Query 031497
Match_columns 158
No_of_seqs 170 out of 1338
Neff 5.4
Searched_HMMs 46136
Date Fri Mar 29 14:57:45 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/031497.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/031497hhsearch_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 6.7E-09 1.5E-13 88.3 3.2 53 45-97 186-246 (279)
2 KOG2462 C2H2-type Zn-finger pr 98.5 4E-08 8.7E-13 83.6 2.9 56 41-96 210-269 (279)
3 KOG3623 Homeobox transcription 97.9 3.3E-06 7E-11 80.1 1.2 56 42-97 890-953 (1007)
4 PHA00616 hypothetical protein 97.7 5.9E-06 1.3E-10 52.7 -0.3 33 46-78 1-33 (44)
5 KOG3623 Homeobox transcription 97.6 2.4E-05 5.2E-10 74.4 2.2 48 40-87 916-971 (1007)
6 PHA02768 hypothetical protein; 97.6 2.4E-05 5.2E-10 52.1 0.8 32 46-77 5-37 (55)
7 KOG3576 Ovo and related transc 97.3 8.3E-05 1.8E-09 61.9 1.0 54 44-97 115-176 (267)
8 KOG1074 Transcriptional repres 97.1 0.0002 4.3E-09 68.9 1.7 47 47-93 880-934 (958)
9 KOG1074 Transcriptional repres 97.1 0.0002 4.3E-09 68.9 1.6 51 45-95 604-662 (958)
10 PF00096 zf-C2H2: Zinc finger, 97.0 0.00019 4E-09 38.5 -0.0 23 47-69 1-23 (23)
11 PHA00733 hypothetical protein 96.8 0.00083 1.8E-08 51.2 2.3 51 42-94 69-123 (128)
12 PF13912 zf-C2H2_6: C2H2-type 96.7 0.00063 1.4E-08 37.8 0.7 25 46-70 1-25 (27)
13 KOG3576 Ovo and related transc 96.6 0.0011 2.4E-08 55.3 2.0 45 44-88 143-195 (267)
14 PF13465 zf-H2C2_2: Zinc-finge 96.2 0.0024 5.3E-08 35.8 1.1 17 42-58 10-26 (26)
15 PF13894 zf-C2H2_4: C2H2-type 96.0 0.0019 4.2E-08 33.9 0.3 23 47-69 1-23 (24)
16 smart00355 ZnF_C2H2 zinc finge 95.7 0.0036 7.8E-08 33.0 0.5 24 47-70 1-24 (26)
17 PHA00732 hypothetical protein 95.6 0.0072 1.6E-07 42.7 1.9 45 46-90 1-48 (79)
18 PF13465 zf-H2C2_2: Zinc-finge 95.1 0.0058 1.3E-07 34.2 -0.1 18 61-78 1-18 (26)
19 PF12171 zf-C2H2_jaz: Zinc-fin 93.8 0.03 6.6E-07 31.2 1.0 22 47-68 2-23 (27)
20 PF12874 zf-met: Zinc-finger o 93.5 0.021 4.5E-07 30.9 -0.1 23 47-69 1-23 (25)
21 PF09237 GAGA: GAGA factor; I 92.3 0.056 1.2E-06 35.7 0.7 33 42-74 20-52 (54)
22 KOG3993 Transcription factor ( 91.8 0.11 2.4E-06 47.4 2.2 26 45-70 294-319 (500)
23 KOG3608 Zn finger proteins [Ge 91.3 0.14 2.9E-06 46.0 2.2 48 42-90 288-345 (467)
24 PRK04860 hypothetical protein; 89.4 0.16 3.4E-06 40.3 0.9 30 45-78 118-147 (160)
25 PF13909 zf-H2C2_5: C2H2-type 88.4 0.13 2.8E-06 27.6 -0.1 23 47-70 1-23 (24)
26 KOG3608 Zn finger proteins [Ge 87.9 0.34 7.3E-06 43.6 2.1 51 46-97 263-322 (467)
27 PLN03086 PRLI-interacting fact 87.1 0.42 9.1E-06 44.9 2.3 51 44-97 451-507 (567)
28 PF05605 zf-Di19: Drought indu 86.2 0.65 1.4E-05 29.8 2.2 43 46-89 2-52 (54)
29 smart00451 ZnF_U1 U1-like zinc 84.5 0.43 9.2E-06 27.4 0.7 23 46-68 3-25 (35)
30 PLN03086 PRLI-interacting fact 84.3 0.7 1.5E-05 43.5 2.3 31 45-77 477-507 (567)
31 PF13913 zf-C2HC_2: zinc-finge 79.9 0.65 1.4E-05 25.7 0.3 21 47-68 3-23 (25)
32 PHA00733 hypothetical protein 79.7 0.8 1.7E-05 34.8 0.8 26 44-69 97-122 (128)
33 COG5189 SFP1 Putative transcri 78.6 0.91 2E-05 40.4 0.9 25 43-67 395-419 (423)
34 PF12756 zf-C2H2_2: C2H2 type 76.9 1 2.2E-05 30.8 0.5 25 45-69 49-73 (100)
35 COG5189 SFP1 Putative transcri 68.5 2.7 5.9E-05 37.5 1.4 25 43-67 346-372 (423)
36 KOG4167 Predicted DNA-binding 61.6 2.1 4.5E-05 41.7 -0.7 28 44-71 790-817 (907)
37 KOG3993 Transcription factor ( 58.7 2.3 4.9E-05 39.1 -1.0 25 46-70 356-380 (500)
38 COG5048 FOG: Zn-finger [Genera 51.1 6.4 0.00014 32.6 0.6 34 45-78 288-325 (467)
39 COG4049 Uncharacterized protei 50.7 4.8 0.0001 27.3 -0.2 27 42-68 13-39 (65)
40 PF05443 ROS_MUCR: ROS/MUCR tr 45.2 12 0.00027 28.8 1.3 48 44-102 70-117 (132)
41 smart00614 ZnF_BED BED zinc fi 43.1 11 0.00024 23.7 0.7 15 45-59 17-31 (50)
42 PF02892 zf-BED: BED zinc fing 41.9 12 0.00026 22.6 0.6 24 43-66 13-40 (45)
43 PF08790 zf-LYAR: LYAR-type C2 41.8 14 0.0003 21.3 0.9 23 47-70 1-23 (28)
44 COG5048 FOG: Zn-finger [Genera 41.1 20 0.00043 29.6 2.1 40 41-80 314-357 (467)
45 KOG2893 Zn finger protein [Gen 37.1 12 0.00025 32.4 0.1 21 45-65 33-53 (341)
46 COG4957 Predicted transcriptio 34.3 32 0.00068 27.1 2.1 48 46-104 76-123 (148)
47 smart00834 CxxC_CXXC_SSSS Puta 32.3 21 0.00045 20.9 0.6 16 46-61 5-20 (41)
48 PF09538 FYDLN_acid: Protein o 32.2 25 0.00054 26.2 1.2 16 42-58 6-21 (108)
49 KOG2482 Predicted C2H2-type Zn 31.5 7.8 0.00017 34.9 -1.9 47 9-68 171-217 (423)
50 KOG2071 mRNA cleavage and poly 30.4 23 0.0005 33.6 0.9 28 43-70 415-442 (579)
51 PF09723 Zn-ribbon_8: Zinc rib 29.8 23 0.00051 21.6 0.6 16 46-61 5-20 (42)
52 TIGR02605 CxxC_CxxC_SSSS putat 29.3 24 0.00053 21.9 0.6 14 46-59 5-18 (52)
53 KOG3408 U1-like Zn-finger-cont 26.0 29 0.00064 26.8 0.6 26 43-68 54-79 (129)
54 smart00154 ZnF_AN1 AN1-like Zi 25.5 35 0.00076 20.7 0.8 13 46-58 12-24 (39)
55 PF09986 DUF2225: Uncharacteri 25.4 29 0.00062 28.4 0.5 25 44-68 3-27 (214)
56 PF09845 DUF2072: Zn-ribbon co 24.3 37 0.0008 26.4 0.9 15 46-60 1-15 (131)
57 PF13451 zf-trcl: Probable zin 20.8 46 0.001 21.6 0.7 15 44-58 2-16 (49)
58 PF01428 zf-AN1: AN1-like Zinc 20.2 41 0.0009 20.5 0.4 14 45-58 12-25 (43)
No 1
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=98.73 E-value=6.7e-09 Score=88.28 Aligned_cols=53 Identities=19% Similarity=0.349 Sum_probs=45.2
Q ss_pred cceecCccccccCCchhhhcccccccCCCcccc----ccc----chHHHHHhhCCCCCCCC
Q 031497 45 RIFSCNYCQRKFYSSQALGGHQNAHKLERTLAK----KSK----EFSSAVRAHGVSNNPRS 97 (158)
Q Consensus 45 KPykC~eCgK~FsssqsL~~Hqr~HtgEKp~~~----~s~----~~~s~lr~H~~~~~~~s 97 (158)
-+++|..|||.|....-|++|+|+|||||||.| |+| +|..||++|..-+.+++
T Consensus 186 l~c~C~iCGKaFSRPWLLQGHiRTHTGEKPF~C~hC~kAFADRSNLRAHmQTHS~~K~~qC 246 (279)
T KOG2462|consen 186 LPCECGICGKAFSRPWLLQGHIRTHTGEKPFSCPHCGKAFADRSNLRAHMQTHSDVKKHQC 246 (279)
T ss_pred CCcccccccccccchHHhhcccccccCCCCccCCcccchhcchHHHHHHHHhhcCCccccC
Confidence 378999999999999999999999999999999 444 57778888888777765
No 2
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=98.55 E-value=4e-08 Score=83.57 Aligned_cols=56 Identities=23% Similarity=0.316 Sum_probs=51.6
Q ss_pred CCCCcceecCccccccCCchhhhcccccccCCCcccc----cccchHHHHHhhCCCCCCC
Q 031497 41 AAEPRIFSCNYCQRKFYSSQALGGHQNAHKLERTLAK----KSKEFSSAVRAHGVSNNPR 96 (158)
Q Consensus 41 ~~geKPykC~eCgK~FsssqsL~~Hqr~HtgEKp~~~----~s~~~~s~lr~H~~~~~~~ 96 (158)
.+|||||.|..|+|.|.+.++|..||.+|.+.|+|+| |+|.+.+.+.+|.......
T Consensus 210 HTGEKPF~C~hC~kAFADRSNLRAHmQTHS~~K~~qC~~C~KsFsl~SyLnKH~ES~C~~ 269 (279)
T KOG2462|consen 210 HTGEKPFSCPHCGKAFADRSNLRAHMQTHSDVKKHQCPRCGKSFALKSYLNKHSESACLK 269 (279)
T ss_pred ccCCCCccCCcccchhcchHHHHHHHHhhcCCccccCcchhhHHHHHHHHHHhhhhcccc
Confidence 4799999999999999999999999999999999999 7899999999998866543
No 3
>KOG3623 consensus Homeobox transcription factor SIP1 [Transcription]
Probab=97.92 E-value=3.3e-06 Score=80.09 Aligned_cols=56 Identities=20% Similarity=0.421 Sum_probs=49.1
Q ss_pred CCCcceecCccccccCCchhhhcccccccCCCcccc----cc----cchHHHHHhhCCCCCCCC
Q 031497 42 AEPRIFSCNYCQRKFYSSQALGGHQNAHKLERTLAK----KS----KEFSSAVRAHGVSNNPRS 97 (158)
Q Consensus 42 ~geKPykC~eCgK~FsssqsL~~Hqr~HtgEKp~~~----~s----~~~~s~lr~H~~~~~~~s 97 (158)
..+-+|.|+.|+|.|...+.|.+|.--|+|.|||+| |+ ..+.-|+|-|.+++++++
T Consensus 890 te~gmyaCDqCDK~FqKqSSLaRHKYEHsGqRPyqC~iCkKAFKHKHHLtEHkRLHSGEKPfQC 953 (1007)
T KOG3623|consen 890 TEDGMYACDQCDKAFQKQSSLARHKYEHSGQRPYQCIICKKAFKHKHHLTEHKRLHSGEKPFQC 953 (1007)
T ss_pred CccccchHHHHHHHHHhhHHHHHhhhhhcCCCCcccchhhHhhhhhhhhhhhhhhccCCCcchh
Confidence 555689999999999999999999999999999998 33 357889999999998875
No 4
>PHA00616 hypothetical protein
Probab=97.73 E-value=5.9e-06 Score=52.66 Aligned_cols=33 Identities=15% Similarity=0.305 Sum_probs=31.0
Q ss_pred ceecCccccccCCchhhhcccccccCCCccccc
Q 031497 46 IFSCNYCQRKFYSSQALGGHQNAHKLERTLAKK 78 (158)
Q Consensus 46 PykC~eCgK~FsssqsL~~Hqr~HtgEKp~~~~ 78 (158)
||+|..||+.|...+.|..|++.|+|++++.|-
T Consensus 1 pYqC~~CG~~F~~~s~l~~H~r~~hg~~~~~~~ 33 (44)
T PHA00616 1 MYQCLRCGGIFRKKKEVIEHLLSVHKQNKLTLE 33 (44)
T ss_pred CCccchhhHHHhhHHHHHHHHHHhcCCCcccee
Confidence 689999999999999999999999999998773
No 5
>KOG3623 consensus Homeobox transcription factor SIP1 [Transcription]
Probab=97.64 E-value=2.4e-05 Score=74.36 Aligned_cols=48 Identities=21% Similarity=0.411 Sum_probs=41.2
Q ss_pred CCCCCcceecCccccccCCchhhhcccccccCCCcccc----ccc----chHHHHH
Q 031497 40 PAAEPRIFSCNYCQRKFYSSQALGGHQNAHKLERTLAK----KSK----EFSSAVR 87 (158)
Q Consensus 40 ~~~geKPykC~eCgK~FsssqsL~~Hqr~HtgEKp~~~----~s~----~~~s~lr 87 (158)
...|.|||+|.+|.|.|..+-.|..|+|.|.|||||+| |+| ...+||.
T Consensus 916 EHsGqRPyqC~iCkKAFKHKHHLtEHkRLHSGEKPfQCdKClKRFSHSGSYSQHMN 971 (1007)
T KOG3623|consen 916 EHSGQRPYQCIICKKAFKHKHHLTEHKRLHSGEKPFQCDKCLKRFSHSGSYSQHMN 971 (1007)
T ss_pred hhcCCCCcccchhhHhhhhhhhhhhhhhhccCCCcchhhhhhhhcccccchHhhhc
Confidence 45789999999999999999999999999999999999 444 3555663
No 6
>PHA02768 hypothetical protein; Provisional
Probab=97.57 E-value=2.4e-05 Score=52.06 Aligned_cols=32 Identities=13% Similarity=0.263 Sum_probs=27.3
Q ss_pred ceecCccccccCCchhhhccccccc-CCCcccc
Q 031497 46 IFSCNYCQRKFYSSQALGGHQNAHK-LERTLAK 77 (158)
Q Consensus 46 PykC~eCgK~FsssqsL~~Hqr~Ht-gEKp~~~ 77 (158)
-|+|.+|++.|...++|..|+++|+ +.+...|
T Consensus 5 ~y~C~~CGK~Fs~~~~L~~H~r~H~k~~kc~~C 37 (55)
T PHA02768 5 GYECPICGEIYIKRKSMITHLRKHNTNLKLSNC 37 (55)
T ss_pred ccCcchhCCeeccHHHHHHHHHhcCCcccCCcc
Confidence 3899999999999999999999999 4444445
No 7
>KOG3576 consensus Ovo and related transcription factors [Transcription]
Probab=97.30 E-value=8.3e-05 Score=61.90 Aligned_cols=54 Identities=19% Similarity=0.301 Sum_probs=36.7
Q ss_pred CcceecCccccccCCchhhhcccccccCCCcccc--------cccchHHHHHhhCCCCCCCC
Q 031497 44 PRIFSCNYCQRKFYSSQALGGHQNAHKLERTLAK--------KSKEFSSAVRAHGVSNNPRS 97 (158)
Q Consensus 44 eKPykC~eCgK~FsssqsL~~Hqr~HtgEKp~~~--------~s~~~~s~lr~H~~~~~~~s 97 (158)
.-.|.|..|+|.|.-...|.+|++.|..-|-+-| ..|-+++|+|+|.+-.++.+
T Consensus 115 ~d~ftCrvCgK~F~lQRmlnrh~kch~~vkr~lct~cgkgfndtfdlkrh~rthtgvrpykc 176 (267)
T KOG3576|consen 115 QDSFTCRVCGKKFGLQRMLNRHLKCHSDVKRHLCTFCGKGFNDTFDLKRHTRTHTGVRPYKC 176 (267)
T ss_pred CCeeeeehhhhhhhHHHHHHHHhhhccHHHHHHHhhccCcccchhhhhhhhccccCccccch
Confidence 3467888888888777777777777766554333 34567777777777666554
No 8
>KOG1074 consensus Transcriptional repressor SALM [Transcription]
Probab=97.12 E-value=0.0002 Score=68.93 Aligned_cols=47 Identities=23% Similarity=0.328 Sum_probs=39.2
Q ss_pred eecCccccccCCchhhhcccccccCCCcccc----ccc----chHHHHHhhCCCC
Q 031497 47 FSCNYCQRKFYSSQALGGHQNAHKLERTLAK----KSK----EFSSAVRAHGVSN 93 (158)
Q Consensus 47 ykC~eCgK~FsssqsL~~Hqr~HtgEKp~~~----~s~----~~~s~lr~H~~~~ 93 (158)
..|..|++.|..+.+|..|+++|+++|||.| +.| .++-||.+|..-.
T Consensus 880 h~C~vCgk~FsSSsALqiH~rTHtg~KPF~C~fC~~aFttrgnLKvHMgtH~w~q 934 (958)
T KOG1074|consen 880 HVCNVCGKQFSSSAALEIHMRTHTGPKPFFCHFCEEAFTTRGNLKVHMGTHMWVQ 934 (958)
T ss_pred hhhccchhcccchHHHHHhhhcCCCCCCccchhhhhhhhhhhhhhhhhccccccC
Confidence 6899999999999999999999999999998 444 4666666665543
No 9
>KOG1074 consensus Transcriptional repressor SALM [Transcription]
Probab=97.11 E-value=0.0002 Score=68.89 Aligned_cols=51 Identities=20% Similarity=0.268 Sum_probs=39.7
Q ss_pred cceecCccccccCCchhhhcccccccCCCcccc----ccc----chHHHHHhhCCCCCC
Q 031497 45 RIFSCNYCQRKFYSSQALGGHQNAHKLERTLAK----KSK----EFSSAVRAHGVSNNP 95 (158)
Q Consensus 45 KPykC~eCgK~FsssqsL~~Hqr~HtgEKp~~~----~s~----~~~s~lr~H~~~~~~ 95 (158)
-|.+|..|.|...+..+|.-|.++|+|||||+| |+| ++++||-.|-.++..
T Consensus 604 dPNqCiiC~rVlSC~saLqmHyrtHtGERPFkCKiCgRAFtTkGNLkaH~~vHka~p~~ 662 (958)
T KOG1074|consen 604 DPNQCIICLRVLSCPSALQMHYRTHTGERPFKCKICGRAFTTKGNLKAHMSVHKAKPPA 662 (958)
T ss_pred CccceeeeeecccchhhhhhhhhcccCcCccccccccchhccccchhhcccccccCccc
Confidence 378899999999999999999999999999988 344 567777777655443
No 10
>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=96.97 E-value=0.00019 Score=38.50 Aligned_cols=23 Identities=30% Similarity=0.700 Sum_probs=21.2
Q ss_pred eecCccccccCCchhhhcccccc
Q 031497 47 FSCNYCQRKFYSSQALGGHQNAH 69 (158)
Q Consensus 47 ykC~eCgK~FsssqsL~~Hqr~H 69 (158)
|+|.+|++.|.....|..|++.|
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 78999999999999999998764
No 11
>PHA00733 hypothetical protein
Probab=96.80 E-value=0.00083 Score=51.20 Aligned_cols=51 Identities=20% Similarity=0.223 Sum_probs=39.0
Q ss_pred CCCcceecCccccccCCchhhhcccccccCCCcccc----cccchHHHHHhhCCCCC
Q 031497 42 AEPRIFSCNYCQRKFYSSQALGGHQNAHKLERTLAK----KSKEFSSAVRAHGVSNN 94 (158)
Q Consensus 42 ~geKPykC~eCgK~FsssqsL~~Hqr~HtgEKp~~~----~s~~~~s~lr~H~~~~~ 94 (158)
.+++||.|..|++.|.....|..|+++| +.++.| +.|....+++.|...++
T Consensus 69 ~~~kPy~C~~Cgk~Fss~s~L~~H~r~h--~~~~~C~~CgK~F~~~~sL~~H~~~~h 123 (128)
T PHA00733 69 KAVSPYVCPLCLMPFSSSVSLKQHIRYT--EHSKVCPVCGKEFRNTDSTLDHVCKKH 123 (128)
T ss_pred CCCCCccCCCCCCcCCCHHHHHHHHhcC--CcCccCCCCCCccCCHHHHHHHHHHhc
Confidence 3578899999999999999999999876 345555 66777777777765543
No 12
>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=96.67 E-value=0.00063 Score=37.77 Aligned_cols=25 Identities=36% Similarity=0.680 Sum_probs=23.2
Q ss_pred ceecCccccccCCchhhhccccccc
Q 031497 46 IFSCNYCQRKFYSSQALGGHQNAHK 70 (158)
Q Consensus 46 PykC~eCgK~FsssqsL~~Hqr~Ht 70 (158)
+|+|..|++.|.+...|..|++.|.
T Consensus 1 ~~~C~~C~~~F~~~~~l~~H~~~h~ 25 (27)
T PF13912_consen 1 PFECDECGKTFSSLSALREHKRSHC 25 (27)
T ss_dssp SEEETTTTEEESSHHHHHHHHCTTT
T ss_pred CCCCCccCCccCChhHHHHHhHHhc
Confidence 6899999999999999999998875
No 13
>KOG3576 consensus Ovo and related transcription factors [Transcription]
Probab=96.62 E-value=0.0011 Score=55.31 Aligned_cols=45 Identities=20% Similarity=0.366 Sum_probs=38.5
Q ss_pred CcceecCccccccCCchhhhcccccccCCCcccc----ccc----chHHHHHh
Q 031497 44 PRIFSCNYCQRKFYSSQALGGHQNAHKLERTLAK----KSK----EFSSAVRA 88 (158)
Q Consensus 44 eKPykC~eCgK~FsssqsL~~Hqr~HtgEKp~~~----~s~----~~~s~lr~ 88 (158)
.|.|-|..|+|+|..--.|++|+++|+|.|||.| ++| .+.+|+++
T Consensus 143 vkr~lct~cgkgfndtfdlkrh~rthtgvrpykc~~c~kaftqrcsleshl~k 195 (267)
T KOG3576|consen 143 VKRHLCTFCGKGFNDTFDLKRHTRTHTGVRPYKCSLCEKAFTQRCSLESHLKK 195 (267)
T ss_pred HHHHHHhhccCcccchhhhhhhhccccCccccchhhhhHHHHhhccHHHHHHH
Confidence 5778999999999999999999999999999999 344 56677653
No 14
>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=96.17 E-value=0.0024 Score=35.76 Aligned_cols=17 Identities=24% Similarity=0.829 Sum_probs=15.1
Q ss_pred CCCcceecCccccccCC
Q 031497 42 AEPRIFSCNYCQRKFYS 58 (158)
Q Consensus 42 ~geKPykC~eCgK~Fss 58 (158)
.++|||+|.+|++.|..
T Consensus 10 ~~~k~~~C~~C~k~F~~ 26 (26)
T PF13465_consen 10 TGEKPYKCPYCGKSFSN 26 (26)
T ss_dssp SSSSSEEESSSSEEESS
T ss_pred CCCCCCCCCCCcCeeCc
Confidence 58999999999999963
No 15
>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=96.04 E-value=0.0019 Score=33.90 Aligned_cols=23 Identities=35% Similarity=0.753 Sum_probs=19.2
Q ss_pred eecCccccccCCchhhhcccccc
Q 031497 47 FSCNYCQRKFYSSQALGGHQNAH 69 (158)
Q Consensus 47 ykC~eCgK~FsssqsL~~Hqr~H 69 (158)
|.|.+|++.|.+...|..|+..|
T Consensus 1 ~~C~~C~~~~~~~~~l~~H~~~~ 23 (24)
T PF13894_consen 1 FQCPICGKSFRSKSELRQHMRTH 23 (24)
T ss_dssp EE-SSTS-EESSHHHHHHHHHHH
T ss_pred CCCcCCCCcCCcHHHHHHHHHhh
Confidence 78999999999999999998765
No 16
>smart00355 ZnF_C2H2 zinc finger.
Probab=95.71 E-value=0.0036 Score=33.02 Aligned_cols=24 Identities=33% Similarity=0.659 Sum_probs=21.6
Q ss_pred eecCccccccCCchhhhccccccc
Q 031497 47 FSCNYCQRKFYSSQALGGHQNAHK 70 (158)
Q Consensus 47 ykC~eCgK~FsssqsL~~Hqr~Ht 70 (158)
|+|..|++.|.....|..|++.|.
T Consensus 1 ~~C~~C~~~f~~~~~l~~H~~~H~ 24 (26)
T smart00355 1 YRCPECGKVFKSKSALKEHMRTHX 24 (26)
T ss_pred CCCCCCcchhCCHHHHHHHHHHhc
Confidence 689999999999999999988765
No 17
>PHA00732 hypothetical protein
Probab=95.63 E-value=0.0072 Score=42.65 Aligned_cols=45 Identities=22% Similarity=0.360 Sum_probs=31.0
Q ss_pred ceecCccccccCCchhhhcccc-cccCCCc-cccccc-chHHHHHhhC
Q 031497 46 IFSCNYCQRKFYSSQALGGHQN-AHKLERT-LAKKSK-EFSSAVRAHG 90 (158)
Q Consensus 46 PykC~eCgK~FsssqsL~~Hqr-~HtgEKp-~~~~s~-~~~s~lr~H~ 90 (158)
||.|.+|++.|.+...|..|++ .|++.+- .|.+++ .+.+|++++.
T Consensus 1 py~C~~Cgk~F~s~s~Lk~H~r~~H~~~~C~~CgKsF~~l~~H~~~~~ 48 (79)
T PHA00732 1 MFKCPICGFTTVTLFALKQHARRNHTLTKCPVCNKSYRRLNQHFYSQY 48 (79)
T ss_pred CccCCCCCCccCCHHHHHHHhhcccCCCccCCCCCEeCChhhhhcccC
Confidence 5899999999999999999998 4765432 222444 3444554443
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=95.06 E-value=0.0058 Score=34.20 Aligned_cols=18 Identities=22% Similarity=0.222 Sum_probs=15.5
Q ss_pred hhhcccccccCCCccccc
Q 031497 61 ALGGHQNAHKLERTLAKK 78 (158)
Q Consensus 61 sL~~Hqr~HtgEKp~~~~ 78 (158)
+|..|+++|+++|||.|.
T Consensus 1 ~l~~H~~~H~~~k~~~C~ 18 (26)
T PF13465_consen 1 NLRRHMRTHTGEKPYKCP 18 (26)
T ss_dssp HHHHHHHHHSSSSSEEES
T ss_pred CHHHHhhhcCCCCCCCCC
Confidence 477899999999999883
No 19
>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=93.81 E-value=0.03 Score=31.19 Aligned_cols=22 Identities=32% Similarity=0.703 Sum_probs=20.4
Q ss_pred eecCccccccCCchhhhccccc
Q 031497 47 FSCNYCQRKFYSSQALGGHQNA 68 (158)
Q Consensus 47 ykC~eCgK~FsssqsL~~Hqr~ 68 (158)
|.|..|++.|.+...+..|++.
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 7899999999999999999875
No 20
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=93.45 E-value=0.021 Score=30.90 Aligned_cols=23 Identities=30% Similarity=0.736 Sum_probs=20.8
Q ss_pred eecCccccccCCchhhhcccccc
Q 031497 47 FSCNYCQRKFYSSQALGGHQNAH 69 (158)
Q Consensus 47 ykC~eCgK~FsssqsL~~Hqr~H 69 (158)
|.|..|.+.|.+...+..|.+.+
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 68999999999999999998754
No 21
>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=92.29 E-value=0.056 Score=35.75 Aligned_cols=33 Identities=15% Similarity=0.327 Sum_probs=24.0
Q ss_pred CCCcceecCccccccCCchhhhcccccccCCCc
Q 031497 42 AEPRIFSCNYCQRKFYSSQALGGHQNAHKLERT 74 (158)
Q Consensus 42 ~geKPykC~eCgK~FsssqsL~~Hqr~HtgEKp 74 (158)
..++|-.|.+|+..+.+..+|.+|+.++.+.||
T Consensus 20 ~S~~PatCP~C~a~~~~srnLrRHle~~H~~k~ 52 (54)
T PF09237_consen 20 QSEQPATCPICGAVIRQSRNLRRHLEIRHFKKP 52 (54)
T ss_dssp TTS--EE-TTT--EESSHHHHHHHHHHHTTTS-
T ss_pred ccCCCCCCCcchhhccchhhHHHHHHHHhcccC
Confidence 467899999999999999999999988887775
No 22
>KOG3993 consensus Transcription factor (contains Zn finger) [Transcription]
Probab=91.77 E-value=0.11 Score=47.37 Aligned_cols=26 Identities=27% Similarity=0.576 Sum_probs=23.4
Q ss_pred cceecCccccccCCchhhhccccccc
Q 031497 45 RIFSCNYCQRKFYSSQALGGHQNAHK 70 (158)
Q Consensus 45 KPykC~eCgK~FsssqsL~~Hqr~Ht 70 (158)
-.|+|.+|+|.|.+..+|..|+|-|.
T Consensus 294 vEYrCPEC~KVFsCPANLASHRRWHK 319 (500)
T KOG3993|consen 294 VEYRCPECDKVFSCPANLASHRRWHK 319 (500)
T ss_pred eeecCCcccccccCchhhhhhhcccC
Confidence 36999999999999999999998774
No 23
>KOG3608 consensus Zn finger proteins [General function prediction only]
Probab=91.27 E-value=0.14 Score=46.04 Aligned_cols=48 Identities=13% Similarity=0.302 Sum_probs=37.2
Q ss_pred CCCcceecCccccccCCchhhhcccccccCCCcccccc----------cchHHHHHhhC
Q 031497 42 AEPRIFSCNYCQRKFYSSQALGGHQNAHKLERTLAKKS----------KEFSSAVRAHG 90 (158)
Q Consensus 42 ~geKPykC~eCgK~FsssqsL~~Hqr~HtgEKp~~~~s----------~~~~s~lr~H~ 90 (158)
...|||+|+.|++.|.....|..|..+|. +-.|.|.. -++.+|++.|.
T Consensus 288 s~dkpfKCd~Cd~~c~~esdL~kH~~~HS-~~~y~C~h~~C~~s~r~~~q~~~H~~evh 345 (467)
T KOG3608|consen 288 SKDKPFKCDECDTRCVRESDLAKHVQVHS-KTVYQCEHPDCHYSVRTYTQMRRHFLEVH 345 (467)
T ss_pred ccCCCccccchhhhhccHHHHHHHHHhcc-ccceecCCCCCcHHHHHHHHHHHHHHHhc
Confidence 35789999999999999999999998887 66676632 24556666655
No 24
>PRK04860 hypothetical protein; Provisional
Probab=89.35 E-value=0.16 Score=40.35 Aligned_cols=30 Identities=17% Similarity=0.340 Sum_probs=26.0
Q ss_pred cceecCccccccCCchhhhcccccccCCCccccc
Q 031497 45 RIFSCNYCQRKFYSSQALGGHQNAHKLERTLAKK 78 (158)
Q Consensus 45 KPykC~eCgK~FsssqsL~~Hqr~HtgEKp~~~~ 78 (158)
-+|.|. |++ ....+..|.++|+++++|.|+
T Consensus 118 ~~Y~C~-C~~---~~~~~rrH~ri~~g~~~YrC~ 147 (160)
T PRK04860 118 FPYRCK-CQE---HQLTVRRHNRVVRGEAVYRCR 147 (160)
T ss_pred EEEEcC-CCC---eeCHHHHHHHHhcCCccEECC
Confidence 379998 988 666788999999999999984
No 25
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=88.41 E-value=0.13 Score=27.64 Aligned_cols=23 Identities=22% Similarity=0.473 Sum_probs=17.1
Q ss_pred eecCccccccCCchhhhccccccc
Q 031497 47 FSCNYCQRKFYSSQALGGHQNAHK 70 (158)
Q Consensus 47 ykC~eCgK~FsssqsL~~Hqr~Ht 70 (158)
|+|..|..... ...|..|++.|.
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 78999998887 888999987653
No 26
>KOG3608 consensus Zn finger proteins [General function prediction only]
Probab=87.89 E-value=0.34 Score=43.59 Aligned_cols=51 Identities=16% Similarity=0.356 Sum_probs=33.8
Q ss_pred ceecCccccccCCchhhhccccc-ccCCCcccc--------cccchHHHHHhhCCCCCCCC
Q 031497 46 IFSCNYCQRKFYSSQALGGHQNA-HKLERTLAK--------KSKEFSSAVRAHGVSNNPRS 97 (158)
Q Consensus 46 PykC~eCgK~FsssqsL~~Hqr~-HtgEKp~~~--------~s~~~~s~lr~H~~~~~~~s 97 (158)
.|+|..|+......+.|..|++. |..+|||+| +...+..|+..|.. ..+++
T Consensus 263 ~ykCplCdmtc~~~ssL~~H~r~rHs~dkpfKCd~Cd~~c~~esdL~kH~~~HS~-~~y~C 322 (467)
T KOG3608|consen 263 CYKCPLCDMTCSSASSLTTHIRYRHSKDKPFKCDECDTRCVRESDLAKHVQVHSK-TVYQC 322 (467)
T ss_pred cccccccccCCCChHHHHHHHHhhhccCCCccccchhhhhccHHHHHHHHHhccc-cceec
Confidence 46666666666777777777654 667788887 33457778888873 33444
No 27
>PLN03086 PRLI-interacting factor K; Provisional
Probab=87.09 E-value=0.42 Score=44.91 Aligned_cols=51 Identities=10% Similarity=0.141 Sum_probs=35.9
Q ss_pred CcceecCccccccCCchhhhcccccccCCCcccc---c---ccchHHHHHhhCCCCCCCC
Q 031497 44 PRIFSCNYCQRKFYSSQALGGHQNAHKLERTLAK---K---SKEFSSAVRAHGVSNNPRS 97 (158)
Q Consensus 44 eKPykC~eCgK~FsssqsL~~Hqr~HtgEKp~~~---~---s~~~~s~lr~H~~~~~~~s 97 (158)
++.+.|.+|++.|. ...|..|+.+|+ +++.| + +..+..|++.|...++..+
T Consensus 451 ~~H~~C~~Cgk~f~-~s~LekH~~~~H--kpv~CpCg~~~~R~~L~~H~~thCp~Kpi~C 507 (567)
T PLN03086 451 KNHVHCEKCGQAFQ-QGEMEKHMKVFH--EPLQCPCGVVLEKEQMVQHQASTCPLRLITC 507 (567)
T ss_pred ccCccCCCCCCccc-hHHHHHHHHhcC--CCccCCCCCCcchhHHHhhhhccCCCCceeC
Confidence 46789999999996 577899998875 55555 1 2346667777776665544
No 28
>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=86.21 E-value=0.65 Score=29.85 Aligned_cols=43 Identities=21% Similarity=0.536 Sum_probs=28.0
Q ss_pred ceecCccccccCCchhhhccc-ccccCC-Ccccc------cccchHHHHHhh
Q 031497 46 IFSCNYCQRKFYSSQALGGHQ-NAHKLE-RTLAK------KSKEFSSAVRAH 89 (158)
Q Consensus 46 PykC~eCgK~FsssqsL~~Hq-r~HtgE-Kp~~~------~s~~~~s~lr~H 89 (158)
.|.|.+|++. .+...|..|. ..|..+ +.+.| ....+.+||..+
T Consensus 2 ~f~CP~C~~~-~~~~~L~~H~~~~H~~~~~~v~CPiC~~~~~~~l~~Hl~~~ 52 (54)
T PF05605_consen 2 SFTCPYCGKG-FSESSLVEHCEDEHRSESKNVVCPICSSRVTDNLIRHLNSQ 52 (54)
T ss_pred CcCCCCCCCc-cCHHHHHHHHHhHCcCCCCCccCCCchhhhhhHHHHHHHHh
Confidence 4899999995 5567899995 456655 44555 223455566543
No 29
>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=84.55 E-value=0.43 Score=27.42 Aligned_cols=23 Identities=22% Similarity=0.514 Sum_probs=20.0
Q ss_pred ceecCccccccCCchhhhccccc
Q 031497 46 IFSCNYCQRKFYSSQALGGHQNA 68 (158)
Q Consensus 46 PykC~eCgK~FsssqsL~~Hqr~ 68 (158)
+|.|..|.+.|.....+..|.+.
T Consensus 3 ~~~C~~C~~~~~~~~~~~~H~~g 25 (35)
T smart00451 3 GFYCKLCNVTFTDEISVEAHLKG 25 (35)
T ss_pred CeEccccCCccCCHHHHHHHHCh
Confidence 58899999999999999888753
No 30
>PLN03086 PRLI-interacting factor K; Provisional
Probab=84.30 E-value=0.7 Score=43.48 Aligned_cols=31 Identities=16% Similarity=0.270 Sum_probs=22.7
Q ss_pred cceecCccccccCCchhhhcccccccCCCcccc
Q 031497 45 RIFSCNYCQRKFYSSQALGGHQNAHKLERTLAK 77 (158)
Q Consensus 45 KPykC~eCgK~FsssqsL~~Hqr~HtgEKp~~~ 77 (158)
+++.|. |++.+ ....|..|+.+|..+|++.|
T Consensus 477 kpv~Cp-Cg~~~-~R~~L~~H~~thCp~Kpi~C 507 (567)
T PLN03086 477 EPLQCP-CGVVL-EKEQMVQHQASTCPLRLITC 507 (567)
T ss_pred CCccCC-CCCCc-chhHHHhhhhccCCCCceeC
Confidence 567787 87644 55777888877777777776
No 31
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=79.94 E-value=0.65 Score=25.75 Aligned_cols=21 Identities=33% Similarity=0.749 Sum_probs=16.9
Q ss_pred eecCccccccCCchhhhccccc
Q 031497 47 FSCNYCQRKFYSSQALGGHQNA 68 (158)
Q Consensus 47 ykC~eCgK~FsssqsL~~Hqr~ 68 (158)
..|..|++.| ....|..|+++
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 56778888764
No 32
>PHA00733 hypothetical protein
Probab=79.73 E-value=0.8 Score=34.81 Aligned_cols=26 Identities=15% Similarity=0.319 Sum_probs=22.4
Q ss_pred CcceecCccccccCCchhhhcccccc
Q 031497 44 PRIFSCNYCQRKFYSSQALGGHQNAH 69 (158)
Q Consensus 44 eKPykC~eCgK~FsssqsL~~Hqr~H 69 (158)
+++|.|..|++.|.....|..|+...
T Consensus 97 ~~~~~C~~CgK~F~~~~sL~~H~~~~ 122 (128)
T PHA00733 97 EHSKVCPVCGKEFRNTDSTLDHVCKK 122 (128)
T ss_pred CcCccCCCCCCccCCHHHHHHHHHHh
Confidence 45799999999999999999887543
No 33
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=78.63 E-value=0.91 Score=40.40 Aligned_cols=25 Identities=16% Similarity=0.598 Sum_probs=22.4
Q ss_pred CCcceecCccccccCCchhhhcccc
Q 031497 43 EPRIFSCNYCQRKFYSSQALGGHQN 67 (158)
Q Consensus 43 geKPykC~eCgK~FsssqsL~~Hqr 67 (158)
..|||.|..|+|+|..-..|+.|+.
T Consensus 395 ~~KPYrCevC~KRYKNlNGLKYHr~ 419 (423)
T COG5189 395 KDKPYRCEVCDKRYKNLNGLKYHRK 419 (423)
T ss_pred cCCceeccccchhhccCccceeccc
Confidence 4699999999999999999998864
No 34
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=76.88 E-value=1 Score=30.82 Aligned_cols=25 Identities=36% Similarity=0.790 Sum_probs=21.4
Q ss_pred cceecCccccccCCchhhhcccccc
Q 031497 45 RIFSCNYCQRKFYSSQALGGHQNAH 69 (158)
Q Consensus 45 KPykC~eCgK~FsssqsL~~Hqr~H 69 (158)
..+.|..|++.|.+...|..|++.+
T Consensus 49 ~~~~C~~C~~~f~s~~~l~~Hm~~~ 73 (100)
T PF12756_consen 49 ESFRCPYCNKTFRSREALQEHMRSK 73 (100)
T ss_dssp SSEEBSSSS-EESSHHHHHHHHHHT
T ss_pred CCCCCCccCCCCcCHHHHHHHHcCc
Confidence 3699999999999999999998754
No 35
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=68.53 E-value=2.7 Score=37.46 Aligned_cols=25 Identities=20% Similarity=0.537 Sum_probs=21.2
Q ss_pred CCcceecCc--cccccCCchhhhcccc
Q 031497 43 EPRIFSCNY--CQRKFYSSQALGGHQN 67 (158)
Q Consensus 43 geKPykC~e--CgK~FsssqsL~~Hqr 67 (158)
++|||+|.. |.|.|.....|+.|+.
T Consensus 346 d~KpykCpV~gC~K~YknqnGLKYH~l 372 (423)
T COG5189 346 DGKPYKCPVEGCNKKYKNQNGLKYHML 372 (423)
T ss_pred cCceecCCCCCchhhhccccchhhhhh
Confidence 359999975 9999999999988863
No 36
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=61.56 E-value=2.1 Score=41.69 Aligned_cols=28 Identities=25% Similarity=0.670 Sum_probs=24.9
Q ss_pred CcceecCccccccCCchhhhcccccccC
Q 031497 44 PRIFSCNYCQRKFYSSQALGGHQNAHKL 71 (158)
Q Consensus 44 eKPykC~eCgK~FsssqsL~~Hqr~Htg 71 (158)
.--|-|.+|+|.|..-..+..||+.|.-
T Consensus 790 ~giFpCreC~kvF~KiKSrNAHMK~Hr~ 817 (907)
T KOG4167|consen 790 TGIFPCRECGKVFFKIKSRNAHMKTHRQ 817 (907)
T ss_pred CceeehHHHHHHHHHHhhhhHHHHHHHH
Confidence 3469999999999999999999999963
No 37
>KOG3993 consensus Transcription factor (contains Zn finger) [Transcription]
Probab=58.68 E-value=2.3 Score=39.10 Aligned_cols=25 Identities=44% Similarity=0.785 Sum_probs=23.2
Q ss_pred ceecCccccccCCchhhhccccccc
Q 031497 46 IFSCNYCQRKFYSSQALGGHQNAHK 70 (158)
Q Consensus 46 PykC~eCgK~FsssqsL~~Hqr~Ht 70 (158)
-|.|.+|+|+|.....|..|+-+|.
T Consensus 356 i~~C~~C~KkFrRqAYLrKHqlthq 380 (500)
T KOG3993|consen 356 IFSCHTCGKKFRRQAYLRKHQLTHQ 380 (500)
T ss_pred eeecHHhhhhhHHHHHHHHhHHhhh
Confidence 7999999999999999999988775
No 38
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=51.08 E-value=6.4 Score=32.57 Aligned_cols=34 Identities=21% Similarity=0.267 Sum_probs=30.7
Q ss_pred cceecCccccccCCchhhhcccc--cccCC--Cccccc
Q 031497 45 RIFSCNYCQRKFYSSQALGGHQN--AHKLE--RTLAKK 78 (158)
Q Consensus 45 KPykC~eCgK~FsssqsL~~Hqr--~HtgE--Kp~~~~ 78 (158)
.++.|..|...|.....+..|.+ .|+++ +++.|.
T Consensus 288 ~~~~~~~~~~~~s~~~~l~~~~~~~~h~~~~~~~~~~p 325 (467)
T COG5048 288 LPIKSKQCNISFSRSSPLTRHLRSVNHSGESLKPFSCP 325 (467)
T ss_pred cCCCCccccCCccccccccccccccccccccCCceeee
Confidence 47999999999999999999999 89999 888884
No 39
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=50.75 E-value=4.8 Score=27.27 Aligned_cols=27 Identities=19% Similarity=0.321 Sum_probs=24.1
Q ss_pred CCCcceecCccccccCCchhhhccccc
Q 031497 42 AEPRIFSCNYCQRKFYSSQALGGHQNA 68 (158)
Q Consensus 42 ~geKPykC~eCgK~FsssqsL~~Hqr~ 68 (158)
.||..+.|.-|+..|........|.+.
T Consensus 13 DGE~~lrCPRC~~~FR~~K~Y~RHVNK 39 (65)
T COG4049 13 DGEEFLRCPRCGMVFRRRKDYIRHVNK 39 (65)
T ss_pred CCceeeeCCchhHHHHHhHHHHHHhhH
Confidence 588899999999999999999999753
No 40
>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=45.22 E-value=12 Score=28.81 Aligned_cols=48 Identities=19% Similarity=0.254 Sum_probs=25.7
Q ss_pred CcceecCccccccCCchhhhcccccccCCCcccccccchHHHHHhhCCCCCCCCCCCCC
Q 031497 44 PRIFSCNYCQRKFYSSQALGGHQNAHKLERTLAKKSKEFSSAVRAHGVSNNPRSGSSSI 102 (158)
Q Consensus 44 eKPykC~eCgK~FsssqsL~~Hqr~HtgEKp~~~~s~~~~s~lr~H~~~~~~~s~ss~~ 102 (158)
+....|-+||+.|.. |.+|.+.|.|-.|- ....+++.++.+...+.++
T Consensus 70 ~d~i~clecGk~~k~---LkrHL~~~~gltp~--------eYR~kwGlp~dyplva~~y 117 (132)
T PF05443_consen 70 PDYIICLECGKKFKT---LKRHLRTHHGLTPE--------EYRAKWGLPKDYPLVAPNY 117 (132)
T ss_dssp SS-EE-TBT--EESB---HHHHHHHTT-S-HH--------HHHHHTT-GGG--SB-TTT
T ss_pred cCeeEEccCCcccch---HHHHHHHccCCCHH--------HHHHHhCcCCCCcccCHHH
Confidence 345789999999985 68999999776653 2445666666665544444
No 41
>smart00614 ZnF_BED BED zinc finger. DNA-binding domain in chromatin-boundary-element-binding proteins and transposases
Probab=43.08 E-value=11 Score=23.66 Aligned_cols=15 Identities=33% Similarity=0.789 Sum_probs=11.7
Q ss_pred cceecCccccccCCc
Q 031497 45 RIFSCNYCQRKFYSS 59 (158)
Q Consensus 45 KPykC~eCgK~Fsss 59 (158)
..-.|.+|++.+...
T Consensus 17 ~~a~C~~C~~~l~~~ 31 (50)
T smart00614 17 QRAKCKYCGKKLSRS 31 (50)
T ss_pred eEEEecCCCCEeeeC
Confidence 456899999988654
No 42
>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=41.88 E-value=12 Score=22.57 Aligned_cols=24 Identities=25% Similarity=0.521 Sum_probs=13.4
Q ss_pred CCcceecCccccccCCc----hhhhccc
Q 031497 43 EPRIFSCNYCQRKFYSS----QALGGHQ 66 (158)
Q Consensus 43 geKPykC~eCgK~Fsss----qsL~~Hq 66 (158)
+.+..+|.+|++.+... ..|..|.
T Consensus 13 ~~~~a~C~~C~~~~~~~~~~ts~l~~HL 40 (45)
T PF02892_consen 13 DKKKAKCKYCGKVIKYSSGGTSNLKRHL 40 (45)
T ss_dssp CSS-EEETTTTEE-----SSTHHHHHHH
T ss_pred CcCeEEeCCCCeEEeeCCCcHHHHHHhh
Confidence 45668999999988764 3455554
No 43
>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=41.80 E-value=14 Score=21.35 Aligned_cols=23 Identities=26% Similarity=0.645 Sum_probs=13.9
Q ss_pred eecCccccccCCchhhhccccccc
Q 031497 47 FSCNYCQRKFYSSQALGGHQNAHK 70 (158)
Q Consensus 47 ykC~eCgK~FsssqsL~~Hqr~Ht 70 (158)
|.|-.|++.| .......|...-+
T Consensus 1 ~sCiDC~~~F-~~~~y~~Ht~CIt 23 (28)
T PF08790_consen 1 FSCIDCSKDF-DGDSYKSHTSCIT 23 (28)
T ss_dssp EEETTTTEEE-EGGGTTT-----S
T ss_pred CeeecCCCCc-CcCCcCCCCcccC
Confidence 6799999999 5566677765433
No 44
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=41.14 E-value=20 Score=29.63 Aligned_cols=40 Identities=25% Similarity=0.340 Sum_probs=34.4
Q ss_pred CCCC--cceecC--ccccccCCchhhhcccccccCCCccccccc
Q 031497 41 AAEP--RIFSCN--YCQRKFYSSQALGGHQNAHKLERTLAKKSK 80 (158)
Q Consensus 41 ~~ge--KPykC~--eCgK~FsssqsL~~Hqr~HtgEKp~~~~s~ 80 (158)
..++ +++.|. .|++.|.....+..|..+|++.+++.++..
T Consensus 314 h~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 357 (467)
T COG5048 314 HSGESLKPFSCPYSLCGKLFSRNDALKRHILLHTSISPAKEKLL 357 (467)
T ss_pred cccccCCceeeeccCCCccccccccccCCcccccCCCccccccc
Confidence 3567 899999 799999999999999999999887777433
No 45
>KOG2893 consensus Zn finger protein [General function prediction only]
Probab=37.07 E-value=12 Score=32.40 Aligned_cols=21 Identities=33% Similarity=0.858 Sum_probs=10.1
Q ss_pred cceecCccccccCCchhhhcc
Q 031497 45 RIFSCNYCQRKFYSSQALGGH 65 (158)
Q Consensus 45 KPykC~eCgK~FsssqsL~~H 65 (158)
|.|+|..|.|++.+.-.|.-|
T Consensus 33 khfkchichkkl~sgpglsih 53 (341)
T KOG2893|consen 33 KHFKCHICHKKLFSGPGLSIH 53 (341)
T ss_pred ccceeeeehhhhccCCCceee
Confidence 445555555544444444444
No 46
>COG4957 Predicted transcriptional regulator [Transcription]
Probab=34.28 E-value=32 Score=27.13 Aligned_cols=48 Identities=15% Similarity=0.077 Sum_probs=35.8
Q ss_pred ceecCccccccCCchhhhcccccccCCCcccccccchHHHHHhhCCCCCCCCCCCCCCC
Q 031497 46 IFSCNYCQRKFYSSQALGGHQNAHKLERTLAKKSKEFSSAVRAHGVSNNPRSGSSSIGS 104 (158)
Q Consensus 46 PykC~eCgK~FsssqsL~~Hqr~HtgEKp~~~~s~~~~s~lr~H~~~~~~~s~ss~~~~ 104 (158)
-..|-+|||.|. .|++|..+|-+--|-+ ...+++.+..+...+-|+..
T Consensus 76 ~IicLEDGkkfK---SLKRHL~t~~gmTPd~--------YR~KW~LP~dYPMvAPnYAa 123 (148)
T COG4957 76 YIICLEDGKKFK---SLKRHLTTHYGLTPDE--------YRAKWGLPPDYPMVAPNYAA 123 (148)
T ss_pred eEEEeccCcchH---HHHHHHhcccCCCHHH--------HHHhcCCCCCCCccchHHHH
Confidence 468999999997 6899999998877642 34567777777776666543
No 47
>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=32.34 E-value=21 Score=20.90 Aligned_cols=16 Identities=25% Similarity=0.553 Sum_probs=12.2
Q ss_pred ceecCccccccCCchh
Q 031497 46 IFSCNYCQRKFYSSQA 61 (158)
Q Consensus 46 PykC~eCgK~Fsssqs 61 (158)
.|+|..|++.|.-...
T Consensus 5 ~y~C~~Cg~~fe~~~~ 20 (41)
T smart00834 5 EYRCEDCGHTFEVLQK 20 (41)
T ss_pred EEEcCCCCCEEEEEEe
Confidence 4899999998874433
No 48
>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=32.16 E-value=25 Score=26.16 Aligned_cols=16 Identities=31% Similarity=0.771 Sum_probs=13.4
Q ss_pred CCCcceecCccccccCC
Q 031497 42 AEPRIFSCNYCQRKFYS 58 (158)
Q Consensus 42 ~geKPykC~eCgK~Fss 58 (158)
+|.|. .|..||++|..
T Consensus 6 lGtKR-~Cp~CG~kFYD 21 (108)
T PF09538_consen 6 LGTKR-TCPSCGAKFYD 21 (108)
T ss_pred cCCcc-cCCCCcchhcc
Confidence 67774 89999999985
No 49
>KOG2482 consensus Predicted C2H2-type Zn-finger protein [Transcription]
Probab=31.54 E-value=7.8 Score=34.86 Aligned_cols=47 Identities=26% Similarity=0.515 Sum_probs=35.1
Q ss_pred cccCCCCccccccccccCCCCCCCCCCCCCCCCCCCcceecCccccccCCchhhhccccc
Q 031497 9 LHLSLPSNQLNLDLVLEPSPSSNCSSPSPHSPAAEPRIFSCNYCQRKFYSSQALGGHQNA 68 (158)
Q Consensus 9 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~geKPykC~eCgK~FsssqsL~~Hqr~ 68 (158)
|-+.+|+|-|++.=-|+-.- ..-..+.|-+|.|.|..+..|..||+.
T Consensus 171 lniGlpDniVyvnelLehLk-------------ekL~r~~CLyCekifrdkntLkeHMrk 217 (423)
T KOG2482|consen 171 LNIGLPDNIVYVNELLEHLK-------------EKLERLRCLYCEKIFRDKNTLKEHMRK 217 (423)
T ss_pred hccCCCcceeeHHHHHHHHH-------------HHHhhheeeeeccccCCcHHHHHHHHh
Confidence 45677888887776665432 122368999999999999999999863
No 50
>KOG2071 consensus mRNA cleavage and polyadenylation factor I/II complex, subunit Pcf11 [RNA processing and modification]
Probab=30.35 E-value=23 Score=33.63 Aligned_cols=28 Identities=21% Similarity=0.415 Sum_probs=24.5
Q ss_pred CCcceecCccccccCCchhhhccccccc
Q 031497 43 EPRIFSCNYCQRKFYSSQALGGHQNAHK 70 (158)
Q Consensus 43 geKPykC~eCgK~FsssqsL~~Hqr~Ht 70 (158)
..++.+|..||+.|........||..|.
T Consensus 415 ~~~pnqC~~CG~R~~~~ee~sk~md~H~ 442 (579)
T KOG2071|consen 415 KDSPNQCKSCGLRFDDSEERSKHMDIHD 442 (579)
T ss_pred cCCcchhcccccccccchhhhhHhhhhh
Confidence 4568999999999999999999888875
No 51
>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=29.81 E-value=23 Score=21.59 Aligned_cols=16 Identities=25% Similarity=0.609 Sum_probs=12.5
Q ss_pred ceecCccccccCCchh
Q 031497 46 IFSCNYCQRKFYSSQA 61 (158)
Q Consensus 46 PykC~eCgK~Fsssqs 61 (158)
.|.|..|+..|..-..
T Consensus 5 ey~C~~Cg~~fe~~~~ 20 (42)
T PF09723_consen 5 EYRCEECGHEFEVLQS 20 (42)
T ss_pred EEEeCCCCCEEEEEEE
Confidence 4899999998875444
No 52
>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=29.33 E-value=24 Score=21.94 Aligned_cols=14 Identities=21% Similarity=0.643 Sum_probs=11.5
Q ss_pred ceecCccccccCCc
Q 031497 46 IFSCNYCQRKFYSS 59 (158)
Q Consensus 46 PykC~eCgK~Fsss 59 (158)
.|+|..|+..|...
T Consensus 5 ey~C~~Cg~~fe~~ 18 (52)
T TIGR02605 5 EYRCTACGHRFEVL 18 (52)
T ss_pred EEEeCCCCCEeEEE
Confidence 48999999988753
No 53
>KOG3408 consensus U1-like Zn-finger-containing protein, probabl erole in RNA processing/splicing [RNA processing and modification]
Probab=26.03 E-value=29 Score=26.76 Aligned_cols=26 Identities=31% Similarity=0.489 Sum_probs=22.3
Q ss_pred CCcceecCccccccCCchhhhccccc
Q 031497 43 EPRIFSCNYCQRKFYSSQALGGHQNA 68 (158)
Q Consensus 43 geKPykC~eCgK~FsssqsL~~Hqr~ 68 (158)
|.--|.|-+|.+-|.+...|..|.++
T Consensus 54 G~GqfyCi~CaRyFi~~~~l~~H~kt 79 (129)
T KOG3408|consen 54 GGGQFYCIECARYFIDAKALKTHFKT 79 (129)
T ss_pred CCceeehhhhhhhhcchHHHHHHHhc
Confidence 45569999999999999999998654
No 54
>smart00154 ZnF_AN1 AN1-like Zinc finger. Zinc finger at the C-terminus of An1, a ubiquitin-like protein in Xenopus laevis.
Probab=25.51 E-value=35 Score=20.67 Aligned_cols=13 Identities=31% Similarity=0.713 Sum_probs=11.7
Q ss_pred ceecCccccccCC
Q 031497 46 IFSCNYCQRKFYS 58 (158)
Q Consensus 46 PykC~eCgK~Fss 58 (158)
+|+|..|++.|-.
T Consensus 12 ~f~C~~C~~~FC~ 24 (39)
T smart00154 12 GFKCRHCGNLFCG 24 (39)
T ss_pred CeECCccCCcccc
Confidence 8999999999975
No 55
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=25.40 E-value=29 Score=28.40 Aligned_cols=25 Identities=16% Similarity=0.511 Sum_probs=20.5
Q ss_pred CcceecCccccccCCchhhhccccc
Q 031497 44 PRIFSCNYCQRKFYSSQALGGHQNA 68 (158)
Q Consensus 44 eKPykC~eCgK~FsssqsL~~Hqr~ 68 (158)
+|.+.|..|++.|....-..+..++
T Consensus 3 ~k~~~CPvC~~~F~~~~vrs~~~r~ 27 (214)
T PF09986_consen 3 DKKITCPVCGKEFKTKKVRSGKIRV 27 (214)
T ss_pred CCceECCCCCCeeeeeEEEcCCceE
Confidence 4678999999999998887777654
No 56
>PF09845 DUF2072: Zn-ribbon containing protein (DUF2072); InterPro: IPR018645 This archaeal Zinc-ribbon containing proteins have no known function.
Probab=24.26 E-value=37 Score=26.35 Aligned_cols=15 Identities=27% Similarity=0.585 Sum_probs=13.0
Q ss_pred ceecCccccccCCch
Q 031497 46 IFSCNYCQRKFYSSQ 60 (158)
Q Consensus 46 PykC~eCgK~Fsssq 60 (158)
|++|..|++.|....
T Consensus 1 PH~Ct~Cg~~f~dgs 15 (131)
T PF09845_consen 1 PHQCTKCGRVFEDGS 15 (131)
T ss_pred CcccCcCCCCcCCCc
Confidence 689999999998755
No 57
>PF13451 zf-trcl: Probable zinc-binding domain
Probab=20.76 E-value=46 Score=21.55 Aligned_cols=15 Identities=20% Similarity=0.636 Sum_probs=12.3
Q ss_pred CcceecCccccccCC
Q 031497 44 PRIFSCNYCQRKFYS 58 (158)
Q Consensus 44 eKPykC~eCgK~Fss 58 (158)
.+.+.|..|+..|.-
T Consensus 2 Dk~l~C~dCg~~Fvf 16 (49)
T PF13451_consen 2 DKTLTCKDCGAEFVF 16 (49)
T ss_pred CeeEEcccCCCeEEE
Confidence 478899999998763
No 58
>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=20.16 E-value=41 Score=20.49 Aligned_cols=14 Identities=29% Similarity=0.717 Sum_probs=9.5
Q ss_pred cceecCccccccCC
Q 031497 45 RIFSCNYCQRKFYS 58 (158)
Q Consensus 45 KPykC~eCgK~Fss 58 (158)
-+|+|..|++.|-.
T Consensus 12 ~~~~C~~C~~~FC~ 25 (43)
T PF01428_consen 12 LPFKCKHCGKSFCL 25 (43)
T ss_dssp SHEE-TTTS-EE-T
T ss_pred CCeECCCCCcccCc
Confidence 58999999999875
Done!