Query 044292
Match_columns 160
No_of_seqs 112 out of 774
Neff 7.9
Searched_HMMs 46136
Date Fri Mar 29 13:13:23 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/044292.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/044292hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1724 SCF ubiquitin ligase, 100.0 9.7E-48 2.1E-52 284.2 16.4 151 10-160 4-162 (162)
2 COG5201 SKP1 SCF ubiquitin lig 100.0 3.5E-46 7.7E-51 262.0 14.7 150 11-160 2-157 (158)
3 PF01466 Skp1: Skp1 family, di 100.0 1.4E-30 3E-35 172.2 7.7 78 83-160 1-78 (78)
4 smart00512 Skp1 Found in Skp1 100.0 1.2E-28 2.7E-33 171.1 10.4 99 11-110 2-104 (104)
5 PF03931 Skp1_POZ: Skp1 family 99.8 2.6E-20 5.6E-25 117.8 5.8 60 12-71 2-62 (62)
6 KOG3473 RNA polymerase II tran 99.7 3.4E-17 7.3E-22 110.1 8.1 95 6-110 13-112 (112)
7 PHA02713 hypothetical protein; 98.8 2.5E-08 5.4E-13 87.3 10.6 103 11-135 26-133 (557)
8 PF00651 BTB: BTB/POZ domain; 98.8 5E-08 1.1E-12 67.0 9.2 93 11-123 11-109 (111)
9 PHA03098 kelch-like protein; P 98.7 1.6E-07 3.4E-12 81.4 10.5 99 12-131 11-111 (534)
10 PHA02790 Kelch-like protein; P 98.6 9.4E-08 2E-12 82.2 7.0 93 15-127 25-122 (480)
11 smart00225 BTB Broad-Complex, 98.6 2.8E-07 6.1E-12 59.8 6.7 82 17-118 5-90 (90)
12 KOG4441 Proteins containing BT 98.4 9.9E-07 2.1E-11 77.6 8.4 93 13-126 39-135 (571)
13 KOG4682 Uncharacterized conser 96.6 0.0052 1.1E-07 51.8 5.7 101 17-140 75-182 (488)
14 KOG4350 Uncharacterized conser 95.9 0.075 1.6E-06 45.2 9.3 115 12-134 46-181 (620)
15 KOG2716 Polymerase delta-inter 95.2 0.19 4.1E-06 39.6 8.5 99 10-128 4-108 (230)
16 PF11822 DUF3342: Domain of un 94.0 0.049 1.1E-06 44.7 3.0 86 20-126 13-105 (317)
17 KOG3433 Protein involved in me 93.8 0.13 2.8E-06 39.0 4.6 31 109-144 170-200 (203)
18 KOG0783 Uncharacterized conser 92.8 0.39 8.4E-06 44.4 6.8 108 12-135 712-825 (1267)
19 COG5124 Protein predicted to b 91.6 0.19 4.1E-06 37.9 2.9 31 109-144 174-204 (209)
20 PF02214 BTB_2: BTB/POZ domain 88.3 0.42 9E-06 31.7 2.3 80 19-117 6-94 (94)
21 KOG0511 Ankyrin repeat protein 84.5 3.3 7.1E-05 35.2 6.1 107 17-126 297-431 (516)
22 PF03962 Mnd1: Mnd1 family; I 81.3 1.8 3.9E-05 33.0 3.2 42 98-144 144-187 (188)
23 KOG1665 AFH1-interacting prote 75.1 4.6 9.9E-05 32.0 3.8 94 5-119 3-105 (302)
24 KOG2075 Topoisomerase TOP1-int 73.4 20 0.00042 31.4 7.4 106 21-126 129-251 (521)
25 PF05409 Peptidase_C30: Corona 73.3 4.1 8.8E-05 33.0 3.2 98 47-148 161-265 (293)
26 PF03656 Pam16: Pam16; InterP 72.8 1.5 3.3E-05 31.3 0.6 33 124-159 51-83 (127)
27 KOG3442 Uncharacterized conser 67.0 4 8.7E-05 29.1 1.7 32 126-160 54-85 (132)
28 PF07928 Vps54: Vps54-like pro 64.1 2.2 4.8E-05 30.7 0.0 47 19-70 1-47 (135)
29 PF02519 Auxin_inducible: Auxi 58.8 46 0.001 22.6 5.8 56 9-66 37-99 (100)
30 PRK05365 malonic semialdehyde 58.3 7.9 0.00017 29.1 2.1 34 100-143 130-163 (195)
31 cd02148 Nitroreductase_5 Nitro 57.2 7.9 0.00017 28.8 1.9 34 100-143 123-156 (185)
32 PHA03098 kelch-like protein; P 54.2 50 0.0011 28.6 6.7 46 93-138 105-159 (534)
33 PF11978 MVP_shoulder: Shoulde 50.1 17 0.00037 25.6 2.5 40 102-141 37-89 (118)
34 KOG4591 Uncharacterized conser 47.2 33 0.00072 26.8 3.9 58 47-122 106-163 (280)
35 PF10892 DUF2688: Protein of u 45.6 26 0.00056 21.4 2.5 24 130-153 30-55 (60)
36 PF12556 CobS_N: Cobaltochelat 45.3 13 0.00028 20.6 1.1 12 133-144 14-25 (36)
37 PF02084 Bindin: Bindin; Inte 44.9 62 0.0013 25.5 5.1 48 17-71 93-142 (238)
38 PF07638 Sigma70_ECF: ECF sigm 44.1 1.3E+02 0.0028 22.3 7.2 46 93-140 118-164 (185)
39 cd00068 GGL G protein gamma su 43.4 34 0.00074 20.7 2.9 19 56-74 23-41 (57)
40 cd05029 S-100A6 S-100A6: S-100 42.5 55 0.0012 21.5 4.0 45 110-154 9-59 (88)
41 PF05321 HHA: Haemolysin expre 41.1 70 0.0015 19.6 3.9 30 55-107 8-37 (57)
42 smart00385 CYCLIN domain prese 39.5 85 0.0018 18.8 5.1 40 110-152 37-78 (83)
43 PRK11053 dihydropteridine redu 38.8 27 0.00059 26.6 2.4 36 98-143 147-183 (217)
44 PF13921 Myb_DNA-bind_6: Myb-l 38.1 55 0.0012 19.3 3.2 34 118-151 20-60 (60)
45 KOG4350 Uncharacterized conser 38.0 19 0.00042 31.1 1.5 38 92-129 112-149 (620)
46 PHA02790 Kelch-like protein; P 37.8 30 0.00065 29.9 2.7 35 93-127 120-154 (480)
47 smart00875 BACK BTB And C-term 37.2 1.1E+02 0.0024 19.4 5.7 41 99-139 2-51 (101)
48 PRK14981 DNA-directed RNA poly 35.3 1E+02 0.0022 21.3 4.6 44 109-153 61-105 (112)
49 PF10075 PCI_Csn8: COP9 signal 34.6 94 0.002 22.0 4.5 44 113-160 83-126 (143)
50 PF11460 DUF3007: Protein of u 34.4 40 0.00087 23.3 2.4 24 129-155 79-102 (104)
51 PF07707 BACK: BTB And C-termi 34.1 30 0.00065 22.5 1.7 41 99-139 2-51 (103)
52 PHA02713 hypothetical protein; 33.3 82 0.0018 27.9 4.8 71 88-158 116-198 (557)
53 TIGR02476 BluB cob(II)yrinic a 33.1 40 0.00086 25.4 2.5 38 97-144 133-170 (205)
54 COG4957 Predicted transcriptio 32.7 39 0.00083 24.6 2.1 18 127-144 98-115 (148)
55 cd00167 SANT 'SWI3, ADA2, N-Co 32.5 47 0.001 17.6 2.2 20 119-138 23-42 (45)
56 COG1460 Uncharacterized protei 32.1 1.8E+02 0.0039 20.4 5.7 60 89-151 44-104 (114)
57 PF01592 NifU_N: NifU-like N t 31.3 67 0.0014 22.5 3.2 23 113-135 63-85 (126)
58 TIGR02698 CopY_TcrY copper tra 30.9 1.8E+02 0.0038 20.5 5.4 36 118-153 77-112 (130)
59 PRK11325 scaffold protein; Pro 30.5 58 0.0013 22.9 2.8 38 101-138 52-90 (127)
60 TIGR03419 NifU_clost FeS clust 30.5 65 0.0014 22.4 3.0 37 101-137 46-83 (121)
61 PRK13503 transcriptional activ 30.4 2.6E+02 0.0056 21.6 8.5 79 55-141 169-250 (278)
62 TIGR01999 iscU FeS cluster ass 30.1 61 0.0013 22.7 2.9 38 101-138 50-88 (124)
63 smart00717 SANT SANT SWI3, AD 30.0 55 0.0012 17.6 2.2 20 119-138 25-44 (49)
64 PF08671 SinI: Anti-repressor 29.6 35 0.00076 18.1 1.1 13 126-138 15-27 (30)
65 cd02144 iodotyrosine_dehalogen 29.1 52 0.0011 24.1 2.5 37 98-144 129-166 (193)
66 PF11198 DUF2857: Protein of u 29.1 1.4E+02 0.003 22.4 4.8 59 93-151 58-131 (180)
67 smart00224 GGL G protein gamma 28.9 74 0.0016 19.6 2.8 19 56-74 23-41 (63)
68 PF11197 DUF2835: Protein of u 28.8 55 0.0012 20.8 2.1 21 11-31 21-41 (68)
69 PRK09296 cysteine desufuration 28.6 1.1E+02 0.0025 22.0 4.1 35 112-146 76-118 (138)
70 PRK13696 hypothetical protein; 28.4 1.5E+02 0.0033 18.4 4.3 26 126-154 36-61 (62)
71 KOG1099 SAM-dependent methyltr 28.4 54 0.0012 26.3 2.5 84 47-138 90-181 (294)
72 PF00134 Cyclin_N: Cyclin, N-t 28.2 1E+02 0.0022 20.7 3.7 42 112-153 74-116 (127)
73 PF03131 bZIP_Maf: bZIP Maf tr 26.7 94 0.002 20.5 3.2 28 123-153 4-31 (92)
74 PF02736 Myosin_N: Myosin N-te 26.6 50 0.0011 18.5 1.5 19 10-28 23-41 (42)
75 COG4565 CitB Response regulato 26.5 1.1E+02 0.0023 24.1 3.8 22 46-67 146-168 (224)
76 PF13518 HTH_28: Helix-turn-he 26.3 1.1E+02 0.0023 17.1 3.0 21 120-140 5-25 (52)
77 TIGR03391 FeS_syn_CsdE cystein 25.9 1.3E+02 0.0028 21.7 3.9 35 112-146 81-123 (138)
78 PRK15019 CsdA-binding activato 25.9 1.2E+02 0.0027 22.1 3.9 35 112-146 86-128 (147)
79 cd02140 Nitroreductase_4 Nitro 25.8 65 0.0014 23.9 2.5 38 98-143 127-164 (192)
80 PF00690 Cation_ATPase_N: Cati 25.7 1.1E+02 0.0023 18.7 3.1 28 128-155 4-33 (69)
81 PF08661 Rep_fac-A_3: Replicat 25.6 75 0.0016 21.6 2.6 61 9-70 33-106 (109)
82 PF13384 HTH_23: Homeodomain-l 25.1 81 0.0018 17.7 2.4 15 126-140 16-30 (50)
83 PF03750 DUF310: Protein of un 25.1 1E+02 0.0022 21.4 3.3 32 109-141 9-42 (119)
84 PF14748 P5CR_dimer: Pyrroline 24.6 2.3E+02 0.005 19.1 5.9 55 100-154 26-87 (107)
85 PF11338 DUF3140: Protein of u 24.5 63 0.0014 21.8 1.9 22 51-72 54-75 (92)
86 PF08154 NLE: NLE (NUC135) dom 24.2 1.1E+02 0.0024 18.8 3.0 29 12-40 3-39 (65)
87 PF13725 tRNA_bind_2: Possible 23.9 2.2E+02 0.0047 18.7 5.7 69 53-141 28-97 (101)
88 PF05871 ESCRT-II: ESCRT-II co 23.9 52 0.0011 23.8 1.6 14 60-73 27-40 (139)
89 PF13798 PCYCGC: Protein of un 23.5 1.2E+02 0.0026 22.5 3.4 23 114-136 118-140 (158)
90 PF09821 AAA_assoc_C: C-termin 23.3 75 0.0016 22.3 2.3 22 91-112 7-28 (120)
91 PF10507 DUF2453: Protein of u 23.0 2E+02 0.0043 20.1 4.3 38 112-149 34-79 (111)
92 COG1710 Uncharacterized protei 22.8 60 0.0013 23.1 1.6 19 122-140 103-122 (139)
93 cd06664 IscU_like Iron-sulfur 22.4 1.5E+02 0.0032 20.4 3.6 39 100-138 46-85 (123)
94 PF00382 TFIIB: Transcription 22.3 2E+02 0.0043 17.6 6.4 44 97-140 17-67 (71)
95 PF11094 UL11: Membrane-associ 22.2 1.2E+02 0.0027 17.0 2.5 19 11-29 14-32 (39)
96 COG2511 GatE Archaeal Glu-tRNA 21.9 6E+02 0.013 23.0 8.3 81 53-153 497-579 (631)
97 PF01843 DIL: DIL domain; Int 21.7 30 0.00066 23.2 -0.0 43 95-138 54-97 (105)
98 PF02657 SufE: Fe-S metabolism 21.7 2E+02 0.0043 20.2 4.2 33 114-146 69-108 (125)
99 PF05443 ROS_MUCR: ROS/MUCR tr 21.4 45 0.00098 24.0 0.8 17 127-143 94-110 (132)
100 PF15063 TC1: Thyroid cancer p 21.3 1E+02 0.0022 20.1 2.3 36 100-142 32-67 (79)
101 PF07079 DUF1347: Protein of u 21.2 1.6E+02 0.0035 26.0 4.2 78 56-139 242-323 (549)
102 PF03883 DUF328: Protein of un 21.1 98 0.0021 24.3 2.7 29 117-145 30-58 (237)
103 smart00760 Bac_DnaA_C Bacteria 20.9 1.8E+02 0.0038 17.3 3.3 25 115-139 33-57 (60)
104 PF08299 Bac_DnaA_C: Bacterial 20.8 1.5E+02 0.0033 18.4 3.1 26 115-140 33-58 (70)
105 cd02138 Nitroreductase_2 Nitro 20.4 97 0.0021 22.7 2.5 37 97-143 107-143 (181)
106 cd03370 NADH_oxidase NADPH_oxi 20.3 79 0.0017 22.6 1.9 18 124-141 111-128 (156)
No 1
>KOG1724 consensus SCF ubiquitin ligase, Skp1 component [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=9.7e-48 Score=284.24 Aligned_cols=151 Identities=60% Similarity=0.940 Sum_probs=139.0
Q ss_pred CccEEEEcCCCCEEEecHHHHHHhHHHHHHHhhcC-CCC--ccccCCCCHHHHHHHHHHHHhchhhhhhc-c----CCCC
Q 044292 10 KKMIILKSSDGETFEVEETVALQSQTIRHMVEDDC-ADS--VIPLPNVTGTILSMVVEYCKKHVEAAAAA-A----GGDN 81 (160)
Q Consensus 10 ~~~i~l~s~DG~~~~v~~~~a~~S~~l~~~l~~~~-~~~--~Ipl~~i~~~~L~~Ii~~~~~h~~~~~~~-~----~~~~ 81 (160)
.++|+|+|+||++|.|+.++|++|.+|++++.+.+ ... +||||+|+|.+|++||+||+||+.+++.. + ....
T Consensus 4 ~~~ikL~SsDG~~f~ve~~~a~~s~~i~~~~~~~~~~~~~~~IPl~nV~~~iL~kVIewC~~Hk~d~~~~~~~~~~~~~~ 83 (162)
T KOG1724|consen 4 KKKIKLESSDGEIFEVEEEVARQSQTISAHMIEDGCADENDPIPLPNVTSKILKKVIEWCKKHKDDDPANPEDKELPEET 83 (162)
T ss_pred CCeEEEEccCCceeehhHHHHHHhHHHHHHHHHcCCCccCCccccCccCHHHHHHHHHHHHHcccccccccccccccccC
Confidence 36999999999999999999999999999998765 334 89999999999999999999999876432 1 3455
Q ss_pred CccchhhhhccCCHHHHHHHHHhhhhcCchhHHHHHHHHHHHHHhCCCHHHHHHHcCCCCCCCHHHHHHHHHhcccccC
Q 044292 82 DVKNWDRDFVKVDQETLLDLLLAANYLNIKDLLELTCQATADVIKDKSPEEVRRIFHINNDFTPQEEQEIRRENQWAFE 160 (160)
Q Consensus 82 ~~~~wd~~Fl~~~~~~l~~Ll~AA~~L~I~~L~~~~~~~ia~~i~~kt~eeir~~f~i~~d~t~eee~~~~~e~~w~~~ 160 (160)
.+++||++|++++...||+|+.|||||+|++|+++||+.+|.+++|||++|||+.|||++|+|+||++++++++.|+|+
T Consensus 84 ~i~~WD~~Flk~d~~tLfdli~AAnyLdi~gLl~~~ck~va~mikgktpeEir~~f~I~~d~t~eE~~~~~~e~~~~~~ 162 (162)
T KOG1724|consen 84 DIPEWDAEFLKVDQGTLFDLILAANYLDIKGLLDLTCKTVANMIKGKTPEEIREIFNIENDETPEEEEAIRKENEWAFE 162 (162)
T ss_pred CccHHHHHHHhcCHHHHHHHHHHhhhcccHHHHHHHHHHHHHHHccCCHHHHHHHcCCCCCCChhHHHHHhhccccccC
Confidence 5999999999999999999999999999999999999999999999999999999999999999999999999999986
No 2
>COG5201 SKP1 SCF ubiquitin ligase, SKP1 component [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=3.5e-46 Score=261.99 Aligned_cols=150 Identities=46% Similarity=0.764 Sum_probs=137.9
Q ss_pred ccEEEEcCCCCEEEecHHHHHHhHHHHHHHhhcC-CCCccccCCCCHHHHHHHHHHHHhchhhhhhcc-----CCCCCcc
Q 044292 11 KMIILKSSDGETFEVEETVALQSQTIRHMVEDDC-ADSVIPLPNVTGTILSMVVEYCKKHVEAAAAAA-----GGDNDVK 84 (160)
Q Consensus 11 ~~i~l~s~DG~~~~v~~~~a~~S~~l~~~l~~~~-~~~~Ipl~~i~~~~L~~Ii~~~~~h~~~~~~~~-----~~~~~~~ 84 (160)
.+|.|.|.||++|+|+..+|..|-+|++|+.+.. .+.|||+|+|++.+|.+|++||+||+....+++ +.....+
T Consensus 2 s~i~l~s~dge~F~vd~~iAerSiLikN~l~d~~~~n~p~p~pnVrSsvl~kv~ew~ehh~~s~sede~d~~~rks~p~D 81 (158)
T COG5201 2 SMIELESIDGEIFRVDENIAERSILIKNMLCDSTACNYPIPAPNVRSSVLMKVQEWMEHHTSSLSEDENDLEIRKSKPSD 81 (158)
T ss_pred CceEEEecCCcEEEehHHHHHHHHHHHHHhccccccCCCCcccchhHHHHHHHHHHHHhccccCCCccChHhhhccCCcc
Confidence 3799999999999999999999999999988765 578999999999999999999999987544332 2345678
Q ss_pred chhhhhccCCHHHHHHHHHhhhhcCchhHHHHHHHHHHHHHhCCCHHHHHHHcCCCCCCCHHHHHHHHHhcccccC
Q 044292 85 NWDRDFVKVDQETLLDLLLAANYLNIKDLLELTCQATADVIKDKSPEEVRRIFHINNDFTPQEEQEIRRENQWAFE 160 (160)
Q Consensus 85 ~wd~~Fl~~~~~~l~~Ll~AA~~L~I~~L~~~~~~~ia~~i~~kt~eeir~~f~i~~d~t~eee~~~~~e~~w~~~ 160 (160)
.||+.|+.+|+++|+++++|||||+|++|+++||+.||++|+|||++|||++|||++||||||++++|+||+|+.+
T Consensus 82 ~wdr~Fm~vDqemL~eI~laaNYL~ikpLLd~gCKivaemirgkSpeeir~tfni~ndfTpEEe~~irkEnEWaed 157 (158)
T COG5201 82 FWDRFFMEVDQEMLLEICLAANYLEIKPLLDLGCKIVAEMIRGKSPEEIRETFNIENDFTPEEERRIRKENEWAED 157 (158)
T ss_pred HHHHHHHHhhHHHHHHHHHhhccccchHHHHHHHHHHHHHHccCCHHHHHHHhCCCCCCCHHHHHHHHHhcccccc
Confidence 8999999999999999999999999999999999999999999999999999999999999999999999999975
No 3
>PF01466 Skp1: Skp1 family, dimerisation domain; InterPro: IPR016072 SKP1 (together with SKP2) was identified as an essential component of the cyclin A-CDK2 S phase kinase complex []. It was found to bind several F-box containing proteins (e.g., Cdc4, Skp2, cyclin F) and to be involved in the ubiquitin protein degradation pathway. A yeast homologue of SKP1 (P52286) was identified in the centromere bound kinetochore complex [] and is also involved in the ubiquitin pathway []. In Dictyostelium discoideum (Slime mold) FP21 was shown to be glycosylated in the cytosol and has homology to SKP1 []. This entry represents a dimerisation domain found at the C-terminal of SKP1 proteins [], as well as in subunit D of the centromere DNA-binding protein complex Cbf3 []. This domain is multi-helical in structure, and consists of an interlocked herterodimer in F-box proteins.; GO: 0006511 ubiquitin-dependent protein catabolic process; PDB: 2P1O_A 3OGL_G 3OGM_A 3C6O_A 2P1N_A 2P1Q_A 3OGK_I 3C6N_A 3C6P_A 2P1P_A ....
Probab=99.97 E-value=1.4e-30 Score=172.16 Aligned_cols=78 Identities=59% Similarity=1.078 Sum_probs=68.5
Q ss_pred ccchhhhhccCCHHHHHHHHHhhhhcCchhHHHHHHHHHHHHHhCCCHHHHHHHcCCCCCCCHHHHHHHHHhcccccC
Q 044292 83 VKNWDRDFVKVDQETLLDLLLAANYLNIKDLLELTCQATADVIKDKSPEEVRRIFHINNDFTPQEEQEIRRENQWAFE 160 (160)
Q Consensus 83 ~~~wd~~Fl~~~~~~l~~Ll~AA~~L~I~~L~~~~~~~ia~~i~~kt~eeir~~f~i~~d~t~eee~~~~~e~~w~~~ 160 (160)
+++||++|++++.+.|++|+.||+||+|++|+++||++||.+++|||++|||++|||++|+|+||++++|++|+|+||
T Consensus 1 l~~wD~~F~~~~~~~L~~l~~AA~yL~I~~L~~~~~~~iA~~i~gks~eeir~~fgi~~d~t~eee~~i~~e~~w~~~ 78 (78)
T PF01466_consen 1 LPEWDQEFLDVDNDELFDLLNAANYLDIKGLLDLCCKYIANMIKGKSPEEIRKYFGIENDLTPEEEEEIRKENEWAFE 78 (78)
T ss_dssp HHHHHHHHT-S-HHHHHHHHHHHHHHT-HHHHHHHHHHHHHHHTTS-HHHHHHHHT---TSSHHHHHHHHHHCCCTB-
T ss_pred CCHHHHHHHHcCHHHHHHHHHHHHHHcchHHHHHHHHHHHHHhcCCCHHHHHHHcCCCCCCCHHHHHHHHHHcchhcC
Confidence 468999999999999999999999999999999999999999999999999999999999999999999999999997
No 4
>smart00512 Skp1 Found in Skp1 protein family. Family of Skp1 (kinetochore protein required for cell cycle progression) and elongin C (subunit of RNA polymerase II transcription factor SIII) homologues.
Probab=99.96 E-value=1.2e-28 Score=171.06 Aligned_cols=99 Identities=58% Similarity=0.914 Sum_probs=87.6
Q ss_pred ccEEEEcCCCCEEEecHHHHHHhHHHHHHHhhcCCC----CccccCCCCHHHHHHHHHHHHhchhhhhhccCCCCCccch
Q 044292 11 KMIILKSSDGETFEVEETVALQSQTIRHMVEDDCAD----SVIPLPNVTGTILSMVVEYCKKHVEAAAAAAGGDNDVKNW 86 (160)
Q Consensus 11 ~~i~l~s~DG~~~~v~~~~a~~S~~l~~~l~~~~~~----~~Ipl~~i~~~~L~~Ii~~~~~h~~~~~~~~~~~~~~~~w 86 (160)
.+++|+|+||++|.|++.+|++|++|++++++.+.. .+||||+|++.+|++|++||+||+.++.+... ...+++|
T Consensus 2 ~~v~L~S~Dg~~f~v~~~~a~~S~~i~~~l~~~~~~~~~~~~Ipl~~v~~~~L~~Vi~yc~~h~~~~~~~~~-~~~~~~w 80 (104)
T smart00512 2 KYIKLISSDGEVFEVEREVARQSKTIKAMIEDLGVDDENNNPIPLPNVTSKILSKVIEYCEHHVDDPPSVAD-KDDIPTW 80 (104)
T ss_pred CeEEEEeCCCCEEEecHHHHHHHHHHHHHHHccCcccCCCCCccCCCcCHHHHHHHHHHHHHcccCCCCccc-cccccHH
Confidence 479999999999999999999999999999876521 48999999999999999999999987643211 1468999
Q ss_pred hhhhccCCHHHHHHHHHhhhhcCc
Q 044292 87 DRDFVKVDQETLLDLLLAANYLNI 110 (160)
Q Consensus 87 d~~Fl~~~~~~l~~Ll~AA~~L~I 110 (160)
|.+|++++.+.|++|+.||+||+|
T Consensus 81 D~~F~~~d~~~l~dLl~AAnyL~I 104 (104)
T smart00512 81 DAEFLKIDQETLFELILAANYLDI 104 (104)
T ss_pred HHHHHcCCHHHHHHHHHHHHhhCC
Confidence 999999999999999999999997
No 5
>PF03931 Skp1_POZ: Skp1 family, tetramerisation domain; InterPro: IPR016073 SKP1 (together with SKP2) was identified as an essential component of the cyclin A-CDK2 S phase kinase complex []. It was found to bind several F-box containing proteins (e.g., Cdc4, Skp2, cyclin F) and to be involved in the ubiquitin protein degradation pathway. A yeast homologue of SKP1 (P52286) was identified in the centromere bound kinetochore complex [] and is also involved in the ubiquitin pathway []. In Dictyostelium discoideum (Slime mold) FP21 was shown to be glycosylated in the cytosol and has homology to SKP1 []. This entry represents a POZ domain with a core structure consisting of beta(2)/alpha(2)/beta(2)/alpha(2) in two layers, alpha/beta. This domain is found at the N-terminal of SKP1 proteins [] as well as in subunit D of the centromere DNA-binding protein complex Cbf3 []. ; GO: 0006511 ubiquitin-dependent protein catabolic process; PDB: 1LM8_C 2XAI_E 1VCB_E 3ZRC_K 3ZRF_E 3DCG_B 2C9W_C 1LQB_B 2IZV_C 1HV2_A ....
Probab=99.82 E-value=2.6e-20 Score=117.83 Aligned_cols=60 Identities=47% Similarity=0.739 Sum_probs=54.5
Q ss_pred cEEEEcCCCCEEEecHHHHHHhHHHHHHHhhcCCCC-ccccCCCCHHHHHHHHHHHHhchh
Q 044292 12 MIILKSSDGETFEVEETVALQSQTIRHMVEDDCADS-VIPLPNVTGTILSMVVEYCKKHVE 71 (160)
Q Consensus 12 ~i~l~s~DG~~~~v~~~~a~~S~~l~~~l~~~~~~~-~Ipl~~i~~~~L~~Ii~~~~~h~~ 71 (160)
+|+|+|+||+.|.|++++|++|++|++|+++.+... +||||+|++++|++|++||+||++
T Consensus 2 ~v~L~SsDg~~f~V~~~~a~~S~~i~~ml~~~~~~~~~Ipl~~v~~~~L~kViewc~~H~~ 62 (62)
T PF03931_consen 2 YVKLVSSDGQEFEVSREAAKQSKTIKNMLEDLGDEDEPIPLPNVSSRILKKVIEWCEHHKN 62 (62)
T ss_dssp EEEEEETTSEEEEEEHHHHTTSHHHHHHHHCTCCCGTEEEETTS-HHHHHHHHHHHHHHHH
T ss_pred EEEEEcCCCCEEEeeHHHHHHhHHHHHHHhhhcccccccccCccCHHHHHHHHHHHHhcCC
Confidence 699999999999999999999999999999876433 699999999999999999999974
No 6
>KOG3473 consensus RNA polymerase II transcription elongation factor Elongin/SIII, subunit elongin C [Transcription]
Probab=99.72 E-value=3.4e-17 Score=110.15 Aligned_cols=95 Identities=27% Similarity=0.418 Sum_probs=81.7
Q ss_pred CCCCCccEEEEcCCCCEEEecHHHHHHhHHHHHHHhhcC-----CCCccccCCCCHHHHHHHHHHHHhchhhhhhccCCC
Q 044292 6 ENNSKKMIILKSSDGETFEVEETVALQSQTIRHMVEDDC-----ADSVIPLPNVTGTILSMVVEYCKKHVEAAAAAAGGD 80 (160)
Q Consensus 6 ~~~~~~~i~l~s~DG~~~~v~~~~a~~S~~l~~~l~~~~-----~~~~Ipl~~i~~~~L~~Ii~~~~~h~~~~~~~~~~~ 80 (160)
+|. +.+++|+|+||++|.|.+++|..|++||.|+.+.+ ....+.+++|++.+|+|+++|+.+...+.. ..
T Consensus 13 gp~-~~yVkLvS~Ddhefiikre~AmtSgTiraml~gpg~~se~~~n~v~f~di~shiLeKvc~Yl~Yk~rY~~----~s 87 (112)
T KOG3473|consen 13 GPD-SMYVKLVSSDDHEFIIKREHAMTSGTIRAMLSGPGVFSEAEKNEVYFRDIPSHILEKVCEYLAYKVRYTN----SS 87 (112)
T ss_pred Ccc-hhheEeecCCCcEEEEeehhhhhhhHHHHHHcCCccccccccceEEeccchHHHHHHHHHHhhheeeecc----cc
Confidence 443 47999999999999999999999999999998654 357799999999999999999998655442 33
Q ss_pred CCccchhhhhccCCHHHHHHHHHhhhhcCc
Q 044292 81 NDVKNWDRDFVKVDQETLLDLLLAANYLNI 110 (160)
Q Consensus 81 ~~~~~wd~~Fl~~~~~~l~~Ll~AA~~L~I 110 (160)
..+|+| .+.++..++|+.||+||++
T Consensus 88 ~eiPeF-----~IppemaleLL~aAn~Lec 112 (112)
T KOG3473|consen 88 TEIPEF-----DIPPEMALELLMAANYLEC 112 (112)
T ss_pred ccCCCC-----CCCHHHHHHHHHHhhhhcC
Confidence 678887 7899999999999999974
No 7
>PHA02713 hypothetical protein; Provisional
Probab=98.84 E-value=2.5e-08 Score=87.32 Aligned_cols=103 Identities=18% Similarity=0.237 Sum_probs=85.1
Q ss_pred ccEEEEcCCCCEEEecHHHH-HHhHHHHHHHhhcC----CCCccccCCCCHHHHHHHHHHHHhchhhhhhccCCCCCccc
Q 044292 11 KMIILKSSDGETFEVEETVA-LQSQTIRHMVEDDC----ADSVIPLPNVTGTILSMVVEYCKKHVEAAAAAAGGDNDVKN 85 (160)
Q Consensus 11 ~~i~l~s~DG~~~~v~~~~a-~~S~~l~~~l~~~~----~~~~Ipl~~i~~~~L~~Ii~~~~~h~~~~~~~~~~~~~~~~ 85 (160)
..++|...+|+.|.+++.++ ..|++++.|+...- ....|.|++++..+|+.|++|++...
T Consensus 26 ~DV~L~v~~~~~f~~Hr~vLaa~S~YF~amF~~~~~e~~~~~~v~l~~v~~~~~~~ll~y~Yt~~--------------- 90 (557)
T PHA02713 26 CDVIITIGDGEEIKAHKTILAAGSKYFRTLFTTPMIIRDLVTRVNLQMFDKDAVKNIVQYLYNRH--------------- 90 (557)
T ss_pred CCEEEEeCCCCEEeehHHHHhhcCHHHHHHhcCCchhhccCceEEeccCCHHHHHHHHHHhcCCC---------------
Confidence 35888887799999999985 58999999997542 14568999999999999999998621
Q ss_pred hhhhhccCCHHHHHHHHHhhhhcCchhHHHHHHHHHHHHHhCCCHHHHHH
Q 044292 86 WDRDFVKVDQETLLDLLLAANYLNIKDLLELTCQATADVIKDKSPEEVRR 135 (160)
Q Consensus 86 wd~~Fl~~~~~~l~~Ll~AA~~L~I~~L~~~~~~~ia~~i~~kt~eeir~ 135 (160)
++.+.+.+|+.||++|+|+.|.+.||.++...+.-.+--+|..
T Consensus 91 -------i~~~nv~~ll~aA~~lqi~~l~~~C~~~l~~~l~~~NCl~i~~ 133 (557)
T PHA02713 91 -------ISSMNVIDVLKCADYLLIDDLVTDCESYIKDYTNHDTCIYMYH 133 (557)
T ss_pred -------CCHHHHHHHHHHHHHHCHHHHHHHHHHHHHhhCCccchHHHHH
Confidence 4567899999999999999999999999988777665555543
No 8
>PF00651 BTB: BTB/POZ domain; InterPro: IPR013069 The BTB (for BR-C, ttk and bab) [] or POZ (for Pox virus and Zinc finger) [] domain is present near the N terminus of a fraction of zinc finger (IPR007087 from INTERPRO) proteins and in proteins that contain the IPR006652 from INTERPRO motif such as Kelch and a family of pox virus proteins. The BTB/POZ domain mediates homomeric dimerisation and in some instances heteromeric dimerisation []. The structure of the dimerised PLZF BTB/POZ domain has been solved and consists of a tightly intertwined homodimer. The central scaffolding of the protein is made up of a cluster of alpha-helices flanked by short beta-sheets at both the top and bottom of the molecule []. POZ domains from several zinc finger proteins have been shown to mediate transcriptional repression and to interact with components of histone deacetylase co-repressor complexes including N-CoR and SMRT [, , ]. The POZ or BTB domain is also known as BR-C/Ttk or ZiN.; GO: 0005515 protein binding; PDB: 3M5B_A 1R28_B 3LBZ_A 3E4U_F 3BIM_B 1R2B_A 1R29_A 2VPK_A 2YY9_B 3GA1_A ....
Probab=98.81 E-value=5e-08 Score=66.96 Aligned_cols=93 Identities=23% Similarity=0.344 Sum_probs=75.2
Q ss_pred ccEEEEcCCCCEEEecHHHH-HHhHHHHHHHhhcC-C-C--CccccCCCCHHHHHHHHHHHHhchhhhhhccCCCCCccc
Q 044292 11 KMIILKSSDGETFEVEETVA-LQSQTIRHMVEDDC-A-D--SVIPLPNVTGTILSMVVEYCKKHVEAAAAAAGGDNDVKN 85 (160)
Q Consensus 11 ~~i~l~s~DG~~~~v~~~~a-~~S~~l~~~l~~~~-~-~--~~Ipl~~i~~~~L~~Ii~~~~~h~~~~~~~~~~~~~~~~ 85 (160)
..++|+..||+.|.+++.++ ..|+++++++...+ . . ..|++++++...++.+++||+....
T Consensus 11 ~D~~i~v~d~~~~~vhk~iL~~~S~~F~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~l~~~Y~~~~-------------- 76 (111)
T PF00651_consen 11 SDVTIRVGDGKTFYVHKNILAARSPYFRNLFEGSKFKESTVPEISLPDVSPEAFEAFLEYMYTGEI-------------- 76 (111)
T ss_dssp --EEEEETTTEEEEE-HHHHHHHBHHHHHHHTTTTSTTSSEEEEEETTSCHHHHHHHHHHHHHSEE--------------
T ss_pred CCEEEEECCCEEEeechhhhhccchhhhhcccccccccccccccccccccccccccccccccCCcc--------------
Confidence 46889999999999999985 68999999999772 2 2 2588899999999999999964221
Q ss_pred hhhhhccC-CHHHHHHHHHhhhhcCchhHHHHHHHHHHH
Q 044292 86 WDRDFVKV-DQETLLDLLLAANYLNIKDLLELTCQATAD 123 (160)
Q Consensus 86 wd~~Fl~~-~~~~l~~Ll~AA~~L~I~~L~~~~~~~ia~ 123 (160)
.+ +.+.+.+++..|++|+++.|.+.|+.++..
T Consensus 77 ------~~~~~~~~~~ll~lA~~~~~~~L~~~~~~~l~~ 109 (111)
T PF00651_consen 77 ------EINSDENVEELLELADKLQIPELKKACEKFLQE 109 (111)
T ss_dssp ------EEE-TTTHHHHHHHHHHTTBHHHHHHHHHHHHH
T ss_pred ------cCCHHHHHHHHHHHHHHhCcHHHHHHHHHHHHh
Confidence 12 366799999999999999999999999865
No 9
>PHA03098 kelch-like protein; Provisional
Probab=98.69 E-value=1.6e-07 Score=81.39 Aligned_cols=99 Identities=19% Similarity=0.263 Sum_probs=80.4
Q ss_pred cEEEE-cCCCCEEEecHHHH-HHhHHHHHHHhhcCCCCccccCCCCHHHHHHHHHHHHhchhhhhhccCCCCCccchhhh
Q 044292 12 MIILK-SSDGETFEVEETVA-LQSQTIRHMVEDDCADSVIPLPNVTGTILSMVVEYCKKHVEAAAAAAGGDNDVKNWDRD 89 (160)
Q Consensus 12 ~i~l~-s~DG~~~~v~~~~a-~~S~~l~~~l~~~~~~~~Ipl~~i~~~~L~~Ii~~~~~h~~~~~~~~~~~~~~~~wd~~ 89 (160)
.++|. +.+|+.|.+++.++ ..|++++.|+...-....|.|+. +..+|+.|++|++...
T Consensus 11 Dv~l~~~~~~~~~~~Hk~vLaa~S~yF~~mf~~~~~~~~i~l~~-~~~~~~~~l~y~Ytg~------------------- 70 (534)
T PHA03098 11 DESIIIVNGGGIIKVHKIILSSSSEYFKKMFKNNFKENEINLNI-DYDSFNEVIKYIYTGK------------------- 70 (534)
T ss_pred CEEEEEEcCCEEEEeHHHHHHhhhHHHHHHHhCCCCCceEEecC-CHHHHHHHHHHhcCCc-------------------
Confidence 35555 46899999999985 57999999998653356788988 9999999999998633
Q ss_pred hccCCHHHHHHHHHhhhhcCchhHHHHHHHHHHHHHhCCCHH
Q 044292 90 FVKVDQETLLDLLLAANYLNIKDLLELTCQATADVIKDKSPE 131 (160)
Q Consensus 90 Fl~~~~~~l~~Ll~AA~~L~I~~L~~~~~~~ia~~i~~kt~e 131 (160)
+.++.+.+.+|+.||++|+++.|.+.|++++...+.-.+.-
T Consensus 71 -~~i~~~~~~~ll~~A~~l~~~~l~~~C~~~l~~~l~~~nc~ 111 (534)
T PHA03098 71 -INITSNNVKDILSIANYLIIDFLINLCINYIIKIIDDNNCI 111 (534)
T ss_pred -eEEcHHHHHHHHHHHHHhCcHHHHHHHHHHHHHhCCHhHHH
Confidence 24677789999999999999999999999998776554433
No 10
>PHA02790 Kelch-like protein; Provisional
Probab=98.61 E-value=9.4e-08 Score=82.24 Aligned_cols=93 Identities=14% Similarity=0.150 Sum_probs=72.9
Q ss_pred EEcCCCCEEEecHHH-HHHhHHHHHHHhhcC--CCCcccc--CCCCHHHHHHHHHHHHhchhhhhhccCCCCCccchhhh
Q 044292 15 LKSSDGETFEVEETV-ALQSQTIRHMVEDDC--ADSVIPL--PNVTGTILSMVVEYCKKHVEAAAAAAGGDNDVKNWDRD 89 (160)
Q Consensus 15 l~s~DG~~~~v~~~~-a~~S~~l~~~l~~~~--~~~~Ipl--~~i~~~~L~~Ii~~~~~h~~~~~~~~~~~~~~~~wd~~ 89 (160)
+.---|++|.+++.+ |..|++++.|+..+- ....|.+ .+++..+|+.|++|++.-+
T Consensus 25 ~~~~~~~~~~~HR~VLAa~S~YFraMF~~~~~Es~~~v~~~~~~v~~~~l~~lldy~YTg~------------------- 85 (480)
T PHA02790 25 IIEAIGGNIIVNSTILKKLSPYFRTHLRQKYTKNKDPVTRVCLDLDIHSLTSIVIYSYTGK------------------- 85 (480)
T ss_pred EEEEcCcEEeeehhhhhhcCHHHHHHhcCCccccccceEEEecCcCHHHHHHHHHhheeee-------------------
Confidence 444568899999998 568999999997542 1223443 3899999999999997533
Q ss_pred hccCCHHHHHHHHHhhhhcCchhHHHHHHHHHHHHHhC
Q 044292 90 FVKVDQETLLDLLLAANYLNIKDLLELTCQATADVIKD 127 (160)
Q Consensus 90 Fl~~~~~~l~~Ll~AA~~L~I~~L~~~~~~~ia~~i~~ 127 (160)
+.++.+++.+|+.||++|+|+.+++.||+++...|.-
T Consensus 86 -l~it~~nV~~ll~aA~~Lqi~~v~~~C~~fL~~~l~~ 122 (480)
T PHA02790 86 -VYIDSHNVVNLLRASILTSVEFIIYTCINFILRDFRK 122 (480)
T ss_pred -EEEecccHHHHHHHHHHhChHHHHHHHHHHHHhhCCc
Confidence 3567778999999999999999999999988766543
No 11
>smart00225 BTB Broad-Complex, Tramtrack and Bric a brac. Domain in Broad-Complex, Tramtrack and Bric a brac. Also known as POZ (poxvirus and zinc finger) domain. Known to be a protein-protein interaction motif found at the N-termini of several C2H2-type transcription factors as well as Shaw-type potassium channels. Known structure reveals a tightly intertwined dimer formed via interactions between N-terminal strand and helix structures. However in a subset of BTB/POZ domains, these two secondary structures appear to be missing. Be aware SMART predicts BTB/POZ domains without the beta1- and alpha1-secondary structures.
Probab=98.56 E-value=2.8e-07 Score=59.78 Aligned_cols=82 Identities=24% Similarity=0.341 Sum_probs=67.7
Q ss_pred cCCCCEEEecHHHHH-HhHHHHHHHhhcC---CCCccccCCCCHHHHHHHHHHHHhchhhhhhccCCCCCccchhhhhcc
Q 044292 17 SSDGETFEVEETVAL-QSQTIRHMVEDDC---ADSVIPLPNVTGTILSMVVEYCKKHVEAAAAAAGGDNDVKNWDRDFVK 92 (160)
Q Consensus 17 s~DG~~~~v~~~~a~-~S~~l~~~l~~~~---~~~~Ipl~~i~~~~L~~Ii~~~~~h~~~~~~~~~~~~~~~~wd~~Fl~ 92 (160)
..+|+.|.+++.++. .|++++.++.... ....|++++++...++.+++|++... +.
T Consensus 5 ~v~~~~~~~h~~iL~~~s~~f~~~~~~~~~~~~~~~i~l~~~~~~~f~~~l~~ly~~~--------------------~~ 64 (90)
T smart00225 5 VVGGKKFKAHKAVLAACSPYFKALFSGDFKESKKSEIYLDDVSPEDFRALLEFLYTGK--------------------LD 64 (90)
T ss_pred EECCEEEehHHHHHhhcCHHHHHHHcCCCccCCCCEEEecCCCHHHHHHHHHeecCce--------------------ee
Confidence 457799999999865 6899999998653 35678899999999999999999632 12
Q ss_pred CCHHHHHHHHHhhhhcCchhHHHHHH
Q 044292 93 VDQETLLDLLLAANYLNIKDLLELTC 118 (160)
Q Consensus 93 ~~~~~l~~Ll~AA~~L~I~~L~~~~~ 118 (160)
++...+.+++.+|.+++++.|.+.|+
T Consensus 65 ~~~~~~~~l~~~a~~~~~~~l~~~c~ 90 (90)
T smart00225 65 LPEENVEELLELADYLQIPGLVELCE 90 (90)
T ss_pred cCHHHHHHHHHHHHHHCcHHHHhhhC
Confidence 44558899999999999999998874
No 12
>KOG4441 consensus Proteins containing BTB/POZ and Kelch domains, involved in regulatory/signal transduction processes [Signal transduction mechanisms; General function prediction only]
Probab=98.42 E-value=9.9e-07 Score=77.58 Aligned_cols=93 Identities=20% Similarity=0.352 Sum_probs=78.0
Q ss_pred EEEEcCCCCEEEecHHH-HHHhHHHHHHHhhcC---CCCccccCCCCHHHHHHHHHHHHhchhhhhhccCCCCCccchhh
Q 044292 13 IILKSSDGETFEVEETV-ALQSQTIRHMVEDDC---ADSVIPLPNVTGTILSMVVEYCKKHVEAAAAAAGGDNDVKNWDR 88 (160)
Q Consensus 13 i~l~s~DG~~~~v~~~~-a~~S~~l~~~l~~~~---~~~~Ipl~~i~~~~L~~Ii~~~~~h~~~~~~~~~~~~~~~~wd~ 88 (160)
++|.- +|+.|..++.+ +..|++++.|+...- ....|.+.+|+..+|+.+++|++...
T Consensus 39 v~L~v-~~~~~~aHR~VLAa~S~YFraMFt~~l~e~~~~~i~l~~v~~~~l~~ll~y~Yt~~------------------ 99 (571)
T KOG4441|consen 39 VTLLV-GDREFPAHRVVLAACSPYFRAMFTSGLKESKQKEINLEGVDPETLELLLDYAYTGK------------------ 99 (571)
T ss_pred EEEEE-CCeeechHHHHHHhccHHHHHHhcCCcccccceEEEEecCCHHHHHHHHHHhhcce------------------
Confidence 44444 45999999998 568999999998542 46789999999999999999998654
Q ss_pred hhccCCHHHHHHHHHhhhhcCchhHHHHHHHHHHHHHh
Q 044292 89 DFVKVDQETLLDLLLAANYLNIKDLLELTCQATADVIK 126 (160)
Q Consensus 89 ~Fl~~~~~~l~~Ll~AA~~L~I~~L~~~~~~~ia~~i~ 126 (160)
+.++.+.+.+|+.||++|+|..+++.||.++...+.
T Consensus 100 --i~i~~~nVq~ll~aA~~lQi~~v~~~C~~fL~~~l~ 135 (571)
T KOG4441|consen 100 --LEISEDNVQELLEAASLLQIPEVVDACCEFLESQLD 135 (571)
T ss_pred --EEechHhHHHHHHHHHHhhhHHHHHHHHHHHHhcCC
Confidence 357899999999999999999999999998876543
No 13
>KOG4682 consensus Uncharacterized conserved protein, contains BTB/POZ domain [General function prediction only]
Probab=96.59 E-value=0.0052 Score=51.77 Aligned_cols=101 Identities=16% Similarity=0.250 Sum_probs=80.4
Q ss_pred cCCCCEEEecHHHHHHhHHHHHHHhhcCC-------CCccccCCCCHHHHHHHHHHHHhchhhhhhccCCCCCccchhhh
Q 044292 17 SSDGETFEVEETVALQSQTIRHMVEDDCA-------DSVIPLPNVTGTILSMVVEYCKKHVEAAAAAAGGDNDVKNWDRD 89 (160)
Q Consensus 17 s~DG~~~~v~~~~a~~S~~l~~~l~~~~~-------~~~Ipl~~i~~~~L~~Ii~~~~~h~~~~~~~~~~~~~~~~wd~~ 89 (160)
..=|.++.+++-.+.||+++..|+.+.-. .-.||=|+|+...|..++-=+++-.
T Consensus 75 ~alg~eWrlHk~yL~QS~yf~smf~Gtw~es~~~iIqleI~Dp~Id~~al~~a~gsLY~dE------------------- 135 (488)
T KOG4682|consen 75 EALGFEWRLHKPYLFQSEYFKSMFSGTWKESSMNIIQLEIPDPNIDVVALQVAFGSLYRDE------------------- 135 (488)
T ss_pred hhccceeeeeeeeeeccHHHHHHhccccChhhCceEEEEcCCCcccHHHHHHHHhhhhhhh-------------------
Confidence 44589999999999999999999986521 2356667899999999988776521
Q ss_pred hccCCHHHHHHHHHhhhhcCchhHHHHHHHHHHHHHhCCCHHHHHHHcCCC
Q 044292 90 FVKVDQETLLDLLLAANYLNIKDLLELTCQATADVIKDKSPEEVRRIFHIN 140 (160)
Q Consensus 90 Fl~~~~~~l~~Ll~AA~~L~I~~L~~~~~~~ia~~i~~kt~eeir~~f~i~ 140 (160)
+.++.+.+..++.||.+|+.++|.+-|...+.+.|+-+|+ .+++...
T Consensus 136 -veI~l~dv~gvlAaA~~lqldgl~qrC~evMie~lspkta---~~yYea~ 182 (488)
T KOG4682|consen 136 -VEIKLSDVVGVLAAACLLQLDGLIQRCGEVMIETLSPKTA---CGYYEAA 182 (488)
T ss_pred -eeccHHHHHHHHHHHHHHHHhhHHHHHHHHHHHhcChhhh---hHhhhhh
Confidence 3589999999999999999999999999998887766654 4455444
No 14
>KOG4350 consensus Uncharacterized conserved protein, contains BTB/POZ domain [General function prediction only]
Probab=95.94 E-value=0.075 Score=45.18 Aligned_cols=115 Identities=14% Similarity=0.251 Sum_probs=82.0
Q ss_pred cEEEEcCCCCEEEecHHH-HHHhHHHHHHHhhcC---CCCccccCCCCHHHHHHHHHHHHhchhhhhhc--c--------
Q 044292 12 MIILKSSDGETFEVEETV-ALQSQTIRHMVEDDC---ADSVIPLPNVTGTILSMVVEYCKKHVEAAAAA--A-------- 77 (160)
Q Consensus 12 ~i~l~s~DG~~~~v~~~~-a~~S~~l~~~l~~~~---~~~~Ipl~~i~~~~L~~Ii~~~~~h~~~~~~~--~-------- 77 (160)
.++++-.| +.|..++-+ |..|.+++.++=.+- ....|||+.-++..++.+++|++..+-+-... +
T Consensus 46 DVtfvve~-~rfpAHRvILAaRs~yFRAlLYgGm~Es~q~~ipLq~t~~eAF~~lLrYiYtg~~~l~~~~ed~lld~Lsl 124 (620)
T KOG4350|consen 46 DVTFVVED-TRFPAHRVILAARSSYFRALLYGGMQESHQQLIPLQETNSEAFRALLRYIYTGKIDLAGVEEDILLDYLSL 124 (620)
T ss_pred ceEEEEec-cccchhhhhHHHHHHHHHHHHhhhhhhhhhcccccccccHHHHHHHHHHHhhcceecccchHHHHHHHHHH
Confidence 46777666 888888887 567999999986542 36789998888999999999998765432211 0
Q ss_pred C-------CCCCccchhhhhccCCHHHHHHHHHhhhhcCchhHHHHHHHHHHHHHhCCCHHHHH
Q 044292 78 G-------GDNDVKNWDRDFVKVDQETLLDLLLAANYLNIKDLLELTCQATADVIKDKSPEEVR 134 (160)
Q Consensus 78 ~-------~~~~~~~wd~~Fl~~~~~~l~~Ll~AA~~L~I~~L~~~~~~~ia~~i~~kt~eeir 134 (160)
. ....+.++-.+. +..+.++-++.||.+.+...|.++||.++ +++..++.
T Consensus 125 Ah~Ygf~~Le~aiSeYl~~i--L~~~NvCmifdaA~ly~l~~Lt~~C~mfm-----DrnA~~lL 181 (620)
T KOG4350|consen 125 AHRYGFIQLETAISEYLKEI--LKNENVCMIFDAAYLYQLTDLTDYCMMFM-----DRNADQLL 181 (620)
T ss_pred HHhcCcHHHHHHHHHHHHHH--HcccceeeeeeHHHHhcchHHHHHHHHHH-----hcCHHhhh
Confidence 0 111223332222 46678899999999999999999999887 45555554
No 15
>KOG2716 consensus Polymerase delta-interacting protein PDIP1 and related proteins, contain BTB/POZ domain [Inorganic ion transport and metabolism]
Probab=95.16 E-value=0.19 Score=39.58 Aligned_cols=99 Identities=18% Similarity=0.301 Sum_probs=75.7
Q ss_pred CccEEEEcCCCCEEEecHHHH-HHhHHHHHHHhhcC-----CCCccccCCCCHHHHHHHHHHHHhchhhhhhccCCCCCc
Q 044292 10 KKMIILKSSDGETFEVEETVA-LQSQTIRHMVEDDC-----ADSVIPLPNVTGTILSMVVEYCKKHVEAAAAAAGGDNDV 83 (160)
Q Consensus 10 ~~~i~l~s~DG~~~~v~~~~a-~~S~~l~~~l~~~~-----~~~~Ipl~~i~~~~L~~Ii~~~~~h~~~~~~~~~~~~~~ 83 (160)
+..++| ---|+.|.-++.-+ ++.++++.|++... ..+.|=+ +=+.+=++.|+.||+.-. ..+
T Consensus 4 ~~~vkL-nvGG~~F~Tsk~TLtk~dg~fk~m~e~~i~~~~d~s~~IFI-DRSpKHF~~ILNfmRdGd----------v~L 71 (230)
T KOG2716|consen 4 SETVKL-NVGGTIFKTSKSTLTKFDGFFKTMLETDIPVEKDESGCIFI-DRSPKHFDTILNFMRDGD----------VDL 71 (230)
T ss_pred cceEEE-ecCCeEEEeehhhhhhhhhHHHHHhhcCCccccCCcCcEEe-cCChhHHHHHHHhhhccc----------ccC
Confidence 345664 34588898888875 57999999998652 2344555 778889999999998321 112
Q ss_pred cchhhhhccCCHHHHHHHHHhhhhcCchhHHHHHHHHHHHHHhCC
Q 044292 84 KNWDRDFVKVDQETLLDLLLAANYLNIKDLLELTCQATADVIKDK 128 (160)
Q Consensus 84 ~~wd~~Fl~~~~~~l~~Ll~AA~~L~I~~L~~~~~~~ia~~i~~k 128 (160)
| -+..++-+|+.-|.|..+++|+++|...++..+++.
T Consensus 72 P--------e~~kel~El~~EA~fYlL~~Lv~~C~~~i~~~~~~~ 108 (230)
T KOG2716|consen 72 P--------ESEKELKELLREAEFYLLDGLVELCQSAIARLIRGY 108 (230)
T ss_pred c--------cchHHHHHHHHHHHHhhHHHHHHHHHHHhhhcccCc
Confidence 3 357889999999999999999999999999987764
No 16
>PF11822 DUF3342: Domain of unknown function (DUF3342); InterPro: IPR021777 This family of proteins are functionally uncharacterised. This family is found in bacteria. This presumed domain is typically between 170 to 303 amino acids in length. The N-terminal half of this family is a BTB-like domain.
Probab=94.04 E-value=0.049 Score=44.70 Aligned_cols=86 Identities=14% Similarity=0.256 Sum_probs=62.2
Q ss_pred CCEEEecHHHH-HHhHHHHHHHhh----cCCCCccccCCCC--HHHHHHHHHHHHhchhhhhhccCCCCCccchhhhhcc
Q 044292 20 GETFEVEETVA-LQSQTIRHMVED----DCADSVIPLPNVT--GTILSMVVEYCKKHVEAAAAAAGGDNDVKNWDRDFVK 92 (160)
Q Consensus 20 G~~~~v~~~~a-~~S~~l~~~l~~----~~~~~~Ipl~~i~--~~~L~~Ii~~~~~h~~~~~~~~~~~~~~~~wd~~Fl~ 92 (160)
.+.|..+.+.+ ..-+++++.+.. ....++|+| .|+ -.|++=+++|++. ..| .
T Consensus 13 ~rdF~C~~~lL~~~M~YF~~~l~~~~~~~~~~~~idi-sVhCDv~iF~WLm~yv~~----~~p----------------~ 71 (317)
T PF11822_consen 13 KRDFTCPRDLLVSEMRYFAEYLSRYINDSQRWEEIDI-SVHCDVHIFEWLMRYVKG----EPP----------------S 71 (317)
T ss_pred ceeeeccHHHHHHhhHHHHHHHhhcccccCcCCCcce-EEecChhHHHHHHHHhhc----CCC----------------c
Confidence 35788999985 579999999953 223456666 444 4556666666654 111 4
Q ss_pred CCHHHHHHHHHhhhhcCchhHHHHHHHHHHHHHh
Q 044292 93 VDQETLLDLLLAANYLNIKDLLELTCQATADVIK 126 (160)
Q Consensus 93 ~~~~~l~~Ll~AA~~L~I~~L~~~~~~~ia~~i~ 126 (160)
++++.+..++--|+||+|++|++.|-.|+...+.
T Consensus 72 l~~~NvvsIliSS~FL~M~~Lve~cl~y~~~~~~ 105 (317)
T PF11822_consen 72 LTPSNVVSILISSEFLQMESLVEECLQYCHDHMS 105 (317)
T ss_pred CCcCcEEEeEehhhhhccHHHHHHHHHHHHHhHH
Confidence 6788899999999999999999999998865554
No 17
>KOG3433 consensus Protein involved in meiotic recombination/predicted coiled-coil protein [Cell cycle control, cell division, chromosome partitioning; General function prediction only]
Probab=93.78 E-value=0.13 Score=38.99 Aligned_cols=31 Identities=29% Similarity=0.483 Sum_probs=26.5
Q ss_pred CchhHHHHHHHHHHHHHhCCCHHHHHHHcCCCCCCC
Q 044292 109 NIKDLLELTCQATADVIKDKSPEEVRRIFHINNDFT 144 (160)
Q Consensus 109 ~I~~L~~~~~~~ia~~i~~kt~eeir~~f~i~~d~t 144 (160)
||--|.++||+.. |..+.+||+.||||+||.
T Consensus 170 nI~il~dy~~rkf-----~~e~nqi~~~fgIPed~d 200 (203)
T KOG3433|consen 170 NIFILIDYLYRKF-----GLEPNQIRKEFGIPEDFD 200 (203)
T ss_pred hHHHHHHHHHHhc-----CCCHHHHhHhcCCCcccc
Confidence 6777888887776 889999999999999874
No 18
>KOG0783 consensus Uncharacterized conserved protein, contains ankyrin and BTB/POZ domains [Function unknown]
Probab=92.83 E-value=0.39 Score=44.36 Aligned_cols=108 Identities=18% Similarity=0.233 Sum_probs=76.3
Q ss_pred cEEEEcCCCCEEEecHHHH-HHhHHHHHHHhhcC-CCCccc--cCCCCHHHHHHHHHHHHhchhhhhhccCCCCCccchh
Q 044292 12 MIILKSSDGETFEVEETVA-LQSQTIRHMVEDDC-ADSVIP--LPNVTGTILSMVVEYCKKHVEAAAAAAGGDNDVKNWD 87 (160)
Q Consensus 12 ~i~l~s~DG~~~~v~~~~a-~~S~~l~~~l~~~~-~~~~Ip--l~~i~~~~L~~Ii~~~~~h~~~~~~~~~~~~~~~~wd 87 (160)
...++..||+.+..++-++ ..+.++..|+...- ...-|. +-.++++.|+.|++|++. .+.
T Consensus 712 d~~i~~KDGkvl~aHkc~L~aRlEYF~smf~~~w~E~sS~t~~~~p~~~e~m~ivLdylYs--~d~-------------- 775 (1267)
T KOG0783|consen 712 DTVIKLKDGKVLKAHKCFLSARLEYFSSMFQFVWMESSSITVNLSPLTVEHMSIVLDYLYS--DDK-------------- 775 (1267)
T ss_pred eEEEEecCCcCcccceeEeeeHHHHHHHHHHHHHhhhccceeecCcchHHHHHHHHHHHHc--cch--------------
Confidence 3456667999999988875 35888888887542 111132 223569999999999983 111
Q ss_pred hhhcc--CCHHHHHHHHHhhhhcCchhHHHHHHHHHHHHHhCCCHHHHHH
Q 044292 88 RDFVK--VDQETLLDLLLAANYLNIKDLLELTCQATADVIKDKSPEEVRR 135 (160)
Q Consensus 88 ~~Fl~--~~~~~l~~Ll~AA~~L~I~~L~~~~~~~ia~~i~~kt~eeir~ 135 (160)
.+|++ .+.+-+|+++..|+.|-|..|.+.|-..+-+++.=|+...+.+
T Consensus 776 ~~~~k~~~~~dF~~~il~iaDqlli~~Lk~Ice~~ll~kl~lk~~~~lle 825 (1267)
T KOG0783|consen 776 VELFKDLKESDFMFEILSIADQLLILELKSICEQSLLRKLNLKTLPTLLE 825 (1267)
T ss_pred HHHHhccchhhhhHHHHHHHHHHHHHHHHHHHHHHHHhHhcccchHHHHH
Confidence 12222 4566799999999999999999999998888888776555543
No 19
>COG5124 Protein predicted to be involved in meiotic recombination [Cell division and chromosome partitioning / General function prediction only]
Probab=91.56 E-value=0.19 Score=37.95 Aligned_cols=31 Identities=32% Similarity=0.584 Sum_probs=24.3
Q ss_pred CchhHHHHHHHHHHHHHhCCCHHHHHHHcCCCCCCC
Q 044292 109 NIKDLLELTCQATADVIKDKSPEEVRRIFHINNDFT 144 (160)
Q Consensus 109 ~I~~L~~~~~~~ia~~i~~kt~eeir~~f~i~~d~t 144 (160)
+|.-|.++.|+.+ +..++|||+.||||.||.
T Consensus 174 nI~ilidy~c~kf-----~~~~~qir~~fgIPedld 204 (209)
T COG5124 174 NIEILIDYLCKKF-----FLKPEQIRKEFGIPEDLD 204 (209)
T ss_pred hHHHHHHHHHHHc-----CCCHHHHHHhcCCCcchh
Confidence 5556666666654 789999999999998874
No 20
>PF02214 BTB_2: BTB/POZ domain; InterPro: IPR003131 Potassium channels are the most diverse group of the ion channel family [, ]. They are important in shaping the action potential, and in neuronal excitability and plasticity []. The potassium channel family is composed of several functionally distinct isoforms, which can be broadly separated into 2 groups []: the practically non-inactivating 'delayed' group and the rapidly inactivating 'transient' group. These are all highly similar proteins, with only small amino acid changes causing the diversity of the voltage-dependent gating mechanism, channel conductance and toxin binding properties. Each type of K+ channel is activated by different signals and conditions depending on their type of regulation: some open in response to depolarisation of the plasma membrane; others in response to hyperpolarisation or an increase in intracellular calcium concentration; some can be regulated by binding of a transmitter, together with intracellular kinases; while others are regulated by GTP-binding proteins or other second messengers []. In eukaryotic cells, K+ channels are involved in neural signalling and generation of the cardiac rhythm, act as effectors in signal transduction pathways involving G protein-coupled receptors (GPCRs) and may have a role in target cell lysis by cytotoxic T-lymphocytes []. In prokaryotic cells, they play a role in the maintenance of ionic homeostasis []. All K+ channels discovered so far possess a core of alpha subunits, each comprising either one or two copies of a highly conserved pore loop domain (P-domain). The P-domain contains the sequence (T/SxxTxGxG), which has been termed the K+ selectivity sequence. In families that contain one P-domain, four subunits assemble to form a selective pathway for K+ across the membrane. However, it remains unclear how the 2 P-domain subunits assemble to form a selective pore. The functional diversity of these families can arise through homo- or hetero-associations of alpha subunits or association with auxiliary cytoplasmic beta subunits. K+ channel subunits containing one pore domain can be assigned into one of two superfamilies: those that possess six transmembrane (TM) domains and those that possess only two TM domains. The six TM domain superfamily can be further subdivided into conserved gene families: the voltage-gated (Kv) channels; the KCNQ channels (originally known as KvLQT channels); the EAG-like K+ channels; and three types of calcium (Ca)-activated K+ channels (BK, IK and SK) []. The 2TM domain family comprises inward-rectifying K+ channels. In addition, there are K+ channel alpha-subunits that possess two P-domains. These are usually highly regulated K+ selective leak channels. The Kv family can be divided into several subfamilies on the basis of sequence similarity and function. Four of these subfamilies, Kv1 (Shaker), Kv2 (Shab), Kv3 (Shaw) and Kv4 (Shal), consist of pore-forming alpha subunits that associate with different types of beta subunit. Each alpha subunit comprises six hydrophobic TM domains with a P-domain between the fifth and sixth, which partially resides in the membrane. The fourth TM domain has positively charged residues at every third residue and acts as a voltage sensor, which triggers the conformational change that opens the channel pore in response to a displacement in membrane potential []. More recently, 4 new electrically-silent alpha subunits have been cloned: Kv5 (KCNF), Kv6 (KCNG), Kv8 and Kv9 (KCNS). These subunits do not themselves possess any functional activity, but appear to form heteromeric channels with Kv2 subunits, and thus modulate Shab channel activity []. When highly expressed, they inhibit channel activity, but at lower levels show more specific modulatory actions. The N-terminal, cytoplasmic tetramerization domain (T1) of voltage-gated potassium channels encodes molecular determinants for subfamily-specific assembly of alpha-subunits into functional tetrameric channels []. This domain is found in a subset of a larger group of proteins that contain the BTB/POZ domain.; GO: 0005249 voltage-gated potassium channel activity, 0006813 potassium ion transport, 0008076 voltage-gated potassium channel complex, 0016020 membrane; PDB: 1NN7_A 3KVT_A 1EXB_E 1QDV_A 1DSX_E 1QDW_F 3LUT_B 3LNM_B 2A79_B 3DRY_C ....
Probab=88.31 E-value=0.42 Score=31.71 Aligned_cols=80 Identities=15% Similarity=0.272 Sum_probs=53.8
Q ss_pred CCCEEEecHHHHH-H-hHHHHHHHhhc------CCCCccccCCCCHHHHHHHHHHHHhchhhhhhccCCCCCccchhhhh
Q 044292 19 DGETFEVEETVAL-Q-SQTIRHMVEDD------CADSVIPLPNVTGTILSMVVEYCKKHVEAAAAAAGGDNDVKNWDRDF 90 (160)
Q Consensus 19 DG~~~~v~~~~a~-~-S~~l~~~l~~~------~~~~~Ipl~~i~~~~L~~Ii~~~~~h~~~~~~~~~~~~~~~~wd~~F 90 (160)
-|+.|.+++..+. . ..++..++... ...+.+-+ +=++..++.|+.|++.. ... +
T Consensus 6 GG~~f~~~~~tL~~~~~s~l~~~~~~~~~~~~~~~~~~~fi-DRdp~~F~~IL~ylr~~--~~l---------~------ 67 (94)
T PF02214_consen 6 GGTIFETSRSTLTRYPDSLLARLFSGERSDDYDDDDGEYFI-DRDPELFEYILNYLRTG--GKL---------P------ 67 (94)
T ss_dssp TTEEEEEEHHHHHTSTTSTTTSHHHTGHGGGEETTTTEEEE-SS-HHHHHHHHHHHHHT--SSB----------------
T ss_pred CCEEEEEcHHHHhhCCCChhhhHHhhccccccCCccceEEe-ccChhhhhHHHHHHhhc--Ccc---------C------
Confidence 5899999999876 2 34667777642 13455555 78999999999999974 111 0
Q ss_pred ccCCHHHHHHHHHhhhhcCchhH-HHHH
Q 044292 91 VKVDQETLLDLLLAANYLNIKDL-LELT 117 (160)
Q Consensus 91 l~~~~~~l~~Ll~AA~~L~I~~L-~~~~ 117 (160)
.-+...+..|...|.|.+|+.| ++.|
T Consensus 68 -~~~~~~~~~l~~Ea~fy~l~~l~i~~c 94 (94)
T PF02214_consen 68 -IPDEICLEELLEEAEFYGLDELFIEDC 94 (94)
T ss_dssp ---TTS-HHHHHHHHHHHT-HHHHBHHC
T ss_pred -CCCchhHHHHHHHHHHcCCCccccCCC
Confidence 0123457789999999999999 6654
No 21
>KOG0511 consensus Ankyrin repeat protein [General function prediction only]
Probab=84.54 E-value=3.3 Score=35.20 Aligned_cols=107 Identities=12% Similarity=0.186 Sum_probs=77.2
Q ss_pred cCCCCEEEecHHHHHHhHHHHHHHhhcC----CCCcc---ccCCCCHHHHHHHHHHHHhchhhhhhcc------------
Q 044292 17 SSDGETFEVEETVALQSQTIRHMVEDDC----ADSVI---PLPNVTGTILSMVVEYCKKHVEAAAAAA------------ 77 (160)
Q Consensus 17 s~DG~~~~v~~~~a~~S~~l~~~l~~~~----~~~~I---pl~~i~~~~L~~Ii~~~~~h~~~~~~~~------------ 77 (160)
+.....+.++...+..+.+++.|+.+.- .+..+ .+|+....+.+.+.+|++.|+.+-+++-
T Consensus 297 l~~~~RyP~hla~i~R~eyfk~mf~g~f~e~s~n~~~p~lslp~~~~~vveI~lr~lY~d~tdi~~~~A~dvll~ad~la 376 (516)
T KOG0511|consen 297 LPEEDRYPAHLARILRVEYFKSMFVGDFIESSVNDTRPGLSLPSLADVVVEIDLRNLYCDQTDIIFDVASDVLLFADKLA 376 (516)
T ss_pred ccccccccHHHHHHHHHHHHHHHhccchhhhcCCccccccccchHHHHHHHHHHHHhhcccccchHHHHhhHHHHhhHhh
Confidence 3444567788888888999999886531 13333 4888999999999999999998766531
Q ss_pred ----C-----CCCCccchhhhhccCCHHHHHHHHHhhhhcCchhHHHHHHHHHHHHHh
Q 044292 78 ----G-----GDNDVKNWDRDFVKVDQETLLDLLLAANYLNIKDLLELTCQATADVIK 126 (160)
Q Consensus 78 ----~-----~~~~~~~wd~~Fl~~~~~~l~~Ll~AA~~L~I~~L~~~~~~~ia~~i~ 126 (160)
. ....+++| .+| ++.-.+++++.-|.-+...+|-..+..++|..+.
T Consensus 377 l~~dr~Lkt~as~~itq~-~e~--id~y~V~dIl~~~wd~~~~rlEqfa~~~~a~hl~ 431 (516)
T KOG0511|consen 377 LADDRLLKTAASAEITQW-LEL--IDMYGVLDILEYCWDLVACRLEQFAETHEARHLL 431 (516)
T ss_pred hhhhhhhhhhhhHHHHHH-HHH--HHhhhHHHHHHHHHHhhhHHHHHHHHHHHHHHHH
Confidence 0 12234455 111 3445589999999999999999999999988765
No 22
>PF03962 Mnd1: Mnd1 family; InterPro: IPR005647 This family of proteins includes meiotic nuclear division protein 1 (MND1) from Saccharomyces cerevisiae (Baker's yeast). The mnd1 protein forms a complex with hop2 to promote homologous chromosome pairing and meiotic double-strand break repair [].
Probab=81.29 E-value=1.8 Score=32.95 Aligned_cols=42 Identities=29% Similarity=0.254 Sum_probs=30.1
Q ss_pred HHHHHHhhhhc--CchhHHHHHHHHHHHHHhCCCHHHHHHHcCCCCCCC
Q 044292 98 LLDLLLAANYL--NIKDLLELTCQATADVIKDKSPEEVRRIFHINNDFT 144 (160)
Q Consensus 98 l~~Ll~AA~~L--~I~~L~~~~~~~ia~~i~~kt~eeir~~f~i~~d~t 144 (160)
+..+..||+.. ||..|..+|+.. -|.+.+++++.||||+||.
T Consensus 144 ~~~~~~~anrwTDNI~~l~~~~~~k-----~~~~~~~i~k~f~Ip~d~d 187 (188)
T PF03962_consen 144 IKIAKEAANRWTDNIFSLKSYLKKK-----FGMDEEDIRKEFGIPEDFD 187 (188)
T ss_pred HHHHHHHHHHHHhhHHHHHHHHHHh-----cCCCHHHHHHHcCCccccC
Confidence 34444566654 566666666664 3899999999999999873
No 23
>KOG1665 consensus AFH1-interacting protein FIP2, contains BTB/POZ domain and pentapeptide repeats [General function prediction only]
Probab=75.12 E-value=4.6 Score=32.01 Aligned_cols=94 Identities=14% Similarity=0.217 Sum_probs=63.1
Q ss_pred CCCCCCccEEEEcCCCCEEEec--HHHHH-HhHHHHHHHhhcC------CCCccccCCCCHHHHHHHHHHHHhchhhhhh
Q 044292 5 SENNSKKMIILKSSDGETFEVE--ETVAL-QSQTIRHMVEDDC------ADSVIPLPNVTGTILSMVVEYCKKHVEAAAA 75 (160)
Q Consensus 5 ~~~~~~~~i~l~s~DG~~~~v~--~~~a~-~S~~l~~~l~~~~------~~~~Ipl~~i~~~~L~~Ii~~~~~h~~~~~~ 75 (160)
++.+.+++++|- -.|+.|.-. .-+.+ --..+..|+.+.+ ..+.+-+ +=++.-++-|+.|+.+-.
T Consensus 3 t~~~~~~~vrln-igGk~f~TTidTlv~rEPDSMLa~MF~~~g~~~~~d~kGa~lI-DRsp~yFepIlNyLr~Gq----- 75 (302)
T KOG1665|consen 3 TSSNLSSMVRLN-IGGKKFCTTIDTLVIREPDSMLAAMFSGRGAMCQEDKKGAVLI-DRSPKYFEPILNYLRDGQ----- 75 (302)
T ss_pred cccChhhhheee-cCCeEEEEeehhhcccCchHHHHHHHccCCCccccccCceEEE-ccCchhhHHHHHHHhcCc-----
Confidence 334455677774 457777544 33443 2556777877654 1344444 778888999999998633
Q ss_pred ccCCCCCccchhhhhccCCHHHHHHHHHhhhhcCchhHHHHHHH
Q 044292 76 AAGGDNDVKNWDRDFVKVDQETLLDLLLAANYLNIKDLLELTCQ 119 (160)
Q Consensus 76 ~~~~~~~~~~wd~~Fl~~~~~~l~~Ll~AA~~L~I~~L~~~~~~ 119 (160)
|...+.-.++.++.+|.|++|.+|++..-.
T Consensus 76 --------------~~~~s~i~~lgvLeeArff~i~sL~~hle~ 105 (302)
T KOG1665|consen 76 --------------IPSLSDIDCLGVLEEARFFQILSLKDHLED 105 (302)
T ss_pred --------------eeecCCccHHHHHHHhhHHhhHhHHhHHhh
Confidence 123455678999999999999999987643
No 24
>KOG2075 consensus Topoisomerase TOP1-interacting protein BTBD1 [Function unknown]
Probab=73.39 E-value=20 Score=31.41 Aligned_cols=106 Identities=15% Similarity=0.185 Sum_probs=66.9
Q ss_pred CEEEecHHHH-HHhHHHHHHHhhcC---CCCccccCCCCHHHHHHHHHHHHhc--hhhhh--hc----cCC--CCCccch
Q 044292 21 ETFEVEETVA-LQSQTIRHMVEDDC---ADSVIPLPNVTGTILSMVVEYCKKH--VEAAA--AA----AGG--DNDVKNW 86 (160)
Q Consensus 21 ~~~~v~~~~a-~~S~~l~~~l~~~~---~~~~Ipl~~i~~~~L~~Ii~~~~~h--~~~~~--~~----~~~--~~~~~~w 86 (160)
|.+..++-+. .-|.++..|+-..- ...+|.+|+|.-+.+...++|++-- +.++. .. .+. ...+..=
T Consensus 129 q~~paHk~vla~gS~VFdaMf~g~~a~~~s~ei~lpdvepaaFl~~L~flYsdev~~~~dtvi~tl~~AkKY~VpaLer~ 208 (521)
T KOG2075|consen 129 QRIPAHKLVLADGSDVFDAMFYGGLAEDASLEIRLPDVEPAAFLAFLRFLYSDEVKLAADTVITTLYAAKKYLVPALERQ 208 (521)
T ss_pred cccchhhhhhhcchHHHHHHhccCcccccCceeecCCcChhHhHHHHHHHhcchhhhhHHHHHHHHHHHHHhhhHHHHHH
Confidence 4555566664 56899999987542 2678999999999999999998741 11110 00 000 0111111
Q ss_pred hhhhcc---CCHHHHHHHHHhhhhcCchhHHHHHHHHHHHHHh
Q 044292 87 DRDFVK---VDQETLLDLLLAANYLNIKDLLELTCQATADVIK 126 (160)
Q Consensus 87 d~~Fl~---~~~~~l~~Ll~AA~~L~I~~L~~~~~~~ia~~i~ 126 (160)
--+|+. .....++.|...|..++=+.|+..|...|...+.
T Consensus 209 CVkflr~~l~~~naf~~L~q~A~lf~ep~Li~~c~e~id~~~~ 251 (521)
T KOG2075|consen 209 CVKFLRKNLMADNAFLELFQRAKLFDEPSLISICLEVIDKSFE 251 (521)
T ss_pred HHHHHHHhcCChHHHHHHHHHHHhhcCHHHHHHHHHHhhhHHH
Confidence 222443 5667777777778888888888888888865544
No 25
>PF05409 Peptidase_C30: Coronavirus endopeptidase C30; InterPro: IPR008740 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 correspond to MEROPS peptidase family C30 (clan PA(C)). These peptidases are related to serine endopeptidases of family S1 and are restricted to RNA viruses, where they are involved in viral polyprotein processing during replication [, , ]. This entry represents the CoV M-pro which comprises three domains. Domains I and II are six-stranded antiparallel beta barrels and together resemble the architecture of chymotrypsin and of picornaviruses 3C proteinases. The substrate-binding site is located in a cleft between these two domains. The catalytic site is situated at the centre of the cleft. A long loop connects domain II to the C-terminal domain (domain III). This latter domain, a globular cluster of five helices, has been implicated in the proteolytic activity of M-pro. In the active site of M-pro, Cys and His form a catalytic dyad. In contrast to serine proteinases and other cysteine proteinases, which have a catalytic triad, there is no third catalytic residue present [, , , ]. ; GO: 0019082 viral protein processing; PDB: 2VJ1_B 2K7X_A 2Q6D_B 2Q6F_A 1P9U_E 1LVO_B 2AMP_B 1P9S_A 2ZU2_A 3D23_A ....
Probab=73.32 E-value=4.1 Score=32.98 Aligned_cols=98 Identities=16% Similarity=0.271 Sum_probs=57.1
Q ss_pred CccccCCCCHHHHHHHHHHHHhchhhhhh-----ccCCCCCccch--hhhhccCCHHHHHHHHHhhhhcCchhHHHHHHH
Q 044292 47 SVIPLPNVTGTILSMVVEYCKKHVEAAAA-----AAGGDNDVKNW--DRDFVKVDQETLLDLLLAANYLNIKDLLELTCQ 119 (160)
Q Consensus 47 ~~Ipl~~i~~~~L~~Ii~~~~~h~~~~~~-----~~~~~~~~~~w--d~~Fl~~~~~~l~~Ll~AA~~L~I~~L~~~~~~ 119 (160)
+...++..+.-.-..|+.|++-|--...+ ...+...+.+| ...|-+...+..++.|.|..-..+.+|+...-+
T Consensus 161 ~~~Q~~~~~~~~T~NVvA~LYAalln~~~w~l~~~~~svedFN~WA~~N~ft~~~~~~~~~~Laa~TgVsV~rlLaaI~~ 240 (293)
T PF05409_consen 161 EVAQLEGADQYITDNVVAWLYAALLNGCPWWLSSQRISVEDFNEWAMNNGFTSFSSDDAFDMLAAKTGVSVERLLAAIQR 240 (293)
T ss_dssp SSSTTTTS-SB-HHHHHHHHHHHHHTT--TTSSSS---HHHHHHHHHHTTB--SSHHHHHHHHHHHHT--HHHHHHHHHH
T ss_pred hhhhhcCccceeehhHHHHHHHHHHcCCCeeeccceecHHHHHHHHHhCCCcccchhhHHHHHHHHhCCcHHHHHHHHHH
Confidence 44456556666677899999877543221 11234455667 333555788889999999999999999876655
Q ss_pred HHHHHHhCCCHHHHHHHcCCCCCCCHHHH
Q 044292 120 ATADVIKDKSPEEVRRIFHINNDFTPQEE 148 (160)
Q Consensus 120 ~ia~~i~~kt~eeir~~f~i~~d~t~eee 148 (160)
+..-..|++ |.-...+++||||++-
T Consensus 241 -L~~g~~G~~---IlG~~~ledE~Tp~~V 265 (293)
T PF05409_consen 241 -LHKGFGGRT---ILGSCSLEDEFTPEMV 265 (293)
T ss_dssp -HHHTTTTT----BTTBSS--TSS-HHHH
T ss_pred -HhcCCCCCc---ccccccccccCCHHHH
Confidence 555556665 3444457778999865
No 26
>PF03656 Pam16: Pam16; InterPro: IPR005341 The Pam16 protein is the fifth essential subunit of the pre-sequence translocase-associated protein import motor (PAM) []. In Saccharomyces cerevisiae (Baker's yeast), Pam16 is required for preprotein translocation into the matrix, but not for protein insertion into the inner membrane [].; PDB: 2GUZ_J.
Probab=72.77 E-value=1.5 Score=31.34 Aligned_cols=33 Identities=21% Similarity=0.466 Sum_probs=16.8
Q ss_pred HHhCCCHHHHHHHcCCCCCCCHHHHHHHHHhccccc
Q 044292 124 VIKDKSPEEVRRIFHINNDFTPQEEQEIRRENQWAF 159 (160)
Q Consensus 124 ~i~~kt~eeir~~f~i~~d~t~eee~~~~~e~~w~~ 159 (160)
...|+|.+|-++++|++...++|+ |.+.|.-+|
T Consensus 51 ~~~~Mtl~EA~~ILnv~~~~~~ee---I~k~y~~Lf 83 (127)
T PF03656_consen 51 NSKGMTLDEARQILNVKEELSREE---IQKRYKHLF 83 (127)
T ss_dssp ------HHHHHHHHT--G--SHHH---HHHHHHHHH
T ss_pred hcCCCCHHHHHHHcCCCCccCHHH---HHHHHHHHH
Confidence 346899999999999998777755 445554443
No 27
>KOG3442 consensus Uncharacterized conserved protein [Function unknown]
Probab=66.96 E-value=4 Score=29.09 Aligned_cols=32 Identities=19% Similarity=0.413 Sum_probs=24.0
Q ss_pred hCCCHHHHHHHcCCCCCCCHHHHHHHHHhcccccC
Q 044292 126 KDKSPEEVRRIFHINNDFTPQEEQEIRRENQWAFE 160 (160)
Q Consensus 126 ~~kt~eeir~~f~i~~d~t~eee~~~~~e~~w~~~ 160 (160)
-|.|.+|-++++||.+++..| +|.+.|.-+|+
T Consensus 54 ~~iTlqEa~qILnV~~~ln~e---ei~k~yehLFe 85 (132)
T KOG3442|consen 54 GKITLQEAQQILNVKEPLNRE---EIEKRYEHLFE 85 (132)
T ss_pred ccccHHHHhhHhCCCCCCCHH---HHHHHHHHHHh
Confidence 346899999999999877774 45577766654
No 28
>PF07928 Vps54: Vps54-like protein; InterPro: IPR012501 This family contains various proteins that are homologues of the yeast Vps54 protein, such as the rat homologue (Q9JMK8 from SWISSPROT), the human homologue (Q86YF7 from SWISSPROT), and the mouse homologue (Q8R3X1 from SWISSPROT). In yeast, Vps54 associates with Vps52 and Vps53 proteins to form a trimolecular complex that is involved in protein transport between Golgi, endosomal, and vacuolar compartments []. All Vps54 homologues contain a coiled coil region (not found in the region featured in this family) and multiple dileucine motifs []. ; GO: 0042147 retrograde transport, endosome to Golgi; PDB: 3N1E_B 3N1B_B.
Probab=64.13 E-value=2.2 Score=30.74 Aligned_cols=47 Identities=23% Similarity=0.284 Sum_probs=0.0
Q ss_pred CCCEEEecHHHHHHhHHHHHHHhhcCCCCccccCCCCHHHHHHHHHHHHhch
Q 044292 19 DGETFEVEETVALQSQTIRHMVEDDCADSVIPLPNVTGTILSMVVEYCKKHV 70 (160)
Q Consensus 19 DG~~~~v~~~~a~~S~~l~~~l~~~~~~~~Ipl~~i~~~~L~~Ii~~~~~h~ 70 (160)
||+.|.|+..++..-+.+.+.+.-. ..+|.+..+++.+++++++...
T Consensus 1 d~e~f~vv~s~l~ll~~l~~Y~~~~-----~~~P~~a~di~~~l~elLk~fN 47 (135)
T PF07928_consen 1 DNEKFVVVGSALLLLKMLSDYLQLA-----SNFPSLAPDILSRLLELLKLFN 47 (135)
T ss_dssp ----------------------------------------------------
T ss_pred CCCceecHHHHHHHHHHHHHHHHHH-----HHCchhHHHHHHHHHHHHHHHH
Confidence 6788888888877777777765431 3456688888888888887543
No 29
>PF02519 Auxin_inducible: Auxin responsive protein; InterPro: IPR003676 This family consists of the protein products of a gene cluster that encodes a group of auxin-regulated RNAs (small auxin up RNAs, SAURs) []. Proteins from this ARG7 auxin responsive genes family have no identified functional role [].
Probab=58.81 E-value=46 Score=22.63 Aligned_cols=56 Identities=11% Similarity=0.159 Sum_probs=40.1
Q ss_pred CCccEEEEcCC-CCEEEecHHHHHHhHHHHHHHhhcC------CCCccccCCCCHHHHHHHHHHH
Q 044292 9 SKKMIILKSSD-GETFEVEETVALQSQTIRHMVEDDC------ADSVIPLPNVTGTILSMVVEYC 66 (160)
Q Consensus 9 ~~~~i~l~s~D-G~~~~v~~~~a~~S~~l~~~l~~~~------~~~~Ipl~~i~~~~L~~Ii~~~ 66 (160)
+...+.+...+ .+.|.|+...++ .++++.+|+... .+++|.|| -+...++.|+..+
T Consensus 37 p~G~~~VyVG~~~~Rfvvp~~~L~-hp~f~~LL~~aeeEfG~~~~G~l~iP-C~~~~Fe~~l~~l 99 (100)
T PF02519_consen 37 PKGHFAVYVGEERRRFVVPVSYLN-HPLFQELLEQAEEEFGFDQDGPLTIP-CDVVLFEHLLWLL 99 (100)
T ss_pred CCCeEEEEeCccceEEEechHHcC-chhHHHHHHHHhhhcCcCCCCcEEee-CCHHHHHHHHHHh
Confidence 34566666555 899999999887 577788887432 36778885 6677888887654
No 30
>PRK05365 malonic semialdehyde reductase; Provisional
Probab=58.27 E-value=7.9 Score=29.09 Aligned_cols=34 Identities=21% Similarity=0.268 Sum_probs=26.9
Q ss_pred HHHHhhhhcCchhHHHHHHHHHHHHHhCCCHHHHHHHcCCCCCC
Q 044292 100 DLLLAANYLNIKDLLELTCQATADVIKDKSPEEVRRIFHINNDF 143 (160)
Q Consensus 100 ~Ll~AA~~L~I~~L~~~~~~~ia~~i~~kt~eeir~~f~i~~d~ 143 (160)
.|+.||.-||+.. +++.|-..+.+++.||+++++
T Consensus 130 ~l~LaA~~~Glgs----------~~~~g~~~~~v~~~l~ip~~~ 163 (195)
T PRK05365 130 YLILAARALGLDA----------GPMSGFDAAAVDAEFFAGTTW 163 (195)
T ss_pred HHHHHHHHcCCcc----------CCccccCHHHHHHHhCCCCCe
Confidence 3888888888876 244567889999999998764
No 31
>cd02148 Nitroreductase_5 Nitroreductase-like family 5. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and nitroimidazoles. This process requires NAD(P)H as electron donor in an obligatory two-electron transfer and uses FMN as cofactor. The enzyme is typically a homodimer. Members of this family are also called NADH dehydrogenase, oxygen-insensitive NAD(P)H nitrogenase or dihydropteridine reductase.
Probab=57.25 E-value=7.9 Score=28.79 Aligned_cols=34 Identities=18% Similarity=0.263 Sum_probs=26.7
Q ss_pred HHHHhhhhcCchhHHHHHHHHHHHHHhCCCHHHHHHHcCCCCCC
Q 044292 100 DLLLAANYLNIKDLLELTCQATADVIKDKSPEEVRRIFHINNDF 143 (160)
Q Consensus 100 ~Ll~AA~~L~I~~L~~~~~~~ia~~i~~kt~eeir~~f~i~~d~ 143 (160)
.|+.||.-||+.. +++.|-..+++++.||+++++
T Consensus 123 ~l~LaA~~lGlgs----------~~~~g~d~~~~~~~L~lp~~~ 156 (185)
T cd02148 123 YFILAARALGLDA----------GPMSGFDAAAVDAEFFADTRW 156 (185)
T ss_pred HHHHHHHHcCCCc----------CCCcccCHHHHHHHhCCCCCe
Confidence 3888888888775 345567889999999998765
No 32
>PHA03098 kelch-like protein; Provisional
Probab=54.16 E-value=50 Score=28.62 Aligned_cols=46 Identities=17% Similarity=0.257 Sum_probs=39.4
Q ss_pred CCHHHHHHHHHhhhhcCchhHHHHHHHHHHHHHh---------CCCHHHHHHHcC
Q 044292 93 VDQETLLDLLLAANYLNIKDLLELTCQATADVIK---------DKSPEEVRRIFH 138 (160)
Q Consensus 93 ~~~~~l~~Ll~AA~~L~I~~L~~~~~~~ia~~i~---------~kt~eeir~~f~ 138 (160)
++.+..++++..|...+...|.+.|-++|+..+. ..+.+++.+++.
T Consensus 105 l~~~nc~~~~~~a~~~~~~~L~~~~~~~i~~nf~~v~~~~~f~~l~~~~l~~ll~ 159 (534)
T PHA03098 105 IDDNNCIDIYRFSFFYGCKKLYSAAYNYIRNNIELIYNDPDFIYLSKNELIKILS 159 (534)
T ss_pred CCHhHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHHhcCchhhcCCHHHHHHHhc
Confidence 7889999999999999999999999999986653 246888888866
No 33
>PF11978 MVP_shoulder: Shoulder domain; InterPro: IPR021870 This domain is found in the Major Vault Protein and has been called the shoulder domain []. This family includes two bacterial proteins A6FXE2 from SWISSPROT and A1ZGE7 from SWISSPROT. This suggests that some bacteria may possess vault particles. ; PDB: 2ZUO_G 2QZV_B 2ZV5_c 2ZV4_Y.
Probab=50.14 E-value=17 Score=25.65 Aligned_cols=40 Identities=23% Similarity=0.436 Sum_probs=30.6
Q ss_pred HHhhhhcCchhHHHHHHHHHHHHHhCC----C--------HHHHHH-HcCCCC
Q 044292 102 LLAANYLNIKDLLELTCQATADVIKDK----S--------PEEVRR-IFHINN 141 (160)
Q Consensus 102 l~AA~~L~I~~L~~~~~~~ia~~i~~k----t--------~eeir~-~f~i~~ 141 (160)
-.|+..+.++..+-.+|+.||.+|+|. + ..-||+ .||...
T Consensus 37 ~~~~k~F~VpDFVGd~Ck~iaSRIR~aVa~~~Fd~FHknSa~iiR~aVFg~~~ 89 (118)
T PF11978_consen 37 EDAAKLFSVPDFVGDACKAIASRIRGAVASVTFDDFHKNSARIIRQAVFGFDE 89 (118)
T ss_dssp HHHHHTTSSTTHHHHHHHHHHHHHHHHHHTSHHHHHHHHHHHHHHHHHSTS--
T ss_pred hHHHHhcCCcchHHHHHHHHHHHHHHHHhcCcHHHHcccHHHHHHHHhcCCCC
Confidence 378999999999999999999999973 3 444444 788653
No 34
>KOG4591 consensus Uncharacterized conserved protein, contains BTB/POZ domain [General function prediction only]
Probab=47.16 E-value=33 Score=26.82 Aligned_cols=58 Identities=19% Similarity=0.157 Sum_probs=32.2
Q ss_pred CccccCCCCHHHHHHHHHHHHhchhhhhhccCCCCCccchhhhhccCCHHHHHHHHHhhhhcCchhHHHHHHHHHH
Q 044292 47 SVIPLPNVTGTILSMVVEYCKKHVEAAAAAAGGDNDVKNWDRDFVKVDQETLLDLLLAANYLNIKDLLELTCQATA 122 (160)
Q Consensus 47 ~~Ipl~~i~~~~L~~Ii~~~~~h~~~~~~~~~~~~~~~~wd~~Fl~~~~~~l~~Ll~AA~~L~I~~L~~~~~~~ia 122 (160)
+...+.+++-.+.-..++|.+.-.-+ +..+...|++|+.-|+.++..-|.+.|-+.+.
T Consensus 106 e~~~~dDad~Ea~~t~iRWIYTDEid------------------fk~dD~~L~el~e~An~FqLe~Lke~C~k~l~ 163 (280)
T KOG4591|consen 106 EELDLDDADFEAFHTAIRWIYTDEID------------------FKEDDEFLLELCELANRFQLELLKERCEKGLG 163 (280)
T ss_pred hhhcccccCHHHHHHhheeeeccccc------------------cccchHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 34445577777777777776531110 12445555566666666666655555554443
No 35
>PF10892 DUF2688: Protein of unknown function (DUF2688); InterPro: IPR024392 Members of this protein family are annotated as KleB, and may play a role in the regulation of transcription in plasmids.
Probab=45.61 E-value=26 Score=21.44 Aligned_cols=24 Identities=33% Similarity=0.589 Sum_probs=18.3
Q ss_pred HHHHHHHcC-CCCC-CCHHHHHHHHH
Q 044292 130 PEEVRRIFH-INND-FTPQEEQEIRR 153 (160)
Q Consensus 130 ~eeir~~f~-i~~d-~t~eee~~~~~ 153 (160)
.+++|..|| |=.+ +||||..++.+
T Consensus 30 ad~lr~klG~IC~~CitpEE~~~I~e 55 (60)
T PF10892_consen 30 ADDLRVKLGGICGDCITPEEDREILE 55 (60)
T ss_pred hHHHHHHHcchhhccCCHHHHHHHHH
Confidence 678888887 4455 89999888764
No 36
>PF12556 CobS_N: Cobaltochelatase CobS subunit N terminal
Probab=45.33 E-value=13 Score=20.61 Aligned_cols=12 Identities=42% Similarity=0.852 Sum_probs=10.2
Q ss_pred HHHHcCCCCCCC
Q 044292 133 VRRIFHINNDFT 144 (160)
Q Consensus 133 ir~~f~i~~d~t 144 (160)
+|+.|||..|++
T Consensus 14 vre~FGiDsDm~ 25 (36)
T PF12556_consen 14 VREVFGIDSDMK 25 (36)
T ss_pred HHHhcCCCcCCe
Confidence 689999998874
No 37
>PF02084 Bindin: Bindin; InterPro: IPR000775 Bindin, the major protein component of the acrosome granule of sea urchin sperm, mediates species-specific adhesion of sperm to the egg surface during fertilisation [, ]. The protein coats the acrosomal process after externalisation by the acrosome reaction; it binds to sulphated, fucose-containing polysaccharides on the vitelline-layer receptor proteoglycans that cover the egg plasma membrane. Bindins from different genera show high levels of sequence similarity in both the mature bindin domain and in the probindin precursor region. The most highly conserved region is a 42-residue segment in the central portion of the mature bindin protein. This domain may be responsible for conserved functions of bindin, while the more highly divergent flanking regions may be responsible for its species-specific properties [].; GO: 0007342 fusion of sperm to egg plasma membrane
Probab=44.86 E-value=62 Score=25.50 Aligned_cols=48 Identities=21% Similarity=0.329 Sum_probs=32.8
Q ss_pred cCCCCEEEecHHHHHHhHHHHHHHhhcCCCCccccC-CCC-HHHHHHHHHHHHhchh
Q 044292 17 SSDGETFEVEETVALQSQTIRHMVEDDCADSVIPLP-NVT-GTILSMVVEYCKKHVE 71 (160)
Q Consensus 17 s~DG~~~~v~~~~a~~S~~l~~~l~~~~~~~~Ipl~-~i~-~~~L~~Ii~~~~~h~~ 71 (160)
+.|+..-+|+.+++.. |+.+|-.+ .|.|| +|+ .--|-++++.++||..
T Consensus 93 s~~EEetTISAKvm~~---ikavLgaT----KiDLPVDINDPYDlGLLLRhLRHHSN 142 (238)
T PF02084_consen 93 SVDEEETTISAKVMED---IKAVLGAT----KIDLPVDINDPYDLGLLLRHLRHHSN 142 (238)
T ss_pred cccCCCccccHHHHHH---HHHHhccc----ccccccccCChhhHHHHHHHHHHHHH
Confidence 3466777888877654 55555433 35444 666 4579999999999985
No 38
>PF07638 Sigma70_ECF: ECF sigma factor
Probab=44.12 E-value=1.3e+02 Score=22.25 Aligned_cols=46 Identities=24% Similarity=0.134 Sum_probs=34.4
Q ss_pred CCHHHHHHHHHhhhhcCchhHHHHHHHHHHH-HHhCCCHHHHHHHcCCC
Q 044292 93 VDQETLLDLLLAANYLNIKDLLELTCQATAD-VIKDKSPEEVRRIFHIN 140 (160)
Q Consensus 93 ~~~~~l~~Ll~AA~~L~I~~L~~~~~~~ia~-~i~~kt~eeir~~f~i~ 140 (160)
-+.+.+.+|-.+-.-|.- |-.-.++.|.- .+.|.|.+||-+.+||.
T Consensus 118 ~~~~~~~~l~e~l~~L~~--l~~~~~~~v~l~~~~Gls~~EIA~~lgiS 164 (185)
T PF07638_consen 118 PSPEELLELEEALERLLA--LDPRQRRVVELRFFEGLSVEEIAERLGIS 164 (185)
T ss_pred CCHHHHHHHHHHHHHHHc--cCHHHHHHHHHHHHCCCCHHHHHHHHCcC
Confidence 456777777777665443 66666777765 56899999999999997
No 39
>cd00068 GGL G protein gamma subunit-like motifs, the alpha-helical G-gamma chain dimerizes with the G-beta propeller subunit as part of the heterotrimeric G-protein complex; involved in signal transduction via G-protein-coupled receptors
Probab=43.37 E-value=34 Score=20.69 Aligned_cols=19 Identities=16% Similarity=0.510 Sum_probs=15.1
Q ss_pred HHHHHHHHHHHHhchhhhh
Q 044292 56 GTILSMVVEYCKKHVEAAA 74 (160)
Q Consensus 56 ~~~L~~Ii~~~~~h~~~~~ 74 (160)
|.....++.||+.|...++
T Consensus 23 S~a~~~l~~y~e~~~~~Dp 41 (57)
T cd00068 23 SKAAAELLKYCEQNAENDP 41 (57)
T ss_pred HHHHHHHHHHHHhcCCCCC
Confidence 6788899999999865443
No 40
>cd05029 S-100A6 S-100A6: S-100A6 domain found in proteins similar to S100A6. S100A6 is a member of the S100 domain family within EF-hand Ca2+-binding proteins superfamily. Note that the S-100 hierarchy, to which this S-100A6 group belongs, contains only S-100 EF-hand domains, other EF-hands have been modeled separately. S100 proteins exhibit unique patterns of tissue- and cell type-specific expression and have been implicated in the Ca2+-dependent regulation of diverse physiological processes, including cell cycle regulation, differentiation, growth, and metabolic control . S100A6 is normally expressed in the G1 phase of the cell cycle in neuronal cells. The function of S100A6 remains unclear, but evidence suggests that it is involved in cell cycle regulation and exocytosis. S100A6 may also be involved in tumorigenesis; the protein is overexpressed in several tumors. Ca2+ binding to S100A6 leads to a conformational change in the protein, which exposes a hydrophobic surface for interact
Probab=42.47 E-value=55 Score=21.45 Aligned_cols=45 Identities=16% Similarity=0.233 Sum_probs=27.4
Q ss_pred chhHHHHHHHHHHHHH-hC-CCHHHHHHHcC----CCCCCCHHHHHHHHHh
Q 044292 110 IKDLLELTCQATADVI-KD-KSPEEVRRIFH----INNDFTPQEEQEIRRE 154 (160)
Q Consensus 110 I~~L~~~~~~~ia~~i-~~-kt~eeir~~f~----i~~d~t~eee~~~~~e 154 (160)
|..|+.+..+|-+.-= .| -+.+|+|+.+. +...+|++|.+++.+.
T Consensus 9 ~~~~i~~F~~y~~~~~~~g~Is~~EL~~~l~~~~~lg~k~t~~ev~~m~~~ 59 (88)
T cd05029 9 IGLLVAIFHKYSGREGDKNTLSKKELKELIQKELTIGSKLQDAEIAKLMED 59 (88)
T ss_pred HHHHHHHHHHHHccCCCCCEECHHHHHHHHHHHHhcCCCCCHHHHHHHHHH
Confidence 3455566666665321 23 27888888873 4455788887777654
No 41
>PF05321 HHA: Haemolysin expression modulating protein; InterPro: IPR007985 This family consists of haemolysin expression modulating protein (Hha) from Escherichia coli and its enterobacterial homologues, such as YmoA from Yersinia enterocolitica, and RmoA encoded on the R100 plasmid. These proteins act as modulators of bacterial gene expression. Members of the Hha/YmoA/RmoA family act in conjunction with members of the H-NS family, participating in the thermoregulation of different virulence factors and in plasmid transfer []. Hha, along with the chromatin-associated protein H-NS, is involved in the regulation of expression of the toxin alpha-haemolysin in response to osmolarity and temperature []. YmoA modulates the expression of various virulence factors, such as Yop proteins and YadA adhesin, in response to temperature. RmoA is a plasmid R100 modulator involved in plasmid transfer []. The HHA family of proteins display striking similarity to the oligomerization domain of the H-NS proteins.; PDB: 1JW2_A 2K5S_A 2JQT_A.
Probab=41.14 E-value=70 Score=19.59 Aligned_cols=30 Identities=23% Similarity=0.192 Sum_probs=20.4
Q ss_pred CHHHHHHHHHHHHhchhhhhhccCCCCCccchhhhhccCCHHHHHHHHHhhhh
Q 044292 55 TGTILSMVVEYCKKHVEAAAAAAGGDNDVKNWDRDFVKVDQETLLDLLLAANY 107 (160)
Q Consensus 55 ~~~~L~~Ii~~~~~h~~~~~~~~~~~~~~~~wd~~Fl~~~~~~l~~Ll~AA~~ 107 (160)
+.++|++|++...+ .++.+++..+..||++
T Consensus 8 s~dtLEkv~e~~~~-----------------------~L~~~e~~~f~~AaDH 37 (57)
T PF05321_consen 8 SLDTLEKVIEHNRY-----------------------KLTDDELEAFNSAADH 37 (57)
T ss_dssp -HHHHHHHHHHHHH-----------------------HS-HHHHHHHHHHHHH
T ss_pred CHhhHHHHHHHhhC-----------------------cCCHHHHHHHHHHHHH
Confidence 35789999988764 2456677777777764
No 42
>smart00385 CYCLIN domain present in cyclins, TFIIB and Retinoblastoma. A helical domain present in cyclins and TFIIB (twice) and Retinoblastoma (once). A protein recognition domain functioning in cell-cycle and transcription control.
Probab=39.52 E-value=85 Score=18.79 Aligned_cols=40 Identities=15% Similarity=0.099 Sum_probs=26.7
Q ss_pred chhHHHHHHHHHHHHHhCC--CHHHHHHHcCCCCCCCHHHHHHHH
Q 044292 110 IKDLLELTCQATADVIKDK--SPEEVRRIFHINNDFTPQEEQEIR 152 (160)
Q Consensus 110 I~~L~~~~~~~ia~~i~~k--t~eeir~~f~i~~d~t~eee~~~~ 152 (160)
-+.++-.+|-++|.++.+. +..++..+.|. +|.++..+..
T Consensus 37 ~~~~ia~a~l~lA~k~~~~~~~~~~~~~~~~~---~~~~~i~~~~ 78 (83)
T smart00385 37 SPSLIAAAALYLAAKTEEIPPWTKELVHYTGY---FTEEEILRME 78 (83)
T ss_pred CHHHHHHHHHHHHHHHhcCCCCchhHhHhhCC---CCHHHHHHHH
Confidence 3456677788888888774 56677777665 5676655443
No 43
>PRK11053 dihydropteridine reductase; Provisional
Probab=38.78 E-value=27 Score=26.56 Aligned_cols=36 Identities=25% Similarity=0.277 Sum_probs=26.0
Q ss_pred HHHHHHhhhhcCchhHHHHHHHHHHHHHhCCCHHHHHHHcCCCC-CC
Q 044292 98 LLDLLLAANYLNIKDLLELTCQATADVIKDKSPEEVRRIFHINN-DF 143 (160)
Q Consensus 98 l~~Ll~AA~~L~I~~L~~~~~~~ia~~i~~kt~eeir~~f~i~~-d~ 143 (160)
+..|+.||.-||+... .+.|...+.+++.|||++ ++
T Consensus 147 ~~~lmLaA~~~Glgs~----------~i~g~~~~~v~~~l~ip~~~~ 183 (217)
T PRK11053 147 LGNLLLGAAALGIDAT----------PIEGFDAAILDAEFGLREKGL 183 (217)
T ss_pred HHHHHHHHHHcCCCCC----------CcCCcCHHHHHHHhCCCCcCc
Confidence 4467777777776643 445678899999999984 44
No 44
>PF13921 Myb_DNA-bind_6: Myb-like DNA-binding domain; PDB: 1A5J_A 1MBH_A 1GV5_A 1H89_C 1IDY_A 1MBK_A 1IDZ_A 1H88_C 1GVD_A 1MBG_A ....
Probab=38.06 E-value=55 Score=19.33 Aligned_cols=34 Identities=18% Similarity=0.499 Sum_probs=21.8
Q ss_pred HHHHHHHHhCCCHHHHHHHcC--C----C-CCCCHHHHHHH
Q 044292 118 CQATADVIKDKSPEEVRRIFH--I----N-NDFTPQEEQEI 151 (160)
Q Consensus 118 ~~~ia~~i~~kt~eeir~~f~--i----~-~d~t~eee~~~ 151 (160)
=..||..+..+|+.+++..|. + . ..+|+||.+.+
T Consensus 20 W~~Ia~~l~~Rt~~~~~~r~~~~l~~~~~~~~wt~eEd~~L 60 (60)
T PF13921_consen 20 WKKIAEHLGNRTPKQCRNRWRNHLRPKISRGPWTKEEDQRL 60 (60)
T ss_dssp HHHHHHHSTTS-HHHHHHHHHHTTSTTSTSSSSSHHHHHHH
T ss_pred HHHHHHHHCcCCHHHHHHHHHHHCcccccCCCcCHHHHhcC
Confidence 356788883499999987543 2 2 23888887654
No 45
>KOG4350 consensus Uncharacterized conserved protein, contains BTB/POZ domain [General function prediction only]
Probab=38.00 E-value=19 Score=31.06 Aligned_cols=38 Identities=21% Similarity=0.330 Sum_probs=33.2
Q ss_pred cCCHHHHHHHHHhhhhcCchhHHHHHHHHHHHHHhCCC
Q 044292 92 KVDQETLLDLLLAANYLNIKDLLELTCQATADVIKDKS 129 (160)
Q Consensus 92 ~~~~~~l~~Ll~AA~~L~I~~L~~~~~~~ia~~i~~kt 129 (160)
..+.+.+++.+.-|+..+...|...++.|+-..++..+
T Consensus 112 ~~~ed~lld~LslAh~Ygf~~Le~aiSeYl~~iL~~~N 149 (620)
T KOG4350|consen 112 GVEEDILLDYLSLAHRYGFIQLETAISEYLKEILKNEN 149 (620)
T ss_pred cchHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHcccc
Confidence 46788999999999999999999999999988776543
No 46
>PHA02790 Kelch-like protein; Provisional
Probab=37.79 E-value=30 Score=29.89 Aligned_cols=35 Identities=14% Similarity=0.101 Sum_probs=32.3
Q ss_pred CCHHHHHHHHHhhhhcCchhHHHHHHHHHHHHHhC
Q 044292 93 VDQETLLDLLLAANYLNIKDLLELTCQATADVIKD 127 (160)
Q Consensus 93 ~~~~~l~~Ll~AA~~L~I~~L~~~~~~~ia~~i~~ 127 (160)
++.++.+++..-|...+.+.|.+.+-++|.+.+..
T Consensus 120 l~~~NCl~i~~~A~~y~~~~L~~~a~~fi~~nF~~ 154 (480)
T PHA02790 120 FRKEYCVECYMMGIEYGLSNLLCHTKDFIAKHFLE 154 (480)
T ss_pred CCcchHHHHHHHHHHhCHHHHHHHHHHHHHHhHHH
Confidence 78899999999999999999999999999887765
No 47
>smart00875 BACK BTB And C-terminal Kelch. The BACK domain is found juxtaposed to the BTB domain; they are separated by as little as two residues.
Probab=37.16 E-value=1.1e+02 Score=19.37 Aligned_cols=41 Identities=17% Similarity=0.179 Sum_probs=28.2
Q ss_pred HHHHHhhhhcCchhHHHHHHHHHHHHH---------hCCCHHHHHHHcCC
Q 044292 99 LDLLLAANYLNIKDLLELTCQATADVI---------KDKSPEEVRRIFHI 139 (160)
Q Consensus 99 ~~Ll~AA~~L~I~~L~~~~~~~ia~~i---------~~kt~eeir~~f~i 139 (160)
+++...|...+.+.|.+.|.++++..+ ...+.+++..+++=
T Consensus 2 ~~i~~~a~~~~~~~L~~~~~~~i~~nf~~~~~~~~f~~L~~~~l~~iL~~ 51 (101)
T smart00875 2 LGIRRFAELYGLEELLEKALRFILKNFLEVAQSEEFLELSLEQLLSLLSS 51 (101)
T ss_pred HhHHHHHHHhChHHHHHHHHHHHHHHHHHHhcCcHHhcCCHHHHHHHhCc
Confidence 356667777788888888888876532 34567777777663
No 48
>PRK14981 DNA-directed RNA polymerase subunit F; Provisional
Probab=35.27 E-value=1e+02 Score=21.34 Aligned_cols=44 Identities=27% Similarity=0.444 Sum_probs=30.1
Q ss_pred CchhHHHHHHHHHHHHHhCCCHHHHHHHcCCCC-CCCHHHHHHHHH
Q 044292 109 NIKDLLELTCQATADVIKDKSPEEVRRIFHINN-DFTPQEEQEIRR 153 (160)
Q Consensus 109 ~I~~L~~~~~~~ia~~i~~kt~eeir~~f~i~~-d~t~eee~~~~~ 153 (160)
++..|-+.....|++. .=.|++|+|.+|.-.. -+++|+.+++-.
T Consensus 61 ~~~~l~e~~a~~I~nL-~P~~~dElrai~~~~~~~~~~e~l~~ILd 105 (112)
T PRK14981 61 ELEKMKEKTAVKIADI-LPETRDELRAIFAKERYTLSPEELDEILD 105 (112)
T ss_pred HccCCCHHHHHHHHhc-CCCCHHHHHHHHHHhccCCCHHHHHHHHH
Confidence 3334555556666654 4579999999987653 388998887754
No 49
>PF10075 PCI_Csn8: COP9 signalosome, subunit CSN8; InterPro: IPR019280 The photomorphogenic 9 (COP9) signalosome or CSN complex is composed of eight subunits: Cops1/GPS1, Cops2, Cops3, Cops4, Cops5, Cop6, Cops7 (Cops7A or Cops7B) and Cops8. In the complex, Cops8, which is the smallest subunit, probably interacts directly with Cops3, Cops4 and Cops7 (Cops7A or Cops7B). This signalosome is homologous to the lid subcomplex of the 26S proteasome and regulates the ubiquitin-proteasome pathway. It functions as a structural scaffold for subunit-subunit interactions within the complex and is a key regulator of photomorphogenic development [].; PDB: 1RZ4_A.
Probab=34.62 E-value=94 Score=21.99 Aligned_cols=44 Identities=9% Similarity=0.269 Sum_probs=26.2
Q ss_pred HHHHHHHHHHHHHhCCCHHHHHHHcCCCCCCCHHHHHHHHHhcccccC
Q 044292 113 LLELTCQATADVIKDKSPEEVRRIFHINNDFTPQEEQEIRRENQWAFE 160 (160)
Q Consensus 113 L~~~~~~~ia~~i~~kt~eeir~~f~i~~d~t~eee~~~~~e~~w~~~ 160 (160)
..+..+..|+.-.+.-+...+.+++|+. ++|..++=+...|-.|
T Consensus 83 iR~~i~~~i~~aY~sIs~~~la~~Lg~~----~~el~~~~~~~gW~~d 126 (143)
T PF10075_consen 83 IRERIAHLISKAYSSISLSDLAEMLGLS----EEELEKFIKSRGWTVD 126 (143)
T ss_dssp HHHHHHHHHHHH-SEE-HHHHHHHTTS-----HHHHHHHHHHHT-EE-
T ss_pred HHHHHHHHHHHHHhHcCHHHHHHHhCCC----HHHHHHHHHHcCCEEC
Confidence 3334444444455567999999999985 5666777667788653
No 50
>PF11460 DUF3007: Protein of unknown function (DUF3007); InterPro: IPR021562 This is a family of uncharacterised proteins found in bacteria and eukaryotes.
Probab=34.44 E-value=40 Score=23.25 Aligned_cols=24 Identities=21% Similarity=0.505 Sum_probs=16.6
Q ss_pred CHHHHHHHcCCCCCCCHHHHHHHHHhc
Q 044292 129 SPEEVRRIFHINNDFTPQEEQEIRREN 155 (160)
Q Consensus 129 t~eeir~~f~i~~d~t~eee~~~~~e~ 155 (160)
+.+++.+.|. .+||||.+++.+|-
T Consensus 79 ~~~~lqkRle---~l~~eE~~~L~~ei 102 (104)
T PF11460_consen 79 TNEELQKRLE---ELSPEELEALQAEI 102 (104)
T ss_pred hHHHHHHHHH---hCCHHHHHHHHHHh
Confidence 4456666664 57888888887764
No 51
>PF07707 BACK: BTB And C-terminal Kelch; InterPro: IPR011705 This domain is found associated with (IPR000210 from INTERPRO) and (IPR006652 from INTERPRO). BTB (broad-complex, tramtrack and bric a brac) is a Kelch related domain, also known as the POZ domain []. BTB proteins are divided into subgroups depending on what domain lies at the C terminus. Despite the divergence in sequences, the BTB fold is highly conserved. BTB-Kelch proteins have Kelch repeats that form a beta-propeller that can interact with actin filaments []. BTB and C-terminal Kelch (BACK) together constitute a novel conserved domain, which is thought to have a possible role in substrate orientation in Cullin3-based E3 ligase complexes. Four domains, namely the BTB domain, a kelch domain, a BACK domain, and an intervening region (IVR) make up the aryl hydrocarbon receptor (AHR); a ligand-activated transcription factor []. This entry represents the domain associated with BTB and Kelch.; PDB: 3HVE_A 2EQX_A 3I3N_A 4AP2_A 4APF_A.
Probab=34.09 E-value=30 Score=22.47 Aligned_cols=41 Identities=15% Similarity=0.180 Sum_probs=31.0
Q ss_pred HHHHHhhhhcCchhHHHHHHHHHHHHHh---------CCCHHHHHHHcCC
Q 044292 99 LDLLLAANYLNIKDLLELTCQATADVIK---------DKSPEEVRRIFHI 139 (160)
Q Consensus 99 ~~Ll~AA~~L~I~~L~~~~~~~ia~~i~---------~kt~eeir~~f~i 139 (160)
+++...|...+...|.+.|-++|+..+. ..+.+++..+++-
T Consensus 2 ~~i~~~A~~~~~~~L~~~~~~~i~~nf~~v~~~~~f~~L~~~~l~~iL~~ 51 (103)
T PF07707_consen 2 LSIYRLAEKYGLEELAEACLRFIAKNFNEVSKSDEFLELPFDQLIEILSS 51 (103)
T ss_dssp HHHHHHHHHTT-HHHHHHHHHHHHHTHHHHTTSHHHHCS-HHHHHHHHHT
T ss_pred hhHHHHHHHcChHHHHHHHHHHHHHHHHHHccchhhhcCCHHHHHHHHhc
Confidence 5788899999999999999999986554 3467777777773
No 52
>PHA02713 hypothetical protein; Provisional
Probab=33.26 E-value=82 Score=27.89 Aligned_cols=71 Identities=11% Similarity=0.150 Sum_probs=46.1
Q ss_pred hhhcc--CCHHHHHHHHHhhhhcCchhHHHHHHHHHHHHHh---------CCCHHHHHHHcCCCCCCC-HHHHHHHHHhc
Q 044292 88 RDFVK--VDQETLLDLLLAANYLNIKDLLELTCQATADVIK---------DKSPEEVRRIFHINNDFT-PQEEQEIRREN 155 (160)
Q Consensus 88 ~~Fl~--~~~~~l~~Ll~AA~~L~I~~L~~~~~~~ia~~i~---------~kt~eeir~~f~i~~d~t-~eee~~~~~e~ 155 (160)
.+|+. ++.+..++++..|.-.....|.+.+.++++..+. ..+.+++.+++.=.+.+. +.|++-.+.-.
T Consensus 116 ~~~l~~~l~~~NCl~i~~~~~~~~~~~L~~~a~~~i~~~f~~v~~~~ef~~L~~~~l~~lL~~d~~l~v~~Ee~v~eav~ 195 (557)
T PHA02713 116 ESYIKDYTNHDTCIYMYHRLYEMSHIPIVKYIKRMLMSNIPTLITTDAFKKTVFEILFDIISTNDNVYLYREGYKVTILL 195 (557)
T ss_pred HHHHHhhCCccchHHHHHHHHhccchHHHHHHHHHHHHHHHHHhCChhhhhCCHHHHHHHhccccccCCCcHHHHHHHHH
Confidence 44544 7788888888644444555699999888887764 357888888887543343 33444444455
Q ss_pred ccc
Q 044292 156 QWA 158 (160)
Q Consensus 156 ~w~ 158 (160)
+|+
T Consensus 196 ~W~ 198 (557)
T PHA02713 196 KWL 198 (557)
T ss_pred HHH
Confidence 665
No 53
>TIGR02476 BluB cob(II)yrinic acid a,c-diamide reductase. The BluB protein is related to the nitroreductase family (pfam0881), and is found to substitute for the FldA cobalt reductase in aerobic species (by phylogenetic profiling). BluB is also found to be preceded by B12 promoter elements elements. The gene in R. capsulatus has been shown to be essential for cobalamin biosynthesis.
Probab=33.07 E-value=40 Score=25.42 Aligned_cols=38 Identities=21% Similarity=0.304 Sum_probs=27.5
Q ss_pred HHHHHHHhhhhcCchhHHHHHHHHHHHHHhCCCHHHHHHHcCCCCCCC
Q 044292 97 TLLDLLLAANYLNIKDLLELTCQATADVIKDKSPEEVRRIFHINNDFT 144 (160)
Q Consensus 97 ~l~~Ll~AA~~L~I~~L~~~~~~~ia~~i~~kt~eeir~~f~i~~d~t 144 (160)
.+..|+.||..+|+-.. ++.+-..+.+++.|||+.+++
T Consensus 133 A~~nl~LaA~~~GlGs~----------~~~~~~~~~v~~~L~lp~~~~ 170 (205)
T TIGR02476 133 AIQNLWLAARAEGLGVG----------WVSILDPDAVRRLLGVPEGWR 170 (205)
T ss_pred HHHHHHHHHHHCCCcce----------eecccChHHHHHHhCcCCCce
Confidence 45588888988888752 222445789999999997653
No 54
>COG4957 Predicted transcriptional regulator [Transcription]
Probab=32.75 E-value=39 Score=24.56 Aligned_cols=18 Identities=22% Similarity=0.508 Sum_probs=16.5
Q ss_pred CCCHHHHHHHcCCCCCCC
Q 044292 127 DKSPEEVRRIFHINNDFT 144 (160)
Q Consensus 127 ~kt~eeir~~f~i~~d~t 144 (160)
|+|++|-|..+|++.|+.
T Consensus 98 gmTPd~YR~KW~LP~dYP 115 (148)
T COG4957 98 GLTPDEYRAKWGLPPDYP 115 (148)
T ss_pred CCCHHHHHHhcCCCCCCC
Confidence 899999999999999963
No 55
>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=32.53 E-value=47 Score=17.64 Aligned_cols=20 Identities=15% Similarity=0.428 Sum_probs=15.7
Q ss_pred HHHHHHHhCCCHHHHHHHcC
Q 044292 119 QATADVIKDKSPEEVRRIFH 138 (160)
Q Consensus 119 ~~ia~~i~~kt~eeir~~f~ 138 (160)
..||..+.++|..+++..+.
T Consensus 23 ~~Ia~~~~~rs~~~~~~~~~ 42 (45)
T cd00167 23 EKIAKELPGRTPKQCRERWR 42 (45)
T ss_pred HHHHhHcCCCCHHHHHHHHH
Confidence 56777778899999988763
No 56
>COG1460 Uncharacterized protein conserved in archaea [Function unknown]
Probab=32.14 E-value=1.8e+02 Score=20.41 Aligned_cols=60 Identities=27% Similarity=0.422 Sum_probs=36.6
Q ss_pred hhccCCHHHHHHHHHhhhhcCchhHHHHHHHHHHHHHhCCCHHHHHHHcCCCCC-CCHHHHHHH
Q 044292 89 DFVKVDQETLLDLLLAANYLNIKDLLELTCQATADVIKDKSPEEVRRIFHINND-FTPQEEQEI 151 (160)
Q Consensus 89 ~Fl~~~~~~l~~Ll~AA~~L~I~~L~~~~~~~ia~~i~~kt~eeir~~f~i~~d-~t~eee~~~ 151 (160)
.|-.++++..-++..- .++|..+-+-.+..||+. .=.|+.|+|.+|.-..- +|+|+..++
T Consensus 44 kFakldpe~a~e~veE--L~~i~~~~e~~avkIadI-~P~t~~ElRsIla~e~~~~s~E~l~~I 104 (114)
T COG1460 44 KFAKLDPEKARELVEE--LLSIVKMSEKIAVKIADI-MPRTPDELRSILAKERVMLSDEELDKI 104 (114)
T ss_pred HHhcCCHHHHHHHHHH--HHhhccccHHHHHHHHHh-CCCCHHHHHHHHHHccCCCCHHHHHHH
Confidence 3545666555554432 223333445555555553 45899999999987665 677777665
No 57
>PF01592 NifU_N: NifU-like N terminal domain; InterPro: IPR002871 Iron-sulphur (FeS) clusters are important cofactors for numerous proteins involved in electron transfer, in redox and non-redox catalysis, in gene regulation, and as sensors of oxygen and iron. These functions depend on the various FeS cluster prosthetic groups, the most common being [2Fe-2S] and [4Fe-4S] []. FeS cluster assembly is a complex process involving the mobilisation of Fe and S atoms from storage sources, their assembly into [Fe-S] form, their transport to specific cellular locations, and their transfer to recipient apoproteins. So far, three FeS assembly machineries have been identified, which are capable of synthesising all types of [Fe-S] clusters: ISC (iron-sulphur cluster), SUF (sulphur assimilation), and NIF (nitrogen fixation) systems. The ISC system is conserved in eubacteria and eukaryotes (mitochondria), and has broad specificity, targeting general FeS proteins [, ]. It is encoded by the isc operon (iscRSUA-hscBA-fdx-iscX). IscS is a cysteine desulphurase, which obtains S from cysteine (converting it to alanine) and serves as a S donor for FeS cluster assembly. IscU and IscA act as scaffolds to accept S and Fe atoms, assembling clusters and transfering them to recipient apoproteins. HscA is a molecular chaperone and HscB is a co-chaperone. Fdx is a [2Fe-2S]-type ferredoxin. IscR is a transcription factor that regulates expression of the isc operon. IscX (also known as YfhJ) appears to interact with IscS and may function as an Fe donor during cluster assembly []. The SUF system is an alternative pathway to the ISC system that operates under iron starvation and oxidative stress. It is found in eubacteria, archaea and eukaryotes (plastids). The SUF system is encoded by the suf operon (sufABCDSE), and the six encoded proteins are arranged into two complexes (SufSE and SufBCD) and one protein (SufA). SufS is a pyridoxal-phosphate (PLP) protein displaying cysteine desulphurase activity. SufE acts as a scaffold protein that accepts S from SufS and donates it to SufA []. SufC is an ATPase with an unorthodox ATP-binding cassette (ABC)-like component. No specific functions have been assigned to SufB and SufD. SufA is homologous to IscA [], acting as a scaffold protein in which Fe and S atoms are assembled into [FeS] cluster forms, which can then easily be transferred to apoproteins targets. In the NIF system, NifS and NifU are required for the formation of metalloclusters of nitrogenase in Azotobacter vinelandii, and other organisms, as well as in the maturation of other FeS proteins. Nitrogenase catalyses the fixation of nitrogen. It contains a complex cluster, the FeMo cofactor, which contains molybdenum, Fe and S. NifS is a cysteine desulphurase. NifU binds one Fe atom at its N-terminal, assembling an FeS cluster that is transferred to nitrogenase apoproteins []. Nif proteins involved in the formation of FeS clusters can also be found in organisms that do not fix nitrogen []. This entry represents the N-terminal of NifU and homologous proteins. NifU contains two domains: an N-terminal and a C-terminal domain (IPR001075 from INTERPRO) []. These domains exist either together or on different polypeptides, both domains being found in organisms that do not fix nitrogen (e.g. yeast), so they have a broader significance in the cell than nitrogen fixation. ; GO: 0005506 iron ion binding, 0051536 iron-sulfur cluster binding, 0016226 iron-sulfur cluster assembly; PDB: 3LVL_A 4EB5_C 4EB7_C 1WFZ_A 2Z7E_C 2AZH_A 1XJS_A 1Q48_A 1R9P_A 2KQK_A ....
Probab=31.27 E-value=67 Score=22.46 Aligned_cols=23 Identities=22% Similarity=0.294 Sum_probs=17.1
Q ss_pred HHHHHHHHHHHHHhCCCHHHHHH
Q 044292 113 LLELTCQATADVIKDKSPEEVRR 135 (160)
Q Consensus 113 L~~~~~~~ia~~i~~kt~eeir~ 135 (160)
..-.++..++++++|||++|+.+
T Consensus 63 ~~~Asas~~~~~i~gk~l~ea~~ 85 (126)
T PF01592_consen 63 ISIASASMMCELIKGKTLEEALK 85 (126)
T ss_dssp HHHHHHHHHHHHHTTSBHHHHHC
T ss_pred HHHHHHHHHHHHHcCCCHHHHHH
Confidence 34455667788999999888854
No 58
>TIGR02698 CopY_TcrY copper transport repressor, CopY/TcrY family. This family includes metal-fist type transcriptional repressors of copper transport systems such as copYZAB of Enterococcus hirae and tcrYAZB (transferble copper resistance) of an Enterocuccus faecium plasmid. High levels of copper can displace zinc and prevent binding by the repressor, activating efflux by copper resistance transporters. The most closely related proteins excluded by this model are antibiotic resistance regulators including the methicillin resistance regulatory protein MecI.
Probab=30.94 E-value=1.8e+02 Score=20.51 Aligned_cols=36 Identities=8% Similarity=0.066 Sum_probs=20.9
Q ss_pred HHHHHHHHhCCCHHHHHHHcCCCCCCCHHHHHHHHH
Q 044292 118 CQATADVIKDKSPEEVRRIFHINNDFTPQEEQEIRR 153 (160)
Q Consensus 118 ~~~ia~~i~~kt~eeir~~f~i~~d~t~eee~~~~~ 153 (160)
.+.+.+.+-|-++..+-..|--.+.+++||.+++++
T Consensus 77 ~~~~~~~~f~gs~~~ll~~l~~~~~ls~eele~L~~ 112 (130)
T TIGR02698 77 AQELFSRICSRKVGAVIADLIEESPLSQTDIEKLEK 112 (130)
T ss_pred HHHHHHHHHCCCHHHHHHHHHhcCCCCHHHHHHHHH
Confidence 344444444555555444442245688998888876
No 59
>PRK11325 scaffold protein; Provisional
Probab=30.50 E-value=58 Score=22.93 Aligned_cols=38 Identities=13% Similarity=0.135 Sum_probs=24.3
Q ss_pred HHHhhhhcCchhHHHHHH-HHHHHHHhCCCHHHHHHHcC
Q 044292 101 LLLAANYLNIKDLLELTC-QATADVIKDKSPEEVRRIFH 138 (160)
Q Consensus 101 Ll~AA~~L~I~~L~~~~~-~~ia~~i~~kt~eeir~~f~ 138 (160)
.+.-+.|-.-=.-...+| ..++++++|||++|.+.+-+
T Consensus 52 ~I~d~~f~~~GC~is~Asas~~~e~~~Gktl~ea~~i~~ 90 (127)
T PRK11325 52 IIEDAKFKTYGCGSAIASSSLVTEWVKGKTLDEALAIKN 90 (127)
T ss_pred eEEEEEEEeeCCHHHHHHHHHHHHHHcCCCHHHHHhcCH
Confidence 444555555554444444 45568999999999887533
No 60
>TIGR03419 NifU_clost FeS cluster assembly scaffold protein NifU, Clostridium type. NifU and NifS form a pair of iron-sulfur (FeS) cluster biosynthesis proteins much simpler than the ISC and SUF systems. Members of this protein family are a distinct group of NifU-like proteins, found always to a NifS-like protein and restricted to species that lack a SUF system. Typically, NIF systems service a smaller number of FeS-containing proteins than do ISC or SUF. Members of this particular branch typically are found, almost half the time, near the mnmA gene, involved in the carboxymethylaminomethyl modification of U34 in some tRNAs (see GenProp0704). While other NifU proteins are associated with nitrogen fixation, this family is not.
Probab=30.48 E-value=65 Score=22.44 Aligned_cols=37 Identities=14% Similarity=0.214 Sum_probs=24.0
Q ss_pred HHHhhhhcCchhHHHHHH-HHHHHHHhCCCHHHHHHHc
Q 044292 101 LLLAANYLNIKDLLELTC-QATADVIKDKSPEEVRRIF 137 (160)
Q Consensus 101 Ll~AA~~L~I~~L~~~~~-~~ia~~i~~kt~eeir~~f 137 (160)
.+.-+.|-.-=.-...+| ..+++++.|||++|..++-
T Consensus 46 ~I~d~~f~~~GC~is~Asas~~~e~i~Gk~l~ea~~i~ 83 (121)
T TIGR03419 46 IIKDVKFKTFGCGAAIASSSMATEMIKGKTLEEAWELT 83 (121)
T ss_pred EEEEEEEEEeccHHHHHHHHHHHHHHcCCCHHHHHHhh
Confidence 444555555554444444 4557899999999977654
No 61
>PRK13503 transcriptional activator RhaS; Provisional
Probab=30.40 E-value=2.6e+02 Score=21.61 Aligned_cols=79 Identities=13% Similarity=0.156 Sum_probs=46.9
Q ss_pred CHHHHHHHHHHHHhchhhhhhccCCCCCccchhhhhccCCHHHHHHHHHhhhhcCchhHHHHHHHHHH-HHHh--CCCHH
Q 044292 55 TGTILSMVVEYCKKHVEAAAAAAGGDNDVKNWDRDFVKVDQETLLDLLLAANYLNIKDLLELTCQATA-DVIK--DKSPE 131 (160)
Q Consensus 55 ~~~~L~~Ii~~~~~h~~~~~~~~~~~~~~~~wd~~Fl~~~~~~l~~Ll~AA~~L~I~~L~~~~~~~ia-~~i~--~kt~e 131 (160)
....++++++|++.|...+. .+.++-.. +.++...+..+.....-.-...++...=-.-| ..+. +.++.
T Consensus 169 ~~~~i~~~~~~I~~~~~~~~-------tl~~lA~~-~~lS~~~l~r~Fk~~~G~S~~~yi~~~Rl~~A~~LL~~~~~sI~ 240 (278)
T PRK13503 169 SDARLNQLLAWLEDHFAEEV-------NWEALADQ-FSLSLRTLHRQLKQQTGLTPQRYLNRLRLLKARHLLRHSDASVT 240 (278)
T ss_pred cHHHHHHHHHHHHHhhcCCC-------CHHHHHHH-HCCCHHHHHHHHHHHhCcCHHHHHHHHHHHHHHHHHHcCCCCHH
Confidence 45567788888877664332 34444332 45778888888876655544444443322222 2232 57888
Q ss_pred HHHHHcCCCC
Q 044292 132 EVRRIFHINN 141 (160)
Q Consensus 132 eir~~f~i~~ 141 (160)
||-..+|..+
T Consensus 241 eIA~~~GF~~ 250 (278)
T PRK13503 241 DIAYRCGFGD 250 (278)
T ss_pred HHHHHhCCCC
Confidence 8888888765
No 62
>TIGR01999 iscU FeS cluster assembly scaffold IscU. This model represents IscU, a homolog of the N-terminal region of NifU, an Fe-S cluster assembly protein found mostly in nitrogen-fixing bacteria. IscU is considered part of the IscSUA-hscAB-fdx system of Fe-S assembly, whereas NifU is found in nitrogenase-containing (nitrogen-fixing) species. A NifU-type protein is also found in Helicobacter and Campylobacter. IscU and NifU are considered scaffold proteins on which Fe-S clusters are assembled before transfer to apoproteins. This model excludes true NifU proteins as in Klebsiella pneumoniae and Anabaena sp. as well as archaeal homologs. It includes largely proteobacterial and eukaryotic forms.
Probab=30.10 E-value=61 Score=22.66 Aligned_cols=38 Identities=21% Similarity=0.245 Sum_probs=23.9
Q ss_pred HHHhhhhcCchhHHHHH-HHHHHHHHhCCCHHHHHHHcC
Q 044292 101 LLLAANYLNIKDLLELT-CQATADVIKDKSPEEVRRIFH 138 (160)
Q Consensus 101 Ll~AA~~L~I~~L~~~~-~~~ia~~i~~kt~eeir~~f~ 138 (160)
.+.-+.|-.-=.-...+ +..+++++.|||++|.+.+-.
T Consensus 50 ~I~d~~f~~~GC~~s~Asas~~~e~i~Gktl~ea~~i~~ 88 (124)
T TIGR01999 50 IIEDAKFKTFGCGSAIASSSLATELIKGKSLEEALKIKN 88 (124)
T ss_pred eEEEEEEEecCcHHHHHHHHHHHHHHcCCCHHHHHhccH
Confidence 44445555444444444 456678999999998877543
No 63
>smart00717 SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains.
Probab=30.00 E-value=55 Score=17.62 Aligned_cols=20 Identities=15% Similarity=0.356 Sum_probs=15.7
Q ss_pred HHHHHHHhCCCHHHHHHHcC
Q 044292 119 QATADVIKDKSPEEVRRIFH 138 (160)
Q Consensus 119 ~~ia~~i~~kt~eeir~~f~ 138 (160)
..||..+.++|+.+++..+.
T Consensus 25 ~~Ia~~~~~rt~~~~~~~~~ 44 (49)
T smart00717 25 EKIAKELPGRTAEQCRERWN 44 (49)
T ss_pred HHHHHHcCCCCHHHHHHHHH
Confidence 56677777999999988764
No 64
>PF08671 SinI: Anti-repressor SinI; InterPro: IPR010981 The SinR repressor is part of a group of Sin (sporulation inhibition) proteins in Bacillus subtilis that regulate the commitment to sporulation in response to extreme adversity []. SinR is a tetrameric repressor protein that binds to the promoters of genes essential for entry into sporulation and prevents their transcription. This repression is overcome through the activity of SinI, which disrupts the SinR tetramer through the formation of a SinI-SinR heterodimer, thereby allowing sporulation to proceed. The SinR structure consists of two domains: a dimerisation domain stabilised by a hydrophobic core, and a DNA-binding domain that is identical to domains of the bacteriophage 434 CI and Cro proteins that regulate prophage induction. The dimerisation domain is a four-helical bundle formed from two helices from the C-terminal residues of SinR and two helices from the central residues of SinI. These regions in SinR and SinI are similar in both structure and sequence. The interaction of SinR monomers to form tetramers is weaker than between SinR and SinI, since SinI can effectively disrupt SinR tetramers. This entry represents the dimerisation domain in both SinI and SinR proteins.; GO: 0005488 binding, 0006355 regulation of transcription, DNA-dependent; PDB: 1B0N_A 2YAL_A.
Probab=29.59 E-value=35 Score=18.06 Aligned_cols=13 Identities=31% Similarity=0.475 Sum_probs=9.0
Q ss_pred hCCCHHHHHHHcC
Q 044292 126 KDKSPEEVRRIFH 138 (160)
Q Consensus 126 ~~kt~eeir~~f~ 138 (160)
.|-|.+|+|+++.
T Consensus 15 ~Gls~eeir~FL~ 27 (30)
T PF08671_consen 15 SGLSKEEIREFLE 27 (30)
T ss_dssp TT--HHHHHHHHH
T ss_pred cCCCHHHHHHHHH
Confidence 5889999999874
No 65
>cd02144 iodotyrosine_dehalogenase Iodotyrosine dehalogenase catalyzes the removal of iodine from the 3, 5 positions of L-tyosine in thyroid, liver and kidney, using NADPH as electron donor. This enzyme is a homolog of the nitroreductase family. These enzymes are usually homodimers.
Probab=29.09 E-value=52 Score=24.11 Aligned_cols=37 Identities=14% Similarity=0.005 Sum_probs=26.2
Q ss_pred HHHHHHhhhhcCchhHHHHHHHHHHHHHhCCCH-HHHHHHcCCCCCCC
Q 044292 98 LLDLLLAANYLNIKDLLELTCQATADVIKDKSP-EEVRRIFHINNDFT 144 (160)
Q Consensus 98 l~~Ll~AA~~L~I~~L~~~~~~~ia~~i~~kt~-eeir~~f~i~~d~t 144 (160)
+..|+.||.-||+... .+.+... +.+++.||+++++.
T Consensus 129 ~~~l~LaA~~~Glgs~----------~~~~~~~~~~v~~~l~ip~~~~ 166 (193)
T cd02144 129 CGLLLAALQNAGLGTV----------TTTPLNMGPFLRRLLGRPANEK 166 (193)
T ss_pred HHHHHHHHHHCCCcee----------ecCCcchhHHHHHHhCCCCCCc
Confidence 3468888888888862 1234344 89999999997653
No 66
>PF11198 DUF2857: Protein of unknown function (DUF2857); InterPro: IPR021364 This is a bacterial family of uncharacterised proteins.
Probab=29.09 E-value=1.4e+02 Score=22.42 Aligned_cols=59 Identities=27% Similarity=0.317 Sum_probs=34.3
Q ss_pred CCHHHHHHHHHhhh-----hcCchhHHHHH-HHHHHHHHhCCCHHHH---HHHcCCCCC------CCHHHHHHH
Q 044292 93 VDQETLLDLLLAAN-----YLNIKDLLELT-CQATADVIKDKSPEEV---RRIFHINND------FTPQEEQEI 151 (160)
Q Consensus 93 ~~~~~l~~Ll~AA~-----~L~I~~L~~~~-~~~ia~~i~~kt~eei---r~~f~i~~d------~t~eee~~~ 151 (160)
+|.+.+-.++.-|. .--|+.++.++ +..+-..+-|.|..|+ |+.+|++.. .|+|++..+
T Consensus 58 in~~~l~~~L~~~~~~~~~~~~idr~L~lGAS~~mm~~~FGls~~ev~~rR~llgi~~~~GR~~~~~ee~~~~i 131 (180)
T PF11198_consen 58 INHDVLWRLLEQARREQQEQQLIDRALRLGASIEMMQRLFGLSSAEVAARRRLLGIPVRKGRPPALSEEEEAAI 131 (180)
T ss_pred eCHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHCCCHHHHHHHHHHhCCCCCCCCCCCcCHHHHHHH
Confidence 55666555555544 23344444444 4556666778887777 678888843 355554444
No 67
>smart00224 GGL G protein gamma subunit-like motifs.
Probab=28.92 E-value=74 Score=19.61 Aligned_cols=19 Identities=21% Similarity=0.562 Sum_probs=15.2
Q ss_pred HHHHHHHHHHHHhchhhhh
Q 044292 56 GTILSMVVEYCKKHVEAAA 74 (160)
Q Consensus 56 ~~~L~~Ii~~~~~h~~~~~ 74 (160)
|.....++.||+.|....+
T Consensus 23 S~a~~~li~y~e~~~~~DP 41 (63)
T smart00224 23 SKAAEELLAYCEQHAEEDP 41 (63)
T ss_pred HHHHHHHHHHHHcCCCCCC
Confidence 6788899999998776544
No 68
>PF11197 DUF2835: Protein of unknown function (DUF2835); InterPro: IPR021363 This is a bacterial family of uncharacterised proteins. One member of this family (A4VM42 from SWISSPROT) is annotated as the A subunit of Type IIA topoisomerase (DNA gyrase/topo II, topoisomerase IV).
Probab=28.78 E-value=55 Score=20.76 Aligned_cols=21 Identities=14% Similarity=0.309 Sum_probs=18.0
Q ss_pred ccEEEEcCCCCEEEecHHHHH
Q 044292 11 KMIILKSSDGETFEVEETVAL 31 (160)
Q Consensus 11 ~~i~l~s~DG~~~~v~~~~a~ 31 (160)
+.|.++|.||..+.+|....+
T Consensus 21 ~~V~v~s~~Gr~v~~Pa~~lR 41 (68)
T PF11197_consen 21 SKVVVRSDDGRRVQFPARHLR 41 (68)
T ss_pred cEEEEEecCCcEEEEeHHHCc
Confidence 478999999999999988654
No 69
>PRK09296 cysteine desufuration protein SufE; Provisional
Probab=28.57 E-value=1.1e+02 Score=21.98 Aligned_cols=35 Identities=9% Similarity=0.243 Sum_probs=25.0
Q ss_pred hHHHHHHHHHHHHHhCCCHHHHHH--------HcCCCCCCCHH
Q 044292 112 DLLELTCQATADVIKDKSPEEVRR--------IFHINNDFTPQ 146 (160)
Q Consensus 112 ~L~~~~~~~ia~~i~~kt~eeir~--------~f~i~~d~t~e 146 (160)
.++.-.+..+...++|+|++||.+ .+|+...+||-
T Consensus 76 ~ivkGl~alL~~~~~g~tp~eIl~~d~~~~~~~lGL~~~LSps 118 (138)
T PRK09296 76 AIVKGLIAVVFILYQQMTPQDIVNFDVRPWFEKLALTQHLTPS 118 (138)
T ss_pred HHHHHHHHHHHHHHcCCCHHHHHhCChHHHHHHcCcccccCcc
Confidence 344455566677789999999874 46777778774
No 70
>PRK13696 hypothetical protein; Provisional
Probab=28.36 E-value=1.5e+02 Score=18.42 Aligned_cols=26 Identities=23% Similarity=0.477 Sum_probs=19.5
Q ss_pred hCCCHHHHHHHcCCCCCCCHHHHHHHHHh
Q 044292 126 KDKSPEEVRRIFHINNDFTPQEEQEIRRE 154 (160)
Q Consensus 126 ~~kt~eeir~~f~i~~d~t~eee~~~~~e 154 (160)
+..+...+.++||+- ++||-++++++
T Consensus 36 ~~~~~~~l~~~~Gil---~dee~~e~~~~ 61 (62)
T PRK13696 36 KKGNLDKLMKAFGIL---SEEEAEELKKE 61 (62)
T ss_pred hhccHHHHHHHHCCC---CHHHHHHHHhh
Confidence 345688899999985 56777777765
No 71
>KOG1099 consensus SAM-dependent methyltransferase/cell division protein FtsJ [Cell cycle control, cell division, chromosome partitioning; General function prediction only]
Probab=28.36 E-value=54 Score=26.33 Aligned_cols=84 Identities=19% Similarity=0.287 Sum_probs=45.7
Q ss_pred CccccC-CCC-HHHHHHHHHHHHhchhhhhhccCC--CCCccchhhhhccCCHHHHHHHHHhhhhcCchhHHHHHHHHHH
Q 044292 47 SVIPLP-NVT-GTILSMVVEYCKKHVEAAAAAAGG--DNDVKNWDRDFVKVDQETLLDLLLAANYLNIKDLLELTCQATA 122 (160)
Q Consensus 47 ~~Ipl~-~i~-~~~L~~Ii~~~~~h~~~~~~~~~~--~~~~~~wd~~Fl~~~~~~l~~Ll~AA~~L~I~~L~~~~~~~ia 122 (160)
+++.|. +|+ ..+++.||+..-..+.+-..-+.. ...+.+. |.-.=-+|+.||--+-- ..++-+..++|
T Consensus 90 GV~qlq~DIT~~stae~Ii~hfggekAdlVvcDGAPDvTGlHd~-------DEy~Q~qLllaAl~i~t-~Vlk~Gg~FVa 161 (294)
T KOG1099|consen 90 GVIQLQGDITSASTAEAIIEHFGGEKADLVVCDGAPDVTGLHDL-------DEYVQAQLLLAALNIAT-CVLKPGGSFVA 161 (294)
T ss_pred ceEEeecccCCHhHHHHHHHHhCCCCccEEEeCCCCCccccccH-------HHHHHHHHHHHHHHHHh-heecCCCeeeh
Confidence 344455 444 789999998776544332211111 1222322 22223466666632211 23344567889
Q ss_pred HHHhCCC----HHHHHHHcC
Q 044292 123 DVIKDKS----PEEVRRIFH 138 (160)
Q Consensus 123 ~~i~~kt----~eeir~~f~ 138 (160)
..++|+. ..++|++|+
T Consensus 162 KifRg~~tslLysql~~ff~ 181 (294)
T KOG1099|consen 162 KIFRGRDTSLLYSQLRKFFK 181 (294)
T ss_pred hhhccCchHHHHHHHHHHhh
Confidence 9999986 457777776
No 72
>PF00134 Cyclin_N: Cyclin, N-terminal domain; InterPro: IPR006671 Cyclins are eukaryotic proteins that play an active role in controlling nuclear cell division cycles [], and regulate cyclin dependent kinases (CDKs). Cyclins, together with the p34 (cdc2) or cdk2 kinases, form the Maturation Promoting Factor (MPF). There are two main groups of cyclins, G1/S cyclins, which are essential for the control of the cell cycle at the G1/S (start) transition, and G2/M cyclins, which are essential for the control of the cell cycle at the G2/M (mitosis) transition. G2/M cyclins accumulate steadily during G2 and are abruptly destroyed as cells exit from mitosis (at the end of the M-phase). In most species, there are multiple forms of G1 and G2 cyclins. For example, in vertebrates, there are two G2 cyclins, A and B, and at least three G1 cyclins, C, D, and E. Cyclin homologues have been found in various viruses, including Saimiriine herpesvirus 2 (Herpesvirus saimiri) and Human herpesvirus 8 (HHV-8) (Kaposi's sarcoma-associated herpesvirus). These viral homologues differ from their cellular counterparts in that the viral proteins have gained new functions and eliminated others to harness the cell and benefit the virus []. Cyclins contain two domains of similar all-alpha fold, of which this entry is associated with the N-terminal domain.; PDB: 2W2H_B 3RGF_B 1KXU_A 1JKW_A 1URC_D 2WMB_D 1H26_D 1GY3_B 2UUE_D 1E9H_D ....
Probab=28.19 E-value=1e+02 Score=20.74 Aligned_cols=42 Identities=24% Similarity=0.548 Sum_probs=28.3
Q ss_pred hHHHHHHHHHHHHHhCCCHHHHHHHcCCCC-CCCHHHHHHHHH
Q 044292 112 DLLELTCQATADVIKDKSPEEVRRIFHINN-DFTPQEEQEIRR 153 (160)
Q Consensus 112 ~L~~~~~~~ia~~i~~kt~eeir~~f~i~~-d~t~eee~~~~~ 153 (160)
.|+-++|-.+|.++.+..+-.+.....+.+ .+|.++.-+.+.
T Consensus 74 ~li~~~cl~lA~K~~e~~~~~~~~~~~~~~~~~~~~~i~~~E~ 116 (127)
T PF00134_consen 74 QLIALACLFLASKMEEDNPPSISDLIRISDNTFTKKDILEMER 116 (127)
T ss_dssp HHHHHHHHHHHHHHHTSS--HHHHHHHHTTTSSHHHHHHHHHH
T ss_pred hhhhhhHHHHhhhhhccccchHHHHHHHHcCCCCHHHHHHHHH
Confidence 577888999999998875555666555544 488877665544
No 73
>PF03131 bZIP_Maf: bZIP Maf transcription factor; InterPro: IPR004826 There are several different types of Maf transcription factors with different roles in the cell. MafG and MafH are small Mafs which lack a putative transactivation domain. They behave as transcriptional repressors when they dimerize among themselves. However they also serve as transcriptional activators by dimerizing with other (usually larger) basic-zipper proteins and recruiting them to specific DNA-binding sites. Maf transcription factors contain a conserved basic region leucine zipper (bZIP) domain, which mediates their dimerization and DNA binding property. Neural retina-specific leucine zipper proteins also belong to this family. Together with the basic region, the Maf extended homology region (EHR), conserved only within the Maf family, defines the DNA binding specific to Mafs. This structure enables Mafs to make a broader area of contact with DNA and to recognise longer DNA sequences. In particular, the two residues at the beginning of helix H2 are positioned to recognise the flanking region []. Small Maf proteins heterodimerize with Fos and may act as competitive repressors of the NF2-E2 transcription factor. In mouse, Maf1 may play an early role in axial patterning. Defects in these proteins are a cause of autosomal dominant retinitis pigmentosa. ; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus; PDB: 2KZ5_A 3A5T_A 1K1V_A 1SKN_P 2WT7_B 2WTY_B.
Probab=26.74 E-value=94 Score=20.50 Aligned_cols=28 Identities=18% Similarity=0.368 Sum_probs=20.5
Q ss_pred HHHhCCCHHHHHHHcCCCCCCCHHHHHHHHH
Q 044292 123 DVIKDKSPEEVRRIFHINNDFTPQEEQEIRR 153 (160)
Q Consensus 123 ~~i~~kt~eeir~~f~i~~d~t~eee~~~~~ 153 (160)
+.|...++.|+..++ ..+|+++...++.
T Consensus 4 eeL~~m~v~efn~~L---~~lt~~q~~~lK~ 31 (92)
T PF03131_consen 4 EELVSMSVREFNRLL---RGLTEEQIAELKQ 31 (92)
T ss_dssp HHHHHS-HHHHHHHC---TTS-HHHHHHHHH
T ss_pred HHHhhCCHHHHHHHH---HcCCHHHHHHHHH
Confidence 356678999999998 6799998887764
No 74
>PF02736 Myosin_N: Myosin N-terminal SH3-like domain; InterPro: IPR004009 This domain has an SH3-like fold. It is found at the N terminus of many but not all myosins. The function of this domain is unknown.; GO: 0003774 motor activity, 0005524 ATP binding, 0016459 myosin complex; PDB: 2EC6_A 2W4H_M 1O1E_P 1O1D_D 1O18_A 1O1C_P 1O1B_D 1O1F_A 2W4A_M 2W4G_M ....
Probab=26.59 E-value=50 Score=18.53 Aligned_cols=19 Identities=21% Similarity=0.447 Sum_probs=15.2
Q ss_pred CccEEEEcCCCCEEEecHH
Q 044292 10 KKMIILKSSDGETFEVEET 28 (160)
Q Consensus 10 ~~~i~l~s~DG~~~~v~~~ 28 (160)
...+++++.||+...|+++
T Consensus 23 g~~vtV~~~~G~~~tv~~d 41 (42)
T PF02736_consen 23 GDKVTVKTEDGKEVTVKKD 41 (42)
T ss_dssp SSEEEEEETTTEEEEEEGG
T ss_pred CCEEEEEECCCCEEEeCCC
Confidence 3578999999999988753
No 75
>COG4565 CitB Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms]
Probab=26.48 E-value=1.1e+02 Score=24.14 Aligned_cols=22 Identities=27% Similarity=0.205 Sum_probs=19.7
Q ss_pred CCccccC-CCCHHHHHHHHHHHH
Q 044292 46 DSVIPLP-NVTGTILSMVVEYCK 67 (160)
Q Consensus 46 ~~~Ipl~-~i~~~~L~~Ii~~~~ 67 (160)
..+.+|| +++..+|++|.+|.+
T Consensus 146 ~~~~~LPkGi~~~Tl~~i~~~~~ 168 (224)
T COG4565 146 QPPDDLPKGLDELTLQKVREALK 168 (224)
T ss_pred cCcccCCCCcCHHHHHHHHHHHh
Confidence 5677788 999999999999999
No 76
>PF13518 HTH_28: Helix-turn-helix domain
Probab=26.25 E-value=1.1e+02 Score=17.14 Aligned_cols=21 Identities=24% Similarity=0.300 Sum_probs=16.5
Q ss_pred HHHHHHhCCCHHHHHHHcCCC
Q 044292 120 ATADVIKDKSPEEVRRIFHIN 140 (160)
Q Consensus 120 ~ia~~i~~kt~eeir~~f~i~ 140 (160)
.|.....|.|..++.+.|||.
T Consensus 5 iv~~~~~g~s~~~~a~~~gis 25 (52)
T PF13518_consen 5 IVELYLEGESVREIAREFGIS 25 (52)
T ss_pred HHHHHHcCCCHHHHHHHHCCC
Confidence 344455789999999999994
No 77
>TIGR03391 FeS_syn_CsdE cysteine desulfurase, sulfur acceptor subunit CsdE. Members of this protein family are CsdE, formerly called YgdK. This protein, found as a paralog to SufE in Escherichia coli, Yersinia pestis, Photorhabdus luminescens, and related species, works together and physically interacts with CsdA (a paralog of SufS). CsdA has cysteine desulfurase activity that is enhanced by this protein (CsdE), in which Cys-61 (numbered as in E. coli) is a sulfur acceptor site. This gene pair, although involved in FeS cluster biosynthesis, is not found next to other such genes as are its paralogs from the Suf or Isc systems.
Probab=25.94 E-value=1.3e+02 Score=21.72 Aligned_cols=35 Identities=9% Similarity=0.208 Sum_probs=24.3
Q ss_pred hHHHHHHHHHHHHHhCCCHHHHHH--------HcCCCCCCCHH
Q 044292 112 DLLELTCQATADVIKDKSPEEVRR--------IFHINNDFTPQ 146 (160)
Q Consensus 112 ~L~~~~~~~ia~~i~~kt~eeir~--------~f~i~~d~t~e 146 (160)
.++.-.+..+...+.|+|++||.+ .+|+...+||-
T Consensus 81 ~IvkGl~alL~~~~~g~tp~eI~~~d~~~~~~~lGL~~~LSps 123 (138)
T TIGR03391 81 RIVRGLLAVLLTAVEGKTPEQLLAQDPLALFDELGLRAQLSAS 123 (138)
T ss_pred HHHHHHHHHHHHHHcCCCHHHHHHCCHHHHHHHcCchhccCcc
Confidence 344445566667779999999874 45777777774
No 78
>PRK15019 CsdA-binding activator; Provisional
Probab=25.88 E-value=1.2e+02 Score=22.11 Aligned_cols=35 Identities=6% Similarity=0.157 Sum_probs=24.7
Q ss_pred hHHHHHHHHHHHHHhCCCHHHHHH--------HcCCCCCCCHH
Q 044292 112 DLLELTCQATADVIKDKSPEEVRR--------IFHINNDFTPQ 146 (160)
Q Consensus 112 ~L~~~~~~~ia~~i~~kt~eeir~--------~f~i~~d~t~e 146 (160)
.++.-.+..+...++|+|++||.+ -+|+...+||-
T Consensus 86 ~IvkGl~alL~~~~~g~tp~eIl~~d~~~~~~~lGL~~~LSps 128 (147)
T PRK15019 86 RIVRGLLAVLLTAVEGKTAAELQAQSPLALFDELGLRAQLSAS 128 (147)
T ss_pred HHHHHHHHHHHHHHcCCCHHHHHhcCHHHHHHHCCchhhcCcc
Confidence 344445566667779999999875 45777777774
No 79
>cd02140 Nitroreductase_4 Nitroreductase-like family 4. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and nitroimidazoles. This process requires NAD(P)H as electron donor in an obligatory two-electron transfer and uses FMN as cofactor. The enzyme is typically a homodimer. Members of this family are also called NADH dehydrogenase, oxygen-insensitive NAD(P)H nitrogenase or dihydropteridine reductase.
Probab=25.77 E-value=65 Score=23.92 Aligned_cols=38 Identities=18% Similarity=0.170 Sum_probs=26.3
Q ss_pred HHHHHHhhhhcCchhHHHHHHHHHHHHHhCCCHHHHHHHcCCCCCC
Q 044292 98 LLDLLLAANYLNIKDLLELTCQATADVIKDKSPEEVRRIFHINNDF 143 (160)
Q Consensus 98 l~~Ll~AA~~L~I~~L~~~~~~~ia~~i~~kt~eeir~~f~i~~d~ 143 (160)
+..|+.||.-+|+-..+... .....+.+|+.|||++++
T Consensus 127 ~~nl~LaA~~~GlGs~~~~~--------~~~~~~~v~~~l~ip~~~ 164 (192)
T cd02140 127 QIAVWTALAAEGIGANLQHY--------NPLIDEEVAKKWNIPSNW 164 (192)
T ss_pred HHHHHHHHHhCCCcccHHHh--------CccCCHHHHHhcCCCccc
Confidence 45889999999988632110 012358899999999764
No 80
>PF00690 Cation_ATPase_N: Cation transporter/ATPase, N-terminus; InterPro: IPR004014 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane. ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (e.g., F-, V- and A-ATPases, which contain rotary motors) and in the type of ions they transport [, ]. The different types include: F-ATPases (F1F0-ATPases), which are found in mitochondria, chloroplasts and bacterial plasma membranes where they are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases), which are primarily found in eukaryotic vacuoles and catalyse ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases), which are found in Archaea and function like F-ATPases (though with respect to their structure and some inhibitor responses, A-ATPases are more closely related to the V-ATPases). P-ATPases (E1E2-ATPases), which are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases, which are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. P-ATPases (sometime known as E1-E2 ATPases) (3.6.3.- from EC) are found in bacteria and in a number of eukaryotic plasma membranes and organelles []. P-ATPases function to transport a variety of different compounds, including ions and phospholipids, across a membrane using ATP hydrolysis for energy. There are many different classes of P-ATPases, each of which transports a specific type of ion: H+, Na+, K+, Mg2+, Ca2+, Ag+ and Ag2+, Zn2+, Co2+, Pb2+, Ni2+, Cd2+, Cu+ and Cu2+. P-ATPases can be composed of one or two polypeptides, and can usually assume two main conformations called E1 and E2. This entry represents the conserved N-terminal region found in several classes of cation-transporting P-type ATPases, including those that transport H+ (3.6.3.6 from EC), Na+ (3.6.3.7 from EC), Ca2+ (3.6.3.8 from EC), Na+/K+ (3.6.3.9 from EC), and H+/K+ (3.6.3.10 from EC). In the H+/K+- and Na+/K+-exchange P-ATPases, this domain is found in the catalytic alpha chain. In gastric H+/K+-ATPases, this domain undergoes reversible sequential phosphorylation inducing conformational changes that may be important for regulating the function of these ATPases [, ]. More information about this protein can be found at Protein of the Month: ATP Synthases [].; PDB: 3KDP_C 3N2F_A 3B8E_A 3N23_A 2XZB_A 1MHS_B 3A3Y_A 2ZXE_A 3B8C_A 3B9B_A ....
Probab=25.69 E-value=1.1e+02 Score=18.70 Aligned_cols=28 Identities=25% Similarity=0.343 Sum_probs=18.6
Q ss_pred CCHHHHHHHcCCC--CCCCHHHHHHHHHhc
Q 044292 128 KSPEEVRRIFHIN--NDFTPQEEQEIRREN 155 (160)
Q Consensus 128 kt~eeir~~f~i~--~d~t~eee~~~~~e~ 155 (160)
++++++.+.|+.. .-+|++|-++.+++|
T Consensus 4 ~~~~~v~~~l~t~~~~GLs~~ev~~r~~~~ 33 (69)
T PF00690_consen 4 LSVEEVLKRLNTSSSQGLSSEEVEERRKKY 33 (69)
T ss_dssp SSHHHHHHHHTTBTSSBBTHHHHHHHHHHH
T ss_pred CCHHHHHHHHCcCCCCCCCHHHHHHHHHhc
Confidence 5778888888733 227877776666654
No 81
>PF08661 Rep_fac-A_3: Replication factor A protein 3; InterPro: IPR013970 Replication factor A is involved in eukaryotic DNA replication, recombination and repair. ; PDB: 2PI2_H 1L1O_D 3KDF_A 2Z6K_D 1QUQ_D 2PQA_D.
Probab=25.60 E-value=75 Score=21.59 Aligned_cols=61 Identities=16% Similarity=0.147 Sum_probs=30.1
Q ss_pred CCccEEEEcCCCCEEEecHHHHHHhHHHHHHHhhcC---CCC---c------cccC-CCCHHHHHHHHHHHHhch
Q 044292 9 SKKMIILKSSDGETFEVEETVALQSQTIRHMVEDDC---ADS---V------IPLP-NVTGTILSMVVEYCKKHV 70 (160)
Q Consensus 9 ~~~~i~l~s~DG~~~~v~~~~a~~S~~l~~~l~~~~---~~~---~------Ipl~-~i~~~~L~~Ii~~~~~h~ 70 (160)
+++.++++|+||..+.|...--. ...+...++-.| .+. . +++- +++-+...+++++++.++
T Consensus 33 ~g~~~~l~~~d~~~V~v~l~~~~-~~~~~~~vEviG~V~~~~~~~~i~~~~~~~~g~~~D~~~y~~lv~l~~~~p 106 (109)
T PF08661_consen 33 DGGSATLSTSDGGQVTVSLNPPS-DEELSKYVEVIGKVNDDGTVLSIRYFSFTDFGDDFDMDLYNELVQLTHKFP 106 (109)
T ss_dssp TSSEEEEE-TTS-EEEEEESS---SS---SEEEEEEEE-TTS-EEEEEEEE---SSS---HHHHHHHHHHHHHSG
T ss_pred CCCEEEEEcCCCCEEEEEeCCCC-CCCCCCEEEEEEEEcCCCCceEEEEEEeccCCCCcCHHHHHHHHHHHhhCC
Confidence 35789999999999988543100 001222233211 111 1 1333 688888899999887654
No 82
>PF13384 HTH_23: Homeodomain-like domain; PDB: 2X48_C.
Probab=25.15 E-value=81 Score=17.71 Aligned_cols=15 Identities=13% Similarity=0.198 Sum_probs=10.6
Q ss_pred hCCCHHHHHHHcCCC
Q 044292 126 KDKSPEEVRRIFHIN 140 (160)
Q Consensus 126 ~~kt~eeir~~f~i~ 140 (160)
.|+|..+|.+.||++
T Consensus 16 ~G~s~~~ia~~lgvs 30 (50)
T PF13384_consen 16 EGWSIREIAKRLGVS 30 (50)
T ss_dssp HT--HHHHHHHHTS-
T ss_pred CCCCHHHHHHHHCcC
Confidence 499999999999985
No 83
>PF03750 DUF310: Protein of unknown function (DUF310); InterPro: IPR010149 Clustered Regularly Interspaced Short Palindromic Repeats (CRISPR) are a family of DNA direct repeats separated by regularly sized non-repetitive spacer sequences that are found in most bacterial and archaeal genomes []. CRISPRs appear to provide acquired resistance against bacteriophages, possibly acting with an RNA interference-like mechanism to inhibit gene functions of invasive DNA elements [, ]. Differences in the number and type of spacers between CRISPR repeats correlate with phage sensitivity. It is thought that following phage infection, bacteria integrate new spacers derived from phage genomic sequences, and that the removal or addition of particular spacers modifies the phage-resistance phenotype of the cell. Therefore, the specificity of CRISPRs may be determined by spacer-phage sequence similarity. In addition, there are many protein families known as CRISPR-associated sequences (Cas), which are encoded in the vicinity of CRISPR loci []. CRISPR/cas gene regions can be quite large, with up to 20 different, tandem-arranged cas genes next to a CRISPR cluster or filling the region between two repeat clusters. Cas genes and CRISPRs are found on mobile genetic elements such as plasmids, and have undergone extensive horizontal transfer. Cas proteins are thought to be involved in the propagation and functioning of CRISPRs. Some Cas proteins show similarity to helicases and repair proteins, although the functions of most are unknown. Cas families can be divided into subtypes according to operon organisation and phylogeny. This entry represents the C-terminal domain of a minor family of CRISPR-associated proteins. These proteins are found adjacent to a characteristic short, palindromic repeat cluster termed CRISPR, a probable mobile DNA element.
Probab=25.05 E-value=1e+02 Score=21.42 Aligned_cols=32 Identities=16% Similarity=0.304 Sum_probs=19.9
Q ss_pred CchhHHHHHHHHHHHHHh--CCCHHHHHHHcCCCC
Q 044292 109 NIKDLLELTCQATADVIK--DKSPEEVRRIFHINN 141 (160)
Q Consensus 109 ~I~~L~~~~~~~ia~~i~--~kt~eeir~~f~i~~ 141 (160)
++..|.+.+. .+|..++ +.|+.|||++|+--.
T Consensus 9 ~~~~~~~~Ae-~~~k~l~~~~lttsQlRkf~~~v~ 42 (119)
T PF03750_consen 9 DIELLVDYAE-KIAKELKKNKLTTSQLRKFYDEVK 42 (119)
T ss_pred CHHHHHHHHH-HHHHHHHhCCCCHHHHHHHHHHHH
Confidence 3444444443 3444454 479999999998543
No 84
>PF14748 P5CR_dimer: Pyrroline-5-carboxylate reductase dimerisation; PDB: 2RCY_D 3TRI_A 2IZZ_B 2GR9_B 2GRA_B 2GER_C 1YQG_A 2AG8_A 3GT0_A 2AMF_E ....
Probab=24.63 E-value=2.3e+02 Score=19.14 Aligned_cols=55 Identities=20% Similarity=0.193 Sum_probs=35.7
Q ss_pred HHHHhhhhcCch-----hHHHHHHHHHHHHHh--CCCHHHHHHHcCCCCCCCHHHHHHHHHh
Q 044292 100 DLLLAANYLNIK-----DLLELTCQATADVIK--DKSPEEVRRIFHINNDFTPQEEQEIRRE 154 (160)
Q Consensus 100 ~Ll~AA~~L~I~-----~L~~~~~~~ia~~i~--~kt~eeir~~f~i~~d~t~eee~~~~~e 154 (160)
.|.+++-..+++ .|+..+..-.+.++. +++++++++..-.|.-.|.+-.+.+++.
T Consensus 26 al~~a~v~~Gl~~~~A~~lv~~t~~G~a~ll~~~~~~~~~l~~~v~tPgG~T~~gl~~L~~~ 87 (107)
T PF14748_consen 26 ALADAAVAQGLPREEARKLVAQTFIGAAKLLEESGRSPAELRDEVTTPGGTTIAGLEVLEKG 87 (107)
T ss_dssp HHHHHHHHTT--HHHHHHHHHHHHHHHHHHHHHCSS-HHHHHHHHS-TTSHHHHHHHHHHHT
T ss_pred HHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHccCCCHHHHhhhccCCCCcHHHHHHHHHHC
Confidence 455666666665 344455555566665 6799999999998888888877776654
No 85
>PF11338 DUF3140: Protein of unknown function (DUF3140); InterPro: IPR021487 Some members in this family of proteins are annotated as DNA binding proteins. No function is currently known.
Probab=24.47 E-value=63 Score=21.81 Aligned_cols=22 Identities=27% Similarity=0.389 Sum_probs=17.5
Q ss_pred cCCCCHHHHHHHHHHHHhchhh
Q 044292 51 LPNVTGTILSMVVEYCKKHVEA 72 (160)
Q Consensus 51 l~~i~~~~L~~Ii~~~~~h~~~ 72 (160)
|.+=.-..|++|+.||+.|...
T Consensus 54 ltddD~~hMrkVV~yv~rhlaq 75 (92)
T PF11338_consen 54 LTDDDYEHMRKVVGYVKRHLAQ 75 (92)
T ss_pred CCHHHHHHHHHHHHHHHHHHhc
Confidence 4444567899999999999876
No 86
>PF08154 NLE: NLE (NUC135) domain; InterPro: IPR012972 This domain is located N-terminal to WD40 repeats(IPR001680 from INTERPRO). It is found in the microtubule-associated protein Q12024 from SWISSPROT [].
Probab=24.16 E-value=1.1e+02 Score=18.77 Aligned_cols=29 Identities=14% Similarity=0.328 Sum_probs=17.9
Q ss_pred cEEEEcCCC------CEEEecHHH--HHHhHHHHHHH
Q 044292 12 MIILKSSDG------ETFEVEETV--ALQSQTIRHMV 40 (160)
Q Consensus 12 ~i~l~s~DG------~~~~v~~~~--a~~S~~l~~~l 40 (160)
.++|.|++| ..+.||..+ ...|.++..++
T Consensus 3 ~v~F~t~~~~~~~~~~~~~VP~~~t~~~Ls~LvN~LL 39 (65)
T PF08154_consen 3 QVQFVTEDGEYEVPGTPISVPSNITRKELSELVNQLL 39 (65)
T ss_pred EEEEEcCCCCccCCCCCEEEeCCCCHHHHHHHHHHHh
Confidence 356666666 355565544 45677777777
No 87
>PF13725 tRNA_bind_2: Possible tRNA binding domain; PDB: 2ZPA_B.
Probab=23.95 E-value=2.2e+02 Score=18.66 Aligned_cols=69 Identities=19% Similarity=0.114 Sum_probs=32.5
Q ss_pred CCCHHHHHHHHHHHHhchhhhhhccCCCCCccchhhhhccCCHHHHHHHHHhhhhcCchhHHHHHH-HHHHHHHhCCCHH
Q 044292 53 NVTGTILSMVVEYCKKHVEAAAAAAGGDNDVKNWDRDFVKVDQETLLDLLLAANYLNIKDLLELTC-QATADVIKDKSPE 131 (160)
Q Consensus 53 ~i~~~~L~~Ii~~~~~h~~~~~~~~~~~~~~~~wd~~Fl~~~~~~l~~Ll~AA~~L~I~~L~~~~~-~~ia~~i~~kt~e 131 (160)
.++..-++++-.|+..+..+. .-...+-.|+.....-. ..|-.... --|+.-+++||.+
T Consensus 28 ~ls~~d~~rL~~ya~g~~~y~-------------------~v~~~l~~l~~~~~~~~-~~Ls~~q~~lLi~k~LQ~ksw~ 87 (101)
T PF13725_consen 28 SLSPIDLQRLERYARGGRDYE-------------------SVAPALWRLAFQYFLSP-VSLSELQQALLIAKGLQGKSWE 87 (101)
T ss_dssp ---HHHHHHHHHHHHS---TC-------------------CCHHHHHHHHHH-----------S--HHHHHHHCS---HH
T ss_pred cCCHHHHHHHHHHHcCCCCHH-------------------HHHHHHHHHHHHccccc-hhhHHHHHHHHHHHHHCCCCHH
Confidence 678889999999998766443 11344445544443322 33333333 3445667899999
Q ss_pred HHHHHcCCCC
Q 044292 132 EVRRIFHINN 141 (160)
Q Consensus 132 eir~~f~i~~ 141 (160)
++.+.||++.
T Consensus 88 ~~a~~l~l~g 97 (101)
T PF13725_consen 88 EVAKELGLPG 97 (101)
T ss_dssp HHHHHCT-SS
T ss_pred HHHHHcCCCC
Confidence 9999999874
No 88
>PF05871 ESCRT-II: ESCRT-II complex subunit; InterPro: IPR008570 This entry represents the vps25 subunit (vacuolar protein sorting-associated protein 25) of the endosome-associated complex ESCRT-II (Endosomal Sorting Complexes Required for Transport protein II). ESCRT (ESCRT-I, -II, -III) complexes orchestrate efficient sorting of ubiquitinated transmembrane receptors to lysosomes via multivesicular bodies (MVBs) []. ESCRT-II recruits the transport machinery for protein sorting at MVB []. In addition, the human ESCRT-II has been shown to form a complex with RNA polymerase II elongation factor ELL in order to exert transcriptional control activity. ESCRT-II transiently associates with the endosomal membrane and thereby initiates the formation of ESCRT-III, a membrane-associated protein complex that functions immediately downstream of ESCRT-II during sorting of MVB cargo. ESCRT-II in turn functions downstream of ESCRT-I, a protein complex that binds to ubiquitinated endosomal cargo []. ESCRT-II is a trilobal complex composed of two copies of vps25, one copy of vps22 and the C-terminal region of vps36. The crystal structure of vps25 revealed two winged-helix domains, the N-terminal domain of vps25 interacting with vps22 and vps35 [].; PDB: 1W7P_B 1U5T_D 1XB4_D 3HTU_E 3CUQ_C 2ZME_D.
Probab=23.93 E-value=52 Score=23.83 Aligned_cols=14 Identities=21% Similarity=0.766 Sum_probs=10.4
Q ss_pred HHHHHHHHhchhhh
Q 044292 60 SMVVEYCKKHVEAA 73 (160)
Q Consensus 60 ~~Ii~~~~~h~~~~ 73 (160)
..|++||+||+...
T Consensus 27 ~lIl~y~~~~k~~~ 40 (139)
T PF05871_consen 27 DLILDYCRHHKIFR 40 (139)
T ss_dssp HHHHHHHHHTT-SE
T ss_pred HHHHHHHHHhceee
Confidence 35999999998654
No 89
>PF13798 PCYCGC: Protein of unknown function with PCYCGC motif
Probab=23.49 E-value=1.2e+02 Score=22.52 Aligned_cols=23 Identities=35% Similarity=0.533 Sum_probs=15.9
Q ss_pred HHHHHHHHHHHHhCCCHHHHHHH
Q 044292 114 LELTCQATADVIKDKSPEEVRRI 136 (160)
Q Consensus 114 ~~~~~~~ia~~i~~kt~eeir~~ 136 (160)
++.+...+...=+|||+.|||+.
T Consensus 118 l~ia~~a~~~~~~Gks~~eIR~~ 140 (158)
T PF13798_consen 118 LDIAVQAVQMYQEGKSPKEIRQY 140 (158)
T ss_pred HHHHHHHHHHHHcCCCHHHHHHH
Confidence 34444455555579999999985
No 90
>PF09821 AAA_assoc_C: C-terminal AAA-associated domain; InterPro: IPR018632 Members of this family are found in various prokaryotic ABC transporters, predominantly involved in nitrate, sulphonate and bicarbonate translocation.
Probab=23.33 E-value=75 Score=22.30 Aligned_cols=22 Identities=23% Similarity=0.459 Sum_probs=18.4
Q ss_pred ccCCHHHHHHHHHhhhhcCchh
Q 044292 91 VKVDQETLLDLLLAANYLNIKD 112 (160)
Q Consensus 91 l~~~~~~l~~Ll~AA~~L~I~~ 112 (160)
++++.+.|+.++.||..|+.-.
T Consensus 7 l~~eiDdL~p~~eAaelLgf~~ 28 (120)
T PF09821_consen 7 LHLEIDDLLPIVEAAELLGFAE 28 (120)
T ss_pred hCCcHHHHHHHHHHHHHcCCee
Confidence 3578899999999999998753
No 91
>PF10507 DUF2453: Protein of unknown function (DUF2453); InterPro: IPR019537 The function of these transmembrane protein is not known.
Probab=23.04 E-value=2e+02 Score=20.10 Aligned_cols=38 Identities=13% Similarity=0.283 Sum_probs=28.7
Q ss_pred hHHHHHHHHHHHHHhC-------CCHHHHHHHcCCCCC-CCHHHHH
Q 044292 112 DLLELTCQATADVIKD-------KSPEEVRRIFHINND-FTPQEEQ 149 (160)
Q Consensus 112 ~L~~~~~~~ia~~i~~-------kt~eeir~~f~i~~d-~t~eee~ 149 (160)
+|--++++.+.+.+++ -.+|.+.+.+|++.. +|++|.+
T Consensus 34 giStmAAAalGN~vSDv~Gi~~~~~vE~~~~rlg~~~P~Lt~~Q~~ 79 (111)
T PF10507_consen 34 GISTMAAAALGNLVSDVAGIGLGGYVERLAQRLGLKAPVLTPAQLN 79 (111)
T ss_pred hHHHHHHHHHhhhhhhhhhhHHHHHHHHHHHHhCCCCCCCCHHHHh
Confidence 3445667777776664 469999999999976 9998876
No 92
>COG1710 Uncharacterized protein conserved in archaea [Function unknown]
Probab=22.80 E-value=60 Score=23.09 Aligned_cols=19 Identities=21% Similarity=0.513 Sum_probs=15.6
Q ss_pred HHHH-hCCCHHHHHHHcCCC
Q 044292 122 ADVI-KDKSPEEVRRIFHIN 140 (160)
Q Consensus 122 a~~i-~~kt~eeir~~f~i~ 140 (160)
-.++ +||++.||.+.+||+
T Consensus 103 ~emlr~gk~preIsk~lGIp 122 (139)
T COG1710 103 REMLRNGKTPREISKDLGIP 122 (139)
T ss_pred HHHHHcCCCHHHHHHhhCCc
Confidence 3344 489999999999998
No 93
>cd06664 IscU_like Iron-sulfur cluster scaffold-like proteins. IscU_like and NifU_like proteins. IscU and NifU function as a scaffold for the assembly of [2Fe-2S] clusters before they are transferred to apo target proteins. They are highly conserved and play vital roles in the ISC and NIF systems of Fe-S protein maturation. NIF genes participate in nitrogen fixation in several isolated bacterial species. The NifU domain, however, is also found in bacteria that do not fix nitrogen, so it may have wider significance in the cell. Human IscU interacts with frataxin, the Friedreich ataxia gene product, and incorrectly spliced IscU has been shown to disrupt iron homeostasis in skeletal muscle and cause myopathy.
Probab=22.42 E-value=1.5e+02 Score=20.36 Aligned_cols=39 Identities=13% Similarity=0.289 Sum_probs=25.5
Q ss_pred HHHHhhhhcCchhHHHHHH-HHHHHHHhCCCHHHHHHHcC
Q 044292 100 DLLLAANYLNIKDLLELTC-QATADVIKDKSPEEVRRIFH 138 (160)
Q Consensus 100 ~Ll~AA~~L~I~~L~~~~~-~~ia~~i~~kt~eeir~~f~ 138 (160)
+.+..+.|-.-=.....+| ..++++++||+.+|+..+..
T Consensus 46 ~~I~d~~f~~~GC~i~~Asas~~~~~~~Gk~~~ea~~i~~ 85 (123)
T cd06664 46 GRITDAKFQGFGCAISIASASLLTELIKGKTLDEALKLLN 85 (123)
T ss_pred CEEEEEEEEecCcHHHHHHHHHHHHHHcCCcHHHHHHHHH
Confidence 4455555555554444444 45568999999999988654
No 94
>PF00382 TFIIB: Transcription factor TFIIB repeat; InterPro: IPR013150 Cyclins are eukaryotic proteins that play an active role in controlling nuclear cell division cycles [], and regulate cyclin dependent kinases (CDKs). Cyclins, together with the p34 (cdc2) or cdk2 kinases, form the Maturation Promoting Factor (MPF). There are two main groups of cyclins, G1/S cyclins, which are essential for the control of the cell cycle at the G1/S (start) transition, and G2/M cyclins, which are essential for the control of the cell cycle at the G2/M (mitosis) transition. G2/M cyclins accumulate steadily during G2 and are abruptly destroyed as cells exit from mitosis (at the end of the M-phase). In most species, there are multiple forms of G1 and G2 cyclins. For example, in vertebrates, there are two G2 cyclins, A and B, and at least three G1 cyclins, C, D, and E. Cyclin homologues have been found in various viruses, including Saimiriine herpesvirus 2 (Herpesvirus saimiri) and Human herpesvirus 8 (HHV-8) (Kaposi's sarcoma-associated herpesvirus). These viral homologues differ from their cellular counterparts in that the viral proteins have gained new functions and eliminated others to harness the cell and benefit the virus []. In eukaryotes, transcription initiation of all protein encoding genes involves the polymerase II system. This sytem is modulated by both general and specific transcription factors. The general factors (which include TFIIA, TFIIB, TFIID, TFIIE, TFIIF, TFIIG and TFIIH) operate through common promoter elements, such as the TATA box. Transcription factor IIB (TFIIB) is of central importance in transcription of class II genes. It associates with TFIID-TFIIA bound to DNA (the DA complex) to form a ternary TFIID-IIA-IBB (DAB) complex, which is recognised by RNA polymerase II [, ]. TFIIB comprises ~315-340 residues and contains an imperfect C-terminal repeat of a 75-residue domain that may contribute to the symmetry of the folded protein. The basal archaeal transcription machinery resembles that of the eukaryotic polymerase II system and includes a homologue of TFIIB []. This entry represents a cyclin-like domain which is found repeated in the C-terminal region of a variety of eukaryotic TFIIB's and their archaeal counterparts. These domains individually form the typical cyclin fold, and in the transcription complex they straddle the C-terminal region of the TATA-binding protein - an interaction essential for the formation of the transcription initiation complex [, ].; GO: 0003743 translation initiation factor activity, 0006413 translational initiation; PDB: 2PHG_A 1C9B_Q 1TFB_A 1VOL_A 3K7A_M 1AIS_B 1D3U_B.
Probab=22.26 E-value=2e+02 Score=17.57 Aligned_cols=44 Identities=9% Similarity=0.147 Sum_probs=29.9
Q ss_pred HHHHHHHhhhhcCc-----hhHHHHHHHHHHHHHhC--CCHHHHHHHcCCC
Q 044292 97 TLLDLLLAANYLNI-----KDLLELTCQATADVIKD--KSPEEVRRIFHIN 140 (160)
Q Consensus 97 ~l~~Ll~AA~~L~I-----~~L~~~~~~~ia~~i~~--kt~eeir~~f~i~ 140 (160)
...+|...+.-.++ +.-+-.+|-|+|.+..| +|..||.+..|+.
T Consensus 17 ~A~~i~~~~~~~~~~~Gr~~~~iaAA~iY~acr~~~~~~t~~eIa~~~~Vs 67 (71)
T PF00382_consen 17 RAKEIYKKAQERGLLKGRSPESIAAACIYLACRLNGVPRTLKEIAEAAGVS 67 (71)
T ss_dssp HHHHHHHHHHHTTTSTTS-HHHHHHHHHHHHHHHTTSSSSHHHHHHHCTSS
T ss_pred HHHHHHHHHHHcCCcccCCHHHHHHHHHHHHHHHcCCCcCHHHHHHHhCCC
Confidence 33444444443332 34556678889998887 6999999999985
No 95
>PF11094 UL11: Membrane-associated tegument protein; InterPro: IPR024351 The UL11 gene product of herpes simplex virus is a membrane-associated tegument protein that is incorporated into the HSV virion and functions in viral envelopment []. UL11 is acylated, which is crucial for lipid raft association [].
Probab=22.18 E-value=1.2e+02 Score=17.04 Aligned_cols=19 Identities=21% Similarity=0.368 Sum_probs=15.7
Q ss_pred ccEEEEcCCCCEEEecHHH
Q 044292 11 KMIILKSSDGETFEVEETV 29 (160)
Q Consensus 11 ~~i~l~s~DG~~~~v~~~~ 29 (160)
|.-+|.|.+|+.+.++...
T Consensus 14 R~N~LvT~~Ge~vsL~a~~ 32 (39)
T PF11094_consen 14 RRNVLVTHSGETVSLDAEE 32 (39)
T ss_pred ecCEEEccCCeEEEeChhh
Confidence 4568999999999998764
No 96
>COG2511 GatE Archaeal Glu-tRNAGln amidotransferase subunit E (contains GAD domain) [Translation, ribosomal structure and biogenesis]
Probab=21.88 E-value=6e+02 Score=22.99 Aligned_cols=81 Identities=14% Similarity=0.172 Sum_probs=50.6
Q ss_pred CCCHHHHHHHHHHHHhchhhhhhccCCCCCccchhhhhccCCHHHHHHHHHhhhhcCchhHHHHHHHHHHHHH--hCCCH
Q 044292 53 NVTGTILSMVVEYCKKHVEAAAAAAGGDNDVKNWDRDFVKVDQETLLDLLLAANYLNIKDLLELTCQATADVI--KDKSP 130 (160)
Q Consensus 53 ~i~~~~L~~Ii~~~~~h~~~~~~~~~~~~~~~~wd~~Fl~~~~~~l~~Ll~AA~~L~I~~L~~~~~~~ia~~i--~~kt~ 130 (160)
.+.+.+|..++.+++....+ + | +++.+.+.+++.+-.--.|.. +..-..+..+. -++++
T Consensus 497 ~~~A~~L~~~~~~L~reg~~----------i--~-----~l~~~~i~~~~~~~~~g~iak--e~iee~l~~l~~~p~~~~ 557 (631)
T COG2511 497 TLIASTLVNTLPELRREGVE----------I--D-----NLDDEHIEELLRLVSEGKIAK--EAIEEILKALAENPGKDA 557 (631)
T ss_pred HHHHHHHHHHHHHHHhcCCc----------c--c-----cCCHHHHHHHHHHHhcccchH--HHHHHHHHHHHhCCCCCH
Confidence 45567777777777643211 1 1 367777777777766666542 22223333333 47899
Q ss_pred HHHHHHcCCCCCCCHHHHHHHHH
Q 044292 131 EEVRRIFHINNDFTPQEEQEIRR 153 (160)
Q Consensus 131 eeir~~f~i~~d~t~eee~~~~~ 153 (160)
+++.+.+|+. -++.||.+++=.
T Consensus 558 ~e~~~~~gL~-~ls~eEve~iI~ 579 (631)
T COG2511 558 AEIAEKLGLK-ELSEEEVEKIID 579 (631)
T ss_pred HHHHHHhccc-cCCHHHHHHHHH
Confidence 9999999986 478887766533
No 97
>PF01843 DIL: DIL domain; InterPro: IPR018444 Dilute encodes a novel type of myosin heavy chain, with a tail, or C-terminal, region that has elements of both type II (alpha-helical coiled-coil) and type I (non-coiled-coil) myosin heavy chains. The DIL non alpha-helical domain is found in dilute myosin heavy chain proteins and other myosins. In mouse the dilute protein may play a role in the elaboration, maintenance, or function of cellular processes of melanocytes and neurons []. The MYO2 protein of Saccharomyces cerevisiae is implicated in vectorial vesicle transport and is homologous to the dilute protein over practically its entire length [].; PDB: 3MMI_B 2F6H_X.
Probab=21.70 E-value=30 Score=23.24 Aligned_cols=43 Identities=26% Similarity=0.433 Sum_probs=24.3
Q ss_pred HHHHHHHHHhhhhcCchh-HHHHHHHHHHHHHhCCCHHHHHHHcC
Q 044292 95 QETLLDLLLAANYLNIKD-LLELTCQATADVIKDKSPEEVRRIFH 138 (160)
Q Consensus 95 ~~~l~~Ll~AA~~L~I~~-L~~~~~~~ia~~i~~kt~eeir~~f~ 138 (160)
.+.+-.+..||+.|.++. ..+ --..+-...-.-|+.+|++.+.
T Consensus 54 ~~~l~~l~Qa~~lL~~~k~~~~-d~~~~~~~c~~Ln~~Qi~~iL~ 97 (105)
T PF01843_consen 54 EEHLQPLSQAANLLQLRKSTLQ-DWDSLRETCPSLNPAQIRKILS 97 (105)
T ss_dssp HHHCHHHHHHHHHCCC--SSHH-HHHHHCCCTTTS-HHHHHHHHC
T ss_pred HHHHHHHHHHHHHHHhcCcchh-HHHHHHHHcccCCHHHHHHHHH
Confidence 567778999999999942 222 2222222223457777777654
No 98
>PF02657 SufE: Fe-S metabolism associated domain; InterPro: IPR003808 This entry represents the core domain of SufE and related proteins. This domain of SufE shows strong structural similarity to IscU, and the sulfur-acceptor site in SufE coincides with the location of the cysteine residues mediating Fe-S cluster assembly in IscU. Thus, a conserved core structure is implicated in mediating the interactions of both SufE and IscU with the mutually homologous cysteine desulfurase enzymes present in their respective operons [].; PDB: 1MZG_B 1WLO_A 3G0M_A 1NI7_A.
Probab=21.69 E-value=2e+02 Score=20.22 Aligned_cols=33 Identities=15% Similarity=0.351 Sum_probs=22.6
Q ss_pred HHHHHHHHHHHHhCCCHHHHHH-------HcCCCCCCCHH
Q 044292 114 LELTCQATADVIKDKSPEEVRR-------IFHINNDFTPQ 146 (160)
Q Consensus 114 ~~~~~~~ia~~i~~kt~eeir~-------~f~i~~d~t~e 146 (160)
+.-....+...++|+|++||.. .+|+.+.+||-
T Consensus 69 vkGl~all~~~~~g~t~~eI~~~~~~fl~~lgl~~~Ls~s 108 (125)
T PF02657_consen 69 VKGLLALLLEVLNGQTPEEILAFDPDFLEQLGLSQHLSPS 108 (125)
T ss_dssp HHHHHHHHHHHTTT-BHHHHHHS-THHHHHHTSCCCSTHH
T ss_pred HHHHHHHHHHHHcCCCHHHHHhCCHHHHHHcCcccccCch
Confidence 3333444555669999999875 67888888885
No 99
>PF05443 ROS_MUCR: ROS/MUCR transcriptional regulator protein; InterPro: IPR008807 This family consists of several ROS/MUCR transcriptional regulator proteins. The ros chromosomal gene is present in octopine and nopaline strains of Agrobacterium tumefaciens as well as in Rhizobium meliloti (Sinorhizobium meliloti). This gene encodes a 15.5 kDa protein that specifically represses the virC and virD operons in the virulence region of the Ti plasmid [] and is necessary for succinoglycan production []. S. meliloti can produce two types of acidic exopolysaccharides, succinoglycan and galactoglucan, that are interchangeable for infection of Medicago sativa (Alfalfa) nodules. MucR from S. meliloti acts as a transcriptional repressor that blocks the expression of the exp genes responsible for galactoglucan production therefore allowing the exclusive production of succinoglycan [].; GO: 0003677 DNA binding, 0008270 zinc ion binding, 0006355 regulation of transcription, DNA-dependent; PDB: 2JSP_A.
Probab=21.40 E-value=45 Score=23.98 Aligned_cols=17 Identities=29% Similarity=0.587 Sum_probs=12.5
Q ss_pred CCCHHHHHHHcCCCCCC
Q 044292 127 DKSPEEVRRIFHINNDF 143 (160)
Q Consensus 127 ~kt~eeir~~f~i~~d~ 143 (160)
|.|++|=|+.||++.|+
T Consensus 94 gltp~eYR~kwGlp~dy 110 (132)
T PF05443_consen 94 GLTPEEYRAKWGLPKDY 110 (132)
T ss_dssp -S-HHHHHHHTT-GGG-
T ss_pred CCCHHHHHHHhCcCCCC
Confidence 89999999999999884
No 100
>PF15063 TC1: Thyroid cancer protein 1
Probab=21.28 E-value=1e+02 Score=20.07 Aligned_cols=36 Identities=17% Similarity=0.309 Sum_probs=17.6
Q ss_pred HHHHhhhhcCchhHHHHHHHHHHHHHhCCCHHHHHHHcCCCCC
Q 044292 100 DLLLAANYLNIKDLLELTCQATADVIKDKSPEEVRRIFHINND 142 (160)
Q Consensus 100 ~Ll~AA~~L~I~~L~~~~~~~ia~~i~~kt~eeir~~f~i~~d 142 (160)
.+..-.|...+..|+..+...- ..+..|-+|++..|
T Consensus 32 NIFe~vn~~qlqrLF~~sGD~k-------AEeRA~iI~~~~~d 67 (79)
T PF15063_consen 32 NIFENVNLDQLQRLFQKSGDKK-------AEERARIIWECAQD 67 (79)
T ss_pred hhhhccCHHHHHHHHHHccchh-------HHHHHHHHHhhCCC
Confidence 4444555555555555544332 23444555665543
No 101
>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length. Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.
Probab=21.17 E-value=1.6e+02 Score=25.97 Aligned_cols=78 Identities=14% Similarity=0.174 Sum_probs=53.5
Q ss_pred HHHHHHHHHHHHhchhhhhhccCCCCCccchhhhhccCCHHHHHHHHHhhhhcCchhHHHHHHHHH----HHHHhCCCHH
Q 044292 56 GTILSMVVEYCKKHVEAAAAAAGGDNDVKNWDRDFVKVDQETLLDLLLAANYLNIKDLLELTCQAT----ADVIKDKSPE 131 (160)
Q Consensus 56 ~~~L~~Ii~~~~~h~~~~~~~~~~~~~~~~wd~~Fl~~~~~~l~~Ll~AA~~L~I~~L~~~~~~~i----a~~i~~kt~e 131 (160)
..-++.+-.| ++|.-+|. ....+.+-+.+|++ +.+.+..+.++=.++.|.+|.+-..... ...++.-.++
T Consensus 242 ~~~mq~l~~W-e~~yv~p~----~~LVi~~L~~~f~~-~~e~~~~~ce~ia~~~i~~Lke~li~~F~~~Ls~~Vk~~~T~ 315 (549)
T PF07079_consen 242 PPLMQILENW-ENFYVHPN----YDLVIEPLKQQFMS-DPEQVGHFCEAIASSKIEKLKEELIDRFGNLLSFKVKQVQTE 315 (549)
T ss_pred cHHHHHHHHH-HhhccCCc----hhHHHHHHHHHHhc-ChHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHhHH
Confidence 3567777788 77665553 45566778899987 8888999999988888988876665443 4444444555
Q ss_pred HHHHHcCC
Q 044292 132 EVRRIFHI 139 (160)
Q Consensus 132 eir~~f~i 139 (160)
+..+++++
T Consensus 316 ~a~q~l~l 323 (549)
T PF07079_consen 316 EAKQYLAL 323 (549)
T ss_pred HHHHHHHH
Confidence 56665553
No 102
>PF03883 DUF328: Protein of unknown function (DUF328); InterPro: IPR005583 The members of this family are functionally uncharacterised. They are about 250 amino acids in length.
Probab=21.08 E-value=98 Score=24.29 Aligned_cols=29 Identities=17% Similarity=0.424 Sum_probs=18.2
Q ss_pred HHHHHHHHHhCCCHHHHHHHcCCCCCCCH
Q 044292 117 TCQATADVIKDKSPEEVRRIFHINNDFTP 145 (160)
Q Consensus 117 ~~~~ia~~i~~kt~eeir~~f~i~~d~t~ 145 (160)
..+.++..++..+.+|+++.|++...+..
T Consensus 30 ~~~~l~~~L~~~s~~el~~l~~is~~la~ 58 (237)
T PF03883_consen 30 KTEELLEALKSLSEEELKKLMKISDKLAE 58 (237)
T ss_pred HHHHHHHHHHhcCHHHHHHHHCCCHHHHH
Confidence 34555666677777777777777654433
No 103
>smart00760 Bac_DnaA_C Bacterial dnaA protein helix-turn-helix domain. Could be involved in DNA-binding.
Probab=20.88 E-value=1.8e+02 Score=17.34 Aligned_cols=25 Identities=24% Similarity=0.173 Sum_probs=20.3
Q ss_pred HHHHHHHHHHHhCCCHHHHHHHcCC
Q 044292 115 ELTCQATADVIKDKSPEEVRRIFHI 139 (160)
Q Consensus 115 ~~~~~~ia~~i~~kt~eeir~~f~i 139 (160)
...+.|++....|.|..+|-+.||-
T Consensus 33 R~iamyla~~~~~~sl~~Ig~~fg~ 57 (60)
T smart00760 33 RQIAMYLARELTDLSLPEIGKIFGG 57 (60)
T ss_pred HHHHHHHHHHHHCCCHHHHHHHhCC
Confidence 4455688888889999999999984
No 104
>PF08299 Bac_DnaA_C: Bacterial dnaA protein helix-turn-helix; InterPro: IPR013159 This entry represents the C-terminal domain of bacterial DnaA proteins [, , ] that play an important role in initiating and regulating chromosomal replication. DnaA is an ATP- and DNA-binding protein. It binds specifically to 9 bp nucleotide repeats known as dnaA boxes which are found in the chromosome origin of replication (oriC). DnaA is a protein of about 50 kDa that contains two conserved regions: the first is located in the N-terminal half and corresponds to the ATP-binding domain, the second is located in the C-terminal half and could be involved in DNA-binding. The protein may also bind the RNA polymerase beta subunit, the dnaB and dnaZ proteins, and the groE gene products (chaperonins) [].; GO: 0005524 ATP binding, 0043565 sequence-specific DNA binding, 0006270 DNA-dependent DNA replication initiation, 0006275 regulation of DNA replication; PDB: 2HCB_B 3R8F_C 1L8Q_A 3PVP_B 3PVV_A 1J1V_A.
Probab=20.76 E-value=1.5e+02 Score=18.39 Aligned_cols=26 Identities=19% Similarity=0.093 Sum_probs=17.6
Q ss_pred HHHHHHHHHHHhCCCHHHHHHHcCCC
Q 044292 115 ELTCQATADVIKDKSPEEVRRIFHIN 140 (160)
Q Consensus 115 ~~~~~~ia~~i~~kt~eeir~~f~i~ 140 (160)
...+-|++....|.|..+|-++||--
T Consensus 33 R~va~yL~r~~~~~sl~~Ig~~fg~r 58 (70)
T PF08299_consen 33 RQVAMYLARELTGLSLSEIGRYFGGR 58 (70)
T ss_dssp HHHHHHHHHHHS---HHHHHHHCTSS
T ss_pred HHHHHHHHHHHhCCCHHHHHHHhCCC
Confidence 34456788888899999999999843
No 105
>cd02138 Nitroreductase_2 Nitroreductase-like family 2. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and nitroimidazoles. This process requires NAD(P)H as electron donor in an obligatory two-electron transfer and uses FMN as cofactor. The enzyme is typically a homodimer. Members of this family are also called NADH dehydrogenase, oxygen-insensitive NAD(P)H nitrogenase or dihydropteridine reductase.
Probab=20.43 E-value=97 Score=22.71 Aligned_cols=37 Identities=16% Similarity=0.266 Sum_probs=27.2
Q ss_pred HHHHHHHhhhhcCchhHHHHHHHHHHHHHhCCCHHHHHHHcCCCCCC
Q 044292 97 TLLDLLLAANYLNIKDLLELTCQATADVIKDKSPEEVRRIFHINNDF 143 (160)
Q Consensus 97 ~l~~Ll~AA~~L~I~~L~~~~~~~ia~~i~~kt~eeir~~f~i~~d~ 143 (160)
.+..++.||.-||+... ++.|.+..++++.||++++.
T Consensus 107 a~~nl~Laa~~lGlgt~----------~~~~~~~~~l~~~l~l~~~~ 143 (181)
T cd02138 107 AWGNLALQATAMGLAAH----------QMGGFDADKAREELNIPEDY 143 (181)
T ss_pred HHHHHHHHHHHcCcccc----------eecCcCHHHHHHHhCCCCCc
Confidence 45678888888887642 33356778999999999764
No 106
>cd03370 NADH_oxidase NADPH_oxidase. Nitroreductase family containing NADH oxidase and other, uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and nitroimidazoles. This process requires NAD(P)H as electron donor in an obligatory two-electron transfer and uses FMN as cofactor. The enzyme is typically a homodimer. Members of this family are also called NADH dehydrogenase, oxygen-insensitive NAD(P)H nitrogenase or dihydropteridine reductase.
Probab=20.29 E-value=79 Score=22.55 Aligned_cols=18 Identities=11% Similarity=0.205 Sum_probs=14.4
Q ss_pred HHhCCCHHHHHHHcCCCC
Q 044292 124 VIKDKSPEEVRRIFHINN 141 (160)
Q Consensus 124 ~i~~kt~eeir~~f~i~~ 141 (160)
++.|...+.+++.||++.
T Consensus 111 ~i~~~~~~~v~~~l~l~~ 128 (156)
T cd03370 111 PMTGFDEEKVKEALGLPG 128 (156)
T ss_pred cCcCcCHHHHHHHhCcCC
Confidence 445667889999999986
Done!