566 653 GNTLKRHYETYLLEYELAH---------DDV-------DGECCLLCHSSA---AGDWVNCGICGEWAHFGCDRRQGLGAF 713 (745)
Q Consensus 653 g~~LK~hYERyLleYE~aH---------DDv-------d~~~C~~C~~~~---~e~wi~CD~Cd~wyH~~C~~~~~~g~f 713 (745)
...--..++|.|.+.|.-- .++ ..-.|-.|-++| ...|+-||.|.--.|..|-.|.
T Consensus 232 ~~l~~~~~eRiieelE~~c~kqi~~~l~~eeglgie~dedviCDvCrspD~e~~neMVfCd~Cn~cVHqaCyGIl----- 306 (893)
T KOG0954|consen 232 LELDEGTFERIIEELERRCKKQINHALETEEGLGIEYDEDVICDVCRSPDSEEANEMVFCDKCNICVHQACYGIL----- 306 (893)
T ss_pred cccchHHHHHHHHHHHHHHHHHHHhhhhhcccceeeccccceeceecCCCccccceeEEeccchhHHHHhhhcee-----
Confidence 3334455688888877621 111 224799998885 4589999999999999999887
Q ss_pred cCccccCCceeecCCCccc
Q 004566 714 KDYAKTDGLEYVCPQCSVT 732 (745)
Q Consensus 714 kd~ak~dg~~Y~CP~Cs~~ 732 (745)
+++. + .|.|-.|.-+
T Consensus 307 e~p~-g---pWlCr~Calg 321 (893)
T KOG0954|consen 307 EVPE-G---PWLCRTCALG 321 (893)
T ss_pred ecCC-C---Ceeehhcccc
Confidence 3333 3 4999999866
No 29
>KOG1512 consensus PHD Zn-finger protein [General function prediction only]
Probab=64.38 E-value=2.2 Score=46.57 Aligned_cols=55 Identities=18% Similarity=0.387 Sum_probs=41.0
Q ss_pred cccccccCC-------CCCCeEecCCCCCccccCcccCCC--CCcccCccccCCceeecCCCc-cccccCC
Q 004566 677 ECCLLCHSS-------AAGDWVNCGICGEWAHFGCDRRQG--LGAFKDYAKTDGLEYVCPQCS-VTNFKKK 737 (745)
Q Consensus 677 ~~C~~C~~~-------~~e~wi~CD~Cd~wyH~~C~~~~~--~g~fkd~ak~dg~~Y~CP~Cs-~~~~~k~ 737 (745)
..|+.|-.+ ..+.||+|.-|...||-+|+-.+- -|.+|-|. |.|-.|. -.-|.||
T Consensus 259 ~~~~~~~~~~~~~~~~r~~S~I~C~~C~~~~HP~Ci~M~~elv~~~KTY~------W~C~~C~lC~IC~~P 323 (381)
T KOG1512|consen 259 NERKHFWDIQTNIIQSRRNSWIVCKPCATRPHPYCVAMIPELVGQYKTYF------WKCSSCELCRICLGP 323 (381)
T ss_pred hhhhhhhcchhhhhhhhhccceeecccccCCCCcchhcCHHHHhHHhhcc------hhhcccHhhhccCCc
Confidence 579999543 378999999999999999986553 35556564 9999995 2345554
No 30
>PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=63.68 E-value=5.5 Score=40.56 Aligned_cols=42 Identities=31% Similarity=0.721 Sum_probs=33.3
Q ss_pred ccccccccCCC------CCCeEecCCCCCccccCcccCCCCCcccCccccCCceeecCCCcccc
Q 004566 676 GECCLLCHSSA------AGDWVNCGICGEWAHFGCDRRQGLGAFKDYAKTDGLEYVCPQCSVTN 733 (745)
Q Consensus 676 ~~~C~~C~~~~------~e~wi~CD~Cd~wyH~~C~~~~~~g~fkd~ak~dg~~Y~CP~Cs~~~ 733 (745)
+..|..|++.+ .+.-+.|+.|.--||..|.... .||+|..-.
T Consensus 152 GfiCe~C~~~~~IfPF~~~~~~~C~~C~~v~H~~C~~~~----------------~CpkC~R~~ 199 (202)
T PF13901_consen 152 GFICEICNSDDIIFPFQIDTTVRCPKCKSVFHKSCFRKK----------------SCPKCARRQ 199 (202)
T ss_pred CCCCccCCCCCCCCCCCCCCeeeCCcCccccchhhcCCC----------------CCCCcHhHh
Confidence 57899998762 4578999999999999998531 399997544
No 31
>KOG0956 consensus PHD finger protein AF10 [General function prediction only]
Probab=59.87 E-value=4.7 Score=48.29 Aligned_cols=47 Identities=21% Similarity=0.509 Sum_probs=37.7
Q ss_pred cccccCC---CCCCeEecCC--CCCccccCcccCCCCCcccCccccCCceeecCCCccccc
Q 004566 679 CLLCHSS---AAGDWVNCGI--CGEWAHFGCDRRQGLGAFKDYAKTDGLEYVCPQCSVTNF 734 (745)
Q Consensus 679 C~~C~~~---~~e~wi~CD~--Cd~wyH~~C~~~~~~g~fkd~ak~dg~~Y~CP~Cs~~~~ 734 (745)
|=.|... +|--+|-||| |.--+|..|--|. .++.|. |.|-||-..|.
T Consensus 8 CCVCSDErGWaeNPLVYCDG~nCsVAVHQaCYGIv------qVPtGp---WfCrKCesqer 59 (900)
T KOG0956|consen 8 CCVCSDERGWAENPLVYCDGHNCSVAVHQACYGIV------QVPTGP---WFCRKCESQER 59 (900)
T ss_pred eeeecCcCCCccCceeeecCCCceeeeehhcceeE------ecCCCc---hhhhhhhhhhh
Confidence 4457544 5778999997 9999999999886 488887 99999976554
No 32
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=59.24 E-value=2.2 Score=36.82 Aligned_cols=51 Identities=27% Similarity=0.375 Sum_probs=21.8
Q ss_pred ccccccCC----CCCCeEecC--CCCCccccCcccCCCCCcccCccccC----CceeecCCCccc
Q 004566 678 CCLLCHSS----AAGDWVNCG--ICGEWAHFGCDRRQGLGAFKDYAKTD----GLEYVCPQCSVT 732 (745)
Q Consensus 678 ~C~~C~~~----~~e~wi~CD--~Cd~wyH~~C~~~~~~g~fkd~ak~d----g~~Y~CP~Cs~~ 732 (745)
-|++|.+. ++.-.+.|+ .|..-||..|+.--+ .+..+.. -+...||.|...
T Consensus 4 ~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf----~~~~~~~~~~~~~~G~CP~C~~~ 64 (70)
T PF11793_consen 4 ECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWF----LSLEKSRQSFIPIFGECPYCSSP 64 (70)
T ss_dssp S-SSS--SS-TT-----B--S-TT----B-SGGGHHHH----HHHHSSS-TTT--EEE-TTT-SE
T ss_pred CCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHH----HHcccCCeeecccccCCcCCCCe
Confidence 49999775 233578998 999999999997643 2222222 236789999754
No 33
>cd02953 DsbDgamma DsbD gamma family; DsbD gamma is the C-terminal periplasmic domain of the bacterial protein DsbD. It contains a CXXC motif in a TRX fold and shuttles the reducing potential from the membrane domain (DsbD beta) to the N-terminal periplasmic domain (DsbD alpha). DsbD beta, a transmembrane domain comprising of eight helices, acquires its reducing potential from the cytoplasmic thioredoxin. DsbD alpha transfers the acquired reducing potential from DsbD gamma to target proteins such as the periplasmic protein disulphide isomerases, DsbC and DsbG. This flow of reducing potential from the cytoplasm through DsbD allows DsbC and DsbG to act as isomerases in the oxidizing environment of the bacterial periplasm. DsbD also transfers reducing potential from the cytoplasm to specific reductases in the periplasm which are involved in the maturation of cytochromes.
Probab=59.07 E-value=23 Score=30.82 Aligned_cols=76 Identities=7% Similarity=0.068 Sum_probs=48.1
Q ss_pred HHHHHHHHhhCCCEEEEeccccCCcCceeeeeeccCCCCCHHHHhhhhCCCCCcEEEEecCC----chhHHHHHHhcCCC
Q 004566 61 DEFRRLLESSEPNIVYLQGEKINDSEEIGSLVWGDVDLSTPEALCGLFGSTLPTTVYLEIPN----GENFAEALHSRGVP 136 (745)
Q Consensus 61 ~e~~~~~~~~~p~f~y~~g~~~~~~~eig~l~~~~~d~~~~~~l~~l~~~~~p~~vYle~~~----~e~~a~al~~kGv~ 136 (745)
++|.++++.-+|-+|||-+.-=..-...... +.+-+.+...+.. --..+++++.. ...+++.+.-+|+|
T Consensus 2 ~~~~~~~~~~k~vlv~f~a~wC~~C~~~~~~------~~~~~~~~~~~~~-~~~~~~vd~~~~~~~~~~~~~~~~i~~~P 74 (104)
T cd02953 2 AALAQALAQGKPVFVDFTADWCVTCKVNEKV------VFSDPEVQAALKK-DVVLLRADWTKNDPEITALLKRFGVFGPP 74 (104)
T ss_pred HHHHHHHHcCCeEEEEEEcchhHHHHHHHHH------hcCCHHHHHHHhC-CeEEEEEecCCCCHHHHHHHHHcCCCCCC
Confidence 6889999999999999987643333332211 1222445666654 22333444432 35788888899999
Q ss_pred EEEEcCC
Q 004566 137 YVIYWKH 143 (745)
Q Consensus 137 yviyW~~ 143 (745)
.+++++.
T Consensus 75 ti~~~~~ 81 (104)
T cd02953 75 TYLFYGP 81 (104)
T ss_pred EEEEECC
Confidence 9999983
No 34
>PF13831 PHD_2: PHD-finger; PDB: 2L43_A 2KU3_A.
Probab=54.87 E-value=2.7 Score=32.43 Aligned_cols=33 Identities=18% Similarity=0.491 Sum_probs=17.9
Q ss_pred CeEecCCCCCccccCcccCCCCCcccCccccCCceeecCCC
Q 004566 689 DWVNCGICGEWAHFGCDRRQGLGAFKDYAKTDGLEYVCPQC 729 (745)
Q Consensus 689 ~wi~CD~Cd~wyH~~C~~~~~~g~fkd~ak~dg~~Y~CP~C 729 (745)
.+|.|+.|+-.+|..|-.+.. .+.+ ..|.|-.|
T Consensus 3 ~ll~C~~C~v~VH~~CYGv~~------~~~~--~~W~C~~C 35 (36)
T PF13831_consen 3 PLLFCDNCNVAVHQSCYGVSE------VPDG--DDWLCDRC 35 (36)
T ss_dssp EEEE-SSS--EEEHHHHT-SS--------SS-------HHH
T ss_pred ceEEeCCCCCcCChhhCCccc------CCCC--CcEECCcC
Confidence 578999999999999998873 3333 24999777
No 35
>PF13639 zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C 1IYM_A 2EP4_A 2ECT_A 2JRJ_A 2ECN_A 2ECM_A 3NG2_A 2EA6_A ....
Probab=54.03 E-value=2.7 Score=32.33 Aligned_cols=41 Identities=27% Similarity=0.592 Sum_probs=29.8
Q ss_pred ccccccCC--CCCCeEecCCCCCccccCcccCCCCCcccCccccCCceeecCCCc
Q 004566 678 CCLLCHSS--AAGDWVNCGICGEWAHFGCDRRQGLGAFKDYAKTDGLEYVCPQCS 730 (745)
Q Consensus 678 ~C~~C~~~--~~e~wi~CD~Cd~wyH~~C~~~~~~g~fkd~ak~dg~~Y~CP~Cs 730 (745)
.|.+|... +.+..+... |+-.||..|...- .+.. +.||-|+
T Consensus 2 ~C~IC~~~~~~~~~~~~l~-C~H~fh~~Ci~~~--------~~~~---~~CP~CR 44 (44)
T PF13639_consen 2 ECPICLEEFEDGEKVVKLP-CGHVFHRSCIKEW--------LKRN---NSCPVCR 44 (44)
T ss_dssp CETTTTCBHHTTSCEEEET-TSEEEEHHHHHHH--------HHHS---SB-TTTH
T ss_pred CCcCCChhhcCCCeEEEcc-CCCeeCHHHHHHH--------HHhC---CcCCccC
Confidence 58999887 356777777 9999999998654 3332 5999884
No 36
>PHA00689 hypothetical protein
Probab=52.40 E-value=8.5 Score=32.65 Aligned_cols=34 Identities=32% Similarity=0.617 Sum_probs=26.2
Q ss_pred HhhhhhhhccCcccc-cccccccCC------CCCCeEecCC
Q 004566 662 TYLLEYELAHDDVDG-ECCLLCHSS------AAGDWVNCGI 695 (745)
Q Consensus 662 RyLleYE~aHDDvd~-~~C~~C~~~------~~e~wi~CD~ 695 (745)
.|+.||.+.||.+.. -+|.-|+.. +.+.|++-.+
T Consensus 2 tyfdeydqdhdqepravtckrcgktglrweddggewvlmeg 42 (62)
T PHA00689 2 TYFDEYDQDHDQEPRAVTCKRCGKTGLRWEDDGGEWVLMEG 42 (62)
T ss_pred ccccccccccccCcceeehhhccccCceeecCCCcEEEEec
Confidence 478999999998776 689999875 2457876544
No 37
>PF02591 DUF164: Putative zinc ribbon domain; InterPro: IPR003743 This entry describes proteins of unknown function.
Probab=49.45 E-value=13 Score=30.57 Aligned_cols=43 Identities=28% Similarity=0.464 Sum_probs=29.1
Q ss_pred HHHHHHhhhh-hhhccCcccccccccccCC----------CCCCeEecCCCCCc
Q 004566 657 KRHYETYLLE-YELAHDDVDGECCLLCHSS----------AAGDWVNCGICGEW 699 (745)
Q Consensus 657 K~hYERyLle-YE~aHDDvd~~~C~~C~~~----------~~e~wi~CD~Cd~w 699 (745)
.+.|+|.... .-.+=-.++...|..|+-. ..+..+-|+.|++.
T Consensus 2 L~~Y~rl~~~~~g~~va~v~~~~C~gC~~~l~~~~~~~i~~~~~i~~Cp~CgRi 55 (56)
T PF02591_consen 2 LAEYERLRKRKGGVAVARVEGGTCSGCHMELPPQELNEIRKGDEIVFCPNCGRI 55 (56)
T ss_pred HHHHHHHHhhcCCcEEEEeeCCccCCCCEEcCHHHHHHHHcCCCeEECcCCCcc
Confidence 4566665555 3334345667799999764 24688999999874
No 38
>PF00249 Myb_DNA-binding: Myb-like DNA-binding domain; InterPro: IPR014778 The retroviral oncogene v-myb, and its cellular counterpart c-myb, encode nuclear DNA-binding proteins. These belong to the SANT domain family that specifically recognise the sequence YAAC(G/T)G [, ]. In myb, one of the most conserved regions consisting of three tandem repeats has been shown to be involved in DNA-binding [].; PDB: 1X41_A 2XAF_B 2XAG_B 2XAH_B 2UXN_B 2Y48_B 2XAQ_B 2X0L_B 2IW5_B 2XAJ_B ....
Probab=49.08 E-value=24 Score=27.74 Aligned_cols=38 Identities=24% Similarity=0.407 Sum_probs=27.4
Q ss_pred HHHHHHHhcCceeeccCCCChHHHHhhccCCCCCCccccHHHHHHHHHHHhh
Q 004566 613 NLYREVVSRGGFHVGNGINWKGQVFSKMRNHTLTNRMTGVGNTLKRHYETYL 664 (745)
Q Consensus 613 kLYreV~sRGGF~kVnkkkWk~EV~~~Mgn~~~p~t~TSag~~LK~hYERyL 664 (745)
.|...|..+|.- +|. .|...|+ . +-.+.+++.+|++||
T Consensus 11 ~l~~~v~~~g~~------~W~-~Ia~~~~---~----~Rt~~qc~~~~~~~~ 48 (48)
T PF00249_consen 11 KLLEAVKKYGKD------NWK-KIAKRMP---G----GRTAKQCRSRYQNLL 48 (48)
T ss_dssp HHHHHHHHSTTT------HHH-HHHHHHS---S----SSTHHHHHHHHHHHT
T ss_pred HHHHHHHHhCCc------HHH-HHHHHcC---C----CCCHHHHHHHHHhhC
Confidence 456666655532 699 9999887 1 123889999999986
No 39
>KOG2752 consensus Uncharacterized conserved protein, contains N-recognin-type Zn-finger [General function prediction only]
Probab=47.30 E-value=7.9 Score=42.80 Aligned_cols=22 Identities=36% Similarity=1.028 Sum_probs=18.8
Q ss_pred CCCeEecCCCCCccc-cCcccCC
Q 004566 687 AGDWVNCGICGEWAH-FGCDRRQ 708 (745)
Q Consensus 687 ~e~wi~CD~Cd~wyH-~~C~~~~ 708 (745)
++-++.|-+|++||| .+|..-.
T Consensus 145 e~~m~QC~iCEDWFHce~c~~~~ 167 (345)
T KOG2752|consen 145 EGEMLQCVICEDWFHCEGCMQAK 167 (345)
T ss_pred cceeeeEEeccchhcccccCccc
Confidence 679999999999999 8886544
No 40
>cd04883 ACT_AcuB C-terminal ACT domain of the Bacillus subtilis acetoin utilization protein, AcuB. This CD includes the C-terminal ACT domain of the Bacillus subtilis acetoin utilization protein, AcuB. AcuB is putatively involved in the anaerobic catabolism of acetoin, and related proteins. Studies report the induction of AcuB by nitrate respiration and also by fermentation. Since acetoin can be secreted and later serve as a source of carbon, it has been proposed that, during anaerobic growth when other carbon sources are exhausted, the induction of the AcuB protein results in acetoin catabolism. AcuB-like proteins have two N-terminal tandem CBS domains and a single C-terminal ACT domain. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=46.61 E-value=1.6e+02 Score=23.92 Aligned_cols=69 Identities=20% Similarity=0.347 Sum_probs=45.8
Q ss_pred ceEEEEccCC-CHHHHHHHHHhhCCCEEEEeccccCCcCceeeeeeccCCCCCHHHHhhhhCCCCCcEEEEecCCchhHH
Q 004566 49 RLEVHLLSSP-STDEFRRLLESSEPNIVYLQGEKINDSEEIGSLVWGDVDLSTPEALCGLFGSTLPTTVYLEIPNGENFA 127 (745)
Q Consensus 49 rlev~~l~~p-t~~e~~~~~~~~~p~f~y~~g~~~~~~~eig~l~~~~~d~~~~~~l~~l~~~~~p~~vYle~~~~e~~a 127 (745)
|+.|.+=+.| .+.++.+.+...+-|+.++.-..... .+.+-+ ++.+|..+.+.+.
T Consensus 3 ~~~v~~~d~pG~l~~i~~~l~~~~inI~~i~~~~~~~-~~~~~v-----------------------~i~v~~~~~~~~~ 58 (72)
T cd04883 3 QIEVRVPDRPGQLADIAAIFKDRGVNIVSVLVYPSKE-EDNKIL-----------------------VFRVQTMNPRPII 58 (72)
T ss_pred EEEEEECCCCCHHHHHHHHHHHcCCCEEEEEEeccCC-CCeEEE-----------------------EEEEecCCHHHHH
Confidence 4556555666 67888889999999998886432111 122222 2455555666889
Q ss_pred HHHHhcCCCEEEEcCC
Q 004566 128 EALHSRGVPYVIYWKH 143 (745)
Q Consensus 128 ~al~~kGv~yviyW~~ 143 (745)
+.|.++| |.|+|.|
T Consensus 59 ~~L~~~G--~~v~~~~ 72 (72)
T cd04883 59 EDLRRAG--YEVLWPN 72 (72)
T ss_pred HHHHHCC--CeeeCCC
Confidence 9999999 5788875
No 41
>KOG4299 consensus PHD Zn-finger protein [General function prediction only]
Probab=46.11 E-value=16 Score=43.30 Aligned_cols=48 Identities=27% Similarity=0.627 Sum_probs=36.8
Q ss_pred ccccccccCCCCCCeEecCCCCCccccCcccCCCCCcccCccccCCceeecCCCcc
Q 004566 676 GECCLLCHSSAAGDWVNCGICGEWAHFGCDRRQGLGAFKDYAKTDGLEYVCPQCSV 731 (745)
Q Consensus 676 ~~~C~~C~~~~~e~wi~CD~Cd~wyH~~C~~~~~~g~fkd~ak~dg~~Y~CP~Cs~ 731 (745)
.+.|++|.++ +..++|+.|...+|..|++..+. +|..- -+++|-.|..
T Consensus 47 ~ts~~~~~~~--gn~~~~~~~~~s~h~~~~~~~~s---p~~~~---~~~~~~~~~~ 94 (613)
T KOG4299|consen 47 ATSCGICKSG--GNLLCCDHCPASFHLECDKPPLS---PDLKG---SEINCSRCPK 94 (613)
T ss_pred hhhcchhhhc--CCccccccCccccchhccCcccC---ccccc---ccccccCCCc
Confidence 4679999776 56789999999999999999974 33322 2588888764
No 42
>PF13986 DUF4224: Domain of unknown function (DUF4224)
Probab=45.89 E-value=31 Score=28.11 Aligned_cols=37 Identities=27% Similarity=0.384 Sum_probs=30.1
Q ss_pred CCCCHHHHhhhhCCCCCcEEEEecCCchhHHHHHHhcCCCEEEEcCC
Q 004566 97 DLSTPEALCGLFGSTLPTTVYLEIPNGENFAEALHSRGVPYVIYWKH 143 (745)
Q Consensus 97 d~~~~~~l~~l~~~~~p~~vYle~~~~e~~a~al~~kGv~yviyW~~ 143 (745)
++.|+|+|..|-|-+.| .+-++.|++.||||++-=++
T Consensus 1 ~fLT~~El~elTG~k~~----------~~Q~~~L~~~Gi~~~~~~~G 37 (47)
T PF13986_consen 1 EFLTDEELQELTGYKRP----------SKQIRWLRRNGIPFVVRADG 37 (47)
T ss_pred CCCCHHHHHHHHCCCCH----------HHHHHHHHHCCCeeEECCCC
Confidence 35789999999998854 48899999999999874433
No 43
>PF15135 UPF0515: Uncharacterised protein UPF0515
Probab=44.88 E-value=26 Score=37.96 Aligned_cols=61 Identities=23% Similarity=0.470 Sum_probs=41.1
Q ss_pred HHhhhhhhhccCcc-----cccccccccCC------CCCCeEecCCCCCccccCcccCCCCCcccCccccCCc-eeecCC
Q 004566 661 ETYLLEYELAHDDV-----DGECCLLCHSS------AAGDWVNCGICGEWAHFGCDRRQGLGAFKDYAKTDGL-EYVCPQ 728 (745)
Q Consensus 661 ERyLleYE~aHDDv-----d~~~C~~C~~~------~~e~wi~CD~Cd~wyH~~C~~~~~~g~fkd~ak~dg~-~Y~CP~ 728 (745)
+++|--|..++++. -..-|..|--. .------|..|.+-| +.+|. .|--|+ +|+||+
T Consensus 92 e~Nlrm~d~a~~~~ip~~drqFaC~~Cd~~WwRrvp~rKeVSRCr~C~~rY----DPVP~-------dkmwG~aef~C~~ 160 (278)
T PF15135_consen 92 EENLRMFDDAQENLIPSVDRQFACSSCDHMWWRRVPQRKEVSRCRKCRKRY----DPVPC-------DKMWGIAEFHCPK 160 (278)
T ss_pred HHHHHHhhhhhhccccccceeeeccccchHHHhccCccccccccccccccc----CCCcc-------ccccceeeeeccc
Confidence 78888889898764 23689999332 122334699998887 45552 344455 799999
Q ss_pred Cccc
Q 004566 729 CSVT 732 (745)
Q Consensus 729 Cs~~ 732 (745)
|...
T Consensus 161 C~h~ 164 (278)
T PF15135_consen 161 CRHN 164 (278)
T ss_pred cccc
Confidence 9754
No 44
>KOG2846 consensus Predicted membrane protein [Function unknown]
Probab=44.14 E-value=15 Score=40.80 Aligned_cols=41 Identities=32% Similarity=0.668 Sum_probs=29.0
Q ss_pred CCCeEecCCCCCccccCcccCCCCCcccCccccCCceeecCCCccccccCCC
Q 004566 687 AGDWVNCGICGEWAHFGCDRRQGLGAFKDYAKTDGLEYVCPQCSVTNFKKKS 738 (745)
Q Consensus 687 ~e~wi~CD~Cd~wyH~~C~~~~~~g~fkd~ak~dg~~Y~CP~Cs~~~~~k~~ 738 (745)
.-.-+.|..|. .|-+|.+.. ++ +-|.|+||.|-+-|--||.
T Consensus 217 ~ryALIC~~C~--~HNGla~~e------e~---~yi~F~C~~Cn~LN~~~k~ 257 (328)
T KOG2846|consen 217 NRYALICSQCH--HHNGLARKE------EY---EYITFRCPHCNALNPAKKS 257 (328)
T ss_pred chhhhcchhhc--cccCcCChh------hc---CceEEECccccccCCCcCC
Confidence 34456666664 699999774 23 5567999999877766665
No 45
>CHL00174 accD acetyl-CoA carboxylase beta subunit; Reviewed
Probab=43.77 E-value=10 Score=41.44 Aligned_cols=33 Identities=21% Similarity=0.384 Sum_probs=23.0
Q ss_pred CCCCCCeEecCCCCCccccCcccCCCCCcccCccccCCceeecCCCc
Q 004566 684 SSAAGDWVNCGICGEWAHFGCDRRQGLGAFKDYAKTDGLEYVCPQCS 730 (745)
Q Consensus 684 ~~~~e~wi~CD~Cd~wyH~~C~~~~~~g~fkd~ak~dg~~Y~CP~Cs 730 (745)
.-.++.|..|+.|++-.+.+=+ .+. .|+||+|.
T Consensus 32 ~~p~~lw~kc~~C~~~~~~~~l-----------~~~---~~vcp~c~ 64 (296)
T CHL00174 32 QKYKHLWVQCENCYGLNYKKFL-----------KSK---MNICEQCG 64 (296)
T ss_pred CCCCCCeeECCCccchhhHHHH-----------HHc---CCCCCCCC
Confidence 3457899999999987654332 222 38999995
No 46
>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=42.27 E-value=11 Score=30.80 Aligned_cols=16 Identities=31% Similarity=1.005 Sum_probs=9.5
Q ss_pred CCeEecCCCCCccccC
Q 004566 688 GDWVNCGICGEWAHFG 703 (745)
Q Consensus 688 e~wi~CD~Cd~wyH~~ 703 (745)
+.|+.||.|.+|..--
T Consensus 1 ~~WVQCd~C~KWR~lp 16 (50)
T PF07496_consen 1 DYWVQCDSCLKWRRLP 16 (50)
T ss_dssp -EEEE-TTT--EEEE-
T ss_pred CeEEECCCCCceeeCC
Confidence 3699999999998643
No 47
>PF14205 Cys_rich_KTR: Cysteine-rich KTR
Probab=41.87 E-value=20 Score=30.77 Aligned_cols=36 Identities=25% Similarity=0.833 Sum_probs=22.4
Q ss_pred CCeEecCCCCCccccCcccCCCCCcccCccccCCceeecCCCccc
Q 004566 688 GDWVNCGICGEWAHFGCDRRQGLGAFKDYAKTDGLEYVCPQCSVT 732 (745)
Q Consensus 688 e~wi~CD~Cd~wyH~~C~~~~~~g~fkd~ak~dg~~Y~CP~Cs~~ 732 (745)
+.||.|-.|+.---.+=-.-| .-++.+ ..||+|..+
T Consensus 2 ~~Wi~CP~CgnKTR~kir~DT---~LkNfP------lyCpKCK~E 37 (55)
T PF14205_consen 2 SEWILCPICGNKTRLKIREDT---VLKNFP------LYCPKCKQE 37 (55)
T ss_pred CeEEECCCCCCccceeeecCc---eecccc------ccCCCCCce
Confidence 469999999964333222222 224554 789999754
No 48
>PHA02926 zinc finger-like protein; Provisional
Probab=41.82 E-value=9.4 Score=40.59 Aligned_cols=67 Identities=16% Similarity=0.213 Sum_probs=42.4
Q ss_pred HHhhhhhhhccCcccccccccccCCC-------CCCeEecCCCCCccccCcccCCCCCcccCccccCCceeecCCCccc
Q 004566 661 ETYLLEYELAHDDVDGECCLLCHSSA-------AGDWVNCGICGEWAHFGCDRRQGLGAFKDYAKTDGLEYVCPQCSVT 732 (745)
Q Consensus 661 ERyLleYE~aHDDvd~~~C~~C~~~~-------~e~wi~CD~Cd~wyH~~C~~~~~~g~fkd~ak~dg~~Y~CP~Cs~~ 732 (745)
-+.|.+||.+..-.....|++|-..- +-.--.=+.|+-.|...|.+.=. +..+..+....||-|+..
T Consensus 155 ~~il~~ye~~~~~SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr-----~~r~~~~~~rsCPiCR~~ 228 (242)
T PHA02926 155 IKILDKYEDVYRVSKEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWH-----RTRRETGASDNCPICRTR 228 (242)
T ss_pred hHHHHHHHHHHhccCCCCCccCccccccccccccccccccCCCCchHHHHHHHHHH-----HhccccCcCCcCCCCcce
Confidence 56789999988665557899997541 11111224677778888876542 111223456789999854
No 49
>TIGR00515 accD acetyl-CoA carboxylase, carboxyl transferase, beta subunit. The enzyme acetyl-CoA carboxylase contains a biotin carboxyl carrier protein or domain, a biotin carboxylase, and a carboxyl transferase. This model represents the beta chain of the carboxyl transferase for cases in which the architecture of the protein is as in E. coli, in which the carboxyltransferase portion consists of two non-identical subnits, alpha and beta.
Probab=40.67 E-value=10 Score=40.93 Aligned_cols=30 Identities=30% Similarity=0.669 Sum_probs=20.2
Q ss_pred CCCeEecCCCCCccccCcccCCCCCcccCccccCCceeecCCCc
Q 004566 687 AGDWVNCGICGEWAHFGCDRRQGLGAFKDYAKTDGLEYVCPQCS 730 (745)
Q Consensus 687 ~e~wi~CD~Cd~wyH~~C~~~~~~g~fkd~ak~dg~~Y~CP~Cs 730 (745)
++.|..|+.|++-.+.+=+ .+ ..|+||+|.
T Consensus 23 ~~~~~~c~~c~~~~~~~~l-----------~~---~~~vc~~c~ 52 (285)
T TIGR00515 23 EGVWTKCPKCGQVLYTKEL-----------ER---NLEVCPKCD 52 (285)
T ss_pred CCCeeECCCCcchhhHHHH-----------Hh---hCCCCCCCC
Confidence 5689999999887654322 11 138899885
No 50
>KOG0957 consensus PHD finger protein [General function prediction only]
Probab=39.50 E-value=18 Score=42.27 Aligned_cols=55 Identities=22% Similarity=0.468 Sum_probs=35.1
Q ss_pred cccccccCC---CCCCeEecCCCCCccccCcccCCCCCcccCccccCCc-eeecCCCcc
Q 004566 677 ECCLLCHSS---AAGDWVNCGICGEWAHFGCDRRQGLGAFKDYAKTDGL-EYVCPQCSV 731 (745)
Q Consensus 677 ~~C~~C~~~---~~e~wi~CD~Cd~wyH~~C~~~~~~g~fkd~ak~dg~-~Y~CP~Cs~ 731 (745)
-.|..|-+. +.+..|.||.||-..|.+|-.....-....-+-.+++ -|-|-.|..
T Consensus 120 ~iCcVClg~rs~da~ei~qCd~CGi~VHEgCYGv~dn~si~s~~s~~stepWfCeaC~~ 178 (707)
T KOG0957|consen 120 VICCVCLGQRSVDAGEILQCDKCGINVHEGCYGVLDNVSIPSGSSDCSTEPWFCEACLY 178 (707)
T ss_pred eEEEEeecCccccccceeeccccCceecccccccccccccCCCCccCCCCchhhhhHhc
Confidence 379999443 6889999999999999999744310000001111222 699988864
No 51
>KOG1829 consensus Uncharacterized conserved protein, contains C1, PH and RUN domains [Signal transduction mechanisms]
Probab=39.33 E-value=13 Score=43.93 Aligned_cols=33 Identities=30% Similarity=0.581 Sum_probs=25.3
Q ss_pred ccccccccCCC------CCCeEecCCCCCccccCcccCC
Q 004566 676 GECCLLCHSSA------AGDWVNCGICGEWAHFGCDRRQ 708 (745)
Q Consensus 676 ~~~C~~C~~~~------~e~wi~CD~Cd~wyH~~C~~~~ 708 (745)
+.+|.+|..++ .+.-.-|+.|+-+||-+|.++-
T Consensus 511 gfiCe~Cq~~~iiyPF~~~~~~rC~~C~avfH~~C~~r~ 549 (580)
T KOG1829|consen 511 GFICELCQHNDIIYPFETRNTRRCSTCLAVFHKKCLRRK 549 (580)
T ss_pred eeeeeeccCCCcccccccccceeHHHHHHHHHHHHHhcc
Confidence 46777774442 3455899999999999999886
No 52
>cd02947 TRX_family TRX family; composed of two groups: Group I, which includes proteins that exclusively encode a TRX domain; and Group II, which are composed of fusion proteins of TRX and additional domains. Group I TRX is a small ancient protein that alter the redox state of target proteins via the reversible oxidation of an active site dithiol, present in a CXXC motif, partially exposed at the protein's surface. TRX reduces protein disulfide bonds, resulting in a disulfide bond at its active site. Oxidized TRX is converted to the active form by TRX reductase, using reducing equivalents derived from either NADPH or ferredoxins. By altering their redox state, TRX regulates the functions of at least 30 target proteins, some of which are enzymes and transcription factors. It also plays an important role in the defense against oxidative stress by directly reducing hydrogen peroxide and certain radicals, and by serving as a reductant for peroxiredoxins. At least two major types of functio
Probab=39.22 E-value=60 Score=25.89 Aligned_cols=72 Identities=21% Similarity=0.356 Sum_probs=47.0
Q ss_pred HHHHHHHHhhCCCEEEEeccccCCcCceeeeeeccCCCCCHHHHhhhhCC-CCCcEEEEecCCchhHHHHHHhcCCCEEE
Q 004566 61 DEFRRLLESSEPNIVYLQGEKINDSEEIGSLVWGDVDLSTPEALCGLFGS-TLPTTVYLEIPNGENFAEALHSRGVPYVI 139 (745)
Q Consensus 61 ~e~~~~~~~~~p~f~y~~g~~~~~~~eig~l~~~~~d~~~~~~l~~l~~~-~~p~~vYle~~~~e~~a~al~~kGv~yvi 139 (745)
++|+++++..+|-+|++-+.--..-.+.. +.|..+... +--..++++.-....+++.+.-.|+|.++
T Consensus 1 ~~~~~~~~~~~~~ll~~~~~~C~~C~~~~------------~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~v~~~P~~~ 68 (93)
T cd02947 1 EEFEELIKSAKPVVVDFWAPWCGPCKAIA------------PVLEELAEEYPKVKFVKVDVDENPELAEEYGVRSIPTFL 68 (93)
T ss_pred CchHHHHhcCCcEEEEEECCCChhHHHhh------------HHHHHHHHHCCCceEEEEECCCChhHHHhcCcccccEEE
Confidence 46788888888888888765322221111 122222221 33446677777778899999999999999
Q ss_pred EcCCC
Q 004566 140 YWKHS 144 (745)
Q Consensus 140 yW~~~ 144 (745)
+.++.
T Consensus 69 ~~~~g 73 (93)
T cd02947 69 FFKNG 73 (93)
T ss_pred EEECC
Confidence 98876
No 53
>PF01470 Peptidase_C15: Pyroglutamyl peptidase This is family C15 in the peptidase classification. ; InterPro: IPR000816 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Cysteine peptidases have characteristic molecular topologies, which can be seen not only in their three-dimensional structures, but commonly also in the two-dimensional structures. These are peptidases in which the nucleophile is the sulphydryl group of a cysteine residue. Cysteine proteases are divided into clans (proteins which are evolutionary related), and further sub-divided into families, on the basis of the architecture of their catalytic dyad or triad []. This group of cysteine peptidases belong to MEROPS peptidase family C15 (pyroglutamyl peptidase I, clan CF). The type example being pyroglutamyl peptidase I of Bacillus amyloliquefaciens. Pyroglutamyl/pyrrolidone carboxyl peptidase (Pcp or PYRase) is an exopeptidase that hydrolytically removes the pGlu from pGlu-peptides or pGlu-proteins [, ]. PYRase has been found in prokaryotes and eukaryotes where at least two different classes have been characterised: the first containing bacterial and animal type I PYRases, and the second containing animal type II and serum PYRases. Type I and bacterial PYRases are soluble enzymes, while type II PYRases are membrane-bound. The primary application of PYRase has been its utilisation for protein or peptide sequencing, and bacterial diagnosis []. The conserved residues Cys-144 and His-168 have been identified by inhibition and mutagenesis studies [, ].; GO: 0006508 proteolysis; PDB: 1A2Z_A 1IU8_A 3RNZ_A 3RO0_D 1AUG_D 2EBJ_A 3LAC_A 1X12_B 1Z8X_B 1X10_C ....
Probab=38.45 E-value=1.2e+02 Score=30.87 Aligned_cols=94 Identities=21% Similarity=0.299 Sum_probs=48.0
Q ss_pred ceEEEEccCCCH-----HHHHHHHHhhCCCEEEEeccccCCc---CceeeeeeccCCCCCH---HHHhhhhCCCCCcEEE
Q 004566 49 RLEVHLLSSPST-----DEFRRLLESSEPNIVYLQGEKINDS---EEIGSLVWGDVDLSTP---EALCGLFGSTLPTTVY 117 (745)
Q Consensus 49 rlev~~l~~pt~-----~e~~~~~~~~~p~f~y~~g~~~~~~---~eig~l~~~~~d~~~~---~~l~~l~~~~~p~~vY 117 (745)
..+|++..=|.. +.+.+.++..+||+|.--|.....+ =|-=...|.|+.+.|. .---+.+...-|...+
T Consensus 33 ~~~v~~~~lPV~~~~~~~~l~~~l~~~~PdlVIhlGva~~~~~i~lEr~A~N~~d~~~pD~~G~~p~~~~i~~~gp~~~~ 112 (202)
T PF01470_consen 33 GAEVHTRELPVSYEKAFEALEELLEEHQPDLVIHLGVAGGRKSIRLERVAINWADFRIPDNDGRQPKDEPIVPDGPEAYF 112 (202)
T ss_dssp TEEEEEEEE-SSHHHHHHHHHHHHHHH--SEEEEEEE-TT-SSEEEESEEES-BE-SS--TTS---ESB-SSTTS-SEEE
T ss_pred CceEEEEEecCchHhHHHHHHHHHHhcCCcEEEEEeecCCcchhhHHHHhhccCCCcCCcccCCccCCccccCCCcccee
Confidence 467777666643 5667788889999999989876554 2222334544422222 2122344555565544
Q ss_pred EecCCchhHHHHHHhcCCCEEEEcCC
Q 004566 118 LEIPNGENFAEALHSRGVPYVIYWKH 143 (745)
Q Consensus 118 le~~~~e~~a~al~~kGv~yviyW~~ 143 (745)
--+ .-+++.++|+++|||--+=.+.
T Consensus 113 t~l-p~~~l~~~l~~~gip~~~S~dA 137 (202)
T PF01470_consen 113 TTL-PVRALVEALREAGIPVEISNDA 137 (202)
T ss_dssp -BS--HHHHHHHHHHTT--EEEES--
T ss_pred cCC-CHHHHHHHHHHcCCCCcccCCh
Confidence 333 4569999999999998765444
No 54
>smart00594 UAS UAS domain.
Probab=38.20 E-value=33 Score=31.61 Aligned_cols=78 Identities=18% Similarity=0.234 Sum_probs=49.1
Q ss_pred CHHH-HHHHHHhhCCCEEEEeccccCCcCceeeeeeccCCCCCHHHHhhhhCCCCCc-EEEEecCCchhHHHHHHhcCCC
Q 004566 59 STDE-FRRLLESSEPNIVYLQGEKINDSEEIGSLVWGDVDLSTPEALCGLFGSTLPT-TVYLEIPNGENFAEALHSRGVP 136 (745)
Q Consensus 59 t~~e-~~~~~~~~~p~f~y~~g~~~~~~~eig~l~~~~~d~~~~~~l~~l~~~~~p~-~vYle~~~~e~~a~al~~kGv~ 136 (745)
|.+| ++++.+.-++=||||.++.-......=. ++-+-+.+.+.+...+-. .++++.+.|.++++.++-.|.|
T Consensus 15 s~~~a~~~Ak~~~K~~lv~~~~~~c~~c~~~~r------~vl~~~~V~~~i~~~fv~~~~dv~~~eg~~l~~~~~~~~~P 88 (122)
T smart00594 15 SLEAAKQEASRQRRLLWLYLHSQDSPDSQVFNR------DVLCNEAVKSLIRENFIFWQVDVDTSEGQRVSQFYKLDSFP 88 (122)
T ss_pred CHHHHHHHHHhhcCCEEEEEeCCCCchHHHHHH------HHccCHHHHHHHHcCEEEEEecCCChhHHHHHHhcCcCCCC
Confidence 4444 4667777789999999986444322221 332224455555543222 3566777888888888888888
Q ss_pred EEEEcC
Q 004566 137 YVIYWK 142 (745)
Q Consensus 137 yviyW~ 142 (745)
.++.=.
T Consensus 89 ~~~~l~ 94 (122)
T smart00594 89 YVAIVD 94 (122)
T ss_pred EEEEEe
Confidence 887654
No 55
>PRK13195 pyrrolidone-carboxylate peptidase; Provisional
Probab=38.02 E-value=1.9e+02 Score=30.52 Aligned_cols=101 Identities=18% Similarity=0.116 Sum_probs=62.6
Q ss_pred ceEEEEcc-----CCCHHHHHHHHHhhCCCEEEEeccccCCc----Cceeeee--------eccCCCCCHHHHhhhhCCC
Q 004566 49 RLEVHLLS-----SPSTDEFRRLLESSEPNIVYLQGEKINDS----EEIGSLV--------WGDVDLSTPEALCGLFGST 111 (745)
Q Consensus 49 rlev~~l~-----~pt~~e~~~~~~~~~p~f~y~~g~~~~~~----~eig~l~--------~~~~d~~~~~~l~~l~~~~ 111 (745)
..+|+++. +.+.+.+.++++..+||+|.--|+....+ |-++ +. +.|.|=-.|.+- -+...
T Consensus 34 ~~~v~~~~lPv~f~~~~~~l~~~i~~~~Pd~Vi~~G~a~gr~~itlErvA-iN~~d~~~~~ipDn~G~~p~~~--~I~~~ 110 (222)
T PRK13195 34 GATVISRIVPNTFFESIAAAQQAIAEIEPALVIMLGEYPGRSMITVERLA-QNVNDCGRYGLADCAGRVLVGE--PTDPA 110 (222)
T ss_pred CeEEEEEEeCeEehHHHHHHHHHHHHHCCCEEEEeCccCCcCceEeEEEE-EecccccccCCCCCCCCcCCCC--cccCC
Confidence 34555544 45567889999999999999999987665 2222 22 333321222221 12222
Q ss_pred CCcEEEEecCCchhHHHHHHhcCCCEEEEcCCC-----chhhHHHHH
Q 004566 112 LPTTVYLEIPNGENFAEALHSRGVPYVIYWKHS-----FSCYAACHF 153 (745)
Q Consensus 112 ~p~~vYle~~~~e~~a~al~~kGv~yviyW~~~-----~s~~aA~HF 153 (745)
=|. .|+=.-.-+++.++|+..|||--+=.+.. +..|-+.|+
T Consensus 111 gp~-ay~stLpv~~iv~~l~~~gipa~vS~~AGtYvCN~v~Y~sL~~ 156 (222)
T PRK13195 111 GPV-AYHATVPVRAMVLAMRKAGVPADVSDAAGTFVCNHLMYGVLHH 156 (222)
T ss_pred Ccc-eeecCCCHHHHHHHHHhcCCCceEecCCCcceehHHHHHHHHH
Confidence 233 56666666899999999999987766654 344555554
No 56
>PRK05654 acetyl-CoA carboxylase subunit beta; Validated
Probab=37.70 E-value=12 Score=40.51 Aligned_cols=31 Identities=29% Similarity=0.649 Sum_probs=21.2
Q ss_pred CCCCeEecCCCCCccccCcccCCCCCcccCccccCCceeecCCCc
Q 004566 686 AAGDWVNCGICGEWAHFGCDRRQGLGAFKDYAKTDGLEYVCPQCS 730 (745)
Q Consensus 686 ~~e~wi~CD~Cd~wyH~~C~~~~~~g~fkd~ak~dg~~Y~CP~Cs 730 (745)
.++.|+.|+.|+.-.+.+=+ .+. .|+||+|-
T Consensus 23 ~~~~~~~c~~c~~~~~~~~l-----------~~~---~~vc~~c~ 53 (292)
T PRK05654 23 PEGLWTKCPSCGQVLYRKEL-----------EAN---LNVCPKCG 53 (292)
T ss_pred CCCCeeECCCccchhhHHHH-----------Hhc---CCCCCCCC
Confidence 36789999999987665422 211 37999994
No 57
>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=37.60 E-value=14 Score=26.98 Aligned_cols=28 Identities=25% Similarity=0.487 Sum_probs=12.4
Q ss_pred ccccccCCCCC-CeEecCCCCCccccCcc
Q 004566 678 CCLLCHSSAAG-DWVNCGICGEWAHFGCD 705 (745)
Q Consensus 678 ~C~~C~~~~~e-~wi~CD~Cd~wyH~~C~ 705 (745)
.|..|+....+ .+-.|..|+=..|..|.
T Consensus 2 ~C~~C~~~~~~~~~Y~C~~Cdf~lH~~Ca 30 (30)
T PF07649_consen 2 RCDACGKPIDGGWFYRCSECDFDLHEECA 30 (30)
T ss_dssp --TTTS----S--EEE-TTT-----HHHH
T ss_pred cCCcCCCcCCCCceEECccCCCccChhcC
Confidence 48889887655 88899999999998873
No 58
>COG1927 Mtd Coenzyme F420-dependent N(5),N(10)-methenyltetrahydromethanopterin dehydrogenase [Energy production and conversion]
Probab=37.59 E-value=1e+02 Score=33.17 Aligned_cols=116 Identities=21% Similarity=0.381 Sum_probs=79.1
Q ss_pred cccccCceEEEEcc-----CCC--HHHHHHHHHhhCCCEEEEeccccCCcCceeeeeeccCCCCCHHHHhhhhC-CCCCc
Q 004566 43 EIASSGRLEVHLLS-----SPS--TDEFRRLLESSEPNIVYLQGEKINDSEEIGSLVWGDVDLSTPEALCGLFG-STLPT 114 (745)
Q Consensus 43 el~ssgrlev~~l~-----~pt--~~e~~~~~~~~~p~f~y~~g~~~~~~~eig~l~~~~~d~~~~~~l~~l~~-~~~p~ 114 (745)
|.+-.-..+|.++. +|. -.-..+.++.++||||.+-|..- -...|-.-.+++. +..|.
T Consensus 25 ErAdRedi~vrVvgsgaKM~Pe~veaav~~~~e~~~pDfvi~isPNp--------------aaPGP~kARE~l~~s~~Pa 90 (277)
T COG1927 25 ERADREDIEVRVVGSGAKMDPECVEAAVTEMLEEFNPDFVIYISPNP--------------AAPGPKKAREILSDSDVPA 90 (277)
T ss_pred hhcccCCceEEEeccccccChHHHHHHHHHHHHhcCCCEEEEeCCCC--------------CCCCchHHHHHHhhcCCCE
Confidence 33444456777765 454 34456789999999998876532 3355666666665 67899
Q ss_pred EEEEecCCchhHHHHHHhcCCCEEEEcCCC-------chh-hHHHHHHHHHHHHHhhcCCCcchhHHHhhcc
Q 004566 115 TVYLEIPNGENFAEALHSRGVPYVIYWKHS-------FSC-YAACHFLQALLSVVQSSCSHTWDAFQLAHAS 178 (745)
Q Consensus 115 ~vYle~~~~e~~a~al~~kGv~yviyW~~~-------~s~-~aA~HFr~Al~s~~qss~s~~~dAFqlA~aS 178 (745)
+|-=+.| |-+.-+.|.++|.-|+|.=-.. |-- .--+-|+--++.||-++. ||.+-+..
T Consensus 91 iiigDaP-g~~vkdeleeqGlGYIivk~DpmiGArREFLDPvEMA~fNaDv~kVLa~tG-----a~R~vQea 156 (277)
T COG1927 91 IIIGDAP-GLKVKDELEEQGLGYIIVKADPMIGARREFLDPVEMASFNADVMKVLAATG-----AFRLVQEA 156 (277)
T ss_pred EEecCCc-cchhHHHHHhcCCeEEEecCCcccchhhhhcCHHHHHhhhhHHHHHHHhcc-----HHHHHHHH
Confidence 9999999 7899999999999999986554 211 113457777777776543 45554433
No 59
>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional
Probab=37.03 E-value=34 Score=29.73 Aligned_cols=45 Identities=27% Similarity=0.645 Sum_probs=29.8
Q ss_pred ccccccccCC-C--C-CCeEecCCCCCccccCcccCCCCCcccCccccCCceeecCCCc
Q 004566 676 GECCLLCHSS-A--A-GDWVNCGICGEWAHFGCDRRQGLGAFKDYAKTDGLEYVCPQCS 730 (745)
Q Consensus 676 ~~~C~~C~~~-~--~-e~wi~CD~Cd~wyH~~C~~~~~~g~fkd~ak~dg~~Y~CP~Cs 730 (745)
...|-+|+.. . + .....|-.|++--=..|-+=- ..+..|+||+|-
T Consensus 7 ~~~CtSCg~~i~~~~~~~~F~CPnCG~~~I~RC~~CR----------k~~~~Y~CP~CG 55 (59)
T PRK14890 7 PPKCTSCGIEIAPREKAVKFLCPNCGEVIIYRCEKCR----------KQSNPYTCPKCG 55 (59)
T ss_pred CccccCCCCcccCCCccCEeeCCCCCCeeEeechhHH----------hcCCceECCCCC
Confidence 4579999886 2 3 678899999875344454321 123459999994
No 60
>cd03003 PDI_a_ERdj5_N PDIa family, N-terminal ERdj5 subfamily; ERdj5, also known as JPDI and macrothioredoxin, is a protein containing an N-terminal DnaJ domain and four redox active TRX domains. This subfamily is comprised of the first TRX domain of ERdj5 located after the DnaJ domain at the N-terminal half of the protein. ERdj5 is a ubiquitous protein localized in the endoplasmic reticulum (ER) and is abundant in secretory cells. It's transcription is induced during ER stress. It interacts with BiP through its DnaJ domain in an ATP-dependent manner. BiP, an ER-resident member of the Hsp70 chaperone family, functions in ER-associated degradation and protein translocation.
Probab=36.57 E-value=82 Score=27.31 Aligned_cols=81 Identities=10% Similarity=0.125 Sum_probs=51.3
Q ss_pred EEEEccCCCHHHHHHHHHhhCCCEEEEeccccCCcCceeeeeeccCCCCCHHHHhhhhCCCCCcEEEEecCCchhHHHHH
Q 004566 51 EVHLLSSPSTDEFRRLLESSEPNIVYLQGEKINDSEEIGSLVWGDVDLSTPEALCGLFGSTLPTTVYLEIPNGENFAEAL 130 (745)
Q Consensus 51 ev~~l~~pt~~e~~~~~~~~~p~f~y~~g~~~~~~~eig~l~~~~~d~~~~~~l~~l~~~~~p~~vYle~~~~e~~a~al 130 (745)
||..| |.++|.+.+...+|-+|+|-..--..-.+.. ..=+.++.-+... -.+++++...-..+++.+
T Consensus 2 ~~~~l---~~~~f~~~v~~~~~~~v~f~a~wC~~C~~~~---------p~~~~~a~~~~~~-~~~~~vd~~~~~~~~~~~ 68 (101)
T cd03003 2 EIVTL---DRGDFDAAVNSGEIWFVNFYSPRCSHCHDLA---------PTWREFAKEMDGV-IRIGAVNCGDDRMLCRSQ 68 (101)
T ss_pred CeEEc---CHhhHHHHhcCCCeEEEEEECCCChHHHHhH---------HHHHHHHHHhcCc-eEEEEEeCCccHHHHHHc
Confidence 45556 4567777887778888888876433321111 1122344444433 345677877777888888
Q ss_pred HhcCCCEEEEcCCC
Q 004566 131 HSRGVPYVIYWKHS 144 (745)
Q Consensus 131 ~~kGv~yviyW~~~ 144 (745)
.=+++|.++++++.
T Consensus 69 ~v~~~Pt~~~~~~g 82 (101)
T cd03003 69 GVNSYPSLYVFPSG 82 (101)
T ss_pred CCCccCEEEEEcCC
Confidence 88888888888875
No 61
>KOG3576 consensus Ovo and related transcription factors [Transcription]
Probab=36.06 E-value=5.2 Score=42.17 Aligned_cols=73 Identities=23% Similarity=0.428 Sum_probs=52.2
Q ss_pred HHHhhhhhhhccCcccccccccccCC-CCC-------------CeEecCCCCCccccCcccCC----CCCcccCccccCC
Q 004566 660 YETYLLEYELAHDDVDGECCLLCHSS-AAG-------------DWVNCGICGEWAHFGCDRRQ----GLGAFKDYAKTDG 721 (745)
Q Consensus 660 YERyLleYE~aHDDvd~~~C~~C~~~-~~e-------------~wi~CD~Cd~wyH~~C~~~~----~~g~fkd~ak~dg 721 (745)
|+|.|-.--..|.|+-.++|.-||.+ .+. .---|..|++.|-..|-.-. .+|.-..||-.|.
T Consensus 129 lQRmlnrh~kch~~vkr~lct~cgkgfndtfdlkrh~rthtgvrpykc~~c~kaftqrcsleshl~kvhgv~~~yayker 208 (267)
T KOG3576|consen 129 LQRMLNRHLKCHSDVKRHLCTFCGKGFNDTFDLKRHTRTHTGVRPYKCSLCEKAFTQRCSLESHLKKVHGVQHQYAYKER 208 (267)
T ss_pred HHHHHHHHhhhccHHHHHHHhhccCcccchhhhhhhhccccCccccchhhhhHHHHhhccHHHHHHHHcCchHHHHHHHh
Confidence 46666666678999888999999987 232 23479999999999996432 1455555665444
Q ss_pred c--eeecCCCccc
Q 004566 722 L--EYVCPQCSVT 732 (745)
Q Consensus 722 ~--~Y~CP~Cs~~ 732 (745)
. -|+|..|--.
T Consensus 209 r~kl~vcedcg~t 221 (267)
T KOG3576|consen 209 RAKLYVCEDCGYT 221 (267)
T ss_pred hhheeeecccCCC
Confidence 3 7999999644
No 62
>PRK09140 2-dehydro-3-deoxy-6-phosphogalactonate aldolase; Reviewed
Probab=35.95 E-value=13 Score=37.85 Aligned_cols=96 Identities=13% Similarity=0.138 Sum_probs=61.5
Q ss_pred HHhhccceEEeecCCCCCCCCCCCCCcccccccCCceEEEEEeehhhHHHHHHHhcCCCCchhhhhhhhhccCCcccccc
Q 004566 338 ELIENSQLVHALPNSGDNRLPPSEPRKSASIACGASVFEVSMKVSTWASQVLRQLAPDVSYRSLVMLGIASIQGLSVASF 417 (745)
Q Consensus 338 elie~~q~v~~~~~~e~~~~~~~epr~S~siAcGasv~ev~~~~p~WA~qvLrqLa~~~sYrsLVaLGiA~v~g~~vasF 417 (745)
..+++..++-.+-... ..-..+.--+.++.|..++|+.++.|.|.. .|+.|+.. |...+.+|.+.| +
T Consensus 5 ~~l~~~~~~~v~r~~~---~~~~~~~~~a~~~gGi~~iEvt~~~~~~~~-~i~~l~~~--~~~~~~iGaGTV-------~ 71 (206)
T PRK09140 5 QPFTKLPLIAILRGIT---PDEALAHVGALIEAGFRAIEIPLNSPDPFD-SIAALVKA--LGDRALIGAGTV-------L 71 (206)
T ss_pred hHHHhCCEEEEEeCCC---HHHHHHHHHHHHHCCCCEEEEeCCCccHHH-HHHHHHHH--cCCCcEEeEEec-------C
Confidence 3445555555533332 122344456789999999999999999875 88888765 544578898887 5
Q ss_pred chhhHHHHHHhhhccCCCCCCCCcccCCCCCCCCCCCcCc
Q 004566 418 EKDDAERLLFFCTRQGKADHTENSVLTRPPSWLTSPAPSR 457 (745)
Q Consensus 418 ~~~Da~Rllf~~~~~~~~~~~~~~~~~~~p~w~~~p~~~r 457 (745)
+.+|++..+- -+.-+.+.|.+.......+
T Consensus 72 ~~~~~~~a~~-----------aGA~fivsp~~~~~v~~~~ 100 (206)
T PRK09140 72 SPEQVDRLAD-----------AGGRLIVTPNTDPEVIRRA 100 (206)
T ss_pred CHHHHHHHHH-----------cCCCEEECCCCCHHHHHHH
Confidence 6778776632 2334456666655444443
No 63
>COG1638 DctP TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]
Probab=35.61 E-value=1e+02 Score=33.85 Aligned_cols=92 Identities=16% Similarity=0.276 Sum_probs=62.7
Q ss_pred ccccCceEEEEccCCCHHH---HHHHHHhhCCCEEEEeccccCCc-CceeeeeeccCCCCCHHHHhhhhCCCCCcEEEEe
Q 004566 44 IASSGRLEVHLLSSPSTDE---FRRLLESSEPNIVYLQGEKINDS-EEIGSLVWGDVDLSTPEALCGLFGSTLPTTVYLE 119 (745)
Q Consensus 44 l~ssgrlev~~l~~pt~~e---~~~~~~~~~p~f~y~~g~~~~~~-~eig~l~~~~~d~~~~~~l~~l~~~~~p~~vYle 119 (745)
-.+.||++|.+.-|-++=. .-++|+.-..++.......+..- -|++-+.+-- =+-|.|.+-.++ +
T Consensus 55 ekt~G~l~i~vfP~~qLG~~~~~ie~l~~G~id~~~~s~~~l~~~~P~~~v~~lPf-lf~d~~~~~~~~----------~ 123 (332)
T COG1638 55 EKTGGRLKIEVFPNSQLGGEAEMIEQLRSGTLDIGVVSLGFLAGLVPEFGVFDLPF-LFRDEEHARRVL----------D 123 (332)
T ss_pred HHhCCeEEEEECCCcccCcHHHHHHHHhcCCeeEEeccchhhcccCCcceeecCCe-eeCCHHHHHHHH----------c
Confidence 3589999999999987644 44455555567777664444433 5555333222 124455655544 5
Q ss_pred cCCchhHHHHHHhcCCCEEEEcCCCch
Q 004566 120 IPNGENFAEALHSRGVPYVIYWKHSFS 146 (745)
Q Consensus 120 ~~~~e~~a~al~~kGv~yviyW~~~~s 146 (745)
.+.|++|.++|..+|+-.+-||.|.|-
T Consensus 124 ~~~g~~l~~~~e~~g~~~l~~~~~G~R 150 (332)
T COG1638 124 SEFGEELLKSLEAKGLKGLAFWENGFR 150 (332)
T ss_pred cHHHHHHHHHHHHcCCEEEEEecCcee
Confidence 567999999999999999999998753
No 64
>KOG1473 consensus Nucleosome remodeling factor, subunit NURF301/BPTF [Chromatin structure and dynamics; Transcription]
Probab=34.99 E-value=35 Score=43.35 Aligned_cols=57 Identities=23% Similarity=0.561 Sum_probs=42.2
Q ss_pred hhhhhccCccc--ccccccccCCCCCCeEecCCCCCccccCcccCCCCCcccCccccCCceeecCCCc
Q 004566 665 LEYELAHDDVD--GECCLLCHSSAAGDWVNCGICGEWAHFGCDRRQGLGAFKDYAKTDGLEYVCPQCS 730 (745)
Q Consensus 665 leYE~aHDDvd--~~~C~~C~~~~~e~wi~CD~Cd~wyH~~C~~~~~~g~fkd~ak~dg~~Y~CP~Cs 730 (745)
+..|...+++. ...|..||. .++.+||-.|.+-||-.|+.+|.. +.++++ |-|--|.
T Consensus 331 ~R~e~~se~~~~~ddhcrf~~d--~~~~lc~Et~prvvhlEcv~hP~~----~~~s~~---~e~evc~ 389 (1414)
T KOG1473|consen 331 LRDEIDSEGEIEYDDHCRFCHD--LGDLLCCETCPRVVHLECVFHPRF----AVPSAF---WECEVCN 389 (1414)
T ss_pred HHHHHhcccceeecccccccCc--ccceeecccCCceEEeeecCCccc----cCCCcc---chhhhhh
Confidence 33444444332 257999985 478999999999999999999973 666666 8887775
No 65
>PF09855 DUF2082: Nucleic-acid-binding protein containing Zn-ribbon domain (DUF2082); InterPro: IPR018652 This family of proteins contains various hypothetical prokaryotic proteins as well as some Zn-ribbon nucleic-acid-binding proteins.
Probab=34.69 E-value=17 Score=31.68 Aligned_cols=17 Identities=24% Similarity=0.860 Sum_probs=13.9
Q ss_pred eecCCCccccccCCCcc
Q 004566 724 YVCPQCSVTNFKKKSQK 740 (745)
Q Consensus 724 Y~CP~Cs~~~~~k~~~~ 740 (745)
|+||||-.+++..+..+
T Consensus 1 y~C~KCg~~~~e~~~v~ 17 (64)
T PF09855_consen 1 YKCPKCGNEEYESGEVR 17 (64)
T ss_pred CCCCCCCCcceecceEE
Confidence 89999999998877544
No 66
>cd02996 PDI_a_ERp44 PDIa family, endoplasmic reticulum protein 44 (ERp44) subfamily; ERp44 is an ER-resident protein, induced during stress, involved in thiol-mediated ER retention. It contains an N-terminal TRX domain, similar to that of PDIa, with a CXFS motif followed by two redox inactive TRX-like domains, homologous to the b and b' domains of PDI. The CXFS motif in the N-terminal domain allows ERp44 to form stable reversible mixed disulfides with its substrates. Through this activity, ERp44 mediates the ER localization of Ero1alpha, a protein that oxidizes protein disulfide isomerases into their active form. ERp44 also prevents the secretion of unassembled cargo protein with unpaired cysteines. It also modulates the activity of inositol 1,4,5-triphosphate type I receptor (IP3R1), an intracellular channel protein that mediates calcium release from the ER to the cytosol.
Probab=33.93 E-value=72 Score=28.06 Aligned_cols=82 Identities=13% Similarity=0.223 Sum_probs=46.4
Q ss_pred EEEEccCCCHHHHHHHHHhhCCCEEEEeccccCCcCceeeeeeccCCCCCHHHHhhhhCCCCC-----cEEEEecCCchh
Q 004566 51 EVHLLSSPSTDEFRRLLESSEPNIVYLQGEKINDSEEIGSLVWGDVDLSTPEALCGLFGSTLP-----TTVYLEIPNGEN 125 (745)
Q Consensus 51 ev~~l~~pt~~e~~~~~~~~~p~f~y~~g~~~~~~~eig~l~~~~~d~~~~~~l~~l~~~~~p-----~~vYle~~~~e~ 125 (745)
+|+.|+ .+.|.++++..++-+|+|...--..-...... | +.+...+....| .+++++.-.-..
T Consensus 2 ~v~~l~---~~~f~~~i~~~~~vlv~F~a~wC~~C~~~~p~-~--------~~~a~~~~~~~~~~~~~~~~~vd~d~~~~ 69 (108)
T cd02996 2 EIVSLT---SGNIDDILQSAELVLVNFYADWCRFSQMLHPI-F--------EEAAAKIKEEFPDAGKVVWGKVDCDKESD 69 (108)
T ss_pred ceEEcC---HhhHHHHHhcCCEEEEEEECCCCHHHHhhHHH-H--------HHHHHHHhhccCCCCcEEEEEEECCCCHH
Confidence 355664 45677778888888899987644433222211 1 122222222222 234566555566
Q ss_pred HHHHHHhcCCCEEEEcCCC
Q 004566 126 FAEALHSRGVPYVIYWKHS 144 (745)
Q Consensus 126 ~a~al~~kGv~yviyW~~~ 144 (745)
+++.+.-+++|.+++.++.
T Consensus 70 l~~~~~v~~~Ptl~~~~~g 88 (108)
T cd02996 70 IADRYRINKYPTLKLFRNG 88 (108)
T ss_pred HHHhCCCCcCCEEEEEeCC
Confidence 7777777777777777665
No 67
>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=33.74 E-value=28 Score=28.90 Aligned_cols=36 Identities=33% Similarity=0.751 Sum_probs=20.0
Q ss_pred ecCCCCCccccC-cc----cCCCCCcccCccccCCceeecCCCccc
Q 004566 692 NCGICGEWAHFG-CD----RRQGLGAFKDYAKTDGLEYVCPQCSVT 732 (745)
Q Consensus 692 ~CD~Cd~wyH~~-C~----~~~~~g~fkd~ak~dg~~Y~CP~Cs~~ 732 (745)
.|.+|+--|.-. -+ ++++. .|.|.+. .|+||.|.+.
T Consensus 3 ~C~~CgyiYd~~~Gd~~~~i~pGt-~f~~Lp~----~w~CP~C~a~ 43 (50)
T cd00730 3 ECRICGYIYDPAEGDPDEGIPPGT-PFEDLPD----DWVCPVCGAG 43 (50)
T ss_pred CCCCCCeEECCCCCCcccCcCCCC-CHhHCCC----CCCCCCCCCc
Confidence 366666555532 11 23332 4555553 4999999753
No 68
>PF13712 Glyco_tranf_2_5: Glycosyltransferase like family; PDB: 2QGI_A 2NXV_B.
Probab=31.70 E-value=29 Score=35.50 Aligned_cols=90 Identities=18% Similarity=0.278 Sum_probs=48.6
Q ss_pred EEeeecCcccccchHHHHHHHHHHHhhccceEEeecCCCCCCCCCCCCCcccccccCCc--eE---EEEEeehhhHHHHH
Q 004566 315 SLLVSGSAQTCFNDQLLENHIKNELIENSQLVHALPNSGDNRLPPSEPRKSASIACGAS--VF---EVSMKVSTWASQVL 389 (745)
Q Consensus 315 sllvsGsaqtcf~DqLlE~~ik~elie~~q~v~~~~~~e~~~~~~~epr~S~siAcGas--v~---ev~~~~p~WA~qvL 389 (745)
|+++-=+-+.-|+. +++ +|++..+-+..+|..+...+. .+.++----+.=.+-+- || ||.+.-+.|..++|
T Consensus 2 siI~c~n~~~~~~~-~~~-~i~~~~~~~~~~i~i~~~~~~--~s~~~~yN~a~~~a~~~ylvflHqDv~i~~~~~l~~il 77 (217)
T PF13712_consen 2 SIIICVNDEELYEE-CLR-SIKRLIGPPGELIEIDNVRNA--KSMAAAYNEAMEKAKAKYLVFLHQDVFIINENWLEDIL 77 (217)
T ss_dssp EEEEEES-HHHHHH-HHH-HHHHTT--TEEEEEEE-SSS---S-TTTHHHHHGGG--SSEEEEEETTEE-SSHHHHHHHH
T ss_pred EEEEEECCHHHHHH-HHH-HHHhhCCCCceEEEEeccCCC--cCHHHHHHHHHHhCCCCEEEEEeCCeEEcchhHHHHHH
Confidence 44433333444444 555 588888888888888776653 33333333333334444 33 78888899999999
Q ss_pred HHhcCCCCchhhhhhhhhccCC
Q 004566 390 RQLAPDVSYRSLVMLGIASIQG 411 (745)
Q Consensus 390 rqLa~~~sYrsLVaLGiA~v~g 411 (745)
+.|..+. .+-++|+|+...
T Consensus 78 ~~~~~~~---~~G~iGvaG~~~ 96 (217)
T PF13712_consen 78 EIFEEDP---NIGMIGVAGSKR 96 (217)
T ss_dssp HHHHH-T---TEEEEESEEEES
T ss_pred HHHhhCC---CccEEEeecCCc
Confidence 9997664 344445555443
No 69
>cd02958 UAS UAS family; UAS is a domain of unknown function. Most members of this family are uncharacterized proteins with similarity to FAS-associated factor 1 (FAF1) and ETEA because of the presence of a UAS domain N-terminal to a ubiquitin-associated UBX domain. FAF1 is a longer protein, compared to the other members of this family, having additional N-terminal domains, a ubiquitin-associated UBA domain and a nuclear targeting domain. FAF1 is an apoptotic signaling molecule that acts downstream in the Fas signal transduction pathway. It interacts with the cytoplasmic domain of Fas, but not to a Fas mutant that is deficient in signal transduction. ETEA is the protein product of a highly expressed gene in T-cells and eosinophils of atopic dermatitis patients. The presence of the ubiquitin-associated UBX domain in the proteins of this family suggests the possibility of their involvement in ubiquitination. Recently, FAF1 has been shown to interact with valosin-containing protein (VCP),
Probab=31.69 E-value=50 Score=29.65 Aligned_cols=78 Identities=17% Similarity=0.258 Sum_probs=50.4
Q ss_pred HHHHHHHHHhhCCCEEEEeccccCCcCceeeeeeccCCCCCHHHHhhhhCCCCC-cEEEEecCCchhHHHHHHhcCCCEE
Q 004566 60 TDEFRRLLESSEPNIVYLQGEKINDSEEIGSLVWGDVDLSTPEALCGLFGSTLP-TTVYLEIPNGENFAEALHSRGVPYV 138 (745)
Q Consensus 60 ~~e~~~~~~~~~p~f~y~~g~~~~~~~eig~l~~~~~d~~~~~~l~~l~~~~~p-~~vYle~~~~e~~a~al~~kGv~yv 138 (745)
.+-++++.+.-+|=+|||+++.-......=.=+|.+ +.+.+++...+- -.+.++.+.|.++++.+.-+|+|.+
T Consensus 7 ~~a~~~Ak~~~K~llv~~~~~~c~~c~~~~~~vl~~------~~v~~~l~~~~v~~~~d~~~~e~~~~~~~~~~~~~P~~ 80 (114)
T cd02958 7 EDAKQEAKSEKKWLLVYLQSEDEFDSQVLNRDLWSN------ESVKEFIRENFIFWQCDIDSSEGQRFLQSYKVDKYPHI 80 (114)
T ss_pred HHHHHHHHhhCceEEEEEecCCcchHHHHHHHHcCC------HHHHHHHHhCEEEEEecCCCccHHHHHHHhCccCCCeE
Confidence 345677778889999999997654433322234444 456666654322 1233444567788999999999988
Q ss_pred EEcCC
Q 004566 139 IYWKH 143 (745)
Q Consensus 139 iyW~~ 143 (745)
++=+.
T Consensus 81 ~~i~~ 85 (114)
T cd02958 81 AIIDP 85 (114)
T ss_pred EEEeC
Confidence 88765
No 70
>cd02989 Phd_like_TxnDC9 Phosducin (Phd)-like family, Thioredoxin (TRX) domain containing protein 9 (TxnDC9) subfamily; composed of predominantly uncharacterized eukaryotic proteins, containing a TRX-like domain without the redox active CXXC motif. The gene name for the human protein is TxnDC9. The two characterized members are described as Phd-like proteins, PLP1 of Saccharomyces cerevisiae and PhLP3 of Dictyostelium discoideum. Gene disruption experiments show that both PLP1 and PhLP3 are non-essential proteins. Unlike Phd and most Phd-like proteins, members of this group do not contain the Phd N-terminal helical domain which is implicated in binding to the G protein betagamma subunit.
Probab=31.38 E-value=97 Score=28.34 Aligned_cols=81 Identities=17% Similarity=0.196 Sum_probs=56.8
Q ss_pred EEEEccCCCHHHHHHHHHhhCCCEEEEeccccCCcCceeeeeeccCCCCCHHHHhhhhCCCCCcEEEEecCCchhHHHHH
Q 004566 51 EVHLLSSPSTDEFRRLLESSEPNIVYLQGEKINDSEEIGSLVWGDVDLSTPEALCGLFGSTLPTTVYLEIPNGENFAEAL 130 (745)
Q Consensus 51 ev~~l~~pt~~e~~~~~~~~~p~f~y~~g~~~~~~~eig~l~~~~~d~~~~~~l~~l~~~~~p~~vYle~~~~e~~a~al 130 (745)
+|..+.+ .+||.+.+.+..+-+|||-.+.-..-..+.. +| +.|..-+.. ..++++++..-..+++.+
T Consensus 5 ~v~~i~~--~~~~~~~i~~~~~vvV~f~a~~c~~C~~~~p-~l--------~~la~~~~~--i~f~~Vd~~~~~~l~~~~ 71 (113)
T cd02989 5 KYREVSD--EKEFFEIVKSSERVVCHFYHPEFFRCKIMDK-HL--------EILAKKHLE--TKFIKVNAEKAPFLVEKL 71 (113)
T ss_pred CeEEeCC--HHHHHHHHhCCCcEEEEEECCCCccHHHHHH-HH--------HHHHHHcCC--CEEEEEEcccCHHHHHHC
Confidence 4555544 6899999999999999998766554332221 22 223332321 367888888888899999
Q ss_pred HhcCCCEEEEcCCC
Q 004566 131 HSRGVPYVIYWKHS 144 (745)
Q Consensus 131 ~~kGv~yviyW~~~ 144 (745)
.-+++|-+++-++.
T Consensus 72 ~v~~vPt~l~fk~G 85 (113)
T cd02989 72 NIKVLPTVILFKNG 85 (113)
T ss_pred CCccCCEEEEEECC
Confidence 99999999999886
No 71
>TIGR00269 conserved hypothetical protein TIGR00269.
Probab=31.15 E-value=55 Score=30.06 Aligned_cols=61 Identities=18% Similarity=0.346 Sum_probs=39.1
Q ss_pred CChHHHHhhccCCCCCCccccHHHHHHHHHHHhhhhhhhccCcccccccccccCCCCCCeEecCCCCCc
Q 004566 631 NWKGQVFSKMRNHTLTNRMTGVGNTLKRHYETYLLEYELAHDDVDGECCLLCHSSAAGDWVNCGICGEW 699 (745)
Q Consensus 631 kWk~EV~~~Mgn~~~p~t~TSag~~LK~hYERyLleYE~aHDDvd~~~C~~C~~~~~e~wi~CD~Cd~w 699 (745)
.++ ++...|. ....++-..+.+.++++...|.....+.+...|..||....+. .|-.|.-|
T Consensus 41 ~~k-~~L~~LE-----~~~P~~k~~i~~s~~~~~~~~~~~~~~~~~~~C~~CG~pss~~--iC~~C~l~ 101 (104)
T TIGR00269 41 RIR-DFLYDLE-----NKKPGVKFSVLRGFEKLIPLLKELSEQEDLRRCERCGEPTSGR--ICKACKFL 101 (104)
T ss_pred HHH-HHHHHHH-----HHCcChHHHHHHHHHHHHHHhhcccccccCCcCCcCcCcCCcc--ccHhhhhh
Confidence 366 6667665 2345667777777777665554333334567899999886554 57777543
No 72
>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=30.14 E-value=82 Score=27.61 Aligned_cols=30 Identities=23% Similarity=0.401 Sum_probs=22.2
Q ss_pred ccccccccCC--CCCCeEecCCCCCccccCcccC
Q 004566 676 GECCLLCHSS--AAGDWVNCGICGEWAHFGCDRR 707 (745)
Q Consensus 676 ~~~C~~C~~~--~~e~wi~CD~Cd~wyH~~C~~~ 707 (745)
...|..|+.. ..-|.+..+ +.-||..|..|
T Consensus 78 ~~~C~vC~k~l~~~~f~~~p~--~~v~H~~C~~r 109 (109)
T PF10367_consen 78 STKCSVCGKPLGNSVFVVFPC--GHVVHYSCIKR 109 (109)
T ss_pred CCCccCcCCcCCCceEEEeCC--CeEEecccccC
Confidence 4789999997 344555544 58899999865
No 73
>PHA02278 thioredoxin-like protein
Probab=29.89 E-value=1.3e+02 Score=27.49 Aligned_cols=76 Identities=13% Similarity=0.131 Sum_probs=51.6
Q ss_pred CHHHHHHHHHhhCCCEEEEeccccCCcCceeeeeeccCCCCCHHHHhhhhCCCCCcEEEEecCCc----hhHHHHHHhcC
Q 004566 59 STDEFRRLLESSEPNIVYLQGEKINDSEEIGSLVWGDVDLSTPEALCGLFGSTLPTTVYLEIPNG----ENFAEALHSRG 134 (745)
Q Consensus 59 t~~e~~~~~~~~~p~f~y~~g~~~~~~~eig~l~~~~~d~~~~~~l~~l~~~~~p~~vYle~~~~----e~~a~al~~kG 134 (745)
|.+||++.+.+-.|-+|||...--..-..+.. .-+.+..-.... -.++++++-.- +.+|+.+.=+|
T Consensus 3 ~~~~~~~~i~~~~~vvV~F~A~WCgpCk~m~p---------~l~~l~~~~~~~-~~~~~vdvd~~~~d~~~l~~~~~I~~ 72 (103)
T PHA02278 3 SLVDLNTAIRQKKDVIVMITQDNCGKCEILKS---------VIPMFQESGDIK-KPILTLNLDAEDVDREKAVKLFDIMS 72 (103)
T ss_pred CHHHHHHHHhCCCcEEEEEECCCCHHHHhHHH---------HHHHHHhhhcCC-ceEEEEECCccccccHHHHHHCCCcc
Confidence 68999999998999999998753322211111 113333322222 24677887753 67999999999
Q ss_pred CCEEEEcCCC
Q 004566 135 VPYVIYWKHS 144 (745)
Q Consensus 135 v~yviyW~~~ 144 (745)
||.+++-|+.
T Consensus 73 iPT~i~fk~G 82 (103)
T PHA02278 73 TPVLIGYKDG 82 (103)
T ss_pred ccEEEEEECC
Confidence 9999999885
No 74
>cd03006 PDI_a_EFP1_N PDIa family, N-terminal EFP1 subfamily; EFP1 is a binding partner protein of thyroid oxidase (ThOX), also called Duox. ThOX proteins are responsible for the generation of hydrogen peroxide, a crucial substrate of thyroperoxidase, which functions to iodinate thyroglobulin and synthesize thyroid hormones. EFP1 was isolated through a yeast two-hybrid method using the EF-hand fragment of dog Duox1 as a bait. It could be one of the partners in the assembly of a multiprotein complex constituting the thyroid hydrogen peroxide generating system. EFP1 contains two TRX domains related to the redox active TRX domains of protein disulfide isomerase (PDI). This subfamily is composed of the N-terminal TRX domain of EFP1, which contains a CXXS sequence in place of the typical CXXC motif, similar to ERp44. The CXXS motif allows the formation of stable mixed disulfides, crucial for the ER-retention function of ERp44.
Probab=29.72 E-value=77 Score=29.50 Aligned_cols=36 Identities=19% Similarity=0.019 Sum_probs=30.8
Q ss_pred cCceEEEEccCCCHHHHHHHHHhhCCCEEEEecccc
Q 004566 47 SGRLEVHLLSSPSTDEFRRLLESSEPNIVYLQGEKI 82 (745)
Q Consensus 47 sgrlev~~l~~pt~~e~~~~~~~~~p~f~y~~g~~~ 82 (745)
|++-.|..|++-+.+++.+.++.-++-+|.|-+.--
T Consensus 6 ~~~~~v~~l~~~~f~~~~~v~~~~~~vlV~FyA~WC 41 (113)
T cd03006 6 SQRSPVLDFYKGQLDYAEELRTDAEVSLVMYYAPWD 41 (113)
T ss_pred CCCCCeEEechhhhHHHHhcccCCCEEEEEEECCCC
Confidence 567789999999999998889999999999987633
No 75
>PF15446 zf-PHD-like: PHD/FYVE-zinc-finger like domain
Probab=29.27 E-value=30 Score=35.50 Aligned_cols=32 Identities=25% Similarity=0.461 Sum_probs=26.0
Q ss_pred ccccccC---C-CCCCeEecCCCCCccccCcccCCC
Q 004566 678 CCLLCHS---S-AAGDWVNCGICGEWAHFGCDRRQG 709 (745)
Q Consensus 678 ~C~~C~~---~-~~e~wi~CD~Cd~wyH~~C~~~~~ 709 (745)
.|..|+. + .-|-+|-|-||-..||-.|+.+-.
T Consensus 1 ~C~~C~~~g~~~~kG~Lv~CQGCs~sYHk~CLG~Rs 36 (175)
T PF15446_consen 1 TCDTCGYEGDDRNKGPLVYCQGCSSSYHKACLGPRS 36 (175)
T ss_pred CcccccCCCCCccCCCeEEcCccChHHHhhhcCCcc
Confidence 4888853 2 368999999999999999997653
No 76
>PRK11823 DNA repair protein RadA; Provisional
Probab=29.13 E-value=32 Score=38.96 Aligned_cols=28 Identities=21% Similarity=0.579 Sum_probs=24.4
Q ss_pred cccccccccCCCCCCeEecCCCCCcccc
Q 004566 675 DGECCLLCHSSAAGDWVNCGICGEWAHF 702 (745)
Q Consensus 675 d~~~C~~C~~~~~e~wi~CD~Cd~wyH~ 702 (745)
..|.|..||-.....|-.|..|+.|=-.
T Consensus 6 ~~y~C~~Cg~~~~~~~g~Cp~C~~w~t~ 33 (446)
T PRK11823 6 TAYVCQECGAESPKWLGRCPECGAWNTL 33 (446)
T ss_pred CeEECCcCCCCCcccCeeCcCCCCccce
Confidence 4589999999999999999999999544
No 77
>COG2956 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]
Probab=28.87 E-value=36 Score=38.37 Aligned_cols=26 Identities=23% Similarity=0.533 Sum_probs=21.5
Q ss_pred ccccccccCCCCCCeEecCCCCCccc
Q 004566 676 GECCLLCHSSAAGDWVNCGICGEWAH 701 (745)
Q Consensus 676 ~~~C~~C~~~~~e~wi~CD~Cd~wyH 701 (745)
.|.|..||=.+..+.-.|.+|.+|--
T Consensus 354 ~YRC~~CGF~a~~l~W~CPsC~~W~T 379 (389)
T COG2956 354 RYRCQNCGFTAHTLYWHCPSCRAWET 379 (389)
T ss_pred CceecccCCcceeeeeeCCCcccccc
Confidence 48999999888887778888888854
No 78
>PRK13197 pyrrolidone-carboxylate peptidase; Provisional
Probab=28.74 E-value=3.5e+02 Score=28.18 Aligned_cols=88 Identities=16% Similarity=0.242 Sum_probs=51.7
Q ss_pred eEEEEccCC-----CHHHHHHHHHhhCCCEEEEeccccCCc---CceeeeeeccCCCCC-----HHHHhhhhCCCCCcEE
Q 004566 50 LEVHLLSSP-----STDEFRRLLESSEPNIVYLQGEKINDS---EEIGSLVWGDVDLST-----PEALCGLFGSTLPTTV 116 (745)
Q Consensus 50 lev~~l~~p-----t~~e~~~~~~~~~p~f~y~~g~~~~~~---~eig~l~~~~~d~~~-----~~~l~~l~~~~~p~~v 116 (745)
.+|+++.=| ..+.+.+.++..+||+|.--|...... =|-=...+++..+.| |+.- -+...-|...
T Consensus 35 ~~i~~~~lPV~y~~~~~~l~~~l~~~~Pd~vih~G~a~~~~~i~lEr~A~N~~~~~~pDn~G~~p~~~--~i~~~gp~~~ 112 (215)
T PRK13197 35 AEIIKRQLPTVFGKSAEVLKEAIEEVQPDAVICIGQAGGRTDITPERVAINIDDARIPDNEGNQPIDE--PIVEDGPAAY 112 (215)
T ss_pred cEEEEEEECCChHHHHHHHHHHHHHhCCCEEEEeccCCCCCcEEeEeeecccCCccCCCCCCCCcCCC--cccCCCCcee
Confidence 445554444 556777888889999999999876543 122333444432222 2221 1223344443
Q ss_pred EEecCCchhHHHHHHhcCCCEEEE
Q 004566 117 YLEIPNGENFAEALHSRGVPYVIY 140 (745)
Q Consensus 117 Yle~~~~e~~a~al~~kGv~yviy 140 (745)
+--+ +-+++.++|+..|+|--+=
T Consensus 113 ~t~L-p~~~l~~~l~~~gip~~~S 135 (215)
T PRK13197 113 FSTL-PIKAMVKAIREAGIPASVS 135 (215)
T ss_pred EcCC-CHHHHHHHHHHcCCCceec
Confidence 3333 3479999999999994333
No 79
>COG0777 AccD Acetyl-CoA carboxylase beta subunit [Lipid metabolism]
Probab=28.65 E-value=23 Score=38.75 Aligned_cols=30 Identities=33% Similarity=0.698 Sum_probs=22.8
Q ss_pred CCCeEecCCCCCccccCcccCCCCCcccCccccCCceeecCCCc
Q 004566 687 AGDWVNCGICGEWAHFGCDRRQGLGAFKDYAKTDGLEYVCPQCS 730 (745)
Q Consensus 687 ~e~wi~CD~Cd~wyH~~C~~~~~~g~fkd~ak~dg~~Y~CP~Cs 730 (745)
++.|+-|..|+.--|.+=+ +...|+||+|.
T Consensus 25 e~lw~KCp~c~~~~y~~eL--------------~~n~~vcp~c~ 54 (294)
T COG0777 25 EGLWTKCPSCGEMLYRKEL--------------ESNLKVCPKCG 54 (294)
T ss_pred CCceeECCCccceeeHHHH--------------HhhhhcccccC
Confidence 7899999999988765433 22249999995
No 80
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=27.16 E-value=44 Score=32.39 Aligned_cols=36 Identities=14% Similarity=0.117 Sum_probs=23.0
Q ss_pred ccHHHHHHHHHHHhhhhhhhccC---cccccccccccCC
Q 004566 650 TGVGNTLKRHYETYLLEYELAHD---DVDGECCLLCHSS 685 (745)
Q Consensus 650 TSag~~LK~hYERyLleYE~aHD---Dvd~~~C~~C~~~ 685 (745)
..+-.++|.-..+.+-..+..-+ +...+.|..|+..
T Consensus 70 ~~~~~vik~r~~~~~~~L~~~l~~e~~~~~Y~Cp~C~~~ 108 (147)
T smart00531 70 DTLLDVVKYKLDKMRKRLEDKLEDETNNAYYKCPNCQSK 108 (147)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhcccCCcEEECcCCCCE
Confidence 35677788777777766654432 2234788888764
No 81
>PF05368 NmrA: NmrA-like family; InterPro: IPR008030 NmrA is a negative transcriptional regulator involved in the post-translational modification of the transcription factor AreA. NmrA is part of a system controlling nitrogen metabolite repression in fungi []. This family only contains a few sequences as iteration results in significant matches to other Rossmann fold families.; PDB: 2ZCV_A 2ZCU_A 2R6J_B 3C3X_A 2QZZ_B 2QYS_A 2QX7_A 2QW8_A 2R2G_B 3E5M_B ....
Probab=27.05 E-value=1.6e+02 Score=29.07 Aligned_cols=75 Identities=20% Similarity=0.313 Sum_probs=51.0
Q ss_pred CceEEEEccCCCHHHHHHHHHhhCCCEEEEeccccCCcCceeeeeeccCCCCCHHHHhhhhCCCCCcEEEEecC------
Q 004566 48 GRLEVHLLSSPSTDEFRRLLESSEPNIVYLQGEKINDSEEIGSLVWGDVDLSTPEALCGLFGSTLPTTVYLEIP------ 121 (745)
Q Consensus 48 grlev~~l~~pt~~e~~~~~~~~~p~f~y~~g~~~~~~~eig~l~~~~~d~~~~~~l~~l~~~~~p~~vYle~~------ 121 (745)
...+|..|..+...+..+.|+.. |.-+- .+|+.++++|...|... ++||+=++
T Consensus 21 ~~~~V~~l~R~~~~~~~~~l~~~------------------g~~vv-~~d~~~~~~l~~al~g~--d~v~~~~~~~~~~~ 79 (233)
T PF05368_consen 21 AGFSVRALVRDPSSDRAQQLQAL------------------GAEVV-EADYDDPESLVAALKGV--DAVFSVTPPSHPSE 79 (233)
T ss_dssp TTGCEEEEESSSHHHHHHHHHHT------------------TTEEE-ES-TT-HHHHHHHHTTC--SEEEEESSCSCCCH
T ss_pred CCCCcEEEEeccchhhhhhhhcc------------------cceEe-ecccCCHHHHHHHHcCC--ceEEeecCcchhhh
Confidence 55788888888876666666642 11122 34777899999988753 45665555
Q ss_pred --CchhHHHHHHhcCCCEEEEcCC
Q 004566 122 --NGENFAEALHSRGVPYVIYWKH 143 (745)
Q Consensus 122 --~~e~~a~al~~kGv~yviyW~~ 143 (745)
...++++|....||.|+||+.-
T Consensus 80 ~~~~~~li~Aa~~agVk~~v~ss~ 103 (233)
T PF05368_consen 80 LEQQKNLIDAAKAAGVKHFVPSSF 103 (233)
T ss_dssp HHHHHHHHHHHHHHT-SEEEESEE
T ss_pred hhhhhhHHHhhhccccceEEEEEe
Confidence 5678999999999999999754
No 82
>TIGR01140 L_thr_O3P_dcar L-threonine-O-3-phosphate decarboxylase. This family contains pyridoxal phosphate-binding class II aminotransferases (see PFAM:PF00222) closely related to, yet distinct from, histidinol-phosphate aminotransferase (HisC). It is found in cobalamin biosynthesis operons in Salmonella typhimurium and Bacillus halodurans (each of which also has HisC) and has been shown to have L-threonine-O-3-phosphate decarboxylase activity in Salmonella. Although the gene symbol cobD was assigned in Salmonella, cobD in other contexts refers to a different cobalamin biosynthesis enzyme, modeled by pfam03186 and called cbiB in Salmonella.
Probab=26.74 E-value=2.1e+02 Score=30.23 Aligned_cols=71 Identities=21% Similarity=0.249 Sum_probs=49.7
Q ss_pred EEccCCCHHHHHHHHHhhCCCEEEEeccccCCcCceeeeeeccCCCCCHHHHhhhhCCCCCcEEEEecCC----------
Q 004566 53 HLLSSPSTDEFRRLLESSEPNIVYLQGEKINDSEEIGSLVWGDVDLSTPEALCGLFGSTLPTTVYLEIPN---------- 122 (745)
Q Consensus 53 ~~l~~pt~~e~~~~~~~~~p~f~y~~g~~~~~~~eig~l~~~~~d~~~~~~l~~l~~~~~p~~vYle~~~---------- 122 (745)
.++.+|+...+...++...-+++++. |+|.|..++. -...|++..|+
T Consensus 89 vl~~~p~y~~~~~~~~~~g~~~~~~~---------------------d~~~l~~~~~--~~~~v~i~~p~NPtG~~~~~~ 145 (330)
T TIGR01140 89 VLVLAPTYSEYARAWRAAGHEVVELP---------------------DLDRLPAALE--ELDVLVLCNPNNPTGRLIPPE 145 (330)
T ss_pred EEEeCCCcHHHHHHHHHcCCEEEEeC---------------------CHHHHHhhcc--cCCEEEEeCCCCCCCCCCCHH
Confidence 34457888888888877777777765 6777877773 24578888875
Q ss_pred -chhHHHHHHhcCCCEEEEcCCCchhh
Q 004566 123 -GENFAEALHSRGVPYVIYWKHSFSCY 148 (745)
Q Consensus 123 -~e~~a~al~~kGv~yviyW~~~~s~~ 148 (745)
-+++++..+.+|+ .|..+..+..+
T Consensus 146 ~~~~l~~~a~~~~~--~ii~De~y~~~ 170 (330)
T TIGR01140 146 TLLALAARLRARGG--WLVVDEAFIDF 170 (330)
T ss_pred HHHHHHHHhHhcCC--EEEEECccccc
Confidence 3567788888898 45567765433
No 83
>cd02948 TRX_NDPK TRX domain, TRX and NDP-kinase (NDPK) fusion protein family; most members of this group are fusion proteins which contain one redox active TRX domain containing a CXXC motif and three NDPK domains, and are characterized as intermediate chains (ICs) of axonemal outer arm dynein. Dyneins are molecular motors that generate force against microtubules to produce cellular movement, and are divided into two classes: axonemal and cytoplasmic. They are supramolecular complexes consisting of three protein groups classified according to size: dynein heavy, intermediate and light chains. Axonemal dyneins form two structures, the inner and outer arms, which are attached to doublet microtubules throughout the cilia and flagella. The human homolog is the sperm-specific Sptrx-2, presumed to be a component of the human sperm axoneme architecture. Included in this group is another human protein, TRX-like protein 2, a smaller fusion protein containing one TRX and one NDPK domain, which
Probab=26.64 E-value=99 Score=27.29 Aligned_cols=77 Identities=16% Similarity=0.233 Sum_probs=50.5
Q ss_pred CCHHHHHHHHHhhCCCEEEEeccccCCcCceeeeeeccCCCCCHHHHhhhhCCCCCcEEEEecCCchhHHHHHHhcCCCE
Q 004566 58 PSTDEFRRLLESSEPNIVYLQGEKINDSEEIGSLVWGDVDLSTPEALCGLFGSTLPTTVYLEIPNGENFAEALHSRGVPY 137 (745)
Q Consensus 58 pt~~e~~~~~~~~~p~f~y~~g~~~~~~~eig~l~~~~~d~~~~~~l~~l~~~~~p~~vYle~~~~e~~a~al~~kGv~y 137 (745)
.|.++|...+..-+|-+|||.+.--..-...... + +.+..-++.+.-..+.+++- ...+++++.=+++|-
T Consensus 5 ~~~~~~~~~i~~~~~vvv~F~a~wC~~Ck~~~p~-l--------~~~~~~~~~~~~~~~~vd~d-~~~~~~~~~v~~~Pt 74 (102)
T cd02948 5 NNQEEWEELLSNKGLTVVDVYQEWCGPCKAVVSL-F--------KKIKNELGDDLLHFATAEAD-TIDTLKRYRGKCEPT 74 (102)
T ss_pred cCHHHHHHHHccCCeEEEEEECCcCHhHHHHhHH-H--------HHHHHHcCCCcEEEEEEeCC-CHHHHHHcCCCcCcE
Confidence 4789999999999999999987654433222211 1 22334444333345667776 457788888899997
Q ss_pred EEEcCCC
Q 004566 138 VIYWKHS 144 (745)
Q Consensus 138 viyW~~~ 144 (745)
+++.++.
T Consensus 75 ~~~~~~g 81 (102)
T cd02948 75 FLFYKNG 81 (102)
T ss_pred EEEEECC
Confidence 7777765
No 84
>PHA02929 N1R/p28-like protein; Provisional
Probab=26.61 E-value=38 Score=36.02 Aligned_cols=64 Identities=19% Similarity=0.312 Sum_probs=41.0
Q ss_pred HHHHhhhhhhhccCcccccccccccCCC--CC----CeEecCCCCCccccCcccCCCCCcccCccccCCceeecCCCccc
Q 004566 659 HYETYLLEYELAHDDVDGECCLLCHSSA--AG----DWVNCGICGEWAHFGCDRRQGLGAFKDYAKTDGLEYVCPQCSVT 732 (745)
Q Consensus 659 hYERyLleYE~aHDDvd~~~C~~C~~~~--~e----~wi~CD~Cd~wyH~~C~~~~~~g~fkd~ak~dg~~Y~CP~Cs~~ 732 (745)
..-+.|.+||.+.+......|.+|...- .+ ....=..|+-.||..|...-+ +. +=.||-|+..
T Consensus 157 ~lp~vl~~~e~~~~~~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl--------~~---~~tCPlCR~~ 225 (238)
T PHA02929 157 TIPSVLSEYEKLYNRSKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWK--------KE---KNTCPVCRTP 225 (238)
T ss_pred hcchhhhhhhhhhcCCCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHH--------hc---CCCCCCCCCE
Confidence 3344567888776655567899998862 21 112224788899999986642 11 2379999854
Q ss_pred c
Q 004566 733 N 733 (745)
Q Consensus 733 ~ 733 (745)
-
T Consensus 226 ~ 226 (238)
T PHA02929 226 F 226 (238)
T ss_pred e
Confidence 3
No 85
>cd01121 Sms Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of branched DNA molecules.
Probab=26.59 E-value=40 Score=37.51 Aligned_cols=28 Identities=25% Similarity=0.491 Sum_probs=24.2
Q ss_pred cccccccCCCCCCeEecCCCCCccccCc
Q 004566 677 ECCLLCHSSAAGDWVNCGICGEWAHFGC 704 (745)
Q Consensus 677 ~~C~~C~~~~~e~wi~CD~Cd~wyH~~C 704 (745)
|.|..||-....-|-.|..|+.|=-..=
T Consensus 1 ~~c~~cg~~~~~~~g~cp~c~~w~~~~e 28 (372)
T cd01121 1 YVCSECGYVSPKWLGKCPECGEWNTLVE 28 (372)
T ss_pred CCCCCCCCCCCCccEECcCCCCceeeee
Confidence 5799999999888899999999966554
No 86
>cd02952 TRP14_like Human TRX-related protein 14 (TRP14)-like family; composed of proteins similar to TRP14, a 14kD cytosolic protein that shows disulfide reductase activity in vitro with a different substrate specificity compared with another human cytosolic protein, TRX1. TRP14 catalyzes the reduction of small disulfide-containing peptides but does not reduce disulfides of ribonucleotide reductase, peroxiredoxin and methionine sulfoxide reductase, which are TRX1 substrates. TRP14 also plays a role in tumor necrosis factor (TNF)-alpha signaling pathways, distinct from that of TRX1. Its depletion promoted TNF-alpha induced activation of c-Jun N-terminal kinase and mitogen-activated protein kinases.
Probab=26.29 E-value=1e+02 Score=29.26 Aligned_cols=79 Identities=24% Similarity=0.460 Sum_probs=48.1
Q ss_pred CHHHHHHHHHh--hCCCEEEEeccccCCcCceeeeeeccC-CCCCHHHHhhhhCCCCC-cEEEEecCCch---------h
Q 004566 59 STDEFRRLLES--SEPNIVYLQGEKINDSEEIGSLVWGDV-DLSTPEALCGLFGSTLP-TTVYLEIPNGE---------N 125 (745)
Q Consensus 59 t~~e~~~~~~~--~~p~f~y~~g~~~~~~~eig~l~~~~~-d~~~~~~l~~l~~~~~p-~~vYle~~~~e---------~ 125 (745)
+.++|.+.++. -+|-||+|.+...+ + ...|-+. ....| .|..++. ..+ .+.++.+-.++ .
T Consensus 8 ~~~~f~~~i~~~~~~~vvV~F~A~~~~-~----~~~WC~pCr~~~P-~l~~l~~-~~~~~v~fv~Vdvd~~~~w~d~~~~ 80 (119)
T cd02952 8 GYEEFLKLLKSHEGKPIFILFYGDKDP-D----GQSWCPDCVKAEP-VVREALK-AAPEDCVFIYCDVGDRPYWRDPNNP 80 (119)
T ss_pred CHHHHHHHHHhcCCCeEEEEEEccCCC-C----CCCCCHhHHhhch-hHHHHHH-HCCCCCEEEEEEcCCcccccCcchh
Confidence 57899999997 46999999986554 2 2356552 11222 2222222 223 34444444432 6
Q ss_pred HHHHHHhc-CCCEEEEcCCC
Q 004566 126 FAEALHSR-GVPYVIYWKHS 144 (745)
Q Consensus 126 ~a~al~~k-Gv~yviyW~~~ 144 (745)
++....-+ |||.++.|++.
T Consensus 81 ~~~~~~I~~~iPT~~~~~~~ 100 (119)
T cd02952 81 FRTDPKLTTGVPTLLRWKTP 100 (119)
T ss_pred hHhccCcccCCCEEEEEcCC
Confidence 77766666 99999999875
No 87
>PF01053 Cys_Met_Meta_PP: Cys/Met metabolism PLP-dependent enzyme; InterPro: IPR000277 Pyridoxal phosphate is the active form of vitamin B6 (pyridoxine or pyridoxal). Pyridoxal 5'-phosphate (PLP) is a versatile catalyst, acting as a coenzyme in a multitude of reactions, including decarboxylation, deamination and transamination [, , ]. PLP-dependent enzymes are primarily involved in the biosynthesis of amino acids and amino acid-derived metabolites, but they are also found in the biosynthetic pathways of amino sugars and in the synthesis or catabolism of neurotransmitters; pyridoxal phosphate can also inhibit DNA polymerases and several steroid receptors []. Inadequate levels of pyridoxal phosphate in the brain can cause neurological dysfunction, particularly epilepsy []. PLP enzymes exist in their resting state as a Schiff base, the aldehyde group of PLP forming a linkage with the epsilon-amino group of an active site lysine residue on the enzyme. The alpha-amino group of the substrate displaces the lysine epsilon-amino group, in the process forming a new aldimine with the substrate. This aldimine is the common central intermediate for all PLP-catalysed reactions, enzymatic and non-enzymatic []. A number of pyridoxal-dependent enzymes involved in the metabolism of cysteine, homocysteine and methionine have been shown [, ] to be evolutionary related. These enzymes are proteins of about 400 amino-acid residues. The pyridoxal-P group is attached to a lysine residue located in the central section of these enzymes.; GO: 0030170 pyridoxal phosphate binding, 0006520 cellular amino acid metabolic process; PDB: 1PFF_A 2NMP_A 3ELP_B 3COG_C 1CS1_A 1E5E_B 3RI6_A 1E5F_A 2FQ6_B 1CL2_B ....
Probab=26.22 E-value=86 Score=35.08 Aligned_cols=48 Identities=27% Similarity=0.410 Sum_probs=38.2
Q ss_pred CCCCHHHHhhhhCCCCCcEEEEecCCc--------hhHHHHHHhcC-CCEEEEcCCCchh
Q 004566 97 DLSTPEALCGLFGSTLPTTVYLEIPNG--------ENFAEALHSRG-VPYVIYWKHSFSC 147 (745)
Q Consensus 97 d~~~~~~l~~l~~~~~p~~vYle~~~~--------e~~a~al~~kG-v~yviyW~~~~s~ 147 (745)
|..+.++|..++.. -...||+|+|.. +++++..|++| |+-|| +|.|.+
T Consensus 126 d~~d~~~l~~~l~~-~t~~v~~EspsNP~l~v~Dl~~i~~~a~~~g~~~~vV--DnT~at 182 (386)
T PF01053_consen 126 DPTDLEALEAALRP-NTKLVFLESPSNPTLEVPDLEAIAKLAKEHGDILVVV--DNTFAT 182 (386)
T ss_dssp STTSHHHHHHHHCT-TEEEEEEESSBTTTTB---HHHHHHHHHHTTT-EEEE--ECTTTH
T ss_pred CchhHHHHHhhccc-cceEEEEEcCCCcccccccHHHHHHHHHHhCCceEEe--eccccc
Confidence 67889999999988 567899999866 57899999999 87666 676543
No 88
>cd02068 radical_SAM_B12_BD B12 binding domain_like associated with radical SAM domain. This domain shows similarity with B12 (adenosylcobamide) binding domains found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase, but it lacks the signature motif Asp-X-His-X-X-Gly, which contains the histidine that acts as a cobalt ligand. The function of this domain remains unclear.
Probab=26.03 E-value=3e+02 Score=25.23 Aligned_cols=89 Identities=21% Similarity=0.184 Sum_probs=57.9
Q ss_pred eEEEEccCCCHHHHHHHHHh-hCCCEEEEeccccCCc---------Cce---eeeeeccCCC-CCHHHHhhhhCCCCCcE
Q 004566 50 LEVHLLSSPSTDEFRRLLES-SEPNIVYLQGEKINDS---------EEI---GSLVWGDVDL-STPEALCGLFGSTLPTT 115 (745)
Q Consensus 50 lev~~l~~pt~~e~~~~~~~-~~p~f~y~~g~~~~~~---------~ei---g~l~~~~~d~-~~~~~l~~l~~~~~p~~ 115 (745)
.+|..+.+-..++..+.+.+ .+||+|-+..--.... +++ -.++|||.-. ..|+.+ +.. ...+.
T Consensus 17 ~~v~~~~~~~~~~~~~~~~~~~~pdiv~~S~~~~~~~~~~~~~~~ik~~~p~~~iv~GG~~~t~~p~~~--~~~-~~~D~ 93 (127)
T cd02068 17 FIVAEHDVLSADDIVEDIKELLKPDVVGISLMTSAIYEALELAKIAKEVLPNVIVVVGGPHATFFPEEI--LEE-PGVDF 93 (127)
T ss_pred CeeeecCCCCHHHHHHHHHHhcCCCEEEEeeccccHHHHHHHHHHHHHHCCCCEEEECCcchhhCHHHH--hcC-CCCCE
Confidence 77888888888998888888 8999998876332221 233 4578888655 567775 222 22233
Q ss_pred EEEecCCch----hHHHHHH----hcCCCEEEEcCC
Q 004566 116 VYLEIPNGE----NFAEALH----SRGVPYVIYWKH 143 (745)
Q Consensus 116 vYle~~~~e----~~a~al~----~kGv~yviyW~~ 143 (745)
+=.-.|| .|+++|. -..||-++||+|
T Consensus 94 --vv~GEgE~~~~~l~~~l~~g~~~~~i~Gl~~~~~ 127 (127)
T cd02068 94 --VVIGEGEETFLKLLEELEEGEDLSEVPGIAYRDG 127 (127)
T ss_pred --EEECCcHHHHHHHHHHHHcCCCcccCCCeEEeCC
Confidence 2223444 4566665 367899999986
No 89
>cd00167 SANT 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The domain is also found in regulatory transcriptional repressor complexes where it also binds DNA.
Probab=25.76 E-value=1.1e+02 Score=22.12 Aligned_cols=37 Identities=16% Similarity=0.349 Sum_probs=25.5
Q ss_pred HHHHHHHhcCceeeccCCCChHHHHhhccCCCCCCccccHHHHHHHHHHHhh
Q 004566 613 NLYREVVSRGGFHVGNGINWKGQVFSKMRNHTLTNRMTGVGNTLKRHYETYL 664 (745)
Q Consensus 613 kLYreV~sRGGF~kVnkkkWk~EV~~~Mgn~~~p~t~TSag~~LK~hYERyL 664 (745)
.|.+.|...|- .+|. .|+..|.+ -.+..++++|.+++
T Consensus 9 ~l~~~~~~~g~------~~w~-~Ia~~~~~--------rs~~~~~~~~~~~~ 45 (45)
T cd00167 9 LLLEAVKKYGK------NNWE-KIAKELPG--------RTPKQCRERWRNLL 45 (45)
T ss_pred HHHHHHHHHCc------CCHH-HHHhHcCC--------CCHHHHHHHHHHhC
Confidence 35555555552 6799 99998872 23778899998764
No 90
>cd02951 SoxW SoxW family; SoxW is a bacterial periplasmic TRX, containing a redox active CXXC motif, encoded by a genetic locus (sox operon) involved in thiosulfate oxidation. Sulfur bacteria oxidize sulfur compounds to provide reducing equivalents for carbon dioxide fixation during autotrophic growth and the respiratory electron transport chain. It is unclear what the role of SoxW is, since it has been found to be dispensable in the oxidation of thiosulfate to sulfate. SoxW is specifically kept in the reduced state by SoxV, which is essential in thiosulfate oxidation.
Probab=25.73 E-value=1e+02 Score=27.82 Aligned_cols=95 Identities=16% Similarity=0.240 Sum_probs=50.5
Q ss_pred HHHHHHHHHhh-CCCEEEEeccccCCcCceeeeeeccCCCCCHHHHhhhhCCCCCcEEEEecCC-------------chh
Q 004566 60 TDEFRRLLESS-EPNIVYLQGEKINDSEEIGSLVWGDVDLSTPEALCGLFGSTLPTTVYLEIPN-------------GEN 125 (745)
Q Consensus 60 ~~e~~~~~~~~-~p~f~y~~g~~~~~~~eig~l~~~~~d~~~~~~l~~l~~~~~p~~vYle~~~-------------~e~ 125 (745)
.+|+.++++.- +|-+|+|.+.-=..-.......+ ....+...+...+ ..+++++.. ...
T Consensus 3 ~~~~~~a~~~~~k~vlv~f~a~wC~~C~~~~~~~~------~~~~~~~~~~~~~-~~~~i~~d~~~~~~~~~~~~~~~~~ 75 (125)
T cd02951 3 YEDLAEAAADGKKPLLLLFSQPGCPYCDKLKRDYL------NDPAVQAYIRAHF-VVVYINIDGDKEVTDFDGEALSEKE 75 (125)
T ss_pred HHHHHHHHHcCCCcEEEEEeCCCCHHHHHHHHHhc------CcHHHHHHHHhhe-EEEEEEccCCceeeccCCCCccHHH
Confidence 57889999999 99999987652111111111111 1112222232222 134444432 357
Q ss_pred HHHHHHhcCCCEEEEcCCC-------chhhH-HHHHHHHHHHHH
Q 004566 126 FAEALHSRGVPYVIYWKHS-------FSCYA-ACHFLQALLSVV 161 (745)
Q Consensus 126 ~a~al~~kGv~yviyW~~~-------~s~~a-A~HFr~Al~s~~ 161 (745)
++.++.-+|+|.+++-++. +.-|. .-+|+..|-.++
T Consensus 76 l~~~~~v~~~Pt~~~~~~~gg~~~~~~~G~~~~~~~~~~l~~~~ 119 (125)
T cd02951 76 LARKYRVRFTPTVIFLDPEGGKEIARLPGYLPPDEFLAYLEYVQ 119 (125)
T ss_pred HHHHcCCccccEEEEEcCCCCceeEEecCCCCHHHHHHHHHHHH
Confidence 8888888888888777753 22232 355665555443
No 91
>PF14445 Prok-RING_2: Prokaryotic RING finger family 2
Probab=25.53 E-value=6.8 Score=33.25 Aligned_cols=33 Identities=33% Similarity=0.766 Sum_probs=26.9
Q ss_pred ccccccccCCC-CCCeEecCCCCCccccCcccCC
Q 004566 676 GECCLLCHSSA-AGDWVNCGICGEWAHFGCDRRQ 708 (745)
Q Consensus 676 ~~~C~~C~~~~-~e~wi~CD~Cd~wyH~~C~~~~ 708 (745)
.+.|-+|++.. -..+-.|-+|++|.-..|-.-.
T Consensus 7 ry~CDLCn~~~p~~~LRQCvlCGRWaC~sCW~de 40 (57)
T PF14445_consen 7 RYSCDLCNSSHPISELRQCVLCGRWACNSCWQDE 40 (57)
T ss_pred hHhHHhhcccCcHHHHHHHhhhchhhhhhhhhhh
Confidence 37899999884 5678899999999988887443
No 92
>cd02997 PDI_a_PDIR PDIa family, PDIR subfamily; composed of proteins similar to human PDIR (for Protein Disulfide Isomerase Related). PDIR is composed of three redox active TRX (a) domains and an N-terminal redox inactive TRX-like (b) domain. Similar to PDI, it is involved in oxidative protein folding in the endoplasmic reticulum (ER) through its isomerase and chaperone activities. These activities are lower compared to PDI, probably due to PDIR acting only on a subset of proteins. PDIR is preferentially expressed in cells actively secreting proteins and its expression is induced by stress. Similar to PDI, the isomerase and chaperone activities of PDIR are independent; CXXC mutants lacking isomerase activity retain chaperone activity.
Probab=25.37 E-value=1.5e+02 Score=25.14 Aligned_cols=80 Identities=14% Similarity=0.270 Sum_probs=45.0
Q ss_pred EEEccCCCHHHHHHHHHhhCCCEEEEeccccCCcCceeeeeeccCCCCCHHHHhhhhCCCCCcEEE--EecCC--chhHH
Q 004566 52 VHLLSSPSTDEFRRLLESSEPNIVYLQGEKINDSEEIGSLVWGDVDLSTPEALCGLFGSTLPTTVY--LEIPN--GENFA 127 (745)
Q Consensus 52 v~~l~~pt~~e~~~~~~~~~p~f~y~~g~~~~~~~eig~l~~~~~d~~~~~~l~~l~~~~~p~~vY--le~~~--~e~~a 127 (745)
|..|++ ++|.+.++..+|-+|+|-+.--..-.... ..-+.+...+.. -...++ ++.-. ...++
T Consensus 2 ~~~l~~---~~~~~~~~~~~~~~v~f~a~wC~~C~~~~---------~~~~~~~~~~~~-~~~~~~~~id~~~~~~~~~~ 68 (104)
T cd02997 2 VVHLTD---EDFRKFLKKEKHVLVMFYAPWCGHCKKMK---------PEFTKAATELKE-DGKGVLAAVDCTKPEHDALK 68 (104)
T ss_pred eEEech---HhHHHHHhhCCCEEEEEECCCCHHHHHhC---------HHHHHHHHHHhh-CCceEEEEEECCCCccHHHH
Confidence 455544 46667778888999999886222111111 111233333431 112333 44444 55777
Q ss_pred HHHHhcCCCEEEEcCCC
Q 004566 128 EALHSRGVPYVIYWKHS 144 (745)
Q Consensus 128 ~al~~kGv~yviyW~~~ 144 (745)
+.+.-+|+|.++++++.
T Consensus 69 ~~~~i~~~Pt~~~~~~g 85 (104)
T cd02997 69 EEYNVKGFPTFKYFENG 85 (104)
T ss_pred HhCCCccccEEEEEeCC
Confidence 77777888988888875
No 93
>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=25.11 E-value=86 Score=33.39 Aligned_cols=28 Identities=29% Similarity=0.767 Sum_probs=15.0
Q ss_pred ccccccccCC--------CC--C-CeEecCCCCCccccC
Q 004566 676 GECCLLCHSS--------AA--G-DWVNCGICGEWAHFG 703 (745)
Q Consensus 676 ~~~C~~C~~~--------~~--e-~wi~CD~Cd~wyH~~ 703 (745)
...|-.||+. .+ | .++.|..|+--||+.
T Consensus 172 ~g~CPvCGs~P~~s~l~~~~~~G~R~L~Cs~C~t~W~~~ 210 (290)
T PF04216_consen 172 RGYCPVCGSPPVLSVLRGGEREGKRYLHCSLCGTEWRFV 210 (290)
T ss_dssp -SS-TTT---EEEEEEE------EEEEEETTT--EEE--
T ss_pred CCcCCCCCCcCceEEEecCCCCccEEEEcCCCCCeeeec
Confidence 4699999985 22 3 899999999988863
No 94
>PF00085 Thioredoxin: Thioredoxin; InterPro: IPR013766 Thioredoxins [, , , ] are small disulphide-containing redox proteins that have been found in all the kingdoms of living organisms. Thioredoxin serves as a general protein disulphide oxidoreductase. It interacts with a broad range of proteins by a redox mechanism based on reversible oxidation of two cysteine thiol groups to a disulphide, accompanied by the transfer of two electrons and two protons. The net result is the covalent interconversion of a disulphide and a dithiol. In the NADPH-dependent protein disulphide reduction, thioredoxin reductase (TR) catalyses the reduction of oxidised thioredoxin (trx) by NADPH using FAD and its redox-active disulphide; reduced thioredoxin then directly reduces the disulphide in the substrate protein []. Thioredoxin is present in prokaryotes and eukaryotes and the sequence around the redox-active disulphide bond is well conserved. All thioredoxins contain a cis-proline located in a loop preceding beta-strand 4, which makes contact with the active site cysteines, and is important for stability and function []. Thioredoxin belongs to a structural family that includes glutaredoxin, glutathione peroxidase, bacterial protein disulphide isomerase DsbA, and the N-terminal domain of glutathione transferase []. Thioredoxins have a beta-alpha unit preceding the motif common to all these proteins. A number of eukaryotic proteins contain domains evolutionary related to thioredoxin, most of them are protein disulphide isomerases (PDI). PDI (5.3.4.1 from EC) [, , ] is an endoplasmic reticulum multi-functional enzyme that catalyses the formation and rearrangement of disulphide bonds during protein folding []. All PDI contains two or three (ERp72) copies of the thioredoxin domain, each of which contributes to disulphide isomerase activity, but which are functionally non-equivalent []. Moreover, PDI exhibits chaperone-like activity towards proteins that contain no disulphide bonds, i.e. behaving independently of its disulphide isomerase activity []. The various forms of PDI which are currently known are: PDI major isozyme; a multifunctional protein that also function as the beta subunit of prolyl 4-hydroxylase (1.14.11.2 from EC), as a component of oligosaccharyl transferase (2.4.1.119 from EC), as thyroxine deiodinase (3.8.1.4 from EC), as glutathione-insulin transhydrogenase (1.8.4.2 from EC) and as a thyroid hormone-binding protein ERp60 (ER-60; 58 Kd microsomal protein). ERp60 was originally thought to be a phosphoinositide-specific phospholipase C isozyme and later to be a protease. ERp72. ERp5. Bacterial proteins that act as thiol:disulphide interchange proteins that allows disulphide bond formation in some periplasmic proteins also contain a thioredoxin domain. These proteins include: Escherichia coli DsbA (or PrfA) and its orthologs in Vibrio cholerae (TtcpG) and Haemophilus influenzae (Por). E. coli DsbC (or XpRA) and its orthologues in Erwinia chrysanthemi and H. influenzae. E. coli DsbD (or DipZ) and its H. influenzae orthologue. E. coli DsbE (or CcmG) and orthologues in H. influenzae. Rhodobacter capsulatus (Rhodopseudomonas capsulata) (HelX), Rhiziobiacae (CycY and TlpA). This entry represents the thioredoxin domain.; GO: 0045454 cell redox homeostasis; PDB: 3ED3_B 1EP7_A 1EP8_B 1TOF_A 2OE3_B 2OE1_B 2OE0_B 1V98_A 3H79_A 3CXG_A ....
Probab=24.27 E-value=1.4e+02 Score=25.12 Aligned_cols=75 Identities=13% Similarity=0.326 Sum_probs=50.6
Q ss_pred HHHHHHHHHh-hCCCEEEEeccccCCcCceeeeeeccCCCCCHHHHhhhhCCCCCcEEEEecCCchhHHHHHHhcCCCEE
Q 004566 60 TDEFRRLLES-SEPNIVYLQGEKINDSEEIGSLVWGDVDLSTPEALCGLFGSTLPTTVYLEIPNGENFAEALHSRGVPYV 138 (745)
Q Consensus 60 ~~e~~~~~~~-~~p~f~y~~g~~~~~~~eig~l~~~~~d~~~~~~l~~l~~~~~p~~vYle~~~~e~~a~al~~kGv~yv 138 (745)
.++|.+.+.. -+|=+|||-..--..-..+. ..=+.+...+.. -..+++++......+++.+.=+++|.+
T Consensus 6 ~~~f~~~i~~~~~~vvv~f~~~~C~~C~~~~---------~~~~~~~~~~~~-~v~~~~vd~~~~~~l~~~~~v~~~Pt~ 75 (103)
T PF00085_consen 6 DENFEKFINESDKPVVVYFYAPWCPPCKAFK---------PILEKLAKEYKD-NVKFAKVDCDENKELCKKYGVKSVPTI 75 (103)
T ss_dssp TTTHHHHHTTTSSEEEEEEESTTSHHHHHHH---------HHHHHHHHHTTT-TSEEEEEETTTSHHHHHHTTCSSSSEE
T ss_pred HHHHHHHHHccCCCEEEEEeCCCCCcccccc---------ceeccccccccc-ccccchhhhhccchhhhccCCCCCCEE
Confidence 4566666766 67777777654222111111 222345555555 457788899888899999999999999
Q ss_pred EEcCCC
Q 004566 139 IYWKHS 144 (745)
Q Consensus 139 iyW~~~ 144 (745)
+++++.
T Consensus 76 ~~~~~g 81 (103)
T PF00085_consen 76 IFFKNG 81 (103)
T ss_dssp EEEETT
T ss_pred EEEECC
Confidence 999986
No 95
>PF13832 zf-HC5HC2H_2: PHD-zinc-finger like domain
Probab=24.19 E-value=38 Score=30.58 Aligned_cols=33 Identities=30% Similarity=0.700 Sum_probs=29.1
Q ss_pred ccccccccCCCCCCeEecCC--CCCccccCcccCCC
Q 004566 676 GECCLLCHSSAAGDWVNCGI--CGEWAHFGCDRRQG 709 (745)
Q Consensus 676 ~~~C~~C~~~~~e~wi~CD~--Cd~wyH~~C~~~~~ 709 (745)
...|..|+.. .|..+.|.. |..+||-.|....+
T Consensus 55 ~~~C~iC~~~-~G~~i~C~~~~C~~~fH~~CA~~~g 89 (110)
T PF13832_consen 55 KLKCSICGKS-GGACIKCSHPGCSTAFHPTCARKAG 89 (110)
T ss_pred CCcCcCCCCC-CceeEEcCCCCCCcCCCHHHHHHCC
Confidence 4689999988 677999999 99999999998875
No 96
>PF00875 DNA_photolyase: DNA photolyase from Prosite.; InterPro: IPR006050 DNA photolyases are enzymes that bind to DNA containing pyrimidine dimers: on absorption of visible light, they catalyse dimer splitting into the constituent monomers, a process called photoreactivation []. This is a DNA repair mechanism, repairing mismatched pyrimidine dimers induced by exposure to ultra-violet light []. The precise mechanisms involved in substrate binding, conversion of light energy to the mechanical energy needed to rupture the cyclobutane ring, and subsequent release of the product are uncertain []. Analysis of DNA lyases has revealed the presence of an intrinsic chromophore, all monomers containing a reduced FAD moiety, and, in addition, either a reduced pterin or 8-hydroxy-5-diazaflavin as a second chromophore [, ]. Either chromophore may act as the primary photon acceptor, peak absorptions occurring in the blue region of the spectrum and in the UV-B region, at a wavelength around 290nm []. This domain binds a light harvesting cofactor.; GO: 0003913 DNA photolyase activity, 0006281 DNA repair; PDB: 3UMV_A 2J07_A 1IQU_A 2J09_A 2J08_A 1IQR_A 1DNP_A 3FY4_B 2VTB_A 2J4D_B ....
Probab=23.74 E-value=1.6e+02 Score=28.14 Aligned_cols=85 Identities=20% Similarity=0.235 Sum_probs=56.3
Q ss_pred CHHHHHHHHHhhCCCEEEEeccccCCcCceeeeeeccCCCCCHHHHhhhhCCCCCcEEEEecCCc-------hhHHHHHH
Q 004566 59 STDEFRRLLESSEPNIVYLQGEKINDSEEIGSLVWGDVDLSTPEALCGLFGSTLPTTVYLEIPNG-------ENFAEALH 131 (745)
Q Consensus 59 t~~e~~~~~~~~~p~f~y~~g~~~~~~~eig~l~~~~~d~~~~~~l~~l~~~~~p~~vYle~~~~-------e~~a~al~ 131 (745)
++.++++.|++..=.++++.|+ ..+.|..|...--.+.||.+..-+ +++++.|.
T Consensus 54 sL~~L~~~L~~~g~~L~v~~g~-------------------~~~~l~~l~~~~~~~~V~~~~~~~~~~~~rd~~v~~~l~ 114 (165)
T PF00875_consen 54 SLADLQESLRKLGIPLLVLRGD-------------------PEEVLPELAKEYGATAVYFNEEYTPYERRRDERVRKALK 114 (165)
T ss_dssp HHHHHHHHHHHTTS-EEEEESS-------------------HHHHHHHHHHHHTESEEEEE---SHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHhcCcceEEEecc-------------------hHHHHHHHHHhcCcCeeEeccccCHHHHHHHHHHHHHHH
Confidence 5788999999999999999987 344455555544478888876655 46788899
Q ss_pred hcCCCEEEEcCCC-ch----------hh-HHHHHHHHHHHHHh
Q 004566 132 SRGVPYVIYWKHS-FS----------CY-AACHFLQALLSVVQ 162 (745)
Q Consensus 132 ~kGv~yviyW~~~-~s----------~~-aA~HFr~Al~s~~q 162 (745)
.+||...-||.+. ++ .| .=++|+.+..+.+.
T Consensus 115 ~~~i~~~~~~~~~L~~~~~i~~~~~~~~~vFtpf~k~~~~~~~ 157 (165)
T PF00875_consen 115 KHGIKVHTFDDHTLVPPDDIPKKDGEPYKVFTPFRKKWEKQLL 157 (165)
T ss_dssp HTTSEEEEE--SSSS-HHHCHSTTSSSHSSHHHHHHHHHCHCS
T ss_pred hcceEEEEECCcEEEeccccccCCCCCcccHHHHHHHHHhcCC
Confidence 9999999999886 11 12 14677777665443
No 97
>PF10497 zf-4CXXC_R1: Zinc-finger domain of monoamine-oxidase A repressor R1; InterPro: IPR018866 R1 is a transcription factor repressor that inhibits monoamine oxidase A gene expression. This domain is a four-CXXC zinc finger putative DNA-binding domain found at the C-terminal end of R1. The domain carries 12 cysteines of which four pairs are of the CXXC type [].
Probab=23.22 E-value=36 Score=31.85 Aligned_cols=57 Identities=25% Similarity=0.549 Sum_probs=34.6
Q ss_pred CcccccccccccCCCCCCeEec------CCC---CCccccCcccCCCCCcccCcccc-CCceeecCCCcc
Q 004566 672 DDVDGECCLLCHSSAAGDWVNC------GIC---GEWAHFGCDRRQGLGAFKDYAKT-DGLEYVCPQCSV 731 (745)
Q Consensus 672 DDvd~~~C~~C~~~~~e~wi~C------D~C---d~wyH~~C~~~~~~g~fkd~ak~-dg~~Y~CP~Cs~ 731 (745)
|.+-+..|..|..-..+.-..| ..| ..-|=+.|+..-- | .++... +..+|+||+|..
T Consensus 3 d~~~g~~CHqCrqKt~~~~~~C~~~~~~~~C~~~~~~fC~~CL~~ry-g--e~~~ev~~~~~W~CP~Crg 69 (105)
T PF10497_consen 3 DSVNGKTCHQCRQKTLDFKTICTGHWKNSSCRGCRGKFCGGCLRNRY-G--ENVEEVLEDPNWKCPKCRG 69 (105)
T ss_pred cCCCCCCchhhcCCCCCCceEcCCCCCCCCCccCcceehHhHHHHHH-h--hhHHHHhcCCceECCCCCC
Confidence 3445578999977655555566 566 8888888876541 0 111100 123699999963
No 98
>PF10058 DUF2296: Predicted integral membrane metal-binding protein (DUF2296); InterPro: IPR019273 This domain, found mainly in the eukaryotic lunapark proteins, has no known function [].
Probab=23.19 E-value=57 Score=27.45 Aligned_cols=32 Identities=25% Similarity=0.749 Sum_probs=19.2
Q ss_pred eEecCCCCCccccCcccCCCCCcccCccccCCceeecCCCccc
Q 004566 690 WVNCGICGEWAHFGCDRRQGLGAFKDYAKTDGLEYVCPQCSVT 732 (745)
Q Consensus 690 wi~CD~Cd~wyH~~C~~~~~~g~fkd~ak~dg~~Y~CP~Cs~~ 732 (745)
-+.|--|. .|.++.... ++ +.++|+||.|...
T Consensus 22 aLIC~~C~--~hNGla~~~------~~---~~i~y~C~~Cg~~ 53 (54)
T PF10058_consen 22 ALICSKCF--SHNGLAPKE------EF---EEIQYRCPYCGAL 53 (54)
T ss_pred eEECcccc--hhhcccccc------cC---CceEEEcCCCCCc
Confidence 34455553 366766432 12 4458999999754
No 99
>TIGR01068 thioredoxin thioredoxin. Several proteins, such as protein disulfide isomerase, have two or more copies of a domain closely related to thioredoxin. This model is designed to recognize authentic thioredoxin, a small protein that should be hit exactly once by this model.
Probab=23.04 E-value=2.4e+02 Score=23.41 Aligned_cols=75 Identities=19% Similarity=0.287 Sum_probs=46.6
Q ss_pred HHHHHHHHHhhC-CCEEEEeccccCCcCceeeeeeccCCCCCHHHHhhhhCCCCCcEEEEecCCchhHHHHHHhcCCCEE
Q 004566 60 TDEFRRLLESSE-PNIVYLQGEKINDSEEIGSLVWGDVDLSTPEALCGLFGSTLPTTVYLEIPNGENFAEALHSRGVPYV 138 (745)
Q Consensus 60 ~~e~~~~~~~~~-p~f~y~~g~~~~~~~eig~l~~~~~d~~~~~~l~~l~~~~~p~~vYle~~~~e~~a~al~~kGv~yv 138 (745)
.++|.+.+...+ +-+||+-..--..-...- ..-+.+..-+... -..++++......+++.+.-+++|.+
T Consensus 3 ~~~~~~~~~~~~~~vvi~f~~~~C~~C~~~~---------~~l~~~~~~~~~~-~~~~~vd~~~~~~~~~~~~v~~~P~~ 72 (101)
T TIGR01068 3 DANFDETIASSDKPVLVDFWAPWCGPCKMIA---------PILEELAKEYEGK-VKFVKLNVDENPDIAAKYGIRSIPTL 72 (101)
T ss_pred HHHHHHHHhhcCCcEEEEEECCCCHHHHHhC---------HHHHHHHHHhcCC-eEEEEEECCCCHHHHHHcCCCcCCEE
Confidence 467888777644 777777765322211110 1112233233322 45677888888888888888999999
Q ss_pred EEcCCC
Q 004566 139 IYWKHS 144 (745)
Q Consensus 139 iyW~~~ 144 (745)
+++++.
T Consensus 73 ~~~~~g 78 (101)
T TIGR01068 73 LLFKNG 78 (101)
T ss_pred EEEeCC
Confidence 999875
No 100
>KOG4718 consensus Non-SMC (structural maintenance of chromosomes) element 1 protein (NSE1) [Chromatin structure and dynamics]
Probab=22.99 E-value=34 Score=36.35 Aligned_cols=41 Identities=34% Similarity=0.874 Sum_probs=29.9
Q ss_pred cccccccCCC-CCCeEecCCCCCccccCcccCCCCCcccCccccCCceeecCCCc
Q 004566 677 ECCLLCHSSA-AGDWVNCGICGEWAHFGCDRRQGLGAFKDYAKTDGLEYVCPQCS 730 (745)
Q Consensus 677 ~~C~~C~~~~-~e~wi~CD~Cd~wyH~~C~~~~~~g~fkd~ak~dg~~Y~CP~Cs 730 (745)
..|-+||.-. .+ +.|+.|+--||-.|.--- -.. .-+||+|-
T Consensus 182 k~Cn~Ch~LvIqg--~rCg~c~i~~h~~c~qty--------~q~---~~~cphc~ 223 (235)
T KOG4718|consen 182 KNCNLCHCLVIQG--IRCGSCNIQYHRGCIQTY--------LQR---RDICPHCG 223 (235)
T ss_pred HHHhHhHHHhhee--eccCcccchhhhHHHHHH--------hcc---cCcCCchh
Confidence 4599998864 22 679999999999998443 222 36899984
No 101
>cd02957 Phd_like Phosducin (Phd)-like family; composed of Phd and Phd-like proteins (PhLP), characterized as cytosolic regulators of G protein functions. Phd and PhLPs specifically bind G protein betagamma (Gbg)-subunits with high affinity, resulting in the solubilization of Gbg from the plasma membrane and impeding G protein-mediated signal transduction by inhibiting the formation of a functional G protein trimer (G protein alphabetagamma). Phd also inhibits the GTPase activity of G protein alpha. Phd can be phosphorylated by protein kinase A and G protein-coupled receptor kinase 2, leading to its inactivation. Phd was originally isolated from the retina, where it is highly expressed and has been implicated to play an important role in light adaptation. It is also found in the pineal gland, liver, spleen, striated muscle and the brain. The C-terminal domain of Phd adopts a thioredoxin fold, but it does not contain a CXXC motif. Phd interacts with G protein beta mostly through the N-te
Probab=22.39 E-value=1.8e+02 Score=26.21 Aligned_cols=72 Identities=14% Similarity=0.197 Sum_probs=46.0
Q ss_pred HHHHHHHHhh---CCCEEEEeccccCCcCceeeeeeccCCCCCHHHHhhhhCCCCCcEEEEecCCchhHHHHHHhcCCCE
Q 004566 61 DEFRRLLESS---EPNIVYLQGEKINDSEEIGSLVWGDVDLSTPEALCGLFGSTLPTTVYLEIPNGENFAEALHSRGVPY 137 (745)
Q Consensus 61 ~e~~~~~~~~---~p~f~y~~g~~~~~~~eig~l~~~~~d~~~~~~l~~l~~~~~p~~vYle~~~~e~~a~al~~kGv~y 137 (745)
++|.+.+... .|-+|+|...--..-..+. ..-+.|+.-+.. -.++.+++-.. .+|+.+.-+++|.
T Consensus 12 ~~f~~~i~~~~~~~~vvv~F~a~~c~~C~~l~---------~~l~~la~~~~~--v~f~~vd~~~~-~l~~~~~i~~~Pt 79 (113)
T cd02957 12 KEFLEEVTKASKGTRVVVHFYEPGFPRCKILD---------SHLEELAAKYPE--TKFVKINAEKA-FLVNYLDIKVLPT 79 (113)
T ss_pred HHHHHHHHccCCCCEEEEEEeCCCCCcHHHHH---------HHHHHHHHHCCC--cEEEEEEchhh-HHHHhcCCCcCCE
Confidence 8999888776 7889998876544322111 111223332221 13455665554 8899999999999
Q ss_pred EEEcCCC
Q 004566 138 VIYWKHS 144 (745)
Q Consensus 138 viyW~~~ 144 (745)
+++.++.
T Consensus 80 ~~~f~~G 86 (113)
T cd02957 80 LLVYKNG 86 (113)
T ss_pred EEEEECC
Confidence 9999885
No 102
>PF07754 DUF1610: Domain of unknown function (DUF1610); InterPro: IPR011668 This domain is found in archaeal species. It is likely to bind zinc via its four well-conserved cysteine residues.
Probab=22.08 E-value=53 Score=23.96 Aligned_cols=11 Identities=27% Similarity=1.141 Sum_probs=8.8
Q ss_pred CCceeecCCCc
Q 004566 720 DGLEYVCPQCS 730 (745)
Q Consensus 720 dg~~Y~CP~Cs 730 (745)
.+..|+||+|-
T Consensus 13 ~~v~f~CPnCG 23 (24)
T PF07754_consen 13 QAVPFPCPNCG 23 (24)
T ss_pred cCceEeCCCCC
Confidence 36689999993
No 103
>KOG1283 consensus Serine carboxypeptidases [Posttranslational modification, protein turnover, chaperones]
Probab=21.75 E-value=82 Score=35.71 Aligned_cols=89 Identities=25% Similarity=0.414 Sum_probs=56.4
Q ss_pred HhhCCCEEEEeccccCCc------CceeeeeeccCCCCCHHHHhhhhCCCCCc-------EEEEecCCchhHHHHHHhcC
Q 004566 68 ESSEPNIVYLQGEKINDS------EEIGSLVWGDVDLSTPEALCGLFGSTLPT-------TVYLEIPNGENFAEALHSRG 134 (745)
Q Consensus 68 ~~~~p~f~y~~g~~~~~~------~eig~l~~~~~d~~~~~~l~~l~~~~~p~-------~vYle~~~~e~~a~al~~kG 134 (745)
.+.+|=+++|||.+...+ +|+|.|.. ++++.+. .+|++-|+| -|
T Consensus 28 ks~~pl~lwlqGgpGaSstG~GNFeE~GPl~~--------------~~~~r~~TWlk~adllfvDnPVG---------aG 84 (414)
T KOG1283|consen 28 KSERPLALWLQGGPGASSTGFGNFEELGPLDL--------------DGSPRDWTWLKDADLLFVDNPVG---------AG 84 (414)
T ss_pred ccCCCeeEEecCCCCCCCcCccchhhcCCccc--------------CCCcCCchhhhhccEEEecCCCc---------Cc
Confidence 377999999999998766 78888753 3455554 499999999 48
Q ss_pred CCEEEEcCCCchhhH--HHHHHHHHHHHHhhcCCCcchhHHHhhcceeeeeeec
Q 004566 135 VPYVIYWKHSFSCYA--ACHFLQALLSVVQSSCSHTWDAFQLAHASFRLYCVRN 186 (745)
Q Consensus 135 v~yviyW~~~~s~~a--A~HFr~Al~s~~qss~s~~~dAFqlA~aSf~lyC~~n 186 (745)
..|| +++ +.|+ -.+.-+-|+..+|---+.-++ .-.--|.|.|-+-
T Consensus 85 fSyV---dg~-~~Y~~~~~qia~Dl~~llk~f~~~h~e---~~t~P~~If~ESY 131 (414)
T KOG1283|consen 85 FSYV---DGS-SAYTTNNKQIALDLVELLKGFFTNHPE---FKTVPLYIFCESY 131 (414)
T ss_pred eeee---cCc-ccccccHHHHHHHHHHHHHHHHhcCcc---ccccceEEEEhhc
Confidence 8888 233 5555 334445566666643332222 1123467788544
No 104
>TIGR00416 sms DNA repair protein RadA. The gene protuct codes for a probable ATP-dependent protease involved in both DNA repair and degradation of proteins, peptides, glycopeptides. Also known as sms. Residues 11-28 of the SEED alignment contain a putative Zn binding domain. Residues 110-117 of the seed contain a putative ATP binding site both documented in Haemophilus and in Listeria monocytogenes. for E.coli see ( J. BACTERIOL. 178:5045-5048(1996)).
Probab=21.74 E-value=54 Score=37.40 Aligned_cols=29 Identities=17% Similarity=0.436 Sum_probs=24.9
Q ss_pred cccccccccCCCCCCeEecCCCCCccccC
Q 004566 675 DGECCLLCHSSAAGDWVNCGICGEWAHFG 703 (745)
Q Consensus 675 d~~~C~~C~~~~~e~wi~CD~Cd~wyH~~ 703 (745)
..|.|..||-.....+-.|..|+.|=-..
T Consensus 6 ~~y~C~~Cg~~~~~~~g~Cp~C~~w~t~~ 34 (454)
T TIGR00416 6 SKFVCQHCGADSPKWQGKCPACHAWNTIT 34 (454)
T ss_pred CeEECCcCCCCCccccEECcCCCCccccc
Confidence 35899999999988888999999996554
No 105
>PRK00109 Holliday junction resolvase-like protein; Reviewed
Probab=21.61 E-value=2.1e+02 Score=27.76 Aligned_cols=28 Identities=32% Similarity=0.488 Sum_probs=22.4
Q ss_pred hHHHHHHhc-CCCEEEEcCCCchhhHHHHH
Q 004566 125 NFAEALHSR-GVPYVIYWKHSFSCYAACHF 153 (745)
Q Consensus 125 ~~a~al~~k-Gv~yviyW~~~~s~~aA~HF 153 (745)
+||+.|..+ ++| |++|+-.+|+-.|.-.
T Consensus 79 ~f~~~L~~~~~~~-v~~~DEr~TT~~A~~~ 107 (138)
T PRK00109 79 KFANRLEGRFGLP-VVLVDERLSTVEAERA 107 (138)
T ss_pred HHHHHHHHHhCCC-EEEEcCCcCHHHHHHH
Confidence 778888665 887 8999999999887643
No 106
>COG1773 Rubredoxin [Energy production and conversion]
Probab=21.23 E-value=78 Score=27.20 Aligned_cols=24 Identities=38% Similarity=1.013 Sum_probs=16.4
Q ss_pred CcccCCCCCcccCccccCCceeecCCCcc
Q 004566 703 GCDRRQGLGAFKDYAKTDGLEYVCPQCSV 731 (745)
Q Consensus 703 ~C~~~~~~g~fkd~ak~dg~~Y~CP~Cs~ 731 (745)
.|.+.+++ -|.|++. .|+||.|..
T Consensus 21 ~~gi~pgT-~fedlPd----~w~CP~Cg~ 44 (55)
T COG1773 21 RCGIAPGT-PFEDLPD----DWVCPECGV 44 (55)
T ss_pred cCCCCCCC-chhhCCC----ccCCCCCCC
Confidence 35555654 3667763 499999986
No 107
>PF10673 DUF2487: Protein of unknown function (DUF2487); InterPro: IPR019615 This entry represents proteins with unknown function that appears to be restricted to Bacillus sp.
Probab=21.02 E-value=1.1e+02 Score=30.52 Aligned_cols=30 Identities=30% Similarity=0.543 Sum_probs=25.6
Q ss_pred CCCcEEEEecCCchhHH-------HHHHhcCCCEEEE
Q 004566 111 TLPTTVYLEIPNGENFA-------EALHSRGVPYVIY 140 (745)
Q Consensus 111 ~~p~~vYle~~~~e~~a-------~al~~kGv~yviy 140 (745)
.+|...|+..-..+.++ +.|++.|+.||+|
T Consensus 54 l~P~~~Y~~~~~~~~~~~~L~~w~~~l~~~GFkhV~~ 90 (142)
T PF10673_consen 54 LFPAFTYLKEEDEEELVERLNDWCEELKESGFKHVFY 90 (142)
T ss_pred ecCCeeeecccchhHHHHHHHHHHHHHHhcCCcEEEE
Confidence 47999999998887554 6889999999998
No 108
>PRK06176 cystathionine gamma-synthase/cystathionine beta-lyase; Validated
Probab=20.56 E-value=1.6e+02 Score=32.42 Aligned_cols=106 Identities=16% Similarity=0.205 Sum_probs=65.8
Q ss_pred CCCCCccccccCceEEEEccCCCHHHHHHHHHhhC--CCEEEEecccc--------CCc-Cceee---------------
Q 004566 37 PKYPFPEIASSGRLEVHLLSSPSTDEFRRLLESSE--PNIVYLQGEKI--------NDS-EEIGS--------------- 90 (745)
Q Consensus 37 ~~~p~~el~ssgrlev~~l~~pt~~e~~~~~~~~~--p~f~y~~g~~~--------~~~-~eig~--------------- 90 (745)
-.|.|++.-..+..+..-..|||.++|.+++.++. ..-|.+...-. -.. ++|-.
T Consensus 29 ~~~~~~~~~~~~~~~y~r~~~p~~~~Le~~la~l~g~~~al~~~SG~~Al~~~l~~l~pGd~Vi~~~~~y~~t~~~~~~~ 108 (380)
T PRK06176 29 STYRQDAIGRPKGYEYSRSGNPTRFALEELIADLEGGVKGFAFASGLAGIHAVFSLFQSGDHVLLGDDVYGGTFRLFDKV 108 (380)
T ss_pred CceecCCCCCcCCCcccCCCChhHHHHHHHHHHHhCCCCEEEECCHHHHHHHHHHHcCCCCEEEEcCCChhHHHHHHHHH
Confidence 34777774322335667789999999999999864 23333322111 001 11111
Q ss_pred -----eeeccCCCCCHHHHhhhhCCCCCcEEEEecCCc--------hhHHHHHHhcCCCEEEEcCCCc
Q 004566 91 -----LVWGDVDLSTPEALCGLFGSTLPTTVYLEIPNG--------ENFAEALHSRGVPYVIYWKHSF 145 (745)
Q Consensus 91 -----l~~~~~d~~~~~~l~~l~~~~~p~~vYle~~~~--------e~~a~al~~kGv~yviyW~~~~ 145 (745)
+...-+|+.+++++...+.++ +..||+|.|+. +.+++-.|..|++-|+ |+.+
T Consensus 109 ~~~~gi~v~~vd~~d~e~l~~ai~~~-t~lV~lesP~Nptg~~~di~~I~~la~~~gi~viv--D~t~ 173 (380)
T PRK06176 109 LVKNGLSCTIIDTSDLSQIKKAIKPN-TKALYLETPSNPLLKITDLAQCASVAKDHGLLTIV--DNTF 173 (380)
T ss_pred HHhcCeEEEEcCCCCHHHHHHhcCcC-ceEEEEECCCCCCceecCHHHHHHHHHHcCCEEEE--ECCc
Confidence 111112556899999988753 67899999986 4688889999985544 6664
No 109
>KOG2824 consensus Glutaredoxin-related protein [Posttranslational modification, protein turnover, chaperones]
Probab=20.46 E-value=1.1e+02 Score=33.75 Aligned_cols=27 Identities=26% Similarity=0.763 Sum_probs=18.8
Q ss_pred cccccccccCCCCCCeEecCCCCCccccCcccCC
Q 004566 675 DGECCLLCHSSAAGDWVNCGICGEWAHFGCDRRQ 708 (745)
Q Consensus 675 d~~~C~~C~~~~~e~wi~CD~Cd~wyH~~C~~~~ 708 (745)
....|..||+ -.|+-|..| ||.|-...
T Consensus 228 ~~~~C~~CGg---~rFlpC~~C----~GS~kv~~ 254 (281)
T KOG2824|consen 228 GGGVCESCGG---ARFLPCSNC----HGSCKVHE 254 (281)
T ss_pred CCCcCCCcCC---cceEecCCC----CCceeeee
Confidence 4467888865 577888888 57776555
No 110
>cd05126 Mth938 Mth938 domain. Mth938 is a hypothetical protein encoded by the Methanobacterium thermoautotrophicum (Mth) genome. This protein crystallizes as a dimer, although it is monomeric in solution, with one disulfide bond in each monomer. The function of the protein has not been determined.
Probab=20.37 E-value=2.3e+02 Score=26.97 Aligned_cols=69 Identities=22% Similarity=0.253 Sum_probs=47.4
Q ss_pred HhhCCCEEEEeccccCCc----Cceeeeeec---------cCCCCCHHHHhhhhCCCCCcEEEEe------cCCchhHHH
Q 004566 68 ESSEPNIVYLQGEKINDS----EEIGSLVWG---------DVDLSTPEALCGLFGSTLPTTVYLE------IPNGENFAE 128 (745)
Q Consensus 68 ~~~~p~f~y~~g~~~~~~----~eig~l~~~---------~~d~~~~~~l~~l~~~~~p~~vYle------~~~~e~~a~ 128 (745)
++..+.++-+.|+.-... -+ |..-|. +.+-.++++|..++..+ |++|.|= .+..+++.+
T Consensus 3 ~~y~~G~i~i~g~~y~~~viv~p~-~~~~w~~~~~s~~~~~~~~l~~~~l~~ll~~~-peivliGTG~~~~~~~~~~~~~ 80 (117)
T cd05126 3 ESTSFGSITVGGETYEHDIVVYPD-GSRARRWKELSKKTGTSHGLQPEELEELLEEG-VEVIVIGTGQSGALKVPPETVE 80 (117)
T ss_pred ceecCCEEEECCEEEcCCEEEeCC-ccccccccccccccCCcccCCHHHHHHHHhcC-CCEEEEcCCCCccccCCHHHHH
Confidence 445666677776665443 22 444454 44457899999999875 9988773 356677888
Q ss_pred HHHhcCCCEE
Q 004566 129 ALHSRGVPYV 138 (745)
Q Consensus 129 al~~kGv~yv 138 (745)
+|+.+||--.
T Consensus 81 ~l~~~Gi~ve 90 (117)
T cd05126 81 KLEKRGVEVL 90 (117)
T ss_pred HHHhcCCEEE
Confidence 9999998643
No 111
>PRK00162 glpE thiosulfate sulfurtransferase; Validated
Probab=20.34 E-value=2.8e+02 Score=24.55 Aligned_cols=90 Identities=17% Similarity=0.178 Sum_probs=50.9
Q ss_pred cCCCHHHHHHHHHhhCCCEEEEeccccCCcCceeeeeeccCCC--CCHHHHhhhhCCCCCcEEEEecCC-chhHHHHHHh
Q 004566 56 SSPSTDEFRRLLESSEPNIVYLQGEKINDSEEIGSLVWGDVDL--STPEALCGLFGSTLPTTVYLEIPN-GENFAEALHS 132 (745)
Q Consensus 56 ~~pt~~e~~~~~~~~~p~f~y~~g~~~~~~~eig~l~~~~~d~--~~~~~l~~l~~~~~p~~vYle~~~-~e~~a~al~~ 132 (745)
..-+.+|+++.++.-.+-+|-+..+ .+-+.|++- +...+ .+-+....-++..-|-+||...-+ +...+..|+.
T Consensus 5 ~~is~~el~~~l~~~~~~ivDvR~~---~e~~~ghi~-gA~~ip~~~l~~~~~~~~~~~~ivv~c~~g~~s~~a~~~L~~ 80 (108)
T PRK00162 5 ECINVEQAHQKLQEGGAVLVDIRDP---QSFAMGHAP-GAFHLTNDSLGAFMRQADFDTPVMVMCYHGNSSQGAAQYLLQ 80 (108)
T ss_pred cccCHHHHHHHHHcCCCEEEEcCCH---HHHhcCCCC-CCeECCHHHHHHHHHhcCCCCCEEEEeCCCCCHHHHHHHHHH
Confidence 3456778888776544444444422 112234331 11122 222233333566667778886555 4566778899
Q ss_pred cCCCEEEEcCCCchhhH
Q 004566 133 RGVPYVIYWKHSFSCYA 149 (745)
Q Consensus 133 kGv~yviyW~~~~s~~a 149 (745)
.|..+|++=++++..+.
T Consensus 81 ~G~~~v~~l~GG~~~w~ 97 (108)
T PRK00162 81 QGFDVVYSIDGGFEAWR 97 (108)
T ss_pred CCchheEEecCCHHHHH
Confidence 99998888777776553
No 112
>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]
Probab=20.03 E-value=71 Score=28.03 Aligned_cols=45 Identities=27% Similarity=0.653 Sum_probs=31.3
Q ss_pred ccccccccCC---C-CCCeEecCCCCCccccCcccCCCCCcccCccccCCceeecCCCc
Q 004566 676 GECCLLCHSS---A-AGDWVNCGICGEWAHFGCDRRQGLGAFKDYAKTDGLEYVCPQCS 730 (745)
Q Consensus 676 ~~~C~~C~~~---~-~e~wi~CD~Cd~wyH~~C~~~~~~g~fkd~ak~dg~~Y~CP~Cs 730 (745)
...|-+|+.. . -..-..|-.|++--=..|.+=-. -+..|+||+|-
T Consensus 9 ~~~CtSCg~~i~p~e~~v~F~CPnCGe~~I~Rc~~CRk----------~g~~Y~Cp~CG 57 (61)
T COG2888 9 PPVCTSCGREIAPGETAVKFPCPNCGEVEIYRCAKCRK----------LGNPYRCPKCG 57 (61)
T ss_pred CceeccCCCEeccCCceeEeeCCCCCceeeehhhhHHH----------cCCceECCCcC
Confidence 4689999886 1 34667899999876666765332 22359999994
Done!