Query 044362
Match_columns 116
No_of_seqs 198 out of 1198
Neff 8.2
Searched_HMMs 46136
Date Fri Mar 29 02:37:25 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/044362.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/044362hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2462 C2H2-type Zn-finger pr 99.3 1.5E-12 3.3E-17 94.7 1.7 50 1-51 195-244 (279)
2 PF13465 zf-H2C2_2: Zinc-finge 98.9 2E-10 4.4E-15 55.8 0.7 26 8-33 1-26 (26)
3 KOG1074 Transcriptional repres 98.8 2.2E-09 4.8E-14 87.7 1.8 71 3-77 615-688 (958)
4 KOG1074 Transcriptional repres 98.6 7.8E-09 1.7E-13 84.6 1.2 51 1-52 887-937 (958)
5 KOG2462 C2H2-type Zn-finger pr 98.6 7.5E-09 1.6E-13 75.6 0.3 43 1-43 223-265 (279)
6 KOG3576 Ovo and related transc 98.6 2.2E-08 4.7E-13 70.8 1.9 51 1-51 153-203 (267)
7 KOG3623 Homeobox transcription 98.5 1.8E-08 3.8E-13 81.8 0.6 43 1-43 289-331 (1007)
8 KOG3623 Homeobox transcription 98.4 6.4E-08 1.4E-12 78.6 0.3 52 1-53 902-953 (1007)
9 KOG3576 Ovo and related transc 98.1 9.9E-08 2.1E-12 67.5 -3.6 65 1-73 125-189 (267)
10 PHA02768 hypothetical protein; 98.0 1.1E-06 2.4E-11 49.8 0.3 25 21-46 5-29 (55)
11 PHA00616 hypothetical protein 97.9 4.7E-06 1E-10 45.1 1.2 29 21-50 1-29 (44)
12 PHA02768 hypothetical protein; 97.8 1.3E-05 2.7E-10 45.5 1.4 36 1-38 13-48 (55)
13 PF00096 zf-C2H2: Zinc finger, 97.6 2.3E-05 5E-10 36.3 1.0 22 22-43 1-22 (23)
14 KOG3608 Zn finger proteins [Ge 97.5 5.3E-05 1.2E-09 57.6 2.4 42 2-43 188-229 (467)
15 PHA00733 hypothetical protein 97.5 7.4E-05 1.6E-09 49.4 2.4 52 7-69 60-111 (128)
16 PF13912 zf-C2H2_6: C2H2-type 97.4 9.4E-05 2E-09 35.5 1.3 25 21-46 1-25 (27)
17 PF13894 zf-C2H2_4: C2H2-type 97.3 0.00012 2.6E-09 33.7 1.4 22 22-43 1-22 (24)
18 PHA00733 hypothetical protein 97.2 0.00039 8.4E-09 46.0 2.9 44 1-47 81-124 (128)
19 PF09237 GAGA: GAGA factor; I 96.7 0.0015 3.3E-08 36.4 2.5 31 16-47 19-49 (54)
20 smart00355 ZnF_C2H2 zinc finge 96.7 0.001 2.3E-08 30.7 1.4 24 22-46 1-24 (26)
21 KOG3608 Zn finger proteins [Ge 96.4 0.0021 4.5E-08 49.2 2.0 42 4-46 274-316 (467)
22 PHA00732 hypothetical protein 96.1 0.0034 7.3E-08 38.2 1.5 22 21-42 1-22 (79)
23 PHA00732 hypothetical protein 96.0 0.0034 7.3E-08 38.2 1.4 37 1-43 9-46 (79)
24 PF12874 zf-met: Zinc-finger o 95.6 0.0056 1.2E-07 28.6 0.8 22 22-43 1-22 (25)
25 KOG3993 Transcription factor ( 95.5 0.0068 1.5E-07 47.3 1.4 48 1-49 303-383 (500)
26 PHA00616 hypothetical protein 95.2 0.0036 7.8E-08 33.9 -0.6 26 1-26 9-34 (44)
27 PF12171 zf-C2H2_jaz: Zinc-fin 94.6 0.01 2.3E-07 28.4 0.2 22 22-43 2-23 (27)
28 smart00451 ZnF_U1 U1-like zinc 93.3 0.05 1.1E-06 27.2 1.2 23 21-43 3-25 (35)
29 COG5048 FOG: Zn-finger [Genera 93.2 0.045 9.8E-07 41.1 1.4 49 2-51 298-352 (467)
30 PF13913 zf-C2HC_2: zinc-finge 93.1 0.054 1.2E-06 25.6 1.1 21 22-43 3-23 (25)
31 PF13909 zf-H2C2_5: C2H2-type 93.0 0.046 1E-06 25.2 0.8 21 22-43 1-21 (24)
32 PLN03086 PRLI-interacting fact 92.9 0.068 1.5E-06 43.4 2.1 50 6-67 465-514 (567)
33 COG5189 SFP1 Putative transcri 92.9 0.039 8.5E-07 41.9 0.6 51 18-68 346-409 (423)
34 PLN03086 PRLI-interacting fact 92.7 0.083 1.8E-06 43.0 2.3 39 5-43 488-536 (567)
35 KOG3993 Transcription factor ( 92.2 0.061 1.3E-06 42.2 0.9 43 3-46 277-319 (500)
36 PF05605 zf-Di19: Drought indu 91.3 0.18 3.8E-06 28.1 2.0 36 6-43 14-51 (54)
37 COG5189 SFP1 Putative transcri 91.0 0.093 2E-06 39.9 0.8 24 19-42 396-419 (423)
38 PF05605 zf-Di19: Drought indu 90.0 0.23 4.9E-06 27.6 1.6 37 21-64 2-38 (54)
39 PF12756 zf-C2H2_2: C2H2 type 88.9 0.32 6.9E-06 29.5 1.9 23 21-43 50-72 (100)
40 COG4049 Uncharacterized protei 87.2 0.34 7.4E-06 27.5 1.1 31 13-43 9-39 (65)
41 PRK04860 hypothetical protein; 79.8 1.1 2.3E-05 30.8 1.4 35 21-67 119-153 (160)
42 PF05443 ROS_MUCR: ROS/MUCR tr 73.9 2.3 4.9E-05 28.3 1.6 28 21-52 72-99 (132)
43 PF02892 zf-BED: BED zinc fing 60.9 7.3 0.00016 20.3 1.7 25 18-42 13-41 (45)
44 smart00734 ZnF_Rad18 Rad18-lik 60.7 5.3 0.00012 18.8 1.0 20 22-42 2-21 (26)
45 COG4957 Predicted transcriptio 60.5 6.9 0.00015 26.3 1.8 27 22-52 77-103 (148)
46 cd00924 Cyt_c_Oxidase_Vb Cytoc 57.6 3.8 8.2E-05 25.8 0.2 21 12-33 71-91 (97)
47 smart00614 ZnF_BED BED zinc fi 56.9 7.4 0.00016 21.0 1.3 21 22-42 19-44 (50)
48 PLN02294 cytochrome c oxidase 54.7 5.7 0.00012 27.6 0.7 23 11-34 132-154 (174)
49 KOG3408 U1-like Zn-finger-cont 53.2 8.1 0.00018 25.4 1.2 27 17-43 53-79 (129)
50 PF15269 zf-C2H2_7: Zinc-finge 52.8 7.8 0.00017 21.0 0.9 25 19-43 16-42 (54)
51 PF08790 zf-LYAR: LYAR-type C2 51.7 5 0.00011 19.5 0.0 18 22-40 1-18 (28)
52 KOG4167 Predicted DNA-binding 51.6 3.8 8.3E-05 34.6 -0.6 26 21-47 792-817 (907)
53 PF07754 DUF1610: Domain of un 50.3 7.6 0.00016 18.1 0.5 10 20-29 15-24 (24)
54 smart00834 CxxC_CXXC_SSSS Puta 48.2 8.2 0.00018 19.5 0.5 14 21-34 5-18 (41)
55 COG5048 FOG: Zn-finger [Genera 46.9 14 0.0003 27.6 1.8 44 3-47 43-88 (467)
56 KOG2893 Zn finger protein [Gen 46.2 7.5 0.00016 28.7 0.3 34 3-40 20-53 (341)
57 PF10013 DUF2256: Uncharacteri 46.2 12 0.00025 20.0 0.9 15 23-37 10-24 (42)
58 PF12013 DUF3505: Protein of u 45.9 14 0.0003 23.2 1.4 22 22-43 81-106 (109)
59 PF10571 UPF0547: Uncharacteri 45.8 9.1 0.0002 18.1 0.4 11 22-32 15-25 (26)
60 KOG2482 Predicted C2H2-type Zn 44.9 12 0.00025 29.1 1.1 23 21-43 195-217 (423)
61 smart00154 ZnF_AN1 AN1-like Zi 44.1 11 0.00025 19.4 0.7 14 21-34 12-25 (39)
62 PF09723 Zn-ribbon_8: Zinc rib 43.9 10 0.00022 19.8 0.5 16 22-37 6-21 (42)
63 PF04959 ARS2: Arsenite-resist 43.9 15 0.00033 26.4 1.6 27 17-43 73-99 (214)
64 PHA00626 hypothetical protein 42.5 13 0.00028 21.1 0.8 16 19-34 21-36 (59)
65 PF01428 zf-AN1: AN1-like Zinc 42.3 10 0.00022 19.9 0.3 15 20-34 12-26 (43)
66 KOG4215 Hepatocyte nuclear fac 41.6 5.8 0.00013 31.0 -0.9 42 22-64 37-78 (432)
67 KOG2186 Cell growth-regulating 41.4 16 0.00035 27.1 1.3 35 6-42 15-49 (276)
68 PF04423 Rad50_zn_hook: Rad50 39.0 12 0.00026 20.5 0.3 11 23-33 22-32 (54)
69 PF09845 DUF2072: Zn-ribbon co 39.0 14 0.0003 24.6 0.6 15 21-35 1-15 (131)
70 TIGR02605 CxxC_CxxC_SSSS putat 37.4 15 0.00032 19.8 0.5 13 22-34 6-18 (52)
71 PF09986 DUF2225: Uncharacteri 37.3 15 0.00032 26.2 0.7 24 19-42 3-26 (214)
72 PF01927 Mut7-C: Mut7-C RNAse 35.2 26 0.00056 23.4 1.5 21 20-40 123-143 (147)
73 KOG1146 Homeobox protein [Gene 35.0 21 0.00045 32.3 1.3 25 19-43 516-540 (1406)
74 PF09538 FYDLN_acid: Protein o 34.6 20 0.00043 23.0 0.8 18 17-34 22-39 (108)
75 KOG2893 Zn finger protein [Gen 34.2 13 0.00028 27.5 -0.1 37 19-68 9-45 (341)
76 PF04780 DUF629: Protein of un 34.1 26 0.00056 28.2 1.5 33 19-51 55-87 (466)
77 PF13451 zf-trcl: Probable zin 32.8 20 0.00044 19.7 0.6 20 19-38 2-21 (49)
78 PF10276 zf-CHCC: Zinc-finger 32.4 23 0.00051 18.5 0.8 12 20-31 28-39 (40)
79 PF14353 CpXC: CpXC protein 31.7 12 0.00027 24.1 -0.5 23 21-43 38-60 (128)
80 PF01215 COX5B: Cytochrome c o 29.9 20 0.00043 24.0 0.3 21 13-34 105-125 (136)
81 COG3364 Zn-ribbon containing p 28.7 29 0.00063 22.2 0.9 16 21-36 2-17 (112)
82 PF12230 PRP21_like_P: Pre-mRN 24.9 24 0.00053 25.2 0.0 41 19-61 166-206 (229)
83 PRK00464 nrdR transcriptional 24.7 31 0.00068 23.5 0.5 17 21-37 28-44 (154)
84 COG4338 Uncharacterized protei 24.1 17 0.00038 20.0 -0.7 16 23-38 14-29 (54)
85 KOG2071 mRNA cleavage and poly 23.1 46 0.00099 27.6 1.2 27 20-47 417-443 (579)
86 cd00729 rubredoxin_SM Rubredox 22.9 39 0.00086 16.8 0.6 12 21-32 2-13 (34)
87 KOG1842 FYVE finger-containing 22.8 55 0.0012 26.4 1.6 34 16-49 8-43 (505)
88 COG2888 Predicted Zn-ribbon RN 22.6 43 0.00094 19.2 0.7 10 19-28 48-57 (61)
89 cd00350 rubredoxin_like Rubred 22.5 40 0.00087 16.5 0.5 12 22-33 2-13 (33)
90 PF14787 zf-CCHC_5: GAG-polypr 22.1 41 0.00089 17.3 0.5 17 22-38 3-19 (36)
91 PF06397 Desulfoferrod_N: Desu 21.7 41 0.00088 17.2 0.5 11 21-31 6-16 (36)
92 PF01286 XPA_N: XPA protein N- 21.6 29 0.00063 17.5 -0.1 16 22-37 4-19 (34)
93 PRK00398 rpoP DNA-directed RNA 21.5 45 0.00097 17.5 0.6 14 21-34 3-16 (46)
94 KOG0717 Molecular chaperone (D 21.2 49 0.0011 26.7 1.1 22 22-43 293-314 (508)
95 TIGR02098 MJ0042_CXXC MJ0042 f 20.9 44 0.00095 16.6 0.5 15 22-36 3-17 (38)
96 COG3677 Transposase and inacti 20.7 43 0.00094 22.0 0.6 17 18-34 50-66 (129)
No 1
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=99.26 E-value=1.5e-12 Score=94.68 Aligned_cols=50 Identities=26% Similarity=0.495 Sum_probs=44.3
Q ss_pred CCcCCchhhhhhccccCCCcceeccccchhccCchhhHHHhHhccCCCCCh
Q 044362 1 KKKKAKYDGRTHSLPHKKNGPYTCPKCNQAFAKSQIYAAHVSSGHYKFETP 51 (116)
Q Consensus 1 k~~~~ks~L~~H~r~Htgekp~~C~~C~k~F~~~~~l~~H~~~~h~~~~~~ 51 (116)
|.|.-.=-|..|+|+|||||||.|+.|+++|...+||+.|+.+ |.+.+.+
T Consensus 195 KaFSRPWLLQGHiRTHTGEKPF~C~hC~kAFADRSNLRAHmQT-HS~~K~~ 244 (279)
T KOG2462|consen 195 KAFSRPWLLQGHIRTHTGEKPFSCPHCGKAFADRSNLRAHMQT-HSDVKKH 244 (279)
T ss_pred ccccchHHhhcccccccCCCCccCCcccchhcchHHHHHHHHh-hcCCccc
Confidence 4555555689999999999999999999999999999999999 9998754
No 2
>PF13465 zf-H2C2_2: Zinc-finger double domain; PDB: 2EN7_A 1TF6_A 1TF3_A 2ELT_A 2EOS_A 2EN2_A 2DMD_A 2WBS_A 2WBU_A 2EM5_A ....
Probab=98.94 E-value=2e-10 Score=55.82 Aligned_cols=26 Identities=35% Similarity=0.839 Sum_probs=23.9
Q ss_pred hhhhhccccCCCcceeccccchhccC
Q 044362 8 DGRTHSLPHKKNGPYTCPKCNQAFAK 33 (116)
Q Consensus 8 ~L~~H~r~Htgekp~~C~~C~k~F~~ 33 (116)
+|..|+++|+|++||.|+.|++.|..
T Consensus 1 ~l~~H~~~H~~~k~~~C~~C~k~F~~ 26 (26)
T PF13465_consen 1 NLRRHMRTHTGEKPYKCPYCGKSFSN 26 (26)
T ss_dssp HHHHHHHHHSSSSSEEESSSSEEESS
T ss_pred CHHHHhhhcCCCCCCCCCCCcCeeCc
Confidence 58899999999999999999999863
No 3
>KOG1074 consensus Transcriptional repressor SALM [Transcription]
Probab=98.78 E-value=2.2e-09 Score=87.71 Aligned_cols=71 Identities=17% Similarity=0.276 Sum_probs=54.4
Q ss_pred cCCchhhhhhccccCCCcceeccccchhccCchhhHHHhHhccCCCCChhHHHHHHHhh---cCCCCCCCceecCCCc
Q 044362 3 KKAKYDGRTHSLPHKKNGPYTCPKCNQAFAKSQIYAAHVSSGHYKFETPEQRAERLAAR---YPKRNTLQPVDTSEGL 77 (116)
Q Consensus 3 ~~~ks~L~~H~r~Htgekp~~C~~C~k~F~~~~~l~~H~~~~h~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~ 77 (116)
-.+.+.|.-|.|+||||+||+|.+||++|..+.+|+.|+-+ |....... -.+.|. ++.+.+...+.+..++
T Consensus 615 lSC~saLqmHyrtHtGERPFkCKiCgRAFtTkGNLkaH~~v-Hka~p~~R---~q~ScP~~~ic~~kftn~V~lpQhI 688 (958)
T KOG1074|consen 615 LSCPSALQMHYRTHTGERPFKCKICGRAFTTKGNLKAHMSV-HKAKPPAR---VQFSCPSTFICQKKFTNAVTLPQHI 688 (958)
T ss_pred ccchhhhhhhhhcccCcCccccccccchhccccchhhcccc-cccCcccc---ccccCCchhhhcccccccccccceE
Confidence 45678999999999999999999999999999999999998 76544332 234455 6666666655554444
No 4
>KOG1074 consensus Transcriptional repressor SALM [Transcription]
Probab=98.65 E-value=7.8e-09 Score=84.61 Aligned_cols=51 Identities=22% Similarity=0.394 Sum_probs=47.6
Q ss_pred CCcCCchhhhhhccccCCCcceeccccchhccCchhhHHHhHhccCCCCChh
Q 044362 1 KKKKAKYDGRTHSLPHKKNGPYTCPKCNQAFAKSQIYAAHVSSGHYKFETPE 52 (116)
Q Consensus 1 k~~~~ks~L~~H~r~Htgekp~~C~~C~k~F~~~~~l~~H~~~~h~~~~~~~ 52 (116)
+.|...+.|..|+++|+|+|||.|.+|++.|....+|+.||.+ |+|..++.
T Consensus 887 k~FsSSsALqiH~rTHtg~KPF~C~fC~~aFttrgnLKvHMgt-H~w~q~~s 937 (958)
T KOG1074|consen 887 KQFSSSAALEIHMRTHTGPKPFFCHFCEEAFTTRGNLKVHMGT-HMWVQPPS 937 (958)
T ss_pred hcccchHHHHHhhhcCCCCCCccchhhhhhhhhhhhhhhhhcc-ccccCCCc
Confidence 4688899999999999999999999999999999999999999 99988773
No 5
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=98.62 E-value=7.5e-09 Score=75.56 Aligned_cols=43 Identities=26% Similarity=0.437 Sum_probs=41.4
Q ss_pred CCcCCchhhhhhccccCCCcceeccccchhccCchhhHHHhHh
Q 044362 1 KKKKAKYDGRTHSLPHKKNGPYTCPKCNQAFAKSQIYAAHVSS 43 (116)
Q Consensus 1 k~~~~ks~L~~H~r~Htgekp~~C~~C~k~F~~~~~l~~H~~~ 43 (116)
|+|.+.++|+.|+.+|++.|+|.|..|+|+|+..+.|.+|...
T Consensus 223 kAFADRSNLRAHmQTHS~~K~~qC~~C~KsFsl~SyLnKH~ES 265 (279)
T KOG2462|consen 223 KAFADRSNLRAHMQTHSDVKKHQCPRCGKSFALKSYLNKHSES 265 (279)
T ss_pred chhcchHHHHHHHHhhcCCccccCcchhhHHHHHHHHHHhhhh
Confidence 6899999999999999999999999999999999999999875
No 6
>KOG3576 consensus Ovo and related transcription factors [Transcription]
Probab=98.58 E-value=2.2e-08 Score=70.76 Aligned_cols=51 Identities=24% Similarity=0.404 Sum_probs=43.6
Q ss_pred CCcCCchhhhhhccccCCCcceeccccchhccCchhhHHHhHhccCCCCCh
Q 044362 1 KKKKAKYDGRTHSLPHKKNGPYTCPKCNQAFAKSQIYAAHVSSGHYKFETP 51 (116)
Q Consensus 1 k~~~~ks~L~~H~r~Htgekp~~C~~C~k~F~~~~~l~~H~~~~h~~~~~~ 51 (116)
|-|.+-.+|.+|+|+|||.+||.|..|+++|.+...|..|++.+|.....+
T Consensus 153 kgfndtfdlkrh~rthtgvrpykc~~c~kaftqrcsleshl~kvhgv~~~y 203 (267)
T KOG3576|consen 153 KGFNDTFDLKRHTRTHTGVRPYKCSLCEKAFTQRCSLESHLKKVHGVQHQY 203 (267)
T ss_pred CcccchhhhhhhhccccCccccchhhhhHHHHhhccHHHHHHHHcCchHHH
Confidence 457888899999999999999999999999999999999988536554433
No 7
>KOG3623 consensus Homeobox transcription factor SIP1 [Transcription]
Probab=98.54 E-value=1.8e-08 Score=81.78 Aligned_cols=43 Identities=35% Similarity=0.618 Sum_probs=40.5
Q ss_pred CCcCCchhhhhhccccCCCcceeccccchhccCchhhHHHhHh
Q 044362 1 KKKKAKYDGRTHSLPHKKNGPYTCPKCNQAFAKSQIYAAHVSS 43 (116)
Q Consensus 1 k~~~~ks~L~~H~r~Htgekp~~C~~C~k~F~~~~~l~~H~~~ 43 (116)
|+|+.+-.|+.|+|+|.|||||+|+.|+++|+.++.+..||-.
T Consensus 289 KAFKfKHHLKEHlRIHSGEKPfeCpnCkKRFSHSGSySSHmSS 331 (1007)
T KOG3623|consen 289 KAFKFKHHLKEHLRIHSGEKPFECPNCKKRFSHSGSYSSHMSS 331 (1007)
T ss_pred hhhhhHHHHHhhheeecCCCCcCCcccccccccCCcccccccc
Confidence 6899999999999999999999999999999999999998864
No 8
>KOG3623 consensus Homeobox transcription factor SIP1 [Transcription]
Probab=98.40 E-value=6.4e-08 Score=78.63 Aligned_cols=52 Identities=21% Similarity=0.316 Sum_probs=44.5
Q ss_pred CCcCCchhhhhhccccCCCcceeccccchhccCchhhHHHhHhccCCCCChhH
Q 044362 1 KKKKAKYDGRTHSLPHKKNGPYTCPKCNQAFAKSQIYAAHVSSGHYKFETPEQ 53 (116)
Q Consensus 1 k~~~~ks~L~~H~r~Htgekp~~C~~C~k~F~~~~~l~~H~~~~h~~~~~~~~ 53 (116)
|.|...++|.+|..-|+|.+||.|.+|.++|..+.+|..|+|. |.|.+++.+
T Consensus 902 K~FqKqSSLaRHKYEHsGqRPyqC~iCkKAFKHKHHLtEHkRL-HSGEKPfQC 953 (1007)
T KOG3623|consen 902 KAFQKQSSLARHKYEHSGQRPYQCIICKKAFKHKHHLTEHKRL-HSGEKPFQC 953 (1007)
T ss_pred HHHHhhHHHHHhhhhhcCCCCcccchhhHhhhhhhhhhhhhhh-ccCCCcchh
Confidence 4577778899999899999999999999999999999999999 998877654
No 9
>KOG3576 consensus Ovo and related transcription factors [Transcription]
Probab=98.12 E-value=9.9e-08 Score=67.46 Aligned_cols=65 Identities=15% Similarity=0.105 Sum_probs=52.2
Q ss_pred CCcCCchhhhhhccccCCCcceeccccchhccCchhhHHHhHhccCCCCChhHHHHHHHhhcCCCCCCCceec
Q 044362 1 KKKKAKYDGRTHSLPHKKNGPYTCPKCNQAFAKSQIYAAHVSSGHYKFETPEQRAERLAARYPKRNTLQPVDT 73 (116)
Q Consensus 1 k~~~~ks~L~~H~r~Htgekp~~C~~C~k~F~~~~~l~~H~~~~h~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 73 (116)
|.|.-.-.|.+|+..|...+.|.|..||+.|.....|++|+++ |+|..++ +|..|.+.+.+...+
T Consensus 125 K~F~lQRmlnrh~kch~~vkr~lct~cgkgfndtfdlkrh~rt-htgvrpy-------kc~~c~kaftqrcsl 189 (267)
T KOG3576|consen 125 KKFGLQRMLNRHLKCHSDVKRHLCTFCGKGFNDTFDLKRHTRT-HTGVRPY-------KCSLCEKAFTQRCSL 189 (267)
T ss_pred hhhhHHHHHHHHhhhccHHHHHHHhhccCcccchhhhhhhhcc-ccCcccc-------chhhhhHHHHhhccH
Confidence 4566667789999999999999999999999999999999999 9999875 444444444444333
No 10
>PHA02768 hypothetical protein; Provisional
Probab=98.04 E-value=1.1e-06 Score=49.78 Aligned_cols=25 Identities=28% Similarity=0.731 Sum_probs=22.3
Q ss_pred ceeccccchhccCchhhHHHhHhccC
Q 044362 21 PYTCPKCNQAFAKSQIYAAHVSSGHY 46 (116)
Q Consensus 21 p~~C~~C~k~F~~~~~l~~H~~~~h~ 46 (116)
-|.|+.||+.|...++|..|+++ |+
T Consensus 5 ~y~C~~CGK~Fs~~~~L~~H~r~-H~ 29 (55)
T PHA02768 5 GYECPICGEIYIKRKSMITHLRK-HN 29 (55)
T ss_pred ccCcchhCCeeccHHHHHHHHHh-cC
Confidence 37899999999999999999999 77
No 11
>PHA00616 hypothetical protein
Probab=97.90 E-value=4.7e-06 Score=45.11 Aligned_cols=29 Identities=28% Similarity=0.453 Sum_probs=26.3
Q ss_pred ceeccccchhccCchhhHHHhHhccCCCCC
Q 044362 21 PYTCPKCNQAFAKSQIYAAHVSSGHYKFET 50 (116)
Q Consensus 21 p~~C~~C~k~F~~~~~l~~H~~~~h~~~~~ 50 (116)
||.|+.||+.|.....|..|++. |+|.+.
T Consensus 1 pYqC~~CG~~F~~~s~l~~H~r~-~hg~~~ 29 (44)
T PHA00616 1 MYQCLRCGGIFRKKKEVIEHLLS-VHKQNK 29 (44)
T ss_pred CCccchhhHHHhhHHHHHHHHHH-hcCCCc
Confidence 79999999999999999999999 887644
No 12
>PHA02768 hypothetical protein; Provisional
Probab=97.76 E-value=1.3e-05 Score=45.49 Aligned_cols=36 Identities=14% Similarity=0.135 Sum_probs=32.3
Q ss_pred CCcCCchhhhhhccccCCCcceeccccchhccCchhhH
Q 044362 1 KKKKAKYDGRTHSLPHKKNGPYTCPKCNQAFAKSQIYA 38 (116)
Q Consensus 1 k~~~~ks~L~~H~r~Htgekp~~C~~C~k~F~~~~~l~ 38 (116)
|.|...++|..|+++|+ +||.|..|++.|...+.|.
T Consensus 13 K~Fs~~~~L~~H~r~H~--k~~kc~~C~k~f~~~s~l~ 48 (55)
T PHA02768 13 EIYIKRKSMITHLRKHN--TNLKLSNCKRISLRTGEYI 48 (55)
T ss_pred CeeccHHHHHHHHHhcC--CcccCCcccceecccceeE
Confidence 56889999999999999 7999999999999887764
No 13
>PF00096 zf-C2H2: Zinc finger, C2H2 type; InterPro: IPR007087 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C2H2 zinc finger is the classical zinc finger domain. The two conserved cysteines and histidines co-ordinate a zinc ion. The following pattern describes the zinc finger: #-X-C-X(1-5)-C-X3-#-X5-#-X2-H-X(3-6)-[H/C], where X can be any amino acid, and numbers in brackets indicate the number of residues. The positions marked # are those that are important for the stable fold of the zinc finger. The final position can be either his or cys. The C2H2 zinc finger is composed of two short beta strands followed by an alpha helix. The amino terminal part of the helix binds the major groove in DNA binding zinc fingers. The accepted consensus binding sequence for Sp1 is usually defined by the asymmetric hexanucleotide core GGGCGG but this sequence does not include, among others, the GAG (=CTC) repeat that constitutes a high-affinity site for Sp1 binding to the wt1 promoter []. This entry represents the classical C2H2 zinc finger domain. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 2D9H_A 2EPC_A 1SP1_A 1VA3_A 2WBT_B 2ELR_A 2YTP_A 2YTT_A 1VA1_A 2ELO_A ....
Probab=97.63 E-value=2.3e-05 Score=36.30 Aligned_cols=22 Identities=27% Similarity=0.777 Sum_probs=20.8
Q ss_pred eeccccchhccCchhhHHHhHh
Q 044362 22 YTCPKCNQAFAKSQIYAAHVSS 43 (116)
Q Consensus 22 ~~C~~C~k~F~~~~~l~~H~~~ 43 (116)
|.|+.|++.|.....|..|++.
T Consensus 1 y~C~~C~~~f~~~~~l~~H~~~ 22 (23)
T PF00096_consen 1 YKCPICGKSFSSKSNLKRHMRR 22 (23)
T ss_dssp EEETTTTEEESSHHHHHHHHHH
T ss_pred CCCCCCCCccCCHHHHHHHHhH
Confidence 7899999999999999999986
No 14
>KOG3608 consensus Zn finger proteins [General function prediction only]
Probab=97.54 E-value=5.3e-05 Score=57.65 Aligned_cols=42 Identities=24% Similarity=0.450 Sum_probs=39.8
Q ss_pred CcCCchhhhhhccccCCCcceeccccchhccCchhhHHHhHh
Q 044362 2 KKKAKYDGRTHSLPHKKNGPYTCPKCNQAFAKSQIYAAHVSS 43 (116)
Q Consensus 2 ~~~~ks~L~~H~r~Htgekp~~C~~C~k~F~~~~~l~~H~~~ 43 (116)
.+++++.|+.|+++|+++|-..|+.||..|++...|..|.+.
T Consensus 188 ~~~~k~~LreH~r~Hs~eKvvACp~Cg~~F~~~tkl~DH~rR 229 (467)
T KOG3608|consen 188 HMGNKYRLREHIRTHSNEKVVACPHCGELFRTKTKLFDHLRR 229 (467)
T ss_pred hhccHHHHHHHHHhcCCCeEEecchHHHHhccccHHHHHHHh
Confidence 578999999999999999999999999999999999999885
No 15
>PHA00733 hypothetical protein
Probab=97.49 E-value=7.4e-05 Score=49.45 Aligned_cols=52 Identities=15% Similarity=0.172 Sum_probs=37.3
Q ss_pred hhhhhhccccCCCcceeccccchhccCchhhHHHhHhccCCCCChhHHHHHHHhhcCCCCCCC
Q 044362 7 YDGRTHSLPHKKNGPYTCPKCNQAFAKSQIYAAHVSSGHYKFETPEQRAERLAARYPKRNTLQ 69 (116)
Q Consensus 7 s~L~~H~r~Htgekp~~C~~C~k~F~~~~~l~~H~~~~h~~~~~~~~~~~~~~~~~~~~~~~~ 69 (116)
+.|..|+.++ +.+||.|+.|++.|.....|..|+++ |.. + +.|..+.+.+..
T Consensus 60 ~~l~~~~~~~-~~kPy~C~~Cgk~Fss~s~L~~H~r~-h~~---~------~~C~~CgK~F~~ 111 (128)
T PHA00733 60 SYLYKLLTSK-AVSPYVCPLCLMPFSSSVSLKQHIRY-TEH---S------KVCPVCGKEFRN 111 (128)
T ss_pred HHHHhhcccC-CCCCccCCCCCCcCCCHHHHHHHHhc-CCc---C------ccCCCCCCccCC
Confidence 3455665544 48899999999999999999999987 532 1 556666555543
No 16
>PF13912 zf-C2H2_6: C2H2-type zinc finger; PDB: 1JN7_A 1FU9_A 2L1O_A 1NJQ_A 2EN8_A 2EMM_A 1FV5_A 1Y0J_B 2L6Z_B.
Probab=97.37 E-value=9.4e-05 Score=35.54 Aligned_cols=25 Identities=28% Similarity=0.737 Sum_probs=23.0
Q ss_pred ceeccccchhccCchhhHHHhHhccC
Q 044362 21 PYTCPKCNQAFAKSQIYAAHVSSGHY 46 (116)
Q Consensus 21 p~~C~~C~k~F~~~~~l~~H~~~~h~ 46 (116)
||.|..|++.|.....|..|++. |.
T Consensus 1 ~~~C~~C~~~F~~~~~l~~H~~~-h~ 25 (27)
T PF13912_consen 1 PFECDECGKTFSSLSALREHKRS-HC 25 (27)
T ss_dssp SEEETTTTEEESSHHHHHHHHCT-TT
T ss_pred CCCCCccCCccCChhHHHHHhHH-hc
Confidence 69999999999999999999988 53
No 17
>PF13894 zf-C2H2_4: C2H2-type zinc finger; PDB: 2ELX_A 2EPP_A 2DLK_A 1X6H_A 2EOU_A 2EMB_A 2GQJ_A 2CSH_A 2WBT_B 2ELM_A ....
Probab=97.34 E-value=0.00012 Score=33.66 Aligned_cols=22 Identities=23% Similarity=0.739 Sum_probs=18.9
Q ss_pred eeccccchhccCchhhHHHhHh
Q 044362 22 YTCPKCNQAFAKSQIYAAHVSS 43 (116)
Q Consensus 22 ~~C~~C~k~F~~~~~l~~H~~~ 43 (116)
|.|+.|+..|.....|..|+..
T Consensus 1 ~~C~~C~~~~~~~~~l~~H~~~ 22 (24)
T PF13894_consen 1 FQCPICGKSFRSKSELRQHMRT 22 (24)
T ss_dssp EE-SSTS-EESSHHHHHHHHHH
T ss_pred CCCcCCCCcCCcHHHHHHHHHh
Confidence 7899999999999999999987
No 18
>PHA00733 hypothetical protein
Probab=97.16 E-value=0.00039 Score=46.00 Aligned_cols=44 Identities=16% Similarity=0.260 Sum_probs=37.2
Q ss_pred CCcCCchhhhhhccccCCCcceeccccchhccCchhhHHHhHhccCC
Q 044362 1 KKKKAKYDGRTHSLPHKKNGPYTCPKCNQAFAKSQIYAAHVSSGHYK 47 (116)
Q Consensus 1 k~~~~ks~L~~H~r~Htgekp~~C~~C~k~F~~~~~l~~H~~~~h~~ 47 (116)
+.|.....|..|+++| +.+|.|..|++.|.....|..|+.. ..+
T Consensus 81 k~Fss~s~L~~H~r~h--~~~~~C~~CgK~F~~~~sL~~H~~~-~h~ 124 (128)
T PHA00733 81 MPFSSSVSLKQHIRYT--EHSKVCPVCGKEFRNTDSTLDHVCK-KHN 124 (128)
T ss_pred CcCCCHHHHHHHHhcC--CcCccCCCCCCccCCHHHHHHHHHH-hcC
Confidence 4678888999999877 3579999999999999999999886 443
No 19
>PF09237 GAGA: GAGA factor; InterPro: IPR015318 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. Members of this entry bind to a 5'-GAGAG-3' DNA consensus binding site, and contain a Cys2-His2 zinc finger core as well as an N-terminal extension containing two highly basic regions. The zinc finger core binds in the DNA major groove and recognises the first three GAG bases of the consensus in a manner similar to that seen in other classical zinc finger-DNA complexes. The second basic region forms a helix that interacts in the major groove recognising the last G of the consensus, while the first basic region wraps around the DNA in the minor groove and recognises the A in the fourth position of the consensus sequence []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1YUI_A 1YUJ_A.
Probab=96.75 E-value=0.0015 Score=36.36 Aligned_cols=31 Identities=23% Similarity=0.441 Sum_probs=22.3
Q ss_pred cCCCcceeccccchhccCchhhHHHhHhccCC
Q 044362 16 HKKNGPYTCPKCNQAFAKSQIYAAHVSSGHYK 47 (116)
Q Consensus 16 Htgekp~~C~~C~k~F~~~~~l~~H~~~~h~~ 47 (116)
+..+.|-.|++|+..+++..+|.+|+.+ +.+
T Consensus 19 ~~S~~PatCP~C~a~~~~srnLrRHle~-~H~ 49 (54)
T PF09237_consen 19 SQSEQPATCPICGAVIRQSRNLRRHLEI-RHF 49 (54)
T ss_dssp CTTS--EE-TTT--EESSHHHHHHHHHH-HTT
T ss_pred hccCCCCCCCcchhhccchhhHHHHHHH-Hhc
Confidence 4567899999999999999999999987 544
No 20
>smart00355 ZnF_C2H2 zinc finger.
Probab=96.69 E-value=0.001 Score=30.71 Aligned_cols=24 Identities=29% Similarity=0.863 Sum_probs=21.5
Q ss_pred eeccccchhccCchhhHHHhHhccC
Q 044362 22 YTCPKCNQAFAKSQIYAAHVSSGHY 46 (116)
Q Consensus 22 ~~C~~C~k~F~~~~~l~~H~~~~h~ 46 (116)
|.|..|++.|.....|..|++. |.
T Consensus 1 ~~C~~C~~~f~~~~~l~~H~~~-H~ 24 (26)
T smart00355 1 YRCPECGKVFKSKSALKEHMRT-HX 24 (26)
T ss_pred CCCCCCcchhCCHHHHHHHHHH-hc
Confidence 5799999999999999999987 54
No 21
>KOG3608 consensus Zn finger proteins [General function prediction only]
Probab=96.37 E-value=0.0021 Score=49.22 Aligned_cols=42 Identities=26% Similarity=0.460 Sum_probs=33.0
Q ss_pred CCchhhhhhccc-cCCCcceeccccchhccCchhhHHHhHhccC
Q 044362 4 KAKYDGRTHSLP-HKKNGPYTCPKCNQAFAKSQIYAAHVSSGHY 46 (116)
Q Consensus 4 ~~ks~L~~H~r~-Htgekp~~C~~C~k~F~~~~~l~~H~~~~h~ 46 (116)
...+.|.+|++. |+.+|||+|+.|.+.|.+.+.|.+|..+ |.
T Consensus 274 ~~~ssL~~H~r~rHs~dkpfKCd~Cd~~c~~esdL~kH~~~-HS 316 (467)
T KOG3608|consen 274 SSASSLTTHIRYRHSKDKPFKCDECDTRCVRESDLAKHVQV-HS 316 (467)
T ss_pred CChHHHHHHHHhhhccCCCccccchhhhhccHHHHHHHHHh-cc
Confidence 345678888765 7778888888888888888888888877 65
No 22
>PHA00732 hypothetical protein
Probab=96.08 E-value=0.0034 Score=38.19 Aligned_cols=22 Identities=18% Similarity=0.418 Sum_probs=11.6
Q ss_pred ceeccccchhccCchhhHHHhH
Q 044362 21 PYTCPKCNQAFAKSQIYAAHVS 42 (116)
Q Consensus 21 p~~C~~C~k~F~~~~~l~~H~~ 42 (116)
||.|..|++.|.....|..|++
T Consensus 1 py~C~~Cgk~F~s~s~Lk~H~r 22 (79)
T PHA00732 1 MFKCPICGFTTVTLFALKQHAR 22 (79)
T ss_pred CccCCCCCCccCCHHHHHHHhh
Confidence 3455555555555555555554
No 23
>PHA00732 hypothetical protein
Probab=96.04 E-value=0.0034 Score=38.17 Aligned_cols=37 Identities=22% Similarity=0.418 Sum_probs=29.7
Q ss_pred CCcCCchhhhhhcc-ccCCCcceeccccchhccCchhhHHHhHh
Q 044362 1 KKKKAKYDGRTHSL-PHKKNGPYTCPKCNQAFAKSQIYAAHVSS 43 (116)
Q Consensus 1 k~~~~ks~L~~H~r-~Htgekp~~C~~C~k~F~~~~~l~~H~~~ 43 (116)
+.|...+.|..|++ .|++ +.|+.|++.|. .+..|..+
T Consensus 9 k~F~s~s~Lk~H~r~~H~~---~~C~~CgKsF~---~l~~H~~~ 46 (79)
T PHA00732 9 FTTVTLFALKQHARRNHTL---TKCPVCNKSYR---RLNQHFYS 46 (79)
T ss_pred CccCCHHHHHHHhhcccCC---CccCCCCCEeC---Chhhhhcc
Confidence 46888999999998 4764 58999999998 47777765
No 24
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=95.57 E-value=0.0056 Score=28.56 Aligned_cols=22 Identities=27% Similarity=0.699 Sum_probs=20.4
Q ss_pred eeccccchhccCchhhHHHhHh
Q 044362 22 YTCPKCNQAFAKSQIYAAHVSS 43 (116)
Q Consensus 22 ~~C~~C~k~F~~~~~l~~H~~~ 43 (116)
|.|..|+..|.....|..|++.
T Consensus 1 ~~C~~C~~~f~s~~~~~~H~~s 22 (25)
T PF12874_consen 1 FYCDICNKSFSSENSLRQHLRS 22 (25)
T ss_dssp EEETTTTEEESSHHHHHHHHTT
T ss_pred CCCCCCCCCcCCHHHHHHHHCc
Confidence 6899999999999999999875
No 25
>KOG3993 consensus Transcription factor (contains Zn finger) [Transcription]
Probab=95.49 E-value=0.0068 Score=47.29 Aligned_cols=48 Identities=19% Similarity=0.305 Sum_probs=38.4
Q ss_pred CCcCCchhhhhhccccC--------CCc-------------------------ceeccccchhccCchhhHHHhHhccCC
Q 044362 1 KKKKAKYDGRTHSLPHK--------KNG-------------------------PYTCPKCNQAFAKSQIYAAHVSSGHYK 47 (116)
Q Consensus 1 k~~~~ks~L~~H~r~Ht--------gek-------------------------p~~C~~C~k~F~~~~~l~~H~~~~h~~ 47 (116)
|.|.+--+|..|.|+|- |.. -|.|..|++.|.+...|+.|+.+ |..
T Consensus 303 KVFsCPANLASHRRWHKPR~eaa~a~~~P~k~~~~~rae~~ea~rsg~dss~gi~~C~~C~KkFrRqAYLrKHqlt-hq~ 381 (500)
T KOG3993|consen 303 KVFSCPANLASHRRWHKPRPEAAKAGSPPPKQAVETRAEVQEAERSGDDSSSGIFSCHTCGKKFRRQAYLRKHQLT-HQR 381 (500)
T ss_pred ccccCchhhhhhhcccCCchhhhhcCCCChhhhhhhhhhhhhccccCCcccCceeecHHhhhhhHHHHHHHHhHHh-hhc
Confidence 57888888888888882 222 38999999999999999999998 544
Q ss_pred CC
Q 044362 48 FE 49 (116)
Q Consensus 48 ~~ 49 (116)
..
T Consensus 382 ~~ 383 (500)
T KOG3993|consen 382 AP 383 (500)
T ss_pred cc
Confidence 33
No 26
>PHA00616 hypothetical protein
Probab=95.22 E-value=0.0036 Score=33.85 Aligned_cols=26 Identities=19% Similarity=0.038 Sum_probs=23.2
Q ss_pred CCcCCchhhhhhccccCCCcceeccc
Q 044362 1 KKKKAKYDGRTHSLPHKKNGPYTCPK 26 (116)
Q Consensus 1 k~~~~ks~L~~H~r~Htgekp~~C~~ 26 (116)
+.|..++.|..|++.|+|++|+.|+.
T Consensus 9 ~~F~~~s~l~~H~r~~hg~~~~~~~~ 34 (44)
T PHA00616 9 GIFRKKKEVIEHLLSVHKQNKLTLEY 34 (44)
T ss_pred HHHhhHHHHHHHHHHhcCCCccceeE
Confidence 45888999999999999999999875
No 27
>PF12171 zf-C2H2_jaz: Zinc-finger double-stranded RNA-binding; InterPro: IPR022755 This zinc finger is found in archaea and eukaryotes, and is approximately 30 amino acids in length. The mammalian members of this group occur multiple times along the protein, joined by flexible linkers, and are referred to as JAZ - dsRNA-binding ZF protein - zinc-fingers. The JAZ proteins are expressed in all tissues tested and localise in the nucleus, particularly the nucleolus []. JAZ preferentially binds to double-stranded (ds) RNA or RNA/DNA hybrids rather than DNA. In addition to binding double-stranded RNA, these zinc-fingers are required for nucleolar localisation. This entry represents the multiple-adjacent-C2H2 zinc finger, JAZ. ; PDB: 4DGW_A 1ZR9_A.
Probab=94.61 E-value=0.01 Score=28.35 Aligned_cols=22 Identities=23% Similarity=0.653 Sum_probs=20.0
Q ss_pred eeccccchhccCchhhHHHhHh
Q 044362 22 YTCPKCNQAFAKSQIYAAHVSS 43 (116)
Q Consensus 22 ~~C~~C~k~F~~~~~l~~H~~~ 43 (116)
|-|..|++.|.....|..|++.
T Consensus 2 ~~C~~C~k~f~~~~~~~~H~~s 23 (27)
T PF12171_consen 2 FYCDACDKYFSSENQLKQHMKS 23 (27)
T ss_dssp CBBTTTTBBBSSHHHHHCCTTS
T ss_pred CCcccCCCCcCCHHHHHHHHcc
Confidence 6799999999999999998875
No 28
>smart00451 ZnF_U1 U1-like zinc finger. Family of C2H2-type zinc fingers, present in matrin, U1 small nuclear ribonucleoprotein C and other RNA-binding proteins.
Probab=93.26 E-value=0.05 Score=27.20 Aligned_cols=23 Identities=26% Similarity=0.566 Sum_probs=20.5
Q ss_pred ceeccccchhccCchhhHHHhHh
Q 044362 21 PYTCPKCNQAFAKSQIYAAHVSS 43 (116)
Q Consensus 21 p~~C~~C~k~F~~~~~l~~H~~~ 43 (116)
+|.|..|+..|.....+..|+..
T Consensus 3 ~~~C~~C~~~~~~~~~~~~H~~g 25 (35)
T smart00451 3 GFYCKLCNVTFTDEISVEAHLKG 25 (35)
T ss_pred CeEccccCCccCCHHHHHHHHCh
Confidence 68899999999999999888764
No 29
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=93.21 E-value=0.045 Score=41.06 Aligned_cols=49 Identities=18% Similarity=0.406 Sum_probs=43.2
Q ss_pred CcCCchhhhhhcc--ccCCC--cceecc--ccchhccCchhhHHHhHhccCCCCCh
Q 044362 2 KKKAKYDGRTHSL--PHKKN--GPYTCP--KCNQAFAKSQIYAAHVSSGHYKFETP 51 (116)
Q Consensus 2 ~~~~ks~L~~H~r--~Htge--kp~~C~--~C~k~F~~~~~l~~H~~~~h~~~~~~ 51 (116)
.|.....|..|.+ .|+++ +|+.|+ .|++.|.+...+..|... |++....
T Consensus 298 ~~s~~~~l~~~~~~~~h~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~-~~~~~~~ 352 (467)
T COG5048 298 SFSRSSPLTRHLRSVNHSGESLKPFSCPYSLCGKLFSRNDALKRHILL-HTSISPA 352 (467)
T ss_pred CccccccccccccccccccccCCceeeeccCCCccccccccccCCccc-ccCCCcc
Confidence 4677788999999 89999 999999 799999999999999999 8876643
No 30
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=93.07 E-value=0.054 Score=25.59 Aligned_cols=21 Identities=24% Similarity=0.599 Sum_probs=17.2
Q ss_pred eeccccchhccCchhhHHHhHh
Q 044362 22 YTCPKCNQAFAKSQIYAAHVSS 43 (116)
Q Consensus 22 ~~C~~C~k~F~~~~~l~~H~~~ 43 (116)
..|+.||+.| ....|..|+.+
T Consensus 3 ~~C~~CgR~F-~~~~l~~H~~~ 23 (25)
T PF13913_consen 3 VPCPICGRKF-NPDRLEKHEKI 23 (25)
T ss_pred CcCCCCCCEE-CHHHHHHHHHh
Confidence 4699999999 66788888765
No 31
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=92.99 E-value=0.046 Score=25.16 Aligned_cols=21 Identities=24% Similarity=0.675 Sum_probs=16.5
Q ss_pred eeccccchhccCchhhHHHhHh
Q 044362 22 YTCPKCNQAFAKSQIYAAHVSS 43 (116)
Q Consensus 22 ~~C~~C~k~F~~~~~l~~H~~~ 43 (116)
|.|+.|+-... ...|..|++.
T Consensus 1 y~C~~C~y~t~-~~~l~~H~~~ 21 (24)
T PF13909_consen 1 YKCPHCSYSTS-KSNLKRHLKR 21 (24)
T ss_dssp EE-SSSS-EES-HHHHHHHHHH
T ss_pred CCCCCCCCcCC-HHHHHHHHHh
Confidence 78999998777 8899999887
No 32
>PLN03086 PRLI-interacting factor K; Provisional
Probab=92.94 E-value=0.068 Score=43.44 Aligned_cols=50 Identities=16% Similarity=0.349 Sum_probs=30.5
Q ss_pred chhhhhhccccCCCcceeccccchhccCchhhHHHhHhccCCCCChhHHHHHHHhhcCCCCC
Q 044362 6 KYDGRTHSLPHKKNGPYTCPKCNQAFAKSQIYAAHVSSGHYKFETPEQRAERLAARYPKRNT 67 (116)
Q Consensus 6 ks~L~~H~r~Htgekp~~C~~C~k~F~~~~~l~~H~~~~h~~~~~~~~~~~~~~~~~~~~~~ 67 (116)
...|..|+.+|+ +|+.|+ |+..| ....|..|+.+ |..... +.|.+|....
T Consensus 465 ~s~LekH~~~~H--kpv~Cp-Cg~~~-~R~~L~~H~~t-hCp~Kp-------i~C~fC~~~v 514 (567)
T PLN03086 465 QGEMEKHMKVFH--EPLQCP-CGVVL-EKEQMVQHQAS-TCPLRL-------ITCRFCGDMV 514 (567)
T ss_pred hHHHHHHHHhcC--CCccCC-CCCCc-chhHHHhhhhc-cCCCCc-------eeCCCCCCcc
Confidence 345777777664 677777 77544 45677777766 555432 5566665443
No 33
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=92.89 E-value=0.039 Score=41.85 Aligned_cols=51 Identities=18% Similarity=0.378 Sum_probs=34.8
Q ss_pred CCcceeccc--cchhccCchhhHHHhHhccCCC-----------CChhHHHHHHHhhcCCCCCC
Q 044362 18 KNGPYTCPK--CNQAFAKSQIYAAHVSSGHYKF-----------ETPEQRAERLAARYPKRNTL 68 (116)
Q Consensus 18 gekp~~C~~--C~k~F~~~~~l~~H~~~~h~~~-----------~~~~~~~~~~~~~~~~~~~~ 68 (116)
++|||+|++ |.+.+....-|+.|+.-+|-.- ..+....+.|.|.+|-+...
T Consensus 346 d~KpykCpV~gC~K~YknqnGLKYH~lhGH~~~~~~~~p~p~~~~~F~~~~KPYrCevC~KRYK 409 (423)
T COG5189 346 DGKPYKCPVEGCNKKYKNQNGLKYHMLHGHQNQKLHENPSPEKMNIFSAKDKPYRCEVCDKRYK 409 (423)
T ss_pred cCceecCCCCCchhhhccccchhhhhhccccCcccCCCCCccccccccccCCceeccccchhhc
Confidence 359999988 9999999999999998645110 01112235677777755444
No 34
>PLN03086 PRLI-interacting factor K; Provisional
Probab=92.71 E-value=0.083 Score=42.96 Aligned_cols=39 Identities=18% Similarity=0.107 Sum_probs=32.9
Q ss_pred CchhhhhhccccCCCcceeccccchhccC----------chhhHHHhHh
Q 044362 5 AKYDGRTHSLPHKKNGPYTCPKCNQAFAK----------SQIYAAHVSS 43 (116)
Q Consensus 5 ~ks~L~~H~r~Htgekp~~C~~C~k~F~~----------~~~l~~H~~~ 43 (116)
....|..|+.+|.+++|+.|..|+..|.. ...|..|...
T Consensus 488 ~R~~L~~H~~thCp~Kpi~C~fC~~~v~~g~~~~d~~d~~s~Lt~HE~~ 536 (567)
T PLN03086 488 EKEQMVQHQASTCPLRLITCRFCGDMVQAGGSAMDVRDRLRGMSEHESI 536 (567)
T ss_pred chhHHHhhhhccCCCCceeCCCCCCccccCccccchhhhhhhHHHHHHh
Confidence 45678999999999999999999998852 3478899887
No 35
>KOG3993 consensus Transcription factor (contains Zn finger) [Transcription]
Probab=92.21 E-value=0.061 Score=42.18 Aligned_cols=43 Identities=23% Similarity=0.451 Sum_probs=31.8
Q ss_pred cCCchhhhhhccccCCCcceeccccchhccCchhhHHHhHhccC
Q 044362 3 KKAKYDGRTHSLPHKKNGPYTCPKCNQAFAKSQIYAAHVSSGHY 46 (116)
Q Consensus 3 ~~~ks~L~~H~r~Htgekp~~C~~C~k~F~~~~~l~~H~~~~h~ 46 (116)
|.+-..|..|.-.-.--.-|.|+.|+|.|+-..||..|.|. |.
T Consensus 277 YeD~F~LAQHrC~RIV~vEYrCPEC~KVFsCPANLASHRRW-HK 319 (500)
T KOG3993|consen 277 YEDAFALAQHRCPRIVHVEYRCPECDKVFSCPANLASHRRW-HK 319 (500)
T ss_pred hhhHHHHhhccCCeeEEeeecCCcccccccCchhhhhhhcc-cC
Confidence 44555677775322222348999999999999999999998 63
No 36
>PF05605 zf-Di19: Drought induced 19 protein (Di19), zinc-binding; InterPro: IPR008598 This entry consists of several drought induced 19 (Di19) like and RING finger 114 proteins. Di19 has been found to be strongly expressed in both the roots and leaves of Arabidopsis thaliana during progressive drought [], whilst RING finger proteins are thought to play a role in spermatogenesis. The precise function is unknown.
Probab=91.35 E-value=0.18 Score=28.10 Aligned_cols=36 Identities=19% Similarity=0.372 Sum_probs=20.4
Q ss_pred chhhhhhcc-ccCCC-cceeccccchhccCchhhHHHhHh
Q 044362 6 KYDGRTHSL-PHKKN-GPYTCPKCNQAFAKSQIYAAHVSS 43 (116)
Q Consensus 6 ks~L~~H~r-~Htge-kp~~C~~C~k~F~~~~~l~~H~~~ 43 (116)
...|..|.. .|.++ +.+.|++|...+. .+|..|+..
T Consensus 14 ~~~L~~H~~~~H~~~~~~v~CPiC~~~~~--~~l~~Hl~~ 51 (54)
T PF05605_consen 14 ESSLVEHCEDEHRSESKNVVCPICSSRVT--DNLIRHLNS 51 (54)
T ss_pred HHHHHHHHHhHCcCCCCCccCCCchhhhh--hHHHHHHHH
Confidence 345666643 34443 4567777766433 366666665
No 37
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=90.96 E-value=0.093 Score=39.88 Aligned_cols=24 Identities=21% Similarity=0.574 Sum_probs=21.7
Q ss_pred CcceeccccchhccCchhhHHHhH
Q 044362 19 NGPYTCPKCNQAFAKSQIYAAHVS 42 (116)
Q Consensus 19 ekp~~C~~C~k~F~~~~~l~~H~~ 42 (116)
.|||.|++|++.+....-|+.|+.
T Consensus 396 ~KPYrCevC~KRYKNlNGLKYHr~ 419 (423)
T COG5189 396 DKPYRCEVCDKRYKNLNGLKYHRK 419 (423)
T ss_pred CCceeccccchhhccCccceeccc
Confidence 489999999999999999988875
No 38
>PF05605 zf-Di19: Drought induced 19 protein (Di19), zinc-binding; InterPro: IPR008598 This entry consists of several drought induced 19 (Di19) like and RING finger 114 proteins. Di19 has been found to be strongly expressed in both the roots and leaves of Arabidopsis thaliana during progressive drought [], whilst RING finger proteins are thought to play a role in spermatogenesis. The precise function is unknown.
Probab=89.98 E-value=0.23 Score=27.64 Aligned_cols=37 Identities=16% Similarity=0.352 Sum_probs=25.8
Q ss_pred ceeccccchhccCchhhHHHhHhccCCCCChhHHHHHHHhhcCC
Q 044362 21 PYTCPKCNQAFAKSQIYAAHVSSGHYKFETPEQRAERLAARYPK 64 (116)
Q Consensus 21 p~~C~~C~k~F~~~~~l~~H~~~~h~~~~~~~~~~~~~~~~~~~ 64 (116)
-|.|++|++. .....|..|....|...... +.|.++.
T Consensus 2 ~f~CP~C~~~-~~~~~L~~H~~~~H~~~~~~------v~CPiC~ 38 (54)
T PF05605_consen 2 SFTCPYCGKG-FSESSLVEHCEDEHRSESKN------VVCPICS 38 (54)
T ss_pred CcCCCCCCCc-cCHHHHHHHHHhHCcCCCCC------ccCCCch
Confidence 3889999994 55678999987636654433 5666664
No 39
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=88.92 E-value=0.32 Score=29.50 Aligned_cols=23 Identities=30% Similarity=0.816 Sum_probs=20.9
Q ss_pred ceeccccchhccCchhhHHHhHh
Q 044362 21 PYTCPKCNQAFAKSQIYAAHVSS 43 (116)
Q Consensus 21 p~~C~~C~k~F~~~~~l~~H~~~ 43 (116)
.+.|..|+..|.....|..|++.
T Consensus 50 ~~~C~~C~~~f~s~~~l~~Hm~~ 72 (100)
T PF12756_consen 50 SFRCPYCNKTFRSREALQEHMRS 72 (100)
T ss_dssp SEEBSSSS-EESSHHHHHHHHHH
T ss_pred CCCCCccCCCCcCHHHHHHHHcC
Confidence 69999999999999999999996
No 40
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=87.21 E-value=0.34 Score=27.53 Aligned_cols=31 Identities=23% Similarity=0.521 Sum_probs=26.4
Q ss_pred ccccCCCcceeccccchhccCchhhHHHhHh
Q 044362 13 SLPHKKNGPYTCPKCNQAFAKSQIYAAHVSS 43 (116)
Q Consensus 13 ~r~Htgekp~~C~~C~k~F~~~~~l~~H~~~ 43 (116)
+++--||.-+.|+.|+..|...-...+|..-
T Consensus 9 v~~RDGE~~lrCPRC~~~FR~~K~Y~RHVNK 39 (65)
T COG4049 9 VRDRDGEEFLRCPRCGMVFRRRKDYIRHVNK 39 (65)
T ss_pred eeccCCceeeeCCchhHHHHHhHHHHHHhhH
Confidence 3456788889999999999999999999874
No 41
>PRK04860 hypothetical protein; Provisional
Probab=79.85 E-value=1.1 Score=30.80 Aligned_cols=35 Identities=17% Similarity=0.271 Sum_probs=21.6
Q ss_pred ceeccccchhccCchhhHHHhHhccCCCCChhHHHHHHHhhcCCCCC
Q 044362 21 PYTCPKCNQAFAKSQIYAAHVSSGHYKFETPEQRAERLAARYPKRNT 67 (116)
Q Consensus 21 p~~C~~C~k~F~~~~~l~~H~~~~h~~~~~~~~~~~~~~~~~~~~~~ 67 (116)
+|.|. |+. ....+..|.++ |++... |.|..|...+
T Consensus 119 ~Y~C~-C~~---~~~~~rrH~ri-~~g~~~-------YrC~~C~~~l 153 (160)
T PRK04860 119 PYRCK-CQE---HQLTVRRHNRV-VRGEAV-------YRCRRCGETL 153 (160)
T ss_pred EEEcC-CCC---eeCHHHHHHHH-hcCCcc-------EECCCCCcee
Confidence 57776 765 55666777777 666443 5555555443
No 42
>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=73.92 E-value=2.3 Score=28.33 Aligned_cols=28 Identities=21% Similarity=0.496 Sum_probs=17.1
Q ss_pred ceeccccchhccCchhhHHHhHhccCCCCChh
Q 044362 21 PYTCPKCNQAFAKSQIYAAHVSSGHYKFETPE 52 (116)
Q Consensus 21 p~~C~~C~k~F~~~~~l~~H~~~~h~~~~~~~ 52 (116)
-..|.+||+.|.. |.+|++. |.|..+.+
T Consensus 72 ~i~clecGk~~k~---LkrHL~~-~~gltp~e 99 (132)
T PF05443_consen 72 YIICLECGKKFKT---LKRHLRT-HHGLTPEE 99 (132)
T ss_dssp -EE-TBT--EESB---HHHHHHH-TT-S-HHH
T ss_pred eeEEccCCcccch---HHHHHHH-ccCCCHHH
Confidence 4679999998876 5999999 87765443
No 43
>PF02892 zf-BED: BED zinc finger; InterPro: IPR003656 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents predicted BED-type zinc finger domains. The BED finger which was named after the Drosophila proteins BEAF and DREF, is found in one or more copies in cellular regulatory factors and transposases from plants, animals and fungi. The BED finger is an about 50 to 60 amino acid residues domain that contains a characteristic motif with two highly conserved aromatic positions, as well as a shared pattern of cysteines and histidines that is predicted to form a zinc finger. As diverse BED fingers are able to bind DNA, it has been suggested that DNA-binding is the general function of this domain []. Some proteins known to contain a BED domain include animal, plant and fungi AC1 and Hobo-like transposases; Caenorhabditis elegans Dpy-20 protein, a predicted cuticular gene transcriptional regulator; Drosophila BEAF (boundary element-associated factor), thought to be involved in chromatin insulation; Drosophila DREF, a transcriptional regulator for S-phase genes; and tobacco 3AF1 and tomato E4/E8-BP1, light- and ethylene-regulated DNA binding proteins that contain two BED fingers. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003677 DNA binding; PDB: 2DJR_A 2CT5_A.
Probab=60.87 E-value=7.3 Score=20.26 Aligned_cols=25 Identities=16% Similarity=0.332 Sum_probs=15.7
Q ss_pred CCcceeccccchhccCc----hhhHHHhH
Q 044362 18 KNGPYTCPKCNQAFAKS----QIYAAHVS 42 (116)
Q Consensus 18 gekp~~C~~C~k~F~~~----~~l~~H~~ 42 (116)
+..-..|..|++.+... ++|..|++
T Consensus 13 ~~~~a~C~~C~~~~~~~~~~ts~l~~HL~ 41 (45)
T PF02892_consen 13 DKKKAKCKYCGKVIKYSSGGTSNLKRHLK 41 (45)
T ss_dssp CSS-EEETTTTEE-----SSTHHHHHHHH
T ss_pred CcCeEEeCCCCeEEeeCCCcHHHHHHhhh
Confidence 44567899999877764 78888874
No 44
>smart00734 ZnF_Rad18 Rad18-like CCHC zinc finger. Yeast Rad18p functions with Rad5p in error-free post-replicative DNA repair. This zinc finger is likely to bind nucleic-acids.
Probab=60.70 E-value=5.3 Score=18.81 Aligned_cols=20 Identities=20% Similarity=0.630 Sum_probs=14.9
Q ss_pred eeccccchhccCchhhHHHhH
Q 044362 22 YTCPKCNQAFAKSQIYAAHVS 42 (116)
Q Consensus 22 ~~C~~C~k~F~~~~~l~~H~~ 42 (116)
..|++|++.+ ....+..|+-
T Consensus 2 v~CPiC~~~v-~~~~in~HLD 21 (26)
T smart00734 2 VQCPVCFREV-PENLINSHLD 21 (26)
T ss_pred CcCCCCcCcc-cHHHHHHHHH
Confidence 3699999888 5567777765
No 45
>COG4957 Predicted transcriptional regulator [Transcription]
Probab=60.52 E-value=6.9 Score=26.26 Aligned_cols=27 Identities=22% Similarity=0.490 Sum_probs=20.7
Q ss_pred eeccccchhccCchhhHHHhHhccCCCCChh
Q 044362 22 YTCPKCNQAFAKSQIYAAHVSSGHYKFETPE 52 (116)
Q Consensus 22 ~~C~~C~k~F~~~~~l~~H~~~~h~~~~~~~ 52 (116)
..|.+||+.|. +|++|+.+ |.+.-+..
T Consensus 77 IicLEDGkkfK---SLKRHL~t-~~gmTPd~ 103 (148)
T COG4957 77 IICLEDGKKFK---SLKRHLTT-HYGLTPDE 103 (148)
T ss_pred EEEeccCcchH---HHHHHHhc-ccCCCHHH
Confidence 46888998876 58999999 87765543
No 46
>cd00924 Cyt_c_Oxidase_Vb Cytochrome c oxidase subunit Vb. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of prokaryotes. It catalyzes the reduction of O2 and simultaneously pumps protons across the membrane. The number of subunits varies from three to five in bacteria and up to 13 in mammalian mitochondria. Subunits I, II, and III of mammalian CcO are encoded within the mitochondrial genome and the remaining 10 subunits are encoded within the nuclear genome. Found only in eukaryotes, subunit Vb is one of three mammalian subunits that lacks a transmembrane region. Subunit Vb is located on the matrix side of the membrane and binds the regulatory subunit of protein kinase A. The abnormally extended conformation is stable only in the CcO assembly.
Probab=57.62 E-value=3.8 Score=25.81 Aligned_cols=21 Identities=29% Similarity=0.627 Sum_probs=16.2
Q ss_pred hccccCCCcceeccccchhccC
Q 044362 12 HSLPHKKNGPYTCPKCNQAFAK 33 (116)
Q Consensus 12 H~r~Htgekp~~C~~C~k~F~~ 33 (116)
.+..+.| +|+.|..||..|..
T Consensus 71 W~~l~~g-~~~rC~eCG~~fkL 91 (97)
T cd00924 71 WMWLEKG-KPKRCPECGHVFKL 91 (97)
T ss_pred EEEEeCC-CceeCCCCCcEEEE
Confidence 3455667 79999999988864
No 47
>smart00614 ZnF_BED BED zinc finger. DNA-binding domain in chromatin-boundary-element-binding proteins and transposases
Probab=56.93 E-value=7.4 Score=21.01 Aligned_cols=21 Identities=19% Similarity=0.501 Sum_probs=16.7
Q ss_pred eeccccchhccCc-----hhhHHHhH
Q 044362 22 YTCPKCNQAFAKS-----QIYAAHVS 42 (116)
Q Consensus 22 ~~C~~C~k~F~~~-----~~l~~H~~ 42 (116)
-.|..|++.+... ++|..|+.
T Consensus 19 a~C~~C~~~l~~~~~~gTs~L~rHl~ 44 (50)
T smart00614 19 AKCKYCGKKLSRSSKGGTSNLRRHLR 44 (50)
T ss_pred EEecCCCCEeeeCCCCCcHHHHHHHH
Confidence 4699999987665 58888887
No 48
>PLN02294 cytochrome c oxidase subunit Vb
Probab=54.73 E-value=5.7 Score=27.63 Aligned_cols=23 Identities=26% Similarity=0.511 Sum_probs=16.4
Q ss_pred hhccccCCCcceeccccchhccCc
Q 044362 11 THSLPHKKNGPYTCPKCNQAFAKS 34 (116)
Q Consensus 11 ~H~r~Htgekp~~C~~C~k~F~~~ 34 (116)
..+..+.| +|+.|+.||..|...
T Consensus 132 ~Wf~L~kG-kp~RCpeCG~~fkL~ 154 (174)
T PLN02294 132 VWFWLEKG-KSFECPVCTQYFELE 154 (174)
T ss_pred EEEEecCC-CceeCCCCCCEEEEE
Confidence 33455555 699999999887643
No 49
>KOG3408 consensus U1-like Zn-finger-containing protein, probabl erole in RNA processing/splicing [RNA processing and modification]
Probab=53.20 E-value=8.1 Score=25.41 Aligned_cols=27 Identities=19% Similarity=0.560 Sum_probs=23.4
Q ss_pred CCCcceeccccchhccCchhhHHHhHh
Q 044362 17 KKNGPYTCPKCNQAFAKSQIYAAHVSS 43 (116)
Q Consensus 17 tgekp~~C~~C~k~F~~~~~l~~H~~~ 43 (116)
.|..-|-|..|.+-|.....|..|.++
T Consensus 53 PG~GqfyCi~CaRyFi~~~~l~~H~kt 79 (129)
T KOG3408|consen 53 PGGGQFYCIECARYFIDAKALKTHFKT 79 (129)
T ss_pred CCCceeehhhhhhhhcchHHHHHHHhc
Confidence 344568999999999999999999886
No 50
>PF15269 zf-C2H2_7: Zinc-finger
Probab=52.79 E-value=7.8 Score=21.05 Aligned_cols=25 Identities=20% Similarity=0.454 Sum_probs=20.4
Q ss_pred Ccc--eeccccchhccCchhhHHHhHh
Q 044362 19 NGP--YTCPKCNQAFAKSQIYAAHVSS 43 (116)
Q Consensus 19 ekp--~~C~~C~k~F~~~~~l~~H~~~ 43 (116)
.+| |.|-.|+-++...+.|-.||+.
T Consensus 16 gkp~~ykcfqcpftc~~kshl~nhmky 42 (54)
T PF15269_consen 16 GKPFKYKCFQCPFTCNEKSHLFNHMKY 42 (54)
T ss_pred CCCccceeecCCcccchHHHHHHHHHH
Confidence 455 5688899888899999999886
No 51
>PF08790 zf-LYAR: LYAR-type C2HC zinc finger ; InterPro: IPR014898 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This C2HC zinc finger domain is found in LYAR proteins such as Q08288 from SWISSPROT, which are involved in cell growth regulation. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1WJV_A.
Probab=51.68 E-value=5 Score=19.47 Aligned_cols=18 Identities=28% Similarity=0.931 Sum_probs=12.0
Q ss_pred eeccccchhccCchhhHHH
Q 044362 22 YTCPKCNQAFAKSQIYAAH 40 (116)
Q Consensus 22 ~~C~~C~k~F~~~~~l~~H 40 (116)
|.|..|++.|. ......|
T Consensus 1 ~sCiDC~~~F~-~~~y~~H 18 (28)
T PF08790_consen 1 FSCIDCSKDFD-GDSYKSH 18 (28)
T ss_dssp EEETTTTEEEE-GGGTTT-
T ss_pred CeeecCCCCcC-cCCcCCC
Confidence 57999999994 3444444
No 52
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=51.65 E-value=3.8 Score=34.61 Aligned_cols=26 Identities=27% Similarity=0.627 Sum_probs=23.2
Q ss_pred ceeccccchhccCchhhHHHhHhccCC
Q 044362 21 PYTCPKCNQAFAKSQIYAAHVSSGHYK 47 (116)
Q Consensus 21 p~~C~~C~k~F~~~~~l~~H~~~~h~~ 47 (116)
-|-|..|++.|..--+++.||++ |.-
T Consensus 792 iFpCreC~kvF~KiKSrNAHMK~-Hr~ 817 (907)
T KOG4167|consen 792 IFPCRECGKVFFKIKSRNAHMKT-HRQ 817 (907)
T ss_pred eeehHHHHHHHHHHhhhhHHHHH-HHH
Confidence 48899999999999999999999 654
No 53
>PF07754 DUF1610: Domain of unknown function (DUF1610); InterPro: IPR011668 This domain is found in archaeal species. It is likely to bind zinc via its four well-conserved cysteine residues.
Probab=50.33 E-value=7.6 Score=18.12 Aligned_cols=10 Identities=40% Similarity=1.288 Sum_probs=8.3
Q ss_pred cceeccccch
Q 044362 20 GPYTCPKCNQ 29 (116)
Q Consensus 20 kp~~C~~C~k 29 (116)
.+|.|+.||.
T Consensus 15 v~f~CPnCG~ 24 (24)
T PF07754_consen 15 VPFPCPNCGF 24 (24)
T ss_pred ceEeCCCCCC
Confidence 5799999984
No 54
>smart00834 CxxC_CXXC_SSSS Putative regulatory protein. CxxC_CXXC_SSSS represents a region of about 41 amino acids found in a number of small proteins in a wide range of bacteria. The region usually begins with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One protein in this entry has been noted as a putative regulatory protein, designated FmdB. Most proteins in this entry have a C-terminal region containing highly degenerate sequence.
Probab=48.17 E-value=8.2 Score=19.54 Aligned_cols=14 Identities=29% Similarity=0.845 Sum_probs=10.9
Q ss_pred ceeccccchhccCc
Q 044362 21 PYTCPKCNQAFAKS 34 (116)
Q Consensus 21 p~~C~~C~k~F~~~ 34 (116)
-|.|..||..|...
T Consensus 5 ~y~C~~Cg~~fe~~ 18 (41)
T smart00834 5 EYRCEDCGHTFEVL 18 (41)
T ss_pred EEEcCCCCCEEEEE
Confidence 37899999987644
No 55
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=46.90 E-value=14 Score=27.58 Aligned_cols=44 Identities=18% Similarity=0.358 Sum_probs=33.9
Q ss_pred cCCchhhhhhccccCCCcceeccc--cchhccCchhhHHHhHhccCC
Q 044362 3 KKAKYDGRTHSLPHKKNGPYTCPK--CNQAFAKSQIYAAHVSSGHYK 47 (116)
Q Consensus 3 ~~~ks~L~~H~r~Htgekp~~C~~--C~k~F~~~~~l~~H~~~~h~~ 47 (116)
|.....+..|.+.|++++|+.|.. |...|.....+..|... +..
T Consensus 43 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~ 88 (467)
T COG5048 43 FSRLEHLTRHIRSHTGEKPSQCSYSGCDKSFSRPLELSRHLRT-HHN 88 (467)
T ss_pred ccccchhhhhcccccccCCccccccccccccCCcchhhhhccc-ccc
Confidence 444556788889999999999977 66778888888888877 443
No 56
>KOG2893 consensus Zn finger protein [General function prediction only]
Probab=46.20 E-value=7.5 Score=28.71 Aligned_cols=34 Identities=12% Similarity=0.160 Sum_probs=19.0
Q ss_pred cCCchhhhhhccccCCCcceeccccchhccCchhhHHH
Q 044362 3 KKAKYDGRTHSLPHKKNGPYTCPKCNQAFAKSQIYAAH 40 (116)
Q Consensus 3 ~~~ks~L~~H~r~Htgekp~~C~~C~k~F~~~~~l~~H 40 (116)
|.+..-|..|+. .|-|+|.+|-+.+.+..-|..|
T Consensus 20 fddekiliqhqk----akhfkchichkkl~sgpglsih 53 (341)
T KOG2893|consen 20 FDDEKILIQHQK----AKHFKCHICHKKLFSGPGLSIH 53 (341)
T ss_pred cchhhhhhhhhh----hccceeeeehhhhccCCCceee
Confidence 445555555544 2457777776655555555555
No 57
>PF10013 DUF2256: Uncharacterized protein conserved in bacteria (DUF2256); InterPro: IPR017136 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=46.15 E-value=12 Score=19.96 Aligned_cols=15 Identities=27% Similarity=0.842 Sum_probs=11.9
Q ss_pred eccccchhccCchhh
Q 044362 23 TCPKCNQAFAKSQIY 37 (116)
Q Consensus 23 ~C~~C~k~F~~~~~l 37 (116)
.|..|++.|...-..
T Consensus 10 ~C~~C~rpf~WRKKW 24 (42)
T PF10013_consen 10 ICPVCGRPFTWRKKW 24 (42)
T ss_pred cCcccCCcchHHHHH
Confidence 599999999876444
No 58
>PF12013 DUF3505: Protein of unknown function (DUF3505); InterPro: IPR022698 This family of proteins is functionally uncharacterised. This protein is found in eukaryotes. Proteins in this family are typically between 247 to 1018 amino acids in length. This region contains two segments that are likely to be C2H2 zinc binding domains.
Probab=45.93 E-value=14 Score=23.23 Aligned_cols=22 Identities=23% Similarity=0.563 Sum_probs=20.4
Q ss_pred eec----cccchhccCchhhHHHhHh
Q 044362 22 YTC----PKCNQAFAKSQIYAAHVSS 43 (116)
Q Consensus 22 ~~C----~~C~k~F~~~~~l~~H~~~ 43 (116)
|.| ..|+..+.....+..|.+.
T Consensus 81 ~~C~~~~~~C~y~~~~~~~m~~H~~~ 106 (109)
T PF12013_consen 81 YRCQCDPPHCGYITRSKKTMRKHWRK 106 (109)
T ss_pred eeeecCCCCCCcEeccHHHHHHHHHH
Confidence 789 8899999999999999987
No 59
>PF10571 UPF0547: Uncharacterised protein family UPF0547; InterPro: IPR018886 This domain may well be a type of zinc-finger as it carries two pairs of highly conserved cysteine residues though with no accompanying histidines. Several members are annotated as putative helicases.
Probab=45.79 E-value=9.1 Score=18.09 Aligned_cols=11 Identities=36% Similarity=0.978 Sum_probs=8.2
Q ss_pred eeccccchhcc
Q 044362 22 YTCPKCNQAFA 32 (116)
Q Consensus 22 ~~C~~C~k~F~ 32 (116)
-.|+.||..|.
T Consensus 15 ~~Cp~CG~~F~ 25 (26)
T PF10571_consen 15 KFCPHCGYDFE 25 (26)
T ss_pred CcCCCCCCCCc
Confidence 35888988774
No 60
>KOG2482 consensus Predicted C2H2-type Zn-finger protein [Transcription]
Probab=44.87 E-value=12 Score=29.10 Aligned_cols=23 Identities=17% Similarity=0.483 Sum_probs=21.2
Q ss_pred ceeccccchhccCchhhHHHhHh
Q 044362 21 PYTCPKCNQAFAKSQIYAAHVSS 43 (116)
Q Consensus 21 p~~C~~C~k~F~~~~~l~~H~~~ 43 (116)
.+.|..|.+.|.....|..||+-
T Consensus 195 r~~CLyCekifrdkntLkeHMrk 217 (423)
T KOG2482|consen 195 RLRCLYCEKIFRDKNTLKEHMRK 217 (423)
T ss_pred hheeeeeccccCCcHHHHHHHHh
Confidence 57899999999999999999984
No 61
>smart00154 ZnF_AN1 AN1-like Zinc finger. Zinc finger at the C-terminus of An1, a ubiquitin-like protein in Xenopus laevis.
Probab=44.15 E-value=11 Score=19.43 Aligned_cols=14 Identities=21% Similarity=0.781 Sum_probs=12.0
Q ss_pred ceeccccchhccCc
Q 044362 21 PYTCPKCNQAFAKS 34 (116)
Q Consensus 21 p~~C~~C~k~F~~~ 34 (116)
||.|..|++.|-..
T Consensus 12 ~f~C~~C~~~FC~~ 25 (39)
T smart00154 12 GFKCRHCGNLFCGE 25 (39)
T ss_pred CeECCccCCccccc
Confidence 89999999988764
No 62
>PF09723 Zn-ribbon_8: Zinc ribbon domain; InterPro: IPR013429 This entry represents a region of about 41 amino acids found in a number of small proteins in a wide range of bacteria. The region usually begins with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One protein in this entry has been noted as a putative regulatory protein, designated FmdB []. Most proteins in this entry have a C-terminal region containing highly degenerate sequence.
Probab=43.91 E-value=10 Score=19.81 Aligned_cols=16 Identities=31% Similarity=0.756 Sum_probs=12.1
Q ss_pred eeccccchhccCchhh
Q 044362 22 YTCPKCNQAFAKSQIY 37 (116)
Q Consensus 22 ~~C~~C~k~F~~~~~l 37 (116)
|.|..||..|.....+
T Consensus 6 y~C~~Cg~~fe~~~~~ 21 (42)
T PF09723_consen 6 YRCEECGHEFEVLQSI 21 (42)
T ss_pred EEeCCCCCEEEEEEEc
Confidence 8899999888765433
No 63
>PF04959 ARS2: Arsenite-resistance protein 2; InterPro: IPR007042 This entry represents Arsenite-resistance protein 2 (also known as Serrate RNA effector molecule homolog) which is thought to play a role in arsenite resistance [], although does not directly confer arsenite resistance but rather modulates arsenic sensitivity []. Arsenite is a carcinogenic compound which can act as a comutagen by inhibiting DNA repair. It is also involved in cell cycle progression at S phase. ; PDB: 3AX1_A.
Probab=43.90 E-value=15 Score=26.38 Aligned_cols=27 Identities=19% Similarity=0.604 Sum_probs=21.5
Q ss_pred CCCcceeccccchhccCchhhHHHhHh
Q 044362 17 KKNGPYTCPKCNQAFAKSQIYAAHVSS 43 (116)
Q Consensus 17 tgekp~~C~~C~k~F~~~~~l~~H~~~ 43 (116)
..+.-|.|..|+|.|.-.....+|+..
T Consensus 73 ~~~~K~~C~lc~KlFkg~eFV~KHI~n 99 (214)
T PF04959_consen 73 EDEDKWRCPLCGKLFKGPEFVRKHIFN 99 (214)
T ss_dssp SSSEEEEE-SSS-EESSHHHHHHHHHH
T ss_pred HcCCEECCCCCCcccCChHHHHHHHhh
Confidence 345569999999999999999999886
No 64
>PHA00626 hypothetical protein
Probab=42.48 E-value=13 Score=21.13 Aligned_cols=16 Identities=25% Similarity=0.567 Sum_probs=12.5
Q ss_pred CcceeccccchhccCc
Q 044362 19 NGPYTCPKCNQAFAKS 34 (116)
Q Consensus 19 ekp~~C~~C~k~F~~~ 34 (116)
...|.|+.||..|...
T Consensus 21 snrYkCkdCGY~ft~~ 36 (59)
T PHA00626 21 SDDYVCCDCGYNDSKD 36 (59)
T ss_pred CcceEcCCCCCeechh
Confidence 3579999999877653
No 65
>PF01428 zf-AN1: AN1-like Zinc finger; InterPro: IPR000058 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the AN1-type zinc finger domain, which has a dimetal (zinc)-bound alpha/beta fold. This domain was first identified as a zinc finger at the C terminus of AN1 Q91889 from SWISSPROT, a ubiquitin-like protein in Xenopus laevis []. The AN1-type zinc finger contains six conserved cysteines and two histidines that could potentially coordinate 2 zinc atoms. Certain stress-associated proteins (SAP) contain AN1 domain, often in combination with A20 zinc finger domains (SAP8) or C2H2 domains (SAP16) []. For example, the human protein Znf216 has an A20 zinc-finger at the N terminus and an AN1 zinc-finger at the C terminus, acting to negatively regulate the NFkappaB activation pathway and to interact with components of the immune response like RIP, IKKgamma and TRAF6. The interact of Znf216 with IKK-gamma and RIP is mediated by the A20 zinc-finger domain, while its interaction with TRAF6 is mediated by the AN1 zinc-finger domain; therefore, both zinc-finger domains are involved in regulating the immune response []. The AN1 zinc finger domain is also found in proteins containing a ubiquitin-like domain, which are involved in the ubiquitination pathway []. Proteins containing an AN1-type zinc finger include: Ascidian posterior end mark 6 (pem-6) protein []. Human AWP1 protein (associated with PRK1), which is expressed during early embryogenesis []. Human immunoglobulin mu binding protein 2 (SMUBP-2), mutations in which cause muscular atrophy with respiratory distress type 1 []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 1WFP_A 1WYS_A 1WG2_A 1WFH_A 1X4W_A 1WFE_A 1WFL_A 1X4V_A.
Probab=42.27 E-value=10 Score=19.91 Aligned_cols=15 Identities=27% Similarity=0.886 Sum_probs=10.0
Q ss_pred cceeccccchhccCc
Q 044362 20 GPYTCPKCNQAFAKS 34 (116)
Q Consensus 20 kp~~C~~C~k~F~~~ 34 (116)
.||.|..|++.|-..
T Consensus 12 ~~~~C~~C~~~FC~~ 26 (43)
T PF01428_consen 12 LPFKCKHCGKSFCLK 26 (43)
T ss_dssp SHEE-TTTS-EE-TT
T ss_pred CCeECCCCCcccCcc
Confidence 589999999988764
No 66
>KOG4215 consensus Hepatocyte nuclear factor 4 and similar steroid hormone receptors [Transcription]
Probab=41.62 E-value=5.8 Score=30.97 Aligned_cols=42 Identities=19% Similarity=0.440 Sum_probs=24.7
Q ss_pred eeccccchhccCchhhHHHhHhccCCCCChhHHHHHHHhhcCC
Q 044362 22 YTCPKCNQAFAKSQIYAAHVSSGHYKFETPEQRAERLAARYPK 64 (116)
Q Consensus 22 ~~C~~C~k~F~~~~~l~~H~~~~h~~~~~~~~~~~~~~~~~~~ 64 (116)
..|+.|. .|.+.+-++.|+-++.-+...--.+.+|..|++|+
T Consensus 37 ~SCdGCK-GFFRRSVrk~~~YtCRF~k~C~VDKdkRNaCRyCR 78 (432)
T KOG4215|consen 37 ISCDGCK-GFFRRSVRKNHQYTCRFNKQCVVDKDKRNACRYCR 78 (432)
T ss_pred eecCcch-HHHHHHHHhcceeeeeccccccccchhhhhhhHhh
Confidence 4577774 56666677777765333333333455667777654
No 67
>KOG2186 consensus Cell growth-regulating nucleolar protein [Cell cycle control, cell division, chromosome partitioning]
Probab=41.42 E-value=16 Score=27.09 Aligned_cols=35 Identities=20% Similarity=0.468 Sum_probs=25.4
Q ss_pred chhhhhhccccCCCcceeccccchhccCchhhHHHhH
Q 044362 6 KYDGRTHSLPHKKNGPYTCPKCNQAFAKSQIYAAHVS 42 (116)
Q Consensus 6 ks~L~~H~r~Htgekp~~C~~C~k~F~~~~~l~~H~~ 42 (116)
+..|..|+..-++ .-|.|..|++.|.. .....|..
T Consensus 15 Kp~vekH~srCrn-~~fSCIDC~k~F~~-~sYknH~k 49 (276)
T KOG2186|consen 15 KPQVEKHMSRCRN-AYFSCIDCGKTFER-VSYKNHTK 49 (276)
T ss_pred ccchHHHHHhccC-CeeEEeeccccccc-chhhhhhh
Confidence 3456778766666 56999999999998 45556644
No 68
>PF04423 Rad50_zn_hook: Rad50 zinc hook motif; InterPro: IPR007517 The Mre11 complex (Mre11 Rad50 Nbs1) is central to chromosomal maintenance and functions in homologous recombination, telomere maintenance and sister chromatid association. The Rad50 coiled-coil region contains a dimer interface at the apex of the coiled coils in which pairs of conserved Cys-X-X-Cys motifs form interlocking hooks that bind one Zn ion. This alignment includes the zinc hook motif and a short stretch of coiled-coil on either side.; GO: 0004518 nuclease activity, 0005524 ATP binding, 0008270 zinc ion binding, 0006281 DNA repair; PDB: 1L8D_B.
Probab=39.02 E-value=12 Score=20.53 Aligned_cols=11 Identities=27% Similarity=1.002 Sum_probs=6.0
Q ss_pred eccccchhccC
Q 044362 23 TCPKCNQAFAK 33 (116)
Q Consensus 23 ~C~~C~k~F~~ 33 (116)
.|++|++.|..
T Consensus 22 ~CPlC~r~l~~ 32 (54)
T PF04423_consen 22 CCPLCGRPLDE 32 (54)
T ss_dssp E-TTT--EE-H
T ss_pred cCCCCCCCCCH
Confidence 89999998875
No 69
>PF09845 DUF2072: Zn-ribbon containing protein (DUF2072); InterPro: IPR018645 This archaeal Zinc-ribbon containing proteins have no known function.
Probab=38.95 E-value=14 Score=24.62 Aligned_cols=15 Identities=33% Similarity=0.928 Sum_probs=12.9
Q ss_pred ceeccccchhccCch
Q 044362 21 PYTCPKCNQAFAKSQ 35 (116)
Q Consensus 21 p~~C~~C~k~F~~~~ 35 (116)
|+.|..||+.|...+
T Consensus 1 PH~Ct~Cg~~f~dgs 15 (131)
T PF09845_consen 1 PHQCTKCGRVFEDGS 15 (131)
T ss_pred CcccCcCCCCcCCCc
Confidence 678999999999765
No 70
>TIGR02605 CxxC_CxxC_SSSS putative regulatory protein, FmdB family. This model represents a region of about 50 amino acids found in a number of small proteins in a wide range of bacteria. The region begins usually with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One member of this family is has been noted as a putative regulatory protein, designated FmdB (PubMed:8841393). Most members of this family have a C-terminal region containing highly degenerate sequence, such as SSTSESTKSSGSSGSSGSSESKASGSTEKSTSSTTAAAAV in Mycobacterium tuberculosis and VAVGGSAPAPSPAPRAGGGGGGCCGGGCCG in Streptomyces avermitilis. These low complexity regions, which are not included in the model, resemble low-complexity C-terminal regions of some heterocycle-containing bacteriocin precursors.
Probab=37.36 E-value=15 Score=19.77 Aligned_cols=13 Identities=31% Similarity=0.884 Sum_probs=10.7
Q ss_pred eeccccchhccCc
Q 044362 22 YTCPKCNQAFAKS 34 (116)
Q Consensus 22 ~~C~~C~k~F~~~ 34 (116)
|.|..|+..|...
T Consensus 6 y~C~~Cg~~fe~~ 18 (52)
T TIGR02605 6 YRCTACGHRFEVL 18 (52)
T ss_pred EEeCCCCCEeEEE
Confidence 7899999888754
No 71
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=37.32 E-value=15 Score=26.20 Aligned_cols=24 Identities=21% Similarity=0.664 Sum_probs=17.6
Q ss_pred CcceeccccchhccCchhhHHHhH
Q 044362 19 NGPYTCPKCNQAFAKSQIYAAHVS 42 (116)
Q Consensus 19 ekp~~C~~C~k~F~~~~~l~~H~~ 42 (116)
++-+.|++|++.|....-+....+
T Consensus 3 ~k~~~CPvC~~~F~~~~vrs~~~r 26 (214)
T PF09986_consen 3 DKKITCPVCGKEFKTKKVRSGKIR 26 (214)
T ss_pred CCceECCCCCCeeeeeEEEcCCce
Confidence 467899999999988755444443
No 72
>PF01927 Mut7-C: Mut7-C RNAse domain; InterPro: IPR002782 This prokaryotic family of proteins have no known function. The proteins contain four conserved cysteines that may be involved in metal binding or disulphide bridges.
Probab=35.17 E-value=26 Score=23.35 Aligned_cols=21 Identities=14% Similarity=0.518 Sum_probs=16.2
Q ss_pred cceeccccchhccCchhhHHH
Q 044362 20 GPYTCPKCNQAFAKSQIYAAH 40 (116)
Q Consensus 20 kp~~C~~C~k~F~~~~~l~~H 40 (116)
.=|.|+.|++.|...+++..-
T Consensus 123 ~f~~C~~C~kiyW~GsH~~~~ 143 (147)
T PF01927_consen 123 EFWRCPGCGKIYWEGSHWRRM 143 (147)
T ss_pred eEEECCCCCCEecccccHHHH
Confidence 357899999999888776543
No 73
>KOG1146 consensus Homeobox protein [General function prediction only]
Probab=34.96 E-value=21 Score=32.32 Aligned_cols=25 Identities=28% Similarity=0.611 Sum_probs=22.9
Q ss_pred CcceeccccchhccCchhhHHHhHh
Q 044362 19 NGPYTCPKCNQAFAKSQIYAAHVSS 43 (116)
Q Consensus 19 ekp~~C~~C~k~F~~~~~l~~H~~~ 43 (116)
.+||.|..|...+....+|..|+..
T Consensus 516 ~~p~~C~~C~~stttng~LsihlqS 540 (1406)
T KOG1146|consen 516 GKPYPCRACNYSTTTNGNLSIHLQS 540 (1406)
T ss_pred CCcccceeeeeeeecchHHHHHHHH
Confidence 4799999999999999999999885
No 74
>PF09538 FYDLN_acid: Protein of unknown function (FYDLN_acid); InterPro: IPR012644 Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.
Probab=34.57 E-value=20 Score=22.96 Aligned_cols=18 Identities=33% Similarity=0.881 Sum_probs=13.5
Q ss_pred CCCcceeccccchhccCc
Q 044362 17 KKNGPYTCPKCNQAFAKS 34 (116)
Q Consensus 17 tgekp~~C~~C~k~F~~~ 34 (116)
.+..|..|+.||..|.-.
T Consensus 22 Lnk~PivCP~CG~~~~~~ 39 (108)
T PF09538_consen 22 LNKDPIVCPKCGTEFPPE 39 (108)
T ss_pred CCCCCccCCCCCCccCcc
Confidence 344688899999887766
No 75
>KOG2893 consensus Zn finger protein [General function prediction only]
Probab=34.23 E-value=13 Score=27.49 Aligned_cols=37 Identities=19% Similarity=0.515 Sum_probs=27.1
Q ss_pred CcceeccccchhccCchhhHHHhHhccCCCCChhHHHHHHHhhcCCCCCC
Q 044362 19 NGPYTCPKCNQAFAKSQIYAAHVSSGHYKFETPEQRAERLAARYPKRNTL 68 (116)
Q Consensus 19 ekp~~C~~C~k~F~~~~~l~~H~~~~h~~~~~~~~~~~~~~~~~~~~~~~ 68 (116)
.||| |=+|++-|-....|+.|++. +-|+|.||.+.+.
T Consensus 9 ~kpw-cwycnrefddekiliqhqka------------khfkchichkkl~ 45 (341)
T KOG2893|consen 9 DKPW-CWYCNREFDDEKILIQHQKA------------KHFKCHICHKKLF 45 (341)
T ss_pred CCce-eeecccccchhhhhhhhhhh------------ccceeeeehhhhc
Confidence 4565 77899999999999999886 2256666655444
No 76
>PF04780 DUF629: Protein of unknown function (DUF629); InterPro: IPR006865 This domain represents a region of several plant proteins of unknown function. A C2H2 zinc finger is predicted in this region in some family members, but the spacing between the cysteine residues is not conserved throughout the family.
Probab=34.06 E-value=26 Score=28.24 Aligned_cols=33 Identities=21% Similarity=0.494 Sum_probs=26.4
Q ss_pred CcceeccccchhccCchhhHHHhHhccCCCCCh
Q 044362 19 NGPYTCPKCNQAFAKSQIYAAHVSSGHYKFETP 51 (116)
Q Consensus 19 ekp~~C~~C~k~F~~~~~l~~H~~~~h~~~~~~ 51 (116)
.+=+.|+.|.+.|.....+..|+...|.+.-.+
T Consensus 55 WrFWiCp~CskkF~d~~~~~~H~~~eH~~~l~P 87 (466)
T PF04780_consen 55 WRFWICPRCSKKFSDAESCLSHMEQEHPAGLKP 87 (466)
T ss_pred eeEeeCCcccceeCCHHHHHHHHHHhhhhhcCh
Confidence 345779999999999999999998657765433
No 77
>PF13451 zf-trcl: Probable zinc-binding domain
Probab=32.78 E-value=20 Score=19.69 Aligned_cols=20 Identities=20% Similarity=0.409 Sum_probs=15.1
Q ss_pred CcceeccccchhccCchhhH
Q 044362 19 NGPYTCPKCNQAFAKSQIYA 38 (116)
Q Consensus 19 ekp~~C~~C~k~F~~~~~l~ 38 (116)
++.+.|..||..|.....=+
T Consensus 2 Dk~l~C~dCg~~FvfTa~EQ 21 (49)
T PF13451_consen 2 DKTLTCKDCGAEFVFTAGEQ 21 (49)
T ss_pred CeeEEcccCCCeEEEehhHH
Confidence 46789999999887655433
No 78
>PF10276 zf-CHCC: Zinc-finger domain; InterPro: IPR019401 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a short conserved zinc-finger domain. It contains the sequence motif Cx8Hx14Cx2C. ; PDB: 2JVM_A 2JRR_A 2JZ8_A.
Probab=32.39 E-value=23 Score=18.52 Aligned_cols=12 Identities=42% Similarity=1.290 Sum_probs=10.0
Q ss_pred cceeccccchhc
Q 044362 20 GPYTCPKCNQAF 31 (116)
Q Consensus 20 kp~~C~~C~k~F 31 (116)
++..|+.|+..|
T Consensus 28 ~~~~CpYCg~~y 39 (40)
T PF10276_consen 28 GPVVCPYCGTRY 39 (40)
T ss_dssp CEEEETTTTEEE
T ss_pred CeEECCCCCCEE
Confidence 478899999877
No 79
>PF14353 CpXC: CpXC protein
Probab=31.74 E-value=12 Score=24.12 Aligned_cols=23 Identities=26% Similarity=0.586 Sum_probs=18.2
Q ss_pred ceeccccchhccCchhhHHHhHh
Q 044362 21 PYTCPKCNQAFAKSQIYAAHVSS 43 (116)
Q Consensus 21 p~~C~~C~k~F~~~~~l~~H~~~ 43 (116)
-|.|+.||..|.-...+..|...
T Consensus 38 ~~~CP~Cg~~~~~~~p~lY~D~~ 60 (128)
T PF14353_consen 38 SFTCPSCGHKFRLEYPLLYHDPE 60 (128)
T ss_pred EEECCCCCCceecCCCEEEEcCC
Confidence 58899999998887777766553
No 80
>PF01215 COX5B: Cytochrome c oxidase subunit Vb This family consists of chains F and S ; InterPro: IPR002124 Cytochrome c oxidase (1.9.3.1 from EC) is an oligomeric enzymatic complex which is a component of the respiratory chain complex and is involved in the transfer of electrons from cytochrome c to oxygen []. In eukaryotes this enzyme complex is located in the mitochondrial inner membrane; in aerobic prokaryotes it is found in the plasma membrane. In eukaryotes, in addition to the three large subunits, I, II and III, that form the catalytic centre of the enzyme complex, there are a variable number of small polypeptidic subunits. One of these subunits, which is known as Vb in mammals, V in Dictyostelium discoideum (Slime mold) and IV in yeast, binds a zinc atom. The sequence of subunit Vb is well conserved and includes three conserved cysteines that coordinate the zinc ion [, ]. Two of these cysteines are clustered in the C-terminal section of the subunit.; GO: 0004129 cytochrome-c oxidase activity, 0005740 mitochondrial envelope; PDB: 2EIL_S 2ZXW_S 3ASN_S 1OCO_S 3AG4_S 3ABK_S 1OCZ_S 1OCC_F 3ASO_S 3ABL_S ....
Probab=29.94 E-value=20 Score=23.99 Aligned_cols=21 Identities=38% Similarity=0.738 Sum_probs=15.4
Q ss_pred ccccCCCcceeccccchhccCc
Q 044362 13 SLPHKKNGPYTCPKCNQAFAKS 34 (116)
Q Consensus 13 ~r~Htgekp~~C~~C~k~F~~~ 34 (116)
+..+.| +|..|+.||..|...
T Consensus 105 ~~l~~g-~~~RCpeCG~~fkL~ 125 (136)
T PF01215_consen 105 FWLHKG-KPQRCPECGQVFKLK 125 (136)
T ss_dssp EEEETT-SEEEETTTEEEEEEE
T ss_pred EEEeCC-CccCCCCCCeEEEEE
Confidence 445555 589999999887643
No 81
>COG3364 Zn-ribbon containing protein [General function prediction only]
Probab=28.70 E-value=29 Score=22.17 Aligned_cols=16 Identities=25% Similarity=0.802 Sum_probs=13.0
Q ss_pred ceeccccchhccCchh
Q 044362 21 PYTCPKCNQAFAKSQI 36 (116)
Q Consensus 21 p~~C~~C~k~F~~~~~ 36 (116)
|+.|..||..|...+.
T Consensus 2 pH~CtrCG~vf~~g~~ 17 (112)
T COG3364 2 PHQCTRCGEVFDDGSE 17 (112)
T ss_pred CceecccccccccccH
Confidence 6789999999988643
No 82
>PF12230 PRP21_like_P: Pre-mRNA splicing factor PRP21 like protein; InterPro: IPR022030 This domain family is found in eukaryotes, and is typically between 212 and 238 amino acids in length. The family is found in association with PF01805 from PFAM. There are two completely conserved residues (W and H) that may be functionally important. PRP21 is required for assembly of the prespliceosome and it interacts with U2 snRNP and/or pre-mRNA in the prespliceosome. This family also contains proteins similar to PRP21, such as the mammalian SF3a. SF3a also interacts with U2 snRNP from the prespliceosome, converting it to its active form. ; PDB: 4DGW_B.
Probab=24.85 E-value=24 Score=25.19 Aligned_cols=41 Identities=12% Similarity=0.186 Sum_probs=0.0
Q ss_pred CcceeccccchhccCchhhHHHhHhccCCCCChhHHHHHHHhh
Q 044362 19 NGPYTCPKCNQAFAKSQIYAAHVSSGHYKFETPEQRAERLAAR 61 (116)
Q Consensus 19 ekp~~C~~C~k~F~~~~~l~~H~~~~h~~~~~~~~~~~~~~~~ 61 (116)
..-..|+.||..+.- +.|..||++ .+.....++...++..+
T Consensus 166 ~~~~~cPitGe~IP~-~e~~eHmRi-~LlDP~wkEqr~~~~~k 206 (229)
T PF12230_consen 166 EKMIICPITGEMIPA-DEMDEHMRI-ELLDPRWKEQRDRYEAK 206 (229)
T ss_dssp -------------------------------------------
T ss_pred ccccccccccccccc-ccccccccc-ccccccccccccccccc
Confidence 344789999987654 578999999 77776665555444433
No 83
>PRK00464 nrdR transcriptional regulator NrdR; Validated
Probab=24.75 E-value=31 Score=23.47 Aligned_cols=17 Identities=18% Similarity=0.430 Sum_probs=13.3
Q ss_pred ceeccccchhccCchhh
Q 044362 21 PYTCPKCNQAFAKSQIY 37 (116)
Q Consensus 21 p~~C~~C~k~F~~~~~l 37 (116)
-+.|+.||.+|.....+
T Consensus 28 ~~~c~~c~~~f~~~e~~ 44 (154)
T PRK00464 28 RRECLACGKRFTTFERV 44 (154)
T ss_pred eeeccccCCcceEeEec
Confidence 38999999999875443
No 84
>COG4338 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=24.06 E-value=17 Score=19.95 Aligned_cols=16 Identities=31% Similarity=0.856 Sum_probs=12.4
Q ss_pred eccccchhccCchhhH
Q 044362 23 TCPKCNQAFAKSQIYA 38 (116)
Q Consensus 23 ~C~~C~k~F~~~~~l~ 38 (116)
.|+.|++.|++.....
T Consensus 14 ICpvCqRPFsWRkKW~ 29 (54)
T COG4338 14 ICPVCQRPFSWRKKWA 29 (54)
T ss_pred hhhhhcCchHHHHHHH
Confidence 5999999998765443
No 85
>KOG2071 consensus mRNA cleavage and polyadenylation factor I/II complex, subunit Pcf11 [RNA processing and modification]
Probab=23.09 E-value=46 Score=27.55 Aligned_cols=27 Identities=26% Similarity=0.551 Sum_probs=23.0
Q ss_pred cceeccccchhccCchhhHHHhHhccCC
Q 044362 20 GPYTCPKCNQAFAKSQIYAAHVSSGHYK 47 (116)
Q Consensus 20 kp~~C~~C~k~F~~~~~l~~H~~~~h~~ 47 (116)
.|-.|..||.+|-.......||-. |.-
T Consensus 417 ~pnqC~~CG~R~~~~ee~sk~md~-H~d 443 (579)
T KOG2071|consen 417 SPNQCKSCGLRFDDSEERSKHMDI-HDD 443 (579)
T ss_pred CcchhcccccccccchhhhhHhhh-hhh
Confidence 468899999999999988888888 654
No 86
>cd00729 rubredoxin_SM Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.
Probab=22.91 E-value=39 Score=16.77 Aligned_cols=12 Identities=25% Similarity=0.805 Sum_probs=8.8
Q ss_pred ceeccccchhcc
Q 044362 21 PYTCPKCNQAFA 32 (116)
Q Consensus 21 p~~C~~C~k~F~ 32 (116)
-|.|..||..+.
T Consensus 2 ~~~C~~CG~i~~ 13 (34)
T cd00729 2 VWVCPVCGYIHE 13 (34)
T ss_pred eEECCCCCCEeE
Confidence 478999986644
No 87
>KOG1842 consensus FYVE finger-containing protein [General function prediction only]
Probab=22.83 E-value=55 Score=26.36 Aligned_cols=34 Identities=18% Similarity=0.474 Sum_probs=27.0
Q ss_pred cCCC--cceeccccchhccCchhhHHHhHhccCCCC
Q 044362 16 HKKN--GPYTCPKCNQAFAKSQIYAAHVSSGHYKFE 49 (116)
Q Consensus 16 Htge--kp~~C~~C~k~F~~~~~l~~H~~~~h~~~~ 49 (116)
|.|+ .-|.|+.|..-|.....|..|.-..|.+.+
T Consensus 8 hs~~i~egflCPiC~~dl~~~~~L~~H~d~eH~~ed 43 (505)
T KOG1842|consen 8 HSGEILEGFLCPICLLDLPNLSALNDHLDVEHFEED 43 (505)
T ss_pred CcchhhhcccCchHhhhhhhHHHHHHHHhhhccccc
Confidence 3454 359999999999999999999886466554
No 88
>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]
Probab=22.65 E-value=43 Score=19.21 Aligned_cols=10 Identities=60% Similarity=1.670 Sum_probs=7.5
Q ss_pred Ccceeccccc
Q 044362 19 NGPYTCPKCN 28 (116)
Q Consensus 19 ekp~~C~~C~ 28 (116)
..||.|+.||
T Consensus 48 g~~Y~Cp~CG 57 (61)
T COG2888 48 GNPYRCPKCG 57 (61)
T ss_pred CCceECCCcC
Confidence 3578888887
No 89
>cd00350 rubredoxin_like Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.
Probab=22.45 E-value=40 Score=16.48 Aligned_cols=12 Identities=33% Similarity=1.063 Sum_probs=8.2
Q ss_pred eeccccchhccC
Q 044362 22 YTCPKCNQAFAK 33 (116)
Q Consensus 22 ~~C~~C~k~F~~ 33 (116)
|.|..||..+..
T Consensus 2 ~~C~~CGy~y~~ 13 (33)
T cd00350 2 YVCPVCGYIYDG 13 (33)
T ss_pred EECCCCCCEECC
Confidence 678888865543
No 90
>PF14787 zf-CCHC_5: GAG-polyprotein viral zinc-finger; PDB: 1CL4_A 1DSV_A.
Probab=22.14 E-value=41 Score=17.25 Aligned_cols=17 Identities=24% Similarity=0.600 Sum_probs=9.5
Q ss_pred eeccccchhccCchhhH
Q 044362 22 YTCPKCNQAFAKSQIYA 38 (116)
Q Consensus 22 ~~C~~C~k~F~~~~~l~ 38 (116)
-.|+.|++.|-+.+...
T Consensus 3 ~~CprC~kg~Hwa~~C~ 19 (36)
T PF14787_consen 3 GLCPRCGKGFHWASECR 19 (36)
T ss_dssp -C-TTTSSSCS-TTT--
T ss_pred ccCcccCCCcchhhhhh
Confidence 35888998887776543
No 91
>PF06397 Desulfoferrod_N: Desulfoferrodoxin, N-terminal domain; InterPro: IPR004462 This domain is found as essentially the full length of desulforedoxin, a 37-residue homodimeric non-haem iron protein. It is also found as the N-terminal domain of desulfoferrodoxin (rbo), a homodimeric non-haem iron protein with 2 Fe atoms per monomer in different oxidation states. This domain binds the ferric rather than the ferrous Fe of desulfoferrodoxin. Neelaredoxin, a monomeric blue non-haem iron protein, lacks this domain.; GO: 0005506 iron ion binding; PDB: 1DFX_A 1VZI_B 2JI2_D 1VZH_B 2JI3_C 2JI1_C 1VZG_A 1CFW_A 2LK5_B 1DHG_B ....
Probab=21.72 E-value=41 Score=17.21 Aligned_cols=11 Identities=27% Similarity=0.836 Sum_probs=6.1
Q ss_pred ceeccccchhc
Q 044362 21 PYTCPKCNQAF 31 (116)
Q Consensus 21 p~~C~~C~k~F 31 (116)
-|.|..||...
T Consensus 6 ~YkC~~CGniV 16 (36)
T PF06397_consen 6 FYKCEHCGNIV 16 (36)
T ss_dssp EEE-TTT--EE
T ss_pred EEEccCCCCEE
Confidence 58999999754
No 92
>PF01286 XPA_N: XPA protein N-terminal; InterPro: IPR022652 Xeroderma pigmentosum (XP) [] is a human autosomal recessive disease, characterised by a high incidence of sunlight-induced skin cancer. Skin cells of individual's with this condition are hypersensitive to ultraviolet light, due to defects in the incision step of DNA excision repair. There are a minimum of seven genetic complementation groups involved in this pathway: XP-A to XP-G. XP-A is the most severe form of the disease and is due to defects in a 30 kDa nuclear protein called XPA (or XPAC) []. The sequence of the XPA protein is conserved from higher eukaryotes [] to yeast (gene RAD14) []. XPA is a hydrophilic protein of 247 to 296 amino-acid residues which has a C4-type zinc finger motif in its central section. This entry contains the zinc-finger containing region in the XPA protein. It is found N-terminal to PF05181 from PFAM ; PDB: 1D4U_A 1XPA_A.
Probab=21.61 E-value=29 Score=17.55 Aligned_cols=16 Identities=25% Similarity=0.683 Sum_probs=8.4
Q ss_pred eeccccchhccCchhh
Q 044362 22 YTCPKCNQAFAKSQIY 37 (116)
Q Consensus 22 ~~C~~C~k~F~~~~~l 37 (116)
-.|..|++.|..+.-+
T Consensus 4 ~~C~eC~~~f~dSyL~ 19 (34)
T PF01286_consen 4 PKCDECGKPFMDSYLL 19 (34)
T ss_dssp EE-TTT--EES-SSCC
T ss_pred chHhHhCCHHHHHHHH
Confidence 3689999998876543
No 93
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=21.50 E-value=45 Score=17.51 Aligned_cols=14 Identities=21% Similarity=0.805 Sum_probs=10.2
Q ss_pred ceeccccchhccCc
Q 044362 21 PYTCPKCNQAFAKS 34 (116)
Q Consensus 21 p~~C~~C~k~F~~~ 34 (116)
.|.|+.||..|...
T Consensus 3 ~y~C~~CG~~~~~~ 16 (46)
T PRK00398 3 EYKCARCGREVELD 16 (46)
T ss_pred EEECCCCCCEEEEC
Confidence 58888888766543
No 94
>KOG0717 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]
Probab=21.25 E-value=49 Score=26.74 Aligned_cols=22 Identities=27% Similarity=0.561 Sum_probs=19.8
Q ss_pred eeccccchhccCchhhHHHhHh
Q 044362 22 YTCPKCNQAFAKSQIYAAHVSS 43 (116)
Q Consensus 22 ~~C~~C~k~F~~~~~l~~H~~~ 43 (116)
+-|.+|.++|.+...|..|..+
T Consensus 293 lyC~vCnKsFKseKq~kNHEnS 314 (508)
T KOG0717|consen 293 LYCVVCNKSFKSEKQLKNHENS 314 (508)
T ss_pred eEEeeccccccchHHHHhhHHH
Confidence 6799999999999999998775
No 95
>TIGR02098 MJ0042_CXXC MJ0042 family finger-like domain. This domain contains a CXXCX(19)CXXC motif suggestive of both zinc fingers and thioredoxin, usually found at the N-terminus of prokaryotic proteins. One partially characterized gene, agmX, is among a large set in Myxococcus whose interruption affects adventurous gliding motility.
Probab=20.92 E-value=44 Score=16.61 Aligned_cols=15 Identities=27% Similarity=0.786 Sum_probs=10.8
Q ss_pred eeccccchhccCchh
Q 044362 22 YTCPKCNQAFAKSQI 36 (116)
Q Consensus 22 ~~C~~C~k~F~~~~~ 36 (116)
+.|+.|+..|.-...
T Consensus 3 ~~CP~C~~~~~v~~~ 17 (38)
T TIGR02098 3 IQCPNCKTSFRVVDS 17 (38)
T ss_pred EECCCCCCEEEeCHH
Confidence 578999887775543
No 96
>COG3677 Transposase and inactivated derivatives [DNA replication, recombination, and repair]
Probab=20.70 E-value=43 Score=22.00 Aligned_cols=17 Identities=24% Similarity=0.704 Sum_probs=13.4
Q ss_pred CCcceeccccchhccCc
Q 044362 18 KNGPYTCPKCNQAFAKS 34 (116)
Q Consensus 18 gekp~~C~~C~k~F~~~ 34 (116)
|...|.|..|++.|...
T Consensus 50 ~~qRyrC~~C~~tf~~~ 66 (129)
T COG3677 50 GHQRYKCKSCGSTFTVE 66 (129)
T ss_pred cccccccCCcCcceeee
Confidence 35679999999988753
Done!