Query 046885
Match_columns 210
No_of_seqs 194 out of 869
Neff 3.7
Searched_HMMs 46136
Date Fri Mar 29 05:28:02 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/046885.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/046885hhsearch_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 98.7 4.4E-09 9.4E-14 95.0 0.9 47 54-108 187-233 (279)
2 PHA02768 hypothetical protein; 98.7 1.3E-08 2.9E-13 72.4 2.5 43 55-107 6-48 (55)
3 KOG2462 C2H2-type Zn-finger pr 98.4 6.4E-08 1.4E-12 87.5 1.4 49 51-107 212-260 (279)
4 KOG1074 Transcriptional repres 98.2 5.1E-07 1.1E-11 91.5 1.7 49 54-110 353-401 (958)
5 KOG3623 Homeobox transcription 98.0 1.4E-06 3.1E-11 87.7 1.0 43 52-102 920-962 (1007)
6 PHA00616 hypothetical protein 98.0 1.7E-06 3.6E-11 59.3 0.7 30 54-83 1-30 (44)
7 KOG3623 Homeobox transcription 97.9 3.7E-06 7.9E-11 84.8 2.2 44 52-103 279-322 (1007)
8 PF00096 zf-C2H2: Zinc finger, 97.9 4.3E-06 9.3E-11 47.8 0.8 23 55-77 1-23 (23)
9 KOG1074 Transcriptional repres 97.7 1.2E-05 2.5E-10 81.8 1.8 49 52-108 603-651 (958)
10 PF13912 zf-C2H2_6: C2H2-type 97.7 1.1E-05 2.4E-10 47.7 1.0 26 54-79 1-26 (27)
11 KOG3576 Ovo and related transc 97.7 4.3E-06 9.4E-11 74.3 -1.2 45 52-104 143-187 (267)
12 PHA00732 hypothetical protein 97.7 2.9E-05 6.2E-10 58.3 2.5 37 54-101 1-38 (79)
13 PF13894 zf-C2H2_4: C2H2-type 97.5 3.4E-05 7.4E-10 43.1 1.2 24 55-78 1-24 (24)
14 PHA00733 hypothetical protein 97.5 4.2E-05 9.1E-10 61.5 1.8 46 51-106 70-115 (128)
15 PF13465 zf-H2C2_2: Zinc-finge 97.5 3.8E-05 8.3E-10 46.2 0.6 25 69-101 1-25 (26)
16 smart00355 ZnF_C2H2 zinc finge 97.3 0.00014 3E-09 40.7 1.7 25 55-79 1-25 (26)
17 PF12874 zf-met: Zinc-finger o 96.5 0.00081 1.8E-08 39.0 0.2 23 55-77 1-23 (25)
18 PF13465 zf-H2C2_2: Zinc-finge 96.4 0.0012 2.5E-08 39.7 0.6 16 51-66 11-26 (26)
19 PF09237 GAGA: GAGA factor; I 96.2 0.0023 5E-08 45.8 1.3 31 52-82 22-52 (54)
20 PF12171 zf-C2H2_jaz: Zinc-fin 95.5 0.0043 9.3E-08 37.1 0.2 22 55-76 2-23 (27)
21 KOG3993 Transcription factor ( 95.0 0.0071 1.5E-07 58.5 0.3 26 54-79 295-320 (500)
22 KOG3576 Ovo and related transc 94.8 0.0064 1.4E-07 54.5 -0.5 50 51-108 114-163 (267)
23 PF13909 zf-H2C2_5: C2H2-type 94.6 0.013 2.9E-07 33.8 0.6 23 55-78 1-23 (24)
24 PF12756 zf-C2H2_2: C2H2 type 94.3 0.024 5.2E-07 40.6 1.5 26 53-78 49-74 (100)
25 KOG3608 Zn finger proteins [Ge 93.7 0.027 5.9E-07 53.8 1.1 58 52-109 290-371 (467)
26 PRK04860 hypothetical protein; 93.5 0.042 9.1E-07 46.2 1.9 38 53-102 118-155 (160)
27 PF13913 zf-C2HC_2: zinc-finge 93.4 0.044 9.5E-07 33.0 1.3 21 55-76 3-23 (25)
28 smart00451 ZnF_U1 U1-like zinc 93.3 0.047 1E-06 33.5 1.3 23 54-76 3-25 (35)
29 PHA00733 hypothetical protein 93.0 0.064 1.4E-06 43.2 2.1 26 52-77 97-122 (128)
30 PLN03086 PRLI-interacting fact 92.7 0.062 1.3E-06 53.3 1.9 39 53-101 477-515 (567)
31 PLN03086 PRLI-interacting fact 92.4 0.085 1.8E-06 52.4 2.5 37 52-100 451-487 (567)
32 PF05605 zf-Di19: Drought indu 91.7 0.13 2.9E-06 35.2 2.1 39 54-100 2-41 (54)
33 COG5189 SFP1 Putative transcri 90.3 0.18 3.9E-06 47.8 2.3 52 49-102 344-410 (423)
34 COG5189 SFP1 Putative transcri 84.9 0.31 6.7E-06 46.3 0.3 31 45-75 389-419 (423)
35 KOG3993 Transcription factor ( 84.1 0.3 6.5E-06 47.6 -0.2 27 53-79 355-381 (500)
36 PF05605 zf-Di19: Drought indu 82.7 0.87 1.9E-05 31.1 1.7 26 52-79 29-54 (54)
37 PF12756 zf-C2H2_2: C2H2 type 82.0 0.43 9.4E-06 34.1 0.0 52 56-107 1-67 (100)
38 KOG4167 Predicted DNA-binding 80.9 0.35 7.6E-06 49.9 -1.1 35 45-79 783-817 (907)
39 PHA02768 hypothetical protein; 77.4 0.92 2E-05 32.5 0.5 19 53-71 30-48 (55)
40 KOG3608 Zn finger proteins [Ge 76.8 0.72 1.6E-05 44.5 -0.3 32 51-82 173-207 (467)
41 smart00614 ZnF_BED BED zinc fi 76.1 1.6 3.6E-05 29.4 1.4 24 55-78 19-48 (50)
42 KOG2071 mRNA cleavage and poly 74.6 1.6 3.6E-05 43.7 1.5 39 47-85 411-449 (579)
43 PF02892 zf-BED: BED zinc fing 74.2 2 4.4E-05 27.7 1.4 26 52-77 14-44 (45)
44 COG5048 FOG: Zn-finger [Genera 73.4 1.9 4.1E-05 36.8 1.4 49 53-109 288-342 (467)
45 PHA00732 hypothetical protein 72.7 1.8 3.9E-05 32.5 1.0 23 53-78 26-48 (79)
46 PF05443 ROS_MUCR: ROS/MUCR tr 72.3 2 4.3E-05 35.5 1.3 28 53-83 71-98 (132)
47 KOG1146 Homeobox protein [Gene 69.4 1.5 3.3E-05 47.7 0.0 55 53-107 464-535 (1406)
48 PF09986 DUF2225: Uncharacteri 69.0 1.9 4.1E-05 37.3 0.5 51 52-102 3-60 (214)
49 PF09538 FYDLN_acid: Protein o 67.0 4.5 9.8E-05 32.2 2.2 34 50-103 6-39 (108)
50 PF12013 DUF3505: Protein of u 58.9 5.6 0.00012 30.4 1.4 27 53-79 79-109 (109)
51 COG5048 FOG: Zn-finger [Genera 54.3 4.4 9.6E-05 34.5 0.2 31 53-83 320-352 (467)
52 COG4957 Predicted transcriptio 50.1 7.4 0.00016 33.0 0.8 26 55-83 77-102 (148)
53 KOG2482 Predicted C2H2-type Zn 44.5 13 0.00028 36.0 1.6 29 54-82 195-225 (423)
54 TIGR02300 FYDLN_acid conserved 44.2 18 0.00039 30.1 2.2 34 55-107 10-43 (129)
55 COG4049 Uncharacterized protei 43.4 8.3 0.00018 28.5 0.1 25 52-76 15-39 (65)
56 PF09845 DUF2072: Zn-ribbon co 43.1 12 0.00025 31.3 0.9 15 54-68 1-15 (131)
57 KOG2893 Zn finger protein [Gen 42.5 17 0.00038 33.8 2.1 42 56-109 12-53 (341)
58 PF13878 zf-C2H2_3: zinc-finge 40.0 18 0.00038 24.0 1.3 25 54-78 13-39 (41)
59 KOG2893 Zn finger protein [Gen 38.8 8.5 0.00018 35.7 -0.5 27 52-78 32-59 (341)
60 COG4888 Uncharacterized Zn rib 37.5 11 0.00023 30.4 -0.0 39 52-102 20-58 (104)
61 smart00834 CxxC_CXXC_SSSS Puta 37.1 13 0.00029 23.2 0.3 18 53-70 4-21 (41)
62 smart00154 ZnF_AN1 AN1-like Zi 36.6 16 0.00034 24.0 0.6 14 54-67 12-25 (39)
63 smart00734 ZnF_Rad18 Rad18-lik 33.3 28 0.0006 21.1 1.3 20 55-75 2-21 (26)
64 PF01428 zf-AN1: AN1-like Zinc 29.0 17 0.00038 23.9 -0.1 15 53-67 12-26 (43)
65 TIGR02605 CxxC_CxxC_SSSS putat 27.5 23 0.00051 23.5 0.3 14 54-67 5-18 (52)
66 PF09723 Zn-ribbon_8: Zinc rib 26.8 24 0.00052 23.2 0.2 16 54-69 5-20 (42)
67 cd00350 rubredoxin_like Rubred 25.6 49 0.0011 20.6 1.5 12 55-66 2-13 (33)
68 PRK04860 hypothetical protein; 25.1 27 0.00059 29.4 0.3 17 52-68 141-157 (160)
69 KOG1842 FYVE finger-containing 24.9 32 0.00069 34.2 0.8 29 53-81 14-43 (505)
70 PF09305 TACI-CRD2: TACI, cyst 24.0 35 0.00077 23.4 0.7 8 2-9 5-12 (41)
71 COG3364 Zn-ribbon containing p 23.8 38 0.00083 27.6 0.9 15 54-68 2-16 (112)
72 KOG0717 Molecular chaperone (D 23.4 36 0.00078 33.9 0.9 32 55-86 293-326 (508)
73 PRK06266 transcription initiat 23.4 35 0.00075 29.0 0.7 31 53-100 116-146 (178)
74 PRK00464 nrdR transcriptional 22.8 30 0.00065 29.1 0.2 22 53-74 27-48 (154)
75 PF10571 UPF0547: Uncharacteri 22.7 48 0.001 20.2 1.0 12 54-65 14-25 (26)
76 PF04423 Rad50_zn_hook: Rad50 22.5 29 0.00063 23.6 0.0 19 56-74 22-42 (54)
77 KOG3408 U1-like Zn-finger-cont 22.4 36 0.00078 28.4 0.6 24 53-76 56-79 (129)
78 TIGR00373 conserved hypothetic 21.3 44 0.00096 27.7 0.9 31 53-100 108-138 (158)
79 PF04959 ARS2: Arsenite-resist 21.2 32 0.00069 30.5 0.0 29 52-80 75-103 (214)
80 cd00924 Cyt_c_Oxidase_Vb Cytoc 20.2 42 0.00091 26.4 0.5 14 52-65 77-90 (97)
No 1
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=98.68 E-value=4.4e-09 Score=94.96 Aligned_cols=47 Identities=21% Similarity=0.472 Sum_probs=42.5
Q ss_pred ccccCccccccCCcchHHHHhhhcCCcchhhhccCCCCCCCCCCCCCCCCCCCCc
Q 046885 54 SYSCSFCRREFKSAQALGGHMNVHRRDRARLKNSLNKSTHHKCPSDHSSPSNNVV 108 (210)
Q Consensus 54 PY~C~~CgK~FsssqALggHmriHtgERp~~~q~p~~~~h~iCg~~F~~~~~Lg~ 108 (210)
|++|.+|||.|++..-|.||+|+|||||| | .|..|++.|+-..||--
T Consensus 187 ~c~C~iCGKaFSRPWLLQGHiRTHTGEKP------F--~C~hC~kAFADRSNLRA 233 (279)
T KOG2462|consen 187 PCECGICGKAFSRPWLLQGHIRTHTGEKP------F--SCPHCGKAFADRSNLRA 233 (279)
T ss_pred CcccccccccccchHHhhcccccccCCCC------c--cCCcccchhcchHHHHH
Confidence 79999999999999999999999999994 5 79999999988888854
No 2
>PHA02768 hypothetical protein; Provisional
Probab=98.66 E-value=1.3e-08 Score=72.45 Aligned_cols=43 Identities=14% Similarity=0.352 Sum_probs=37.3
Q ss_pred cccCccccccCCcchHHHHhhhcCCcchhhhccCCCCCCCCCCCCCCCCCCCC
Q 046885 55 YSCSFCRREFKSAQALGGHMNVHRRDRARLKNSLNKSTHHKCPSDHSSPSNNV 107 (210)
Q Consensus 55 Y~C~~CgK~FsssqALggHmriHtgERp~~~q~p~~~~h~iCg~~F~~~~~Lg 107 (210)
|+|+.|||.|++.++|..||++|+ + ++ .|..|++.|....+|-
T Consensus 6 y~C~~CGK~Fs~~~~L~~H~r~H~--k------~~--kc~~C~k~f~~~s~l~ 48 (55)
T PHA02768 6 YECPICGEIYIKRKSMITHLRKHN--T------NL--KLSNCKRISLRTGEYI 48 (55)
T ss_pred cCcchhCCeeccHHHHHHHHHhcC--C------cc--cCCcccceecccceeE
Confidence 899999999999999999999999 2 33 5789999998776653
No 3
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=98.44 E-value=6.4e-08 Score=87.52 Aligned_cols=49 Identities=20% Similarity=0.432 Sum_probs=43.4
Q ss_pred CCCccccCccccccCCcchHHHHhhhcCCcchhhhccCCCCCCCCCCCCCCCCCCCC
Q 046885 51 PPRSYSCSFCRREFKSAQALGGHMNVHRRDRARLKNSLNKSTHHKCPSDHSSPSNNV 107 (210)
Q Consensus 51 ~eKPY~C~~CgK~FsssqALggHmriHtgERp~~~q~p~~~~h~iCg~~F~~~~~Lg 107 (210)
+||||.|..|+|+|..+++|+-||++|.+.| ++ .|..|++.|+.-.-|.
T Consensus 212 GEKPF~C~hC~kAFADRSNLRAHmQTHS~~K------~~--qC~~C~KsFsl~SyLn 260 (279)
T KOG2462|consen 212 GEKPFSCPHCGKAFADRSNLRAHMQTHSDVK------KH--QCPRCGKSFALKSYLN 260 (279)
T ss_pred CCCCccCCcccchhcchHHHHHHHHhhcCCc------cc--cCcchhhHHHHHHHHH
Confidence 4899999999999999999999999999998 34 7999999997655544
No 4
>KOG1074 consensus Transcriptional repressor SALM [Transcription]
Probab=98.20 E-value=5.1e-07 Score=91.47 Aligned_cols=49 Identities=29% Similarity=0.440 Sum_probs=44.8
Q ss_pred ccccCccccccCCcchHHHHhhhcCCcchhhhccCCCCCCCCCCCCCCCCCCCCccc
Q 046885 54 SYSCSFCRREFKSAQALGGHMNVHRRDRARLKNSLNKSTHHKCPSDHSSPSNNVVVV 110 (210)
Q Consensus 54 PY~C~~CgK~FsssqALggHmriHtgERp~~~q~p~~~~h~iCg~~F~~~~~Lg~~~ 110 (210)
+++|.+|+|.|.+.++|..|.|.||||| || .|+|||..|.+.-||-..+
T Consensus 353 khkCr~CakvfgS~SaLqiHlRSHTGER------Pf--qCnvCG~~FSTkGNLKvH~ 401 (958)
T KOG1074|consen 353 KHKCRFCAKVFGSDSALQIHLRSHTGER------PF--QCNVCGNRFSTKGNLKVHF 401 (958)
T ss_pred cchhhhhHhhcCchhhhhhhhhccCCCC------Ce--eecccccccccccceeeee
Confidence 5899999999999999999999999999 45 7999999999999996543
No 5
>KOG3623 consensus Homeobox transcription factor SIP1 [Transcription]
Probab=98.03 E-value=1.4e-06 Score=87.67 Aligned_cols=43 Identities=28% Similarity=0.600 Sum_probs=39.2
Q ss_pred CCccccCccccccCCcchHHHHhhhcCCcchhhhccCCCCCCCCCCCCCCC
Q 046885 52 PRSYSCSFCRREFKSAQALGGHMNVHRRDRARLKNSLNKSTHHKCPSDHSS 102 (210)
Q Consensus 52 eKPY~C~~CgK~FsssqALggHmriHtgERp~~~q~p~~~~h~iCg~~F~~ 102 (210)
.|||+|.+|.|+|..+..|.-|+|.|.||| || .|..|++.|..
T Consensus 920 qRPyqC~iCkKAFKHKHHLtEHkRLHSGEK------Pf--QCdKClKRFSH 962 (1007)
T KOG3623|consen 920 QRPYQCIICKKAFKHKHHLTEHKRLHSGEK------PF--QCDKCLKRFSH 962 (1007)
T ss_pred CCCcccchhhHhhhhhhhhhhhhhhccCCC------cc--hhhhhhhhccc
Confidence 699999999999999999999999999999 45 79999999964
No 6
>PHA00616 hypothetical protein
Probab=98.01 E-value=1.7e-06 Score=59.30 Aligned_cols=30 Identities=17% Similarity=0.354 Sum_probs=28.3
Q ss_pred ccccCccccccCCcchHHHHhhhcCCcchh
Q 046885 54 SYSCSFCRREFKSAQALGGHMNVHRRDRAR 83 (210)
Q Consensus 54 PY~C~~CgK~FsssqALggHmriHtgERp~ 83 (210)
||+|..||+.|..++.|..|++.|+|+++.
T Consensus 1 pYqC~~CG~~F~~~s~l~~H~r~~hg~~~~ 30 (44)
T PHA00616 1 MYQCLRCGGIFRKKKEVIEHLLSVHKQNKL 30 (44)
T ss_pred CCccchhhHHHhhHHHHHHHHHHhcCCCcc
Confidence 799999999999999999999999999764
No 7
>KOG3623 consensus Homeobox transcription factor SIP1 [Transcription]
Probab=97.95 E-value=3.7e-06 Score=84.82 Aligned_cols=44 Identities=23% Similarity=0.534 Sum_probs=39.4
Q ss_pred CCccccCccccccCCcchHHHHhhhcCCcchhhhccCCCCCCCCCCCCCCCC
Q 046885 52 PRSYSCSFCRREFKSAQALGGHMNVHRRDRARLKNSLNKSTHHKCPSDHSSP 103 (210)
Q Consensus 52 eKPY~C~~CgK~FsssqALggHmriHtgERp~~~q~p~~~~h~iCg~~F~~~ 103 (210)
-|.|+|.+|||+|.-+..|+-|.|||.|||| | -|.-|++.|...
T Consensus 279 lRKFKCtECgKAFKfKHHLKEHlRIHSGEKP------f--eCpnCkKRFSHS 322 (1007)
T KOG3623|consen 279 LRKFKCTECGKAFKFKHHLKEHLRIHSGEKP------F--ECPNCKKRFSHS 322 (1007)
T ss_pred hccccccccchhhhhHHHHHhhheeecCCCC------c--CCcccccccccC
Confidence 3889999999999999999999999999994 5 788899988653
No 8
>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=97.88 E-value=4.3e-06 Score=47.82 Aligned_cols=23 Identities=39% Similarity=0.862 Sum_probs=21.9
Q ss_pred cccCccccccCCcchHHHHhhhc
Q 046885 55 YSCSFCRREFKSAQALGGHMNVH 77 (210)
Q Consensus 55 Y~C~~CgK~FsssqALggHmriH 77 (210)
|+|+.|++.|++...|..||+.|
T Consensus 1 y~C~~C~~~f~~~~~l~~H~~~H 23 (23)
T PF00096_consen 1 YKCPICGKSFSSKSNLKRHMRRH 23 (23)
T ss_dssp EEETTTTEEESSHHHHHHHHHHH
T ss_pred CCCCCCCCccCCHHHHHHHHhHC
Confidence 78999999999999999999976
No 9
>KOG1074 consensus Transcriptional repressor SALM [Transcription]
Probab=97.74 E-value=1.2e-05 Score=81.85 Aligned_cols=49 Identities=20% Similarity=0.345 Sum_probs=43.0
Q ss_pred CCccccCccccccCCcchHHHHhhhcCCcchhhhccCCCCCCCCCCCCCCCCCCCCc
Q 046885 52 PRSYSCSFCRREFKSAQALGGHMNVHRRDRARLKNSLNKSTHHKCPSDHSSPSNNVV 108 (210)
Q Consensus 52 eKPY~C~~CgK~FsssqALggHmriHtgERp~~~q~p~~~~h~iCg~~F~~~~~Lg~ 108 (210)
.-|-+|=+|-|+.++.+||.-|.|+|+|||| + .|+|||+.|.|.-||--
T Consensus 603 TdPNqCiiC~rVlSC~saLqmHyrtHtGERP------F--kCKiCgRAFtTkGNLka 651 (958)
T KOG1074|consen 603 TDPNQCIICLRVLSCPSALQMHYRTHTGERP------F--KCKICGRAFTTKGNLKA 651 (958)
T ss_pred CCccceeeeeecccchhhhhhhhhcccCcCc------c--ccccccchhccccchhh
Confidence 4578999999999999999999999999994 5 79999999999999854
No 10
>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=97.73 E-value=1.1e-05 Score=47.70 Aligned_cols=26 Identities=31% Similarity=0.607 Sum_probs=24.3
Q ss_pred ccccCccccccCCcchHHHHhhhcCC
Q 046885 54 SYSCSFCRREFKSAQALGGHMNVHRR 79 (210)
Q Consensus 54 PY~C~~CgK~FsssqALggHmriHtg 79 (210)
||+|..|++.|.+..+|..|++.|..
T Consensus 1 ~~~C~~C~~~F~~~~~l~~H~~~h~~ 26 (27)
T PF13912_consen 1 PFECDECGKTFSSLSALREHKRSHCS 26 (27)
T ss_dssp SEEETTTTEEESSHHHHHHHHCTTTT
T ss_pred CCCCCccCCccCChhHHHHHhHHhcC
Confidence 69999999999999999999998864
No 11
>KOG3576 consensus Ovo and related transcription factors [Transcription]
Probab=97.73 E-value=4.3e-06 Score=74.32 Aligned_cols=45 Identities=20% Similarity=0.397 Sum_probs=34.5
Q ss_pred CCccccCccccccCCcchHHHHhhhcCCcchhhhccCCCCCCCCCCCCCCCCC
Q 046885 52 PRSYSCSFCRREFKSAQALGGHMNVHRRDRARLKNSLNKSTHHKCPSDHSSPS 104 (210)
Q Consensus 52 eKPY~C~~CgK~FsssqALggHmriHtgERp~~~q~p~~~~h~iCg~~F~~~~ 104 (210)
.|.|-|.+|||.|....+|++|+|+|||-| || .|..|++.|.+.=
T Consensus 143 vkr~lct~cgkgfndtfdlkrh~rthtgvr------py--kc~~c~kaftqrc 187 (267)
T KOG3576|consen 143 VKRHLCTFCGKGFNDTFDLKRHTRTHTGVR------PY--KCSLCEKAFTQRC 187 (267)
T ss_pred HHHHHHhhccCcccchhhhhhhhccccCcc------cc--chhhhhHHHHhhc
Confidence 456777788888888888888888888887 45 6888888886543
No 12
>PHA00732 hypothetical protein
Probab=97.66 E-value=2.9e-05 Score=58.28 Aligned_cols=37 Identities=19% Similarity=0.312 Sum_probs=32.5
Q ss_pred ccccCccccccCCcchHHHHhhh-cCCcchhhhccCCCCCCCCCCCCCC
Q 046885 54 SYSCSFCRREFKSAQALGGHMNV-HRRDRARLKNSLNKSTHHKCPSDHS 101 (210)
Q Consensus 54 PY~C~~CgK~FsssqALggHmri-HtgERp~~~q~p~~~~h~iCg~~F~ 101 (210)
||.|..|++.|.+..+|..|++. |++ + .|..|++.|.
T Consensus 1 py~C~~Cgk~F~s~s~Lk~H~r~~H~~---------~--~C~~CgKsF~ 38 (79)
T PHA00732 1 MFKCPICGFTTVTLFALKQHARRNHTL---------T--KCPVCNKSYR 38 (79)
T ss_pred CccCCCCCCccCCHHHHHHHhhcccCC---------C--ccCCCCCEeC
Confidence 69999999999999999999984 653 2 4999999997
No 13
>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=97.55 E-value=3.4e-05 Score=43.09 Aligned_cols=24 Identities=33% Similarity=0.868 Sum_probs=20.4
Q ss_pred cccCccccccCCcchHHHHhhhcC
Q 046885 55 YSCSFCRREFKSAQALGGHMNVHR 78 (210)
Q Consensus 55 Y~C~~CgK~FsssqALggHmriHt 78 (210)
|.|++|++.|.+..+|..|++.|.
T Consensus 1 ~~C~~C~~~~~~~~~l~~H~~~~H 24 (24)
T PF13894_consen 1 FQCPICGKSFRSKSELRQHMRTHH 24 (24)
T ss_dssp EE-SSTS-EESSHHHHHHHHHHHS
T ss_pred CCCcCCCCcCCcHHHHHHHHHhhC
Confidence 789999999999999999999873
No 14
>PHA00733 hypothetical protein
Probab=97.52 E-value=4.2e-05 Score=61.52 Aligned_cols=46 Identities=17% Similarity=0.412 Sum_probs=38.4
Q ss_pred CCCccccCccccccCCcchHHHHhhhcCCcchhhhccCCCCCCCCCCCCCCCCCCC
Q 046885 51 PPRSYSCSFCRREFKSAQALGGHMNVHRRDRARLKNSLNKSTHHKCPSDHSSPSNN 106 (210)
Q Consensus 51 ~eKPY~C~~CgK~FsssqALggHmriHtgERp~~~q~p~~~~h~iCg~~F~~~~~L 106 (210)
..+||.|..||+.|++..+|..|+++|. + ++ .|.+|++.|....+|
T Consensus 70 ~~kPy~C~~Cgk~Fss~s~L~~H~r~h~--~------~~--~C~~CgK~F~~~~sL 115 (128)
T PHA00733 70 AVSPYVCPLCLMPFSSSVSLKQHIRYTE--H------SK--VCPVCGKEFRNTDST 115 (128)
T ss_pred CCCCccCCCCCCcCCCHHHHHHHHhcCC--c------Cc--cCCCCCCccCCHHHH
Confidence 3689999999999999999999999873 2 24 799999999765444
No 15
>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=97.46 E-value=3.8e-05 Score=46.22 Aligned_cols=25 Identities=24% Similarity=0.361 Sum_probs=20.4
Q ss_pred hHHHHhhhcCCcchhhhccCCCCCCCCCCCCCC
Q 046885 69 ALGGHMNVHRRDRARLKNSLNKSTHHKCPSDHS 101 (210)
Q Consensus 69 ALggHmriHtgERp~~~q~p~~~~h~iCg~~F~ 101 (210)
+|..||++|++|| |+ .|.+|++.|.
T Consensus 1 ~l~~H~~~H~~~k------~~--~C~~C~k~F~ 25 (26)
T PF13465_consen 1 NLRRHMRTHTGEK------PY--KCPYCGKSFS 25 (26)
T ss_dssp HHHHHHHHHSSSS------SE--EESSSSEEES
T ss_pred CHHHHhhhcCCCC------CC--CCCCCcCeeC
Confidence 5788999999988 34 7888988885
No 16
>smart00355 ZnF_C2H2 zinc finger.
Probab=97.30 E-value=0.00014 Score=40.68 Aligned_cols=25 Identities=44% Similarity=0.794 Sum_probs=23.0
Q ss_pred cccCccccccCCcchHHHHhhhcCC
Q 046885 55 YSCSFCRREFKSAQALGGHMNVHRR 79 (210)
Q Consensus 55 Y~C~~CgK~FsssqALggHmriHtg 79 (210)
|+|..|++.|.....|..|++.|..
T Consensus 1 ~~C~~C~~~f~~~~~l~~H~~~H~~ 25 (26)
T smart00355 1 YRCPECGKVFKSKSALKEHMRTHXX 25 (26)
T ss_pred CCCCCCcchhCCHHHHHHHHHHhcc
Confidence 6899999999999999999998763
No 17
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=96.45 E-value=0.00081 Score=38.96 Aligned_cols=23 Identities=26% Similarity=0.764 Sum_probs=21.5
Q ss_pred cccCccccccCCcchHHHHhhhc
Q 046885 55 YSCSFCRREFKSAQALGGHMNVH 77 (210)
Q Consensus 55 Y~C~~CgK~FsssqALggHmriH 77 (210)
|.|.+|++.|.+..+|..|++.|
T Consensus 1 ~~C~~C~~~f~s~~~~~~H~~s~ 23 (25)
T PF12874_consen 1 FYCDICNKSFSSENSLRQHLRSK 23 (25)
T ss_dssp EEETTTTEEESSHHHHHHHHTTH
T ss_pred CCCCCCCCCcCCHHHHHHHHCcC
Confidence 68999999999999999999865
No 18
>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=96.39 E-value=0.0012 Score=39.74 Aligned_cols=16 Identities=25% Similarity=0.985 Sum_probs=14.1
Q ss_pred CCCccccCccccccCC
Q 046885 51 PPRSYSCSFCRREFKS 66 (210)
Q Consensus 51 ~eKPY~C~~CgK~Fss 66 (210)
++|||.|++|+|.|.+
T Consensus 11 ~~k~~~C~~C~k~F~~ 26 (26)
T PF13465_consen 11 GEKPYKCPYCGKSFSN 26 (26)
T ss_dssp SSSSEEESSSSEEESS
T ss_pred CCCCCCCCCCcCeeCc
Confidence 3699999999999974
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=96.18 E-value=0.0023 Score=45.76 Aligned_cols=31 Identities=13% Similarity=0.475 Sum_probs=23.5
Q ss_pred CCccccCccccccCCcchHHHHhhhcCCcch
Q 046885 52 PRSYSCSFCRREFKSAQALGGHMNVHRRDRA 82 (210)
Q Consensus 52 eKPY~C~~CgK~FsssqALggHmriHtgERp 82 (210)
+.|..|++|+..+++..+|.+|+.++++.||
T Consensus 22 ~~PatCP~C~a~~~~srnLrRHle~~H~~k~ 52 (54)
T PF09237_consen 22 EQPATCPICGAVIRQSRNLRRHLEIRHFKKP 52 (54)
T ss_dssp S--EE-TTT--EESSHHHHHHHHHHHTTTS-
T ss_pred CCCCCCCcchhhccchhhHHHHHHHHhcccC
Confidence 5789999999999999999999999888876
No 20
>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=95.46 E-value=0.0043 Score=37.09 Aligned_cols=22 Identities=32% Similarity=0.696 Sum_probs=20.8
Q ss_pred cccCccccccCCcchHHHHhhh
Q 046885 55 YSCSFCRREFKSAQALGGHMNV 76 (210)
Q Consensus 55 Y~C~~CgK~FsssqALggHmri 76 (210)
|-|.+|+|.|.+..+|..|++.
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 7899999999999999999975
No 21
>KOG3993 consensus Transcription factor (contains Zn finger) [Transcription]
Probab=95.01 E-value=0.0071 Score=58.51 Aligned_cols=26 Identities=27% Similarity=0.635 Sum_probs=24.4
Q ss_pred ccccCccccccCCcchHHHHhhhcCC
Q 046885 54 SYSCSFCRREFKSAQALGGHMNVHRR 79 (210)
Q Consensus 54 PY~C~~CgK~FsssqALggHmriHtg 79 (210)
-|+|..|+|.|++.-+|--|.|-|.-
T Consensus 295 EYrCPEC~KVFsCPANLASHRRWHKP 320 (500)
T KOG3993|consen 295 EYRCPECDKVFSCPANLASHRRWHKP 320 (500)
T ss_pred eecCCcccccccCchhhhhhhcccCC
Confidence 49999999999999999999999984
No 22
>KOG3576 consensus Ovo and related transcription factors [Transcription]
Probab=94.82 E-value=0.0064 Score=54.54 Aligned_cols=50 Identities=16% Similarity=0.357 Sum_probs=41.1
Q ss_pred CCCccccCccccccCCcchHHHHhhhcCCcchhhhccCCCCCCCCCCCCCCCCCCCCc
Q 046885 51 PPRSYSCSFCRREFKSAQALGGHMNVHRRDRARLKNSLNKSTHHKCPSDHSSPSNNVV 108 (210)
Q Consensus 51 ~eKPY~C~~CgK~FsssqALggHmriHtgERp~~~q~p~~~~h~iCg~~F~~~~~Lg~ 108 (210)
....|.|.+|+|.|+-..-|.+||..|..-|. .-|..||+.|+--..|-.
T Consensus 114 d~d~ftCrvCgK~F~lQRmlnrh~kch~~vkr--------~lct~cgkgfndtfdlkr 163 (267)
T KOG3576|consen 114 DQDSFTCRVCGKKFGLQRMLNRHLKCHSDVKR--------HLCTFCGKGFNDTFDLKR 163 (267)
T ss_pred CCCeeeeehhhhhhhHHHHHHHHhhhccHHHH--------HHHhhccCcccchhhhhh
Confidence 35679999999999999999999999998762 258899999976555533
No 23
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=94.58 E-value=0.013 Score=33.77 Aligned_cols=23 Identities=26% Similarity=0.622 Sum_probs=19.0
Q ss_pred cccCccccccCCcchHHHHhhhcC
Q 046885 55 YSCSFCRREFKSAQALGGHMNVHR 78 (210)
Q Consensus 55 Y~C~~CgK~FsssqALggHmriHt 78 (210)
|+|++|+.... ...|..|++.|.
T Consensus 1 y~C~~C~y~t~-~~~l~~H~~~~H 23 (24)
T PF13909_consen 1 YKCPHCSYSTS-KSNLKRHLKRHH 23 (24)
T ss_dssp EE-SSSS-EES-HHHHHHHHHHHH
T ss_pred CCCCCCCCcCC-HHHHHHHHHhhC
Confidence 78999999998 999999999864
No 24
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=94.29 E-value=0.024 Score=40.63 Aligned_cols=26 Identities=35% Similarity=0.862 Sum_probs=22.5
Q ss_pred CccccCccccccCCcchHHHHhhhcC
Q 046885 53 RSYSCSFCRREFKSAQALGGHMNVHR 78 (210)
Q Consensus 53 KPY~C~~CgK~FsssqALggHmriHt 78 (210)
..+.|.+|++.|.+..+|..||+.|.
T Consensus 49 ~~~~C~~C~~~f~s~~~l~~Hm~~~~ 74 (100)
T PF12756_consen 49 ESFRCPYCNKTFRSREALQEHMRSKH 74 (100)
T ss_dssp SSEEBSSSS-EESSHHHHHHHHHHTT
T ss_pred CCCCCCccCCCCcCHHHHHHHHcCcc
Confidence 36999999999999999999999753
No 25
>KOG3608 consensus Zn finger proteins [General function prediction only]
Probab=93.69 E-value=0.027 Score=53.83 Aligned_cols=58 Identities=19% Similarity=0.308 Sum_probs=42.3
Q ss_pred CCccccCccccccCCcchHHHHhhhcCCc-----c------hhh-h------------ccCCCCCCCCCCCCCCCCCCCC
Q 046885 52 PRSYSCSFCRREFKSAQALGGHMNVHRRD-----R------ARL-K------------NSLNKSTHHKCPSDHSSPSNNV 107 (210)
Q Consensus 52 eKPY~C~~CgK~FsssqALggHmriHtgE-----R------p~~-~------------q~p~~~~h~iCg~~F~~~~~Lg 107 (210)
.|||+|+.|.+.|.+-+.|.+|..+|+.- - .+. . ..|..+.|+.|.+-|.+|.+|+
T Consensus 290 dkpfKCd~Cd~~c~~esdL~kH~~~HS~~~y~C~h~~C~~s~r~~~q~~~H~~evhEg~np~~Y~CH~Cdr~ft~G~~L~ 369 (467)
T KOG3608|consen 290 DKPFKCDECDTRCVRESDLAKHVQVHSKTVYQCEHPDCHYSVRTYTQMRRHFLEVHEGNNPILYACHCCDRFFTSGKSLS 369 (467)
T ss_pred CCCccccchhhhhccHHHHHHHHHhccccceecCCCCCcHHHHHHHHHHHHHHHhccCCCCCceeeecchhhhccchhHH
Confidence 58899999999999999999998888731 0 000 0 0122247889999999999998
Q ss_pred cc
Q 046885 108 VV 109 (210)
Q Consensus 108 ~~ 109 (210)
..
T Consensus 370 ~H 371 (467)
T KOG3608|consen 370 AH 371 (467)
T ss_pred HH
Confidence 64
No 26
>PRK04860 hypothetical protein; Provisional
Probab=93.55 E-value=0.042 Score=46.17 Aligned_cols=38 Identities=18% Similarity=0.406 Sum_probs=32.3
Q ss_pred CccccCccccccCCcchHHHHhhhcCCcchhhhccCCCCCCCCCCCCCCC
Q 046885 53 RSYSCSFCRREFKSAQALGGHMNVHRRDRARLKNSLNKSTHHKCPSDHSS 102 (210)
Q Consensus 53 KPY~C~~CgK~FsssqALggHmriHtgERp~~~q~p~~~~h~iCg~~F~~ 102 (210)
-+|.|. |++ ....+..|+++|++++ ++ .|..|+..|..
T Consensus 118 ~~Y~C~-C~~---~~~~~rrH~ri~~g~~------~Y--rC~~C~~~l~~ 155 (160)
T PRK04860 118 FPYRCK-CQE---HQLTVRRHNRVVRGEA------VY--RCRRCGETLVF 155 (160)
T ss_pred EEEEcC-CCC---eeCHHHHHHHHhcCCc------cE--ECCCCCceeEE
Confidence 479998 998 7888999999999998 45 79999988753
No 27
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=93.44 E-value=0.044 Score=32.97 Aligned_cols=21 Identities=29% Similarity=0.748 Sum_probs=18.5
Q ss_pred cccCccccccCCcchHHHHhhh
Q 046885 55 YSCSFCRREFKSAQALGGHMNV 76 (210)
Q Consensus 55 Y~C~~CgK~FsssqALggHmri 76 (210)
..|..|||.| ...+|..|+.+
T Consensus 3 ~~C~~CgR~F-~~~~l~~H~~~ 23 (25)
T PF13913_consen 3 VPCPICGRKF-NPDRLEKHEKI 23 (25)
T ss_pred CcCCCCCCEE-CHHHHHHHHHh
Confidence 4799999999 88899999864
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=93.29 E-value=0.047 Score=33.50 Aligned_cols=23 Identities=17% Similarity=0.602 Sum_probs=21.0
Q ss_pred ccccCccccccCCcchHHHHhhh
Q 046885 54 SYSCSFCRREFKSAQALGGHMNV 76 (210)
Q Consensus 54 PY~C~~CgK~FsssqALggHmri 76 (210)
+|.|.+|++.|.+..++..|++.
T Consensus 3 ~~~C~~C~~~~~~~~~~~~H~~g 25 (35)
T smart00451 3 GFYCKLCNVTFTDEISVEAHLKG 25 (35)
T ss_pred CeEccccCCccCCHHHHHHHHCh
Confidence 58999999999999999999864
No 29
>PHA00733 hypothetical protein
Probab=93.00 E-value=0.064 Score=43.20 Aligned_cols=26 Identities=23% Similarity=0.517 Sum_probs=23.1
Q ss_pred CCccccCccccccCCcchHHHHhhhc
Q 046885 52 PRSYSCSFCRREFKSAQALGGHMNVH 77 (210)
Q Consensus 52 eKPY~C~~CgK~FsssqALggHmriH 77 (210)
+++|.|..|+|.|....+|..|++..
T Consensus 97 ~~~~~C~~CgK~F~~~~sL~~H~~~~ 122 (128)
T PHA00733 97 EHSKVCPVCGKEFRNTDSTLDHVCKK 122 (128)
T ss_pred CcCccCCCCCCccCCHHHHHHHHHHh
Confidence 46799999999999999999998743
No 30
>PLN03086 PRLI-interacting factor K; Provisional
Probab=92.73 E-value=0.062 Score=53.31 Aligned_cols=39 Identities=15% Similarity=0.193 Sum_probs=30.0
Q ss_pred CccccCccccccCCcchHHHHhhhcCCcchhhhccCCCCCCCCCCCCCC
Q 046885 53 RSYSCSFCRREFKSAQALGGHMNVHRRDRARLKNSLNKSTHHKCPSDHS 101 (210)
Q Consensus 53 KPY~C~~CgK~FsssqALggHmriHtgERp~~~q~p~~~~h~iCg~~F~ 101 (210)
+||.|+ ||+.| .+..|..|+++|..+|+ + .|..|++.|.
T Consensus 477 kpv~Cp-Cg~~~-~R~~L~~H~~thCp~Kp------i--~C~fC~~~v~ 515 (567)
T PLN03086 477 EPLQCP-CGVVL-EKEQMVQHQASTCPLRL------I--TCRFCGDMVQ 515 (567)
T ss_pred CCccCC-CCCCc-chhHHHhhhhccCCCCc------e--eCCCCCCccc
Confidence 788898 98765 56888889888888874 3 6777777774
No 31
>PLN03086 PRLI-interacting factor K; Provisional
Probab=92.44 E-value=0.085 Score=52.37 Aligned_cols=37 Identities=19% Similarity=0.349 Sum_probs=29.3
Q ss_pred CCccccCccccccCCcchHHHHhhhcCCcchhhhccCCCCCCCCCCCCC
Q 046885 52 PRSYSCSFCRREFKSAQALGGHMNVHRRDRARLKNSLNKSTHHKCPSDH 100 (210)
Q Consensus 52 eKPY~C~~CgK~FsssqALggHmriHtgERp~~~q~p~~~~h~iCg~~F 100 (210)
++.+.|+.|++.|. ...|..|+++|+ + ++ .|. ||..|
T Consensus 451 ~~H~~C~~Cgk~f~-~s~LekH~~~~H--k------pv--~Cp-Cg~~~ 487 (567)
T PLN03086 451 KNHVHCEKCGQAFQ-QGEMEKHMKVFH--E------PL--QCP-CGVVL 487 (567)
T ss_pred ccCccCCCCCCccc-hHHHHHHHHhcC--C------Cc--cCC-CCCCc
Confidence 56789999999996 678999999985 2 34 677 88655
No 32
>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=91.74 E-value=0.13 Score=35.21 Aligned_cols=39 Identities=26% Similarity=0.559 Sum_probs=28.3
Q ss_pred ccccCccccccCCcchHHHHhh-hcCCcchhhhccCCCCCCCCCCCCC
Q 046885 54 SYSCSFCRREFKSAQALGGHMN-VHRRDRARLKNSLNKSTHHKCPSDH 100 (210)
Q Consensus 54 PY~C~~CgK~FsssqALggHmr-iHtgERp~~~q~p~~~~h~iCg~~F 100 (210)
.|.|++|++.|+ ..+|..|.. .|..++. .. .|+||...+
T Consensus 2 ~f~CP~C~~~~~-~~~L~~H~~~~H~~~~~-----~v--~CPiC~~~~ 41 (54)
T PF05605_consen 2 SFTCPYCGKGFS-ESSLVEHCEDEHRSESK-----NV--VCPICSSRV 41 (54)
T ss_pred CcCCCCCCCccC-HHHHHHHHHhHCcCCCC-----Cc--cCCCchhhh
Confidence 489999999655 678999975 5666542 23 799998643
No 33
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=90.33 E-value=0.18 Score=47.85 Aligned_cols=52 Identities=19% Similarity=0.429 Sum_probs=36.7
Q ss_pred cCCCCccccCc--cccccCCcchHHHHhh-hcCCcc----hhh--------hccCCCCCCCCCCCCCCC
Q 046885 49 IWPPRSYSCSF--CRREFKSAQALGGHMN-VHRRDR----ARL--------KNSLNKSTHHKCPSDHSS 102 (210)
Q Consensus 49 ~~~eKPY~C~~--CgK~FsssqALggHmr-iHtgER----p~~--------~q~p~~~~h~iCg~~F~~ 102 (210)
...+|||+|++ |.|.++...-|+-||. .|...+ |.. +.-|| .|++|++.|.-
T Consensus 344 v~d~KpykCpV~gC~K~YknqnGLKYH~lhGH~~~~~~~~p~p~~~~~F~~~~KPY--rCevC~KRYKN 410 (423)
T COG5189 344 VKDGKPYKCPVEGCNKKYKNQNGLKYHMLHGHQNQKLHENPSPEKMNIFSAKDKPY--RCEVCDKRYKN 410 (423)
T ss_pred eecCceecCCCCCchhhhccccchhhhhhccccCcccCCCCCccccccccccCCce--eccccchhhcc
Confidence 45579999996 9999999999999986 343322 211 11233 69999999863
No 34
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=84.92 E-value=0.31 Score=46.35 Aligned_cols=31 Identities=19% Similarity=0.444 Sum_probs=26.2
Q ss_pred CCCCcCCCCccccCccccccCCcchHHHHhh
Q 046885 45 LGGCIWPPRSYSCSFCRREFKSAQALGGHMN 75 (210)
Q Consensus 45 ~~~~~~~eKPY~C~~CgK~FsssqALggHmr 75 (210)
+.++.-..|||+|++|+|.+..-.-|+-|..
T Consensus 389 ~~~F~~~~KPYrCevC~KRYKNlNGLKYHr~ 419 (423)
T COG5189 389 MNIFSAKDKPYRCEVCDKRYKNLNGLKYHRK 419 (423)
T ss_pred cccccccCCceeccccchhhccCccceeccc
Confidence 4455566799999999999999999999864
No 35
>KOG3993 consensus Transcription factor (contains Zn finger) [Transcription]
Probab=84.06 E-value=0.3 Score=47.64 Aligned_cols=27 Identities=30% Similarity=0.630 Sum_probs=24.4
Q ss_pred CccccCccccccCCcchHHHHhhhcCC
Q 046885 53 RSYSCSFCRREFKSAQALGGHMNVHRR 79 (210)
Q Consensus 53 KPY~C~~CgK~FsssqALggHmriHtg 79 (210)
.-|.|.+|+|.|++.--|+.|+.+|..
T Consensus 355 gi~~C~~C~KkFrRqAYLrKHqlthq~ 381 (500)
T KOG3993|consen 355 GIFSCHTCGKKFRRQAYLRKHQLTHQR 381 (500)
T ss_pred ceeecHHhhhhhHHHHHHHHhHHhhhc
Confidence 479999999999999999999887764
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=82.69 E-value=0.87 Score=31.14 Aligned_cols=26 Identities=23% Similarity=0.556 Sum_probs=21.2
Q ss_pred CCccccCccccccCCcchHHHHhhhcCC
Q 046885 52 PRSYSCSFCRREFKSAQALGGHMNVHRR 79 (210)
Q Consensus 52 eKPY~C~~CgK~FsssqALggHmriHtg 79 (210)
.+.+.|++|...++. +|..|++.+.+
T Consensus 29 ~~~v~CPiC~~~~~~--~l~~Hl~~~H~ 54 (54)
T PF05605_consen 29 SKNVVCPICSSRVTD--NLIRHLNSQHR 54 (54)
T ss_pred CCCccCCCchhhhhh--HHHHHHHHhcC
Confidence 467999999998764 99999987653
No 37
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=81.99 E-value=0.43 Score=34.07 Aligned_cols=52 Identities=23% Similarity=0.316 Sum_probs=11.0
Q ss_pred ccCccccccCCcchHHHHhhhcCC-cchh---hhcc----CC-------CCCCCCCCCCCCCCCCCC
Q 046885 56 SCSFCRREFKSAQALGGHMNVHRR-DRAR---LKNS----LN-------KSTHHKCPSDHSSPSNNV 107 (210)
Q Consensus 56 ~C~~CgK~FsssqALggHmriHtg-ERp~---~~q~----p~-------~~~h~iCg~~F~~~~~Lg 107 (210)
+|.+|+..|.+..+|..||...++ .-+. +... .+ .-.|.+|++.|....+|-
T Consensus 1 ~C~~C~~~f~~~~~l~~H~~~~H~~~~~~~~~l~~~~~~~~~~~~~~~~~~~C~~C~~~f~s~~~l~ 67 (100)
T PF12756_consen 1 QCLFCDESFSSVDDLLQHMKKKHGFDIPDQKYLVDPNRLLNYLRKKVKESFRCPYCNKTFRSREALQ 67 (100)
T ss_dssp ------------------------------------------------SSEEBSSSS-EESSHHHHH
T ss_pred CccccccccccccccccccccccccccccccccccccccccccccccCCCCCCCccCCCCcCHHHHH
Confidence 599999999999999999965443 2221 1000 00 025889999987655543
No 38
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=80.86 E-value=0.35 Score=49.87 Aligned_cols=35 Identities=26% Similarity=0.504 Sum_probs=30.6
Q ss_pred CCCCcCCCCccccCccccccCCcchHHHHhhhcCC
Q 046885 45 LGGCIWPPRSYSCSFCRREFKSAQALGGHMNVHRR 79 (210)
Q Consensus 45 ~~~~~~~eKPY~C~~CgK~FsssqALggHmriHtg 79 (210)
.||.+-+..-|.|.+|+|+|-.-..+.-||.+|+-
T Consensus 783 ~~~~~~~~giFpCreC~kvF~KiKSrNAHMK~Hr~ 817 (907)
T KOG4167|consen 783 SSGETDPTGIFPCRECGKVFFKIKSRNAHMKTHRQ 817 (907)
T ss_pred cCCCCCCCceeehHHHHHHHHHHhhhhHHHHHHHH
Confidence 35666667789999999999999999999999984
No 39
>PHA02768 hypothetical protein; Provisional
Probab=77.36 E-value=0.92 Score=32.53 Aligned_cols=19 Identities=16% Similarity=0.083 Sum_probs=16.8
Q ss_pred CccccCccccccCCcchHH
Q 046885 53 RSYSCSFCRREFKSAQALG 71 (210)
Q Consensus 53 KPY~C~~CgK~FsssqALg 71 (210)
++|+|..|+|.|...+.|.
T Consensus 30 k~~kc~~C~k~f~~~s~l~ 48 (55)
T PHA02768 30 TNLKLSNCKRISLRTGEYI 48 (55)
T ss_pred CcccCCcccceecccceeE
Confidence 7999999999999887764
No 40
>KOG3608 consensus Zn finger proteins [General function prediction only]
Probab=76.79 E-value=0.72 Score=44.49 Aligned_cols=32 Identities=19% Similarity=0.525 Sum_probs=26.3
Q ss_pred CCCc-cccC--ccccccCCcchHHHHhhhcCCcch
Q 046885 51 PPRS-YSCS--FCRREFKSAQALGGHMNVHRRDRA 82 (210)
Q Consensus 51 ~eKP-Y~C~--~CgK~FsssqALggHmriHtgERp 82 (210)
.+|| +.|. -|-+.|.++..|..|.|.|++||-
T Consensus 173 D~~pv~~C~W~~Ct~~~~~k~~LreH~r~Hs~eKv 207 (467)
T KOG3608|consen 173 DERPVTMCNWAMCTKHMGNKYRLREHIRTHSNEKV 207 (467)
T ss_pred CCCceeeccchhhhhhhccHHHHHHHHHhcCCCeE
Confidence 3444 5665 799999999999999999999984
No 41
>smart00614 ZnF_BED BED zinc finger. DNA-binding domain in chromatin-boundary-element-binding proteins and transposases
Probab=76.06 E-value=1.6 Score=29.38 Aligned_cols=24 Identities=21% Similarity=0.645 Sum_probs=19.9
Q ss_pred cccCccccccCCc-----chHHHHhh-hcC
Q 046885 55 YSCSFCRREFKSA-----QALGGHMN-VHR 78 (210)
Q Consensus 55 Y~C~~CgK~Fsss-----qALggHmr-iHt 78 (210)
=.|.+|++.++.. ++|..|++ .|.
T Consensus 19 a~C~~C~~~l~~~~~~gTs~L~rHl~~~h~ 48 (50)
T smart00614 19 AKCKYCGKKLSRSSKGGTSNLRRHLRRKHP 48 (50)
T ss_pred EEecCCCCEeeeCCCCCcHHHHHHHHhHCc
Confidence 3899999999876 59999998 564
No 42
>KOG2071 consensus mRNA cleavage and polyadenylation factor I/II complex, subunit Pcf11 [RNA processing and modification]
Probab=74.61 E-value=1.6 Score=43.71 Aligned_cols=39 Identities=18% Similarity=0.426 Sum_probs=32.8
Q ss_pred CCcCCCCccccCccccccCCcchHHHHhhhcCCcchhhh
Q 046885 47 GCIWPPRSYSCSFCRREFKSAQALGGHMNVHRRDRARLK 85 (210)
Q Consensus 47 ~~~~~eKPY~C~~CgK~FsssqALggHmriHtgERp~~~ 85 (210)
......+|.+|..||++|.+..-...||..|-..+-+..
T Consensus 411 ssLy~~~pnqC~~CG~R~~~~ee~sk~md~H~dwh~r~n 449 (579)
T KOG2071|consen 411 SSLYKDSPNQCKSCGLRFDDSEERSKHMDIHDDWHRRKN 449 (579)
T ss_pred hhhccCCcchhcccccccccchhhhhHhhhhhhhhhhhh
Confidence 445678899999999999999999999999987765443
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=74.17 E-value=2 Score=27.75 Aligned_cols=26 Identities=23% Similarity=0.606 Sum_probs=16.9
Q ss_pred CCccccCccccccCCc----chHHHHh-hhc
Q 046885 52 PRSYSCSFCRREFKSA----QALGGHM-NVH 77 (210)
Q Consensus 52 eKPY~C~~CgK~Fsss----qALggHm-riH 77 (210)
..-.+|.+|++.++.. ..|..|+ +.|
T Consensus 14 ~~~a~C~~C~~~~~~~~~~ts~l~~HL~~~h 44 (45)
T PF02892_consen 14 KKKAKCKYCGKVIKYSSGGTSNLKRHLKKKH 44 (45)
T ss_dssp SS-EEETTTTEE-----SSTHHHHHHHHHTT
T ss_pred cCeEEeCCCCeEEeeCCCcHHHHHHhhhhhC
Confidence 3557999999999985 7899998 444
No 44
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=73.36 E-value=1.9 Score=36.79 Aligned_cols=49 Identities=14% Similarity=0.172 Sum_probs=41.0
Q ss_pred CccccCccccccCCcchHHHHhh--hcCCc--chhhhccCCCCCCC--CCCCCCCCCCCCCcc
Q 046885 53 RSYSCSFCRREFKSAQALGGHMN--VHRRD--RARLKNSLNKSTHH--KCPSDHSSPSNNVVV 109 (210)
Q Consensus 53 KPY~C~~CgK~FsssqALggHmr--iHtgE--Rp~~~q~p~~~~h~--iCg~~F~~~~~Lg~~ 109 (210)
.++.|..|.+.|+....|..|.+ .|+++ ++ + .|. +|++.|....++...
T Consensus 288 ~~~~~~~~~~~~s~~~~l~~~~~~~~h~~~~~~~------~--~~p~~~~~~~~~~~~~~~~~ 342 (467)
T COG5048 288 LPIKSKQCNISFSRSSPLTRHLRSVNHSGESLKP------F--SCPYSLCGKLFSRNDALKRH 342 (467)
T ss_pred cCCCCccccCCccccccccccccccccccccCCc------e--eeeccCCCccccccccccCC
Confidence 58999999999999999999999 89999 54 2 344 899999888776553
No 45
>PHA00732 hypothetical protein
Probab=72.68 E-value=1.8 Score=32.46 Aligned_cols=23 Identities=17% Similarity=0.548 Sum_probs=17.9
Q ss_pred CccccCccccccCCcchHHHHhhhcC
Q 046885 53 RSYSCSFCRREFKSAQALGGHMNVHR 78 (210)
Q Consensus 53 KPY~C~~CgK~FsssqALggHmriHt 78 (210)
.++.|+.|++.|. .|..|.+++.
T Consensus 26 ~~~~C~~CgKsF~---~l~~H~~~~~ 48 (79)
T PHA00732 26 TLTKCPVCNKSYR---RLNQHFYSQY 48 (79)
T ss_pred CCCccCCCCCEeC---ChhhhhcccC
Confidence 3578999999998 5888875443
No 46
>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=72.30 E-value=2 Score=35.46 Aligned_cols=28 Identities=25% Similarity=0.477 Sum_probs=18.4
Q ss_pred CccccCccccccCCcchHHHHhhhcCCcchh
Q 046885 53 RSYSCSFCRREFKSAQALGGHMNVHRRDRAR 83 (210)
Q Consensus 53 KPY~C~~CgK~FsssqALggHmriHtgERp~ 83 (210)
.--.|-+|||.|.. |.+|.+.|+|-.|.
T Consensus 71 d~i~clecGk~~k~---LkrHL~~~~gltp~ 98 (132)
T PF05443_consen 71 DYIICLECGKKFKT---LKRHLRTHHGLTPE 98 (132)
T ss_dssp S-EE-TBT--EESB---HHHHHHHTT-S-HH
T ss_pred CeeEEccCCcccch---HHHHHHHccCCCHH
Confidence 34689999999985 79999999887663
No 47
>KOG1146 consensus Homeobox protein [General function prediction only]
Probab=69.36 E-value=1.5 Score=47.66 Aligned_cols=55 Identities=22% Similarity=0.391 Sum_probs=38.3
Q ss_pred CccccCccccccCCcchHHHHhhh-cCCcchhh---------h------ccCC-CCCCCCCCCCCCCCCCCC
Q 046885 53 RSYSCSFCRREFKSAQALGGHMNV-HRRDRARL---------K------NSLN-KSTHHKCPSDHSSPSNNV 107 (210)
Q Consensus 53 KPY~C~~CgK~FsssqALggHmri-HtgERp~~---------~------q~p~-~~~h~iCg~~F~~~~~Lg 107 (210)
|-|.|..|+..|+..++|+.|||. |..-+... . ..++ .++|..|...+.++.+|.
T Consensus 464 kt~~cpkc~~~yk~a~~L~vhmRskhp~~~~~~c~~gq~~~~~arg~~~~~~~~p~~C~~C~~stttng~Ls 535 (1406)
T KOG1146|consen 464 KTLKCPKCNWHYKLAQTLGVHMRSKHPESQSAYCKAGQNHPRLARGEVYRCPGKPYPCRACNYSTTTNGNLS 535 (1406)
T ss_pred ccccCCccchhhhhHHHhhhcccccccccchhHhHhccccccccccccccCCCCcccceeeeeeeecchHHH
Confidence 789999999999999999999997 22111000 0 0111 137889999998877664
No 48
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=68.98 E-value=1.9 Score=37.34 Aligned_cols=51 Identities=22% Similarity=0.340 Sum_probs=33.1
Q ss_pred CCccccCccccccCCcchHHHHhhhcC---Ccchhhhc-cCCC---CCCCCCCCCCCC
Q 046885 52 PRSYSCSFCRREFKSAQALGGHMNVHR---RDRARLKN-SLNK---STHHKCPSDHSS 102 (210)
Q Consensus 52 eKPY~C~~CgK~FsssqALggHmriHt---gERp~~~q-~p~~---~~h~iCg~~F~~ 102 (210)
+|.+.|++|++.|.+..-+.+..++-. .-++..+. .|.. ..|+.||-.|-.
T Consensus 3 ~k~~~CPvC~~~F~~~~vrs~~~r~~~~d~D~~~~Y~~vnP~~Y~V~vCP~CgyA~~~ 60 (214)
T PF09986_consen 3 DKKITCPVCGKEFKTKKVRSGKIRVIRRDSDFCPRYKGVNPLFYEVWVCPHCGYAAFE 60 (214)
T ss_pred CCceECCCCCCeeeeeEEEcCCceEeeecCCCccccCCCCCeeeeEEECCCCCCcccc
Confidence 477899999999999888887776522 22332221 1211 258899987643
No 49
>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=67.00 E-value=4.5 Score=32.19 Aligned_cols=34 Identities=18% Similarity=0.412 Sum_probs=24.6
Q ss_pred CCCCccccCccccccCCcchHHHHhhhcCCcchhhhccCCCCCCCCCCCCCCCC
Q 046885 50 WPPRSYSCSFCRREFKSAQALGGHMNVHRRDRARLKNSLNKSTHHKCPSDHSSP 103 (210)
Q Consensus 50 ~~eKPY~C~~CgK~FsssqALggHmriHtgERp~~~q~p~~~~h~iCg~~F~~~ 103 (210)
|+.| ..|..||+.|-- | ++.|. .|..||..|...
T Consensus 6 lGtK-R~Cp~CG~kFYD---L--------------nk~Pi--vCP~CG~~~~~~ 39 (108)
T PF09538_consen 6 LGTK-RTCPSCGAKFYD---L--------------NKDPI--VCPKCGTEFPPE 39 (108)
T ss_pred cCCc-ccCCCCcchhcc---C--------------CCCCc--cCCCCCCccCcc
Confidence 4445 589999999964 2 22355 799999999766
No 50
>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=58.87 E-value=5.6 Score=30.44 Aligned_cols=27 Identities=19% Similarity=0.423 Sum_probs=24.2
Q ss_pred Ccccc----CccccccCCcchHHHHhhhcCC
Q 046885 53 RSYSC----SFCRREFKSAQALGGHMNVHRR 79 (210)
Q Consensus 53 KPY~C----~~CgK~FsssqALggHmriHtg 79 (210)
.-|.| ..|+..+++...|..|++.++|
T Consensus 79 ~G~~C~~~~~~C~y~~~~~~~m~~H~~~~Hg 109 (109)
T PF12013_consen 79 DGYRCQCDPPHCGYITRSKKTMRKHWRKEHG 109 (109)
T ss_pred CCeeeecCCCCCCcEeccHHHHHHHHHHhcC
Confidence 44999 9999999999999999998764
No 51
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=54.27 E-value=4.4 Score=34.53 Aligned_cols=31 Identities=26% Similarity=0.593 Sum_probs=28.7
Q ss_pred CccccC--ccccccCCcchHHHHhhhcCCcchh
Q 046885 53 RSYSCS--FCRREFKSAQALGGHMNVHRRDRAR 83 (210)
Q Consensus 53 KPY~C~--~CgK~FsssqALggHmriHtgERp~ 83 (210)
+||.|. .|++.|.+..+|..|..+|++-++.
T Consensus 320 ~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~ 352 (467)
T COG5048 320 KPFSCPYSLCGKLFSRNDALKRHILLHTSISPA 352 (467)
T ss_pred CceeeeccCCCccccccccccCCcccccCCCcc
Confidence 899999 8999999999999999999998753
No 52
>COG4957 Predicted transcriptional regulator [Transcription]
Probab=50.11 E-value=7.4 Score=33.00 Aligned_cols=26 Identities=27% Similarity=0.326 Sum_probs=22.5
Q ss_pred cccCccccccCCcchHHHHhhhcCCcchh
Q 046885 55 YSCSFCRREFKSAQALGGHMNVHRRDRAR 83 (210)
Q Consensus 55 Y~C~~CgK~FsssqALggHmriHtgERp~ 83 (210)
-.|-+|||.|.+ |++|.++|.+-.|.
T Consensus 77 IicLEDGkkfKS---LKRHL~t~~gmTPd 102 (148)
T COG4957 77 IICLEDGKKFKS---LKRHLTTHYGLTPD 102 (148)
T ss_pred EEEeccCcchHH---HHHHHhcccCCCHH
Confidence 479999999985 99999999997663
No 53
>KOG2482 consensus Predicted C2H2-type Zn-finger protein [Transcription]
Probab=44.48 E-value=13 Score=35.95 Aligned_cols=29 Identities=31% Similarity=0.693 Sum_probs=24.4
Q ss_pred ccccCccccccCCcchHHHHhhh--cCCcch
Q 046885 54 SYSCSFCRREFKSAQALGGHMNV--HRRDRA 82 (210)
Q Consensus 54 PY~C~~CgK~FsssqALggHmri--HtgERp 82 (210)
.++|-+|.|.|+.+..|.-|||. |++-.|
T Consensus 195 r~~CLyCekifrdkntLkeHMrkK~HrrinP 225 (423)
T KOG2482|consen 195 RLRCLYCEKIFRDKNTLKEHMRKKRHRRINP 225 (423)
T ss_pred hheeeeeccccCCcHHHHHHHHhccCcccCC
Confidence 48999999999999999999984 555444
No 54
>TIGR02300 FYDLN_acid conserved hypothetical protein TIGR02300. 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=44.22 E-value=18 Score=30.14 Aligned_cols=34 Identities=9% Similarity=0.036 Sum_probs=23.9
Q ss_pred cccCccccccCCcchHHHHhhhcCCcchhhhccCCCCCCCCCCCCCCCCCCCC
Q 046885 55 YSCSFCRREFKSAQALGGHMNVHRRDRARLKNSLNKSTHHKCPSDHSSPSNNV 107 (210)
Q Consensus 55 Y~C~~CgK~FsssqALggHmriHtgERp~~~q~p~~~~h~iCg~~F~~~~~Lg 107 (210)
..|..||+.|-- | ++.|. .|..||..|...+.+-
T Consensus 10 r~Cp~cg~kFYD---L--------------nk~p~--vcP~cg~~~~~~~~~~ 43 (129)
T TIGR02300 10 RICPNTGSKFYD---L--------------NRRPA--VSPYTGEQFPPEEALK 43 (129)
T ss_pred ccCCCcCccccc---c--------------CCCCc--cCCCcCCccCcchhhc
Confidence 589999999954 2 22355 7999999987664443
No 55
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=43.38 E-value=8.3 Score=28.51 Aligned_cols=25 Identities=20% Similarity=0.359 Sum_probs=22.0
Q ss_pred CCccccCccccccCCcchHHHHhhh
Q 046885 52 PRSYSCSFCRREFKSAQALGGHMNV 76 (210)
Q Consensus 52 eKPY~C~~CgK~FsssqALggHmri 76 (210)
|--+.|+-||+.|+......+|.+.
T Consensus 15 E~~lrCPRC~~~FR~~K~Y~RHVNK 39 (65)
T COG4049 15 EEFLRCPRCGMVFRRRKDYIRHVNK 39 (65)
T ss_pred ceeeeCCchhHHHHHhHHHHHHhhH
Confidence 3458999999999999999999974
No 56
>PF09845 DUF2072: Zn-ribbon containing protein (DUF2072); InterPro: IPR018645 This archaeal Zinc-ribbon containing proteins have no known function.
Probab=43.13 E-value=12 Score=31.28 Aligned_cols=15 Identities=27% Similarity=0.684 Sum_probs=13.4
Q ss_pred ccccCccccccCCcc
Q 046885 54 SYSCSFCRREFKSAQ 68 (210)
Q Consensus 54 PY~C~~CgK~Fsssq 68 (210)
||+|.-||+.|...+
T Consensus 1 PH~Ct~Cg~~f~dgs 15 (131)
T PF09845_consen 1 PHQCTKCGRVFEDGS 15 (131)
T ss_pred CcccCcCCCCcCCCc
Confidence 799999999999855
No 57
>KOG2893 consensus Zn finger protein [General function prediction only]
Probab=42.50 E-value=17 Score=33.75 Aligned_cols=42 Identities=26% Similarity=0.389 Sum_probs=29.8
Q ss_pred ccCccccccCCcchHHHHhhhcCCcchhhhccCCCCCCCCCCCCCCCCCCCCcc
Q 046885 56 SCSFCRREFKSAQALGGHMNVHRRDRARLKNSLNKSTHHKCPSDHSSPSNNVVV 109 (210)
Q Consensus 56 ~C~~CgK~FsssqALggHmriHtgERp~~~q~p~~~~h~iCg~~F~~~~~Lg~~ 109 (210)
.|=+|+|.|..-..|..|+.. | .+ .|+||.+..-+++-|.-.
T Consensus 12 wcwycnrefddekiliqhqka--------k--hf--kchichkkl~sgpglsih 53 (341)
T KOG2893|consen 12 WCWYCNREFDDEKILIQHQKA--------K--HF--KCHICHKKLFSGPGLSIH 53 (341)
T ss_pred eeeecccccchhhhhhhhhhh--------c--cc--eeeeehhhhccCCCceee
Confidence 688888888888888888651 1 23 588888877777766543
No 58
>PF13878 zf-C2H2_3: zinc-finger of acetyl-transferase ESCO
Probab=40.05 E-value=18 Score=23.98 Aligned_cols=25 Identities=16% Similarity=0.343 Sum_probs=19.6
Q ss_pred ccccCccccccCCc--chHHHHhhhcC
Q 046885 54 SYSCSFCRREFKSA--QALGGHMNVHR 78 (210)
Q Consensus 54 PY~C~~CgK~Fsss--qALggHmriHt 78 (210)
.-.|+.||..|... ..-..|.+.|.
T Consensus 13 ~~~C~~CgM~Y~~~~~eD~~~H~~yH~ 39 (41)
T PF13878_consen 13 ATTCPTCGMLYSPGSPEDEKLHKKYHD 39 (41)
T ss_pred CcCCCCCCCEECCCCHHHHHHHHHHHh
Confidence 45999999999874 46677888775
No 59
>KOG2893 consensus Zn finger protein [General function prediction only]
Probab=38.76 E-value=8.5 Score=35.75 Aligned_cols=27 Identities=30% Similarity=0.753 Sum_probs=22.1
Q ss_pred CCccccCccccccCCcchHHHH-hhhcC
Q 046885 52 PRSYSCSFCRREFKSAQALGGH-MNVHR 78 (210)
Q Consensus 52 eKPY~C~~CgK~FsssqALggH-mriHt 78 (210)
.|-|+|.+|.|..-+.--|..| |++|.
T Consensus 32 akhfkchichkkl~sgpglsihcmqvhk 59 (341)
T KOG2893|consen 32 AKHFKCHICHKKLFSGPGLSIHCMQVHK 59 (341)
T ss_pred hccceeeeehhhhccCCCceeehhhhhh
Confidence 3779999999999998888887 45665
No 60
>COG4888 Uncharacterized Zn ribbon-containing protein [General function prediction only]
Probab=37.53 E-value=11 Score=30.43 Aligned_cols=39 Identities=15% Similarity=0.392 Sum_probs=25.3
Q ss_pred CCccccCccccccCCcchHHHHhhhcCCcchhhhccCCCCCCCCCCCCCCC
Q 046885 52 PRSYSCSFCRREFKSAQALGGHMNVHRRDRARLKNSLNKSTHHKCPSDHSS 102 (210)
Q Consensus 52 eKPY~C~~CgK~FsssqALggHmriHtgERp~~~q~p~~~~h~iCg~~F~~ 102 (210)
+|.|.|.+||..-.+...+.. ..... .-.|.+||+.|..
T Consensus 20 ~k~FtCp~Cghe~vs~ctvkk----------~~~~g--~~~Cg~CGls~e~ 58 (104)
T COG4888 20 PKTFTCPRCGHEKVSSCTVKK----------TVNIG--TAVCGNCGLSFEC 58 (104)
T ss_pred CceEecCccCCeeeeEEEEEe----------cCcee--EEEcccCcceEEE
Confidence 577999999987666554221 11111 1269999999864
No 61
>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=37.08 E-value=13 Score=23.23 Aligned_cols=18 Identities=28% Similarity=0.654 Sum_probs=13.6
Q ss_pred CccccCccccccCCcchH
Q 046885 53 RSYSCSFCRREFKSAQAL 70 (210)
Q Consensus 53 KPY~C~~CgK~FsssqAL 70 (210)
--|+|..||+.|.-....
T Consensus 4 Y~y~C~~Cg~~fe~~~~~ 21 (41)
T smart00834 4 YEYRCEDCGHTFEVLQKI 21 (41)
T ss_pred EEEEcCCCCCEEEEEEec
Confidence 358999999999865443
No 62
>smart00154 ZnF_AN1 AN1-like Zinc finger. Zinc finger at the C-terminus of An1, a ubiquitin-like protein in Xenopus laevis.
Probab=36.58 E-value=16 Score=24.03 Aligned_cols=14 Identities=21% Similarity=0.700 Sum_probs=12.3
Q ss_pred ccccCccccccCCc
Q 046885 54 SYSCSFCRREFKSA 67 (210)
Q Consensus 54 PY~C~~CgK~Fsss 67 (210)
||+|..|++.|-..
T Consensus 12 ~f~C~~C~~~FC~~ 25 (39)
T smart00154 12 GFKCRHCGNLFCGE 25 (39)
T ss_pred CeECCccCCccccc
Confidence 89999999999763
No 63
>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=33.33 E-value=28 Score=21.06 Aligned_cols=20 Identities=25% Similarity=0.705 Sum_probs=15.7
Q ss_pred cccCccccccCCcchHHHHhh
Q 046885 55 YSCSFCRREFKSAQALGGHMN 75 (210)
Q Consensus 55 Y~C~~CgK~FsssqALggHmr 75 (210)
..|++|++.+ ....+..|..
T Consensus 2 v~CPiC~~~v-~~~~in~HLD 21 (26)
T smart00734 2 VQCPVCFREV-PENLINSHLD 21 (26)
T ss_pred CcCCCCcCcc-cHHHHHHHHH
Confidence 3699999999 5567778764
No 64
>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=29.05 E-value=17 Score=23.87 Aligned_cols=15 Identities=20% Similarity=0.667 Sum_probs=10.0
Q ss_pred CccccCccccccCCc
Q 046885 53 RSYSCSFCRREFKSA 67 (210)
Q Consensus 53 KPY~C~~CgK~Fsss 67 (210)
-||.|..|++.|=..
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 489999999999753
No 65
>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=27.49 E-value=23 Score=23.50 Aligned_cols=14 Identities=29% Similarity=0.857 Sum_probs=11.9
Q ss_pred ccccCccccccCCc
Q 046885 54 SYSCSFCRREFKSA 67 (210)
Q Consensus 54 PY~C~~CgK~Fsss 67 (210)
-|+|..||..|.--
T Consensus 5 ey~C~~Cg~~fe~~ 18 (52)
T TIGR02605 5 EYRCTACGHRFEVL 18 (52)
T ss_pred EEEeCCCCCEeEEE
Confidence 48999999999853
No 66
>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=26.76 E-value=24 Score=23.21 Aligned_cols=16 Identities=38% Similarity=0.835 Sum_probs=12.9
Q ss_pred ccccCccccccCCcch
Q 046885 54 SYSCSFCRREFKSAQA 69 (210)
Q Consensus 54 PY~C~~CgK~FsssqA 69 (210)
-|+|..||..|.....
T Consensus 5 ey~C~~Cg~~fe~~~~ 20 (42)
T PF09723_consen 5 EYRCEECGHEFEVLQS 20 (42)
T ss_pred EEEeCCCCCEEEEEEE
Confidence 4899999999976544
No 67
>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=25.63 E-value=49 Score=20.64 Aligned_cols=12 Identities=25% Similarity=0.855 Sum_probs=7.6
Q ss_pred cccCccccccCC
Q 046885 55 YSCSFCRREFKS 66 (210)
Q Consensus 55 Y~C~~CgK~Fss 66 (210)
|.|..||..+.-
T Consensus 2 ~~C~~CGy~y~~ 13 (33)
T cd00350 2 YVCPVCGYIYDG 13 (33)
T ss_pred EECCCCCCEECC
Confidence 567777766543
No 68
>PRK04860 hypothetical protein; Provisional
Probab=25.06 E-value=27 Score=29.39 Aligned_cols=17 Identities=18% Similarity=0.403 Sum_probs=14.4
Q ss_pred CCccccCccccccCCcc
Q 046885 52 PRSYSCSFCRREFKSAQ 68 (210)
Q Consensus 52 eKPY~C~~CgK~Fsssq 68 (210)
+++|.|..|++.|....
T Consensus 141 ~~~YrC~~C~~~l~~~~ 157 (160)
T PRK04860 141 EAVYRCRRCGETLVFKG 157 (160)
T ss_pred CccEECCCCCceeEEec
Confidence 68999999999997544
No 69
>KOG1842 consensus FYVE finger-containing protein [General function prediction only]
Probab=24.89 E-value=32 Score=34.22 Aligned_cols=29 Identities=21% Similarity=0.568 Sum_probs=24.6
Q ss_pred CccccCccccccCCcchHHHHhh-hcCCcc
Q 046885 53 RSYSCSFCRREFKSAQALGGHMN-VHRRDR 81 (210)
Q Consensus 53 KPY~C~~CgK~FsssqALggHmr-iHtgER 81 (210)
.-|.|++|.+.|.+.++|.-|.- .|.+|-
T Consensus 14 egflCPiC~~dl~~~~~L~~H~d~eH~~ed 43 (505)
T KOG1842|consen 14 EGFLCPICLLDLPNLSALNDHLDVEHFEED 43 (505)
T ss_pred hcccCchHhhhhhhHHHHHHHHhhhccccc
Confidence 56999999999999999999995 566543
No 70
>PF09305 TACI-CRD2: TACI, cysteine-rich domain; InterPro: IPR015384 Cytokines can be grouped into a family on the basis of sequence, functional and structural similarities [, , ]. Tumor necrosis factor (TNF) (also known as TNF-alpha or cachectin) is a monocyte-derived cytotoxin that has been implicated in tumour regression, septic shock and cachexia [, ]. The protein is synthesised as a prohormone with an unusually long and atypical signal sequence, which is absent from the mature secreted cytokine []. A short hydrophobic stretch of amino acids serves to anchor the prohormone in lipid bilayers []. Both the mature protein and a partially-processed form of the hormone are secreted after cleavage of the propeptide []. There are a number of different families of TNF, but all these cytokines seem to form homotrimeric (or heterotrimeric in the case of LT-alpha/beta) complexes that are recognised by their specific receptors. This entry represents a cysteine-rich domain found in the TACI family of proteins. Members of this family are predominantly found in tumour necrosis factor receptor superfamily, member 13b (TACI), and are required for binding to the ligands APRIL and BAFF []. ; PDB: 1XU1_T 1XUT_A.
Probab=23.98 E-value=35 Score=23.41 Aligned_cols=8 Identities=38% Similarity=0.667 Sum_probs=5.6
Q ss_pred ccccceee
Q 046885 2 EAQAQYWM 9 (210)
Q Consensus 2 ~eq~~~~~ 9 (210)
+||++||=
T Consensus 5 keqg~YyD 12 (41)
T PF09305_consen 5 KEQGQYYD 12 (41)
T ss_dssp GGGTEEEE
T ss_pred hhhhHHHH
Confidence 57777774
No 71
>COG3364 Zn-ribbon containing protein [General function prediction only]
Probab=23.80 E-value=38 Score=27.59 Aligned_cols=15 Identities=20% Similarity=0.576 Sum_probs=13.2
Q ss_pred ccccCccccccCCcc
Q 046885 54 SYSCSFCRREFKSAQ 68 (210)
Q Consensus 54 PY~C~~CgK~Fsssq 68 (210)
||+|.-||..|...+
T Consensus 2 pH~CtrCG~vf~~g~ 16 (112)
T COG3364 2 PHQCTRCGEVFDDGS 16 (112)
T ss_pred Cceeccccccccccc
Confidence 789999999999853
No 72
>KOG0717 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]
Probab=23.43 E-value=36 Score=33.95 Aligned_cols=32 Identities=34% Similarity=0.695 Sum_probs=25.5
Q ss_pred cccCccccccCCcchHHHHhhh--cCCcchhhhc
Q 046885 55 YSCSFCRREFKSAQALGGHMNV--HRRDRARLKN 86 (210)
Q Consensus 55 Y~C~~CgK~FsssqALggHmri--HtgERp~~~q 86 (210)
+-|.+|.|.|.+--+|..|.++ |...-..++|
T Consensus 293 lyC~vCnKsFKseKq~kNHEnSKKHkenv~eLrq 326 (508)
T KOG0717|consen 293 LYCVVCNKSFKSEKQLKNHENSKKHKENVAELRQ 326 (508)
T ss_pred eEEeeccccccchHHHHhhHHHHHHHHHHHHHHH
Confidence 7899999999999999999864 6554444444
No 73
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=23.40 E-value=35 Score=29.01 Aligned_cols=31 Identities=16% Similarity=0.210 Sum_probs=24.5
Q ss_pred CccccCccccccCCcchHHHHhhhcCCcchhhhccCCCCCCCCCCCCC
Q 046885 53 RSYSCSFCRREFKSAQALGGHMNVHRRDRARLKNSLNKSTHHKCPSDH 100 (210)
Q Consensus 53 KPY~C~~CgK~FsssqALggHmriHtgERp~~~q~p~~~~h~iCg~~F 100 (210)
.-|.|+.|++.|+.-.|+.. -+ .|+.||-..
T Consensus 116 ~~Y~Cp~C~~rytf~eA~~~---------------~F--~Cp~Cg~~L 146 (178)
T PRK06266 116 MFFFCPNCHIRFTFDEAMEY---------------GF--RCPQCGEML 146 (178)
T ss_pred CEEECCCCCcEEeHHHHhhc---------------CC--cCCCCCCCC
Confidence 45999999999999988741 24 699998764
No 74
>PRK00464 nrdR transcriptional regulator NrdR; Validated
Probab=22.80 E-value=30 Score=29.12 Aligned_cols=22 Identities=18% Similarity=0.353 Sum_probs=18.1
Q ss_pred CccccCccccccCCcchHHHHh
Q 046885 53 RSYSCSFCRREFKSAQALGGHM 74 (210)
Q Consensus 53 KPY~C~~CgK~FsssqALggHm 74 (210)
+-|+|+-||+.|...-.+..=|
T Consensus 27 ~~~~c~~c~~~f~~~e~~~~~~ 48 (154)
T PRK00464 27 RRRECLACGKRFTTFERVELVP 48 (154)
T ss_pred eeeeccccCCcceEeEeccCcc
Confidence 3499999999999987776655
No 75
>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=22.71 E-value=48 Score=20.21 Aligned_cols=12 Identities=25% Similarity=0.766 Sum_probs=7.3
Q ss_pred ccccCccccccC
Q 046885 54 SYSCSFCRREFK 65 (210)
Q Consensus 54 PY~C~~CgK~Fs 65 (210)
.-.|+.||..|.
T Consensus 14 ~~~Cp~CG~~F~ 25 (26)
T PF10571_consen 14 AKFCPHCGYDFE 25 (26)
T ss_pred cCcCCCCCCCCc
Confidence 346666666664
No 76
>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=22.45 E-value=29 Score=23.58 Aligned_cols=19 Identities=26% Similarity=0.578 Sum_probs=9.6
Q ss_pred ccCccccccCCc--chHHHHh
Q 046885 56 SCSFCRREFKSA--QALGGHM 74 (210)
Q Consensus 56 ~C~~CgK~Fsss--qALggHm 74 (210)
.|++|++.|..- +.|..+.
T Consensus 22 ~CPlC~r~l~~e~~~~li~~~ 42 (54)
T PF04423_consen 22 CCPLCGRPLDEEHRQELIKKY 42 (54)
T ss_dssp E-TTT--EE-HHHHHHHHHHH
T ss_pred cCCCCCCCCCHHHHHHHHHHH
Confidence 999999999863 3444443
No 77
>KOG3408 consensus U1-like Zn-finger-containing protein, probabl erole in RNA processing/splicing [RNA processing and modification]
Probab=22.45 E-value=36 Score=28.39 Aligned_cols=24 Identities=33% Similarity=0.598 Sum_probs=21.8
Q ss_pred CccccCccccccCCcchHHHHhhh
Q 046885 53 RSYSCSFCRREFKSAQALGGHMNV 76 (210)
Q Consensus 53 KPY~C~~CgK~FsssqALggHmri 76 (210)
..|-|=.|.|-|.+..+|..|.++
T Consensus 56 GqfyCi~CaRyFi~~~~l~~H~kt 79 (129)
T KOG3408|consen 56 GQFYCIECARYFIDAKALKTHFKT 79 (129)
T ss_pred ceeehhhhhhhhcchHHHHHHHhc
Confidence 359999999999999999999974
No 78
>TIGR00373 conserved hypothetical protein TIGR00373. This family of proteins is, so far, restricted to archaeal genomes. The family appears to be distantly related to the N-terminal region of the eukaryotic transcription initiation factor IIE alpha chain.
Probab=21.30 E-value=44 Score=27.70 Aligned_cols=31 Identities=16% Similarity=0.125 Sum_probs=24.9
Q ss_pred CccccCccccccCCcchHHHHhhhcCCcchhhhccCCCCCCCCCCCCC
Q 046885 53 RSYSCSFCRREFKSAQALGGHMNVHRRDRARLKNSLNKSTHHKCPSDH 100 (210)
Q Consensus 53 KPY~C~~CgK~FsssqALggHmriHtgERp~~~q~p~~~~h~iCg~~F 100 (210)
.-|.|+.|++.|+.-.|+.. -+ .|+.||-..
T Consensus 108 ~~Y~Cp~c~~r~tf~eA~~~---------------~F--~Cp~Cg~~L 138 (158)
T TIGR00373 108 MFFICPNMCVRFTFNEAMEL---------------NF--TCPRCGAML 138 (158)
T ss_pred CeEECCCCCcEeeHHHHHHc---------------CC--cCCCCCCEe
Confidence 45999999999999999951 24 699998653
No 79
>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=21.22 E-value=32 Score=30.48 Aligned_cols=29 Identities=17% Similarity=0.503 Sum_probs=21.8
Q ss_pred CCccccCccccccCCcchHHHHhhhcCCc
Q 046885 52 PRSYSCSFCRREFKSAQALGGHMNVHRRD 80 (210)
Q Consensus 52 eKPY~C~~CgK~FsssqALggHmriHtgE 80 (210)
+..|.|.+|+|-|.-..=..+|...=+.|
T Consensus 75 ~~K~~C~lc~KlFkg~eFV~KHI~nKH~e 103 (214)
T PF04959_consen 75 EDKWRCPLCGKLFKGPEFVRKHIFNKHPE 103 (214)
T ss_dssp SEEEEE-SSS-EESSHHHHHHHHHHH-HH
T ss_pred CCEECCCCCCcccCChHHHHHHHhhcCHH
Confidence 45799999999999999999999654444
No 80
>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=20.20 E-value=42 Score=26.36 Aligned_cols=14 Identities=29% Similarity=0.634 Sum_probs=12.2
Q ss_pred CCccccCccccccC
Q 046885 52 PRSYSCSFCRREFK 65 (210)
Q Consensus 52 eKPY~C~~CgK~Fs 65 (210)
.+|++|..||..|.
T Consensus 77 g~~~rC~eCG~~fk 90 (97)
T cd00924 77 GKPKRCPECGHVFK 90 (97)
T ss_pred CCceeCCCCCcEEE
Confidence 47999999999985
Done!