Query 028109
Match_columns 213
No_of_seqs 142 out of 187
Neff 4.1
Searched_HMMs 46136
Date Fri Mar 29 06:22:55 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/028109.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/028109hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF04640 PLATZ: PLATZ transcri 100.0 2E-39 4.3E-44 240.0 5.7 71 66-136 1-71 (72)
2 PF00643 zf-B_box: B-box zinc 96.7 0.0006 1.3E-08 44.1 0.7 37 25-65 5-42 (42)
3 cd00021 BBOX B-Box-type zinc f 95.4 0.011 2.4E-07 37.0 1.9 36 25-64 2-38 (39)
4 smart00336 BBOX B-Box-type zin 94.4 0.034 7.4E-07 35.2 2.3 35 25-63 5-40 (42)
5 PRK01343 zinc-binding protein; 84.2 0.45 9.8E-06 34.3 0.8 26 114-139 9-35 (57)
6 COG3024 Uncharacterized protei 83.1 0.65 1.4E-05 34.4 1.3 27 114-140 7-38 (65)
7 PF12855 Ecl1: Life-span regul 81.9 0.33 7.1E-06 33.0 -0.6 24 114-137 6-32 (43)
8 PF03884 DUF329: Domain of unk 80.3 0.29 6.3E-06 35.2 -1.4 25 114-138 2-31 (57)
9 PRK00418 DNA gyrase inhibitor; 80.1 0.71 1.5E-05 33.8 0.6 26 114-139 6-36 (62)
10 PF10013 DUF2256: Uncharacteri 77.6 0.74 1.6E-05 31.5 0.0 23 114-136 8-39 (42)
11 PF09889 DUF2116: Uncharacteri 70.8 1.3 2.7E-05 32.1 -0.2 22 115-136 4-25 (59)
12 KOG4367 Predicted Zn-finger pr 66.0 2.1 4.6E-05 42.4 0.2 36 23-62 223-260 (699)
13 PF13240 zinc_ribbon_2: zinc-r 64.9 3 6.5E-05 24.6 0.7 16 117-132 2-17 (23)
14 PF02207 zf-UBR: Putative zinc 64.2 3.3 7.2E-05 29.9 0.9 34 35-68 10-48 (71)
15 COG4338 Uncharacterized protei 60.2 0.72 1.6E-05 32.7 -3.0 24 113-136 11-43 (54)
16 PF06467 zf-FCS: MYM-type Zinc 55.5 2.8 6.2E-05 26.8 -0.6 24 113-136 5-40 (43)
17 cd02340 ZZ_NBR1_like Zinc fing 53.7 7.9 0.00017 25.8 1.3 27 39-65 15-43 (43)
18 PF13248 zf-ribbon_3: zinc-rib 52.5 7.2 0.00016 23.3 0.9 18 115-132 3-20 (26)
19 KOG2177 Predicted E3 ubiquitin 45.8 10 0.00023 30.6 1.1 39 25-68 88-128 (386)
20 PF01412 ArfGap: Putative GTPa 41.4 8.5 0.00018 30.2 -0.1 52 35-86 10-73 (116)
21 COG4068 Uncharacterized protei 39.8 9 0.0002 28.2 -0.2 23 114-136 8-30 (64)
22 PF04438 zf-HIT: HIT zinc fing 37.8 9.3 0.0002 23.9 -0.3 21 116-136 4-29 (30)
23 cd02341 ZZ_ZZZ3 Zinc finger, Z 36.2 22 0.00047 24.4 1.3 27 39-65 16-48 (48)
24 smart00396 ZnF_UBR1 Putative z 30.5 51 0.0011 24.0 2.5 29 33-61 8-41 (71)
25 PF04570 DUF581: Protein of un 28.1 18 0.00038 26.1 -0.2 24 113-136 15-47 (58)
26 smart00105 ArfGap Putative GTP 25.7 20 0.00044 27.9 -0.3 43 37-80 2-57 (112)
27 TIGR00412 redox_disulf_2 small 24.4 1.2E+02 0.0025 21.6 3.5 32 73-105 33-66 (76)
28 KOG4582 Uncharacterized conser 24.3 70 0.0015 29.1 2.8 56 9-67 132-199 (278)
29 PF06156 DUF972: Protein of un 22.6 53 0.0011 26.1 1.5 30 13-43 77-107 (107)
30 smart00746 TRASH metallochaper 22.5 49 0.0011 18.2 1.0 10 127-136 23-32 (39)
31 cd02337 ZZ_CBP Zinc finger, ZZ 21.4 31 0.00068 22.8 0.0 29 37-65 12-41 (41)
32 PF12773 DZR: Double zinc ribb 20.9 43 0.00093 22.0 0.6 12 114-125 12-23 (50)
33 cd02344 ZZ_HERC2 Zinc finger, 20.3 60 0.0013 22.1 1.2 27 38-64 15-44 (45)
No 1
>PF04640 PLATZ: PLATZ transcription factor; InterPro: IPR006734 This family includes a conserved region in several uncharacterised plant proteins.
Probab=100.00 E-value=2e-39 Score=239.97 Aligned_cols=71 Identities=73% Similarity=1.226 Sum_probs=70.3
Q ss_pred EeccccceeeechhhhhhcccceeeEEEcCeEEEEeeCCCCCCCCCCCCCcccccccccCCCCeeeecccc
Q 028109 66 RRSSYHDVIRVSEIQKVLDISGVQTYVINSARVVFLNERPQPRPGKGVTNTCEVCDRSLLDSFRFCSLGCK 136 (213)
Q Consensus 66 RRssY~dVVRv~dIqkl~D~S~IQtYvINsakVVFLn~RPq~r~~kg~~~~C~~C~R~L~d~~rFCSL~CK 136 (213)
|||||||||||+|||||||||+||||+||+++|||||+|||++++++.++.|++|+|+|+|+|+||||+||
T Consensus 1 Rr~sY~dVVrv~di~kl~D~s~IQtY~iNs~kVVfLn~Rpq~~~~~~~~~~C~~C~R~L~d~~~fCSl~CK 71 (72)
T PF04640_consen 1 RRYSYHDVVRVSDIQKLLDCSGIQTYVINSAKVVFLNPRPQSRPSKGSGNICETCHRSLQDPYRFCSLSCK 71 (72)
T ss_pred CcccccceEEHHHhHhhccccccEEEEeCCceEEEEccCCcCCCCCCCCCccCCCCCCCCCCCeEEeeeEE
Confidence 79999999999999999999999999999999999999999999999999999999999999999999999
No 2
>PF00643 zf-B_box: B-box zinc finger; InterPro: IPR000315 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 B-box-type zinc finger domains, which are around 40 residues in length. B-box zinc fingers can be divided into two groups, where types 1 and 2 B-box domains differ in their consensus sequence and in the spacing of the 7-8 zinc-binding residues. Several proteins contain both types 1 and 2 B-boxes, suggesting some level of cooperativity between these two domains. B-box domains are found in over 1500 proteins from a variety of organisms. They are found in TRIM (tripartite motif) proteins that consist of an N-terminal RING finger (originally called an A-box), followed by 1-2 B-box domains and a coiled-coil domain (also called RBCC for Ring, B-box, Coiled-Coil). TRIM proteins contain a type 2 B-box domain, and may also contain a type 1 B-box. In proteins that do not contain RING or coiled-coil domains, the B-box domain is primarily type 2. Many type 2 B-box proteins are involved in ubiquitinylation. Proteins containing a B-box zinc finger domain include transcription factors, ribonucleoproteins and proto-oncoproteins; for example, MID1, MID2, TRIM9, TNL, TRIM36, TRIM63, TRIFIC, NCL1 and CONSTANS-like proteins []. The microtubule-associated E3 ligase MID1 (6.3.2 from EC) contains a type 1 B-box zinc finger domain. MID1 specifically binds Alpha-4, which in turn recruits the catalytic subunit of phosphatase 2A (PP2Ac). This complex is required for targeting of PP2Ac for proteasome-mediated degradation. The MID1 B-box coordinates two zinc ions and adopts a beta/beta/alpha cross-brace structure similar to that of ZZ, PHD, RING and FYVE zinc fingers [, ]. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 3DDT_B 2D8U_A 3Q1D_A 2EGM_A 2YVR_B 2DJA_A 2DQ5_A 2JUN_A 2YRG_A 2DID_A ....
Probab=96.69 E-value=0.0006 Score=44.14 Aligned_cols=37 Identities=35% Similarity=0.859 Sum_probs=29.8
Q ss_pred cCCCCCCCCCCCcceecccCCCCcCCccccc-ccCCCceeEE
Q 028109 25 QCKLHPDSHKSECNMYCLDCMNGAFCSLCLD-YHKDHRAIQI 65 (213)
Q Consensus 25 ~C~~H~~~~knE~N~FCldC~~~~lC~~Cl~-~H~~Hr~lQI 65 (213)
.|..|.. .+.++||.+|. ..+|..|.. .|++|.++.|
T Consensus 5 ~C~~H~~---~~~~~~C~~C~-~~~C~~C~~~~H~~H~~~~i 42 (42)
T PF00643_consen 5 KCPEHPE---EPLSLFCEDCN-EPLCSECTVSGHKGHKIVPI 42 (42)
T ss_dssp B-SSTTT---SBEEEEETTTT-EEEEHHHHHTSTTTSEEEEC
T ss_pred cCccCCc---cceEEEecCCC-CccCccCCCCCCCCCEEeEC
Confidence 5888875 34899999998 899999977 4999987754
No 3
>cd00021 BBOX B-Box-type zinc finger; zinc binding domain (CHC3H2); often present in combination with other motifs, like RING zinc finger, NHL motif, coiled-coil or RFP domain in functionally unrelated proteins, most likely mediating protein-protein interaction.
Probab=95.37 E-value=0.011 Score=37.00 Aligned_cols=36 Identities=22% Similarity=0.509 Sum_probs=28.0
Q ss_pred cCCCCCCCCCCCcceecccCCCCcCCccccc-ccCCCceeE
Q 028109 25 QCKLHPDSHKSECNMYCLDCMNGAFCSLCLD-YHKDHRAIQ 64 (213)
Q Consensus 25 ~C~~H~~~~knE~N~FCldC~~~~lC~~Cl~-~H~~Hr~lQ 64 (213)
.|..|.. +...+||.+|. ..+|..|.. .|++|.++-
T Consensus 2 ~C~~H~~---~~~~~fC~~~~-~~iC~~C~~~~H~~H~~~~ 38 (39)
T cd00021 2 LCDEHGE---EPLSLFCETDR-ALLCVDCDLSVHSGHRRVP 38 (39)
T ss_pred CCCccCC---cceEEEeCccC-hhhhhhcChhhcCCCCEee
Confidence 4778853 24689999998 899999965 688887654
No 4
>smart00336 BBOX B-Box-type zinc finger.
Probab=94.40 E-value=0.034 Score=35.20 Aligned_cols=35 Identities=26% Similarity=0.803 Sum_probs=27.8
Q ss_pred cCCCCCCCCCCCcceecccCCCCcCCccccc-ccCCCcee
Q 028109 25 QCKLHPDSHKSECNMYCLDCMNGAFCSLCLD-YHKDHRAI 63 (213)
Q Consensus 25 ~C~~H~~~~knE~N~FCldC~~~~lC~~Cl~-~H~~Hr~l 63 (213)
.|..|.. ....+||.+|. ..+|..|.. .|++|.++
T Consensus 5 ~C~~h~~---~~~~~~C~~c~-~~iC~~C~~~~H~~H~~~ 40 (42)
T smart00336 5 KCDSHGD---EPAEFFCEECG-ALLCRTCDEAEHRGHTVV 40 (42)
T ss_pred cCCCCCC---CceEEECCCCC-cccccccChhhcCCCcee
Confidence 4778864 24689999998 899999976 58888765
No 5
>PRK01343 zinc-binding protein; Provisional
Probab=84.16 E-value=0.45 Score=34.29 Aligned_cols=26 Identities=27% Similarity=0.708 Sum_probs=20.5
Q ss_pred CCcccccccccCCCC-eeeeccccccc
Q 028109 114 TNTCEVCDRSLLDSF-RFCSLGCKNFQ 139 (213)
Q Consensus 114 ~~~C~~C~R~L~d~~-rFCSL~CK~~~ 139 (213)
...|-+|++.....+ -|||-.|+...
T Consensus 9 ~~~CP~C~k~~~~~~rPFCS~RC~~iD 35 (57)
T PRK01343 9 TRPCPECGKPSTREAYPFCSERCRDID 35 (57)
T ss_pred CCcCCCCCCcCcCCCCcccCHHHhhhh
Confidence 456999999887655 59999999443
No 6
>COG3024 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=83.08 E-value=0.65 Score=34.39 Aligned_cols=27 Identities=37% Similarity=0.811 Sum_probs=20.8
Q ss_pred CCcccccccccCC----CCe-eeeccccccch
Q 028109 114 TNTCEVCDRSLLD----SFR-FCSLGCKNFQK 140 (213)
Q Consensus 114 ~~~C~~C~R~L~d----~~r-FCSL~CK~~~~ 140 (213)
+-.|-+|++...- +|| |||-.||.+..
T Consensus 7 ~v~CP~Cgkpv~w~~~s~frPFCSkRCklIDL 38 (65)
T COG3024 7 TVPCPTCGKPVVWGEESPFRPFCSKRCKLIDL 38 (65)
T ss_pred cccCCCCCCcccccccCCcCcchhHhhhhcch
Confidence 3459999998864 666 99999995543
No 7
>PF12855 Ecl1: Life-span regulatory factor; InterPro: IPR024368 The fungal proteins in this entry are involved in the regulation of chronological life-span [, ]. Overexpression of these proteins has been shown to extend the chronological life-span of wild-type strains. The mechanism by which this happens is not known, but microarray data suggests that they may function as pleiptropic stress regulators.
Probab=81.92 E-value=0.33 Score=33.04 Aligned_cols=24 Identities=33% Similarity=0.797 Sum_probs=21.1
Q ss_pred CCccccccccc---CCCCeeeeccccc
Q 028109 114 TNTCEVCDRSL---LDSFRFCSLGCKN 137 (213)
Q Consensus 114 ~~~C~~C~R~L---~d~~rFCSL~CK~ 137 (213)
.+.|.+|+|-+ .+...|||-.|+.
T Consensus 6 ~~yC~~Cdk~~~~~~~~~lYCSe~Cr~ 32 (43)
T PF12855_consen 6 NDYCIVCDKQIDPPDDGSLYCSEECRL 32 (43)
T ss_pred hhHHHHhhccccCCCCCccccCHHHHh
Confidence 46799999999 6789999999993
No 8
>PF03884 DUF329: Domain of unknown function (DUF329); InterPro: IPR005584 The biological function of these short proteins is unknown, but they contain four conserved cysteines, suggesting that they all bind zinc. YacG (Q5X8H6 from SWISSPROT) from Escherichia coli has been shown to bind zinc and contains the structural motifs typical of zinc-binding proteins []. The conserved four cysteine motif in these proteins (-C-X(2)-C-X(15)-C-X(3)-C-) is not found in other zinc-binding proteins with known structures.; GO: 0008270 zinc ion binding; PDB: 1LV3_A.
Probab=80.30 E-value=0.29 Score=35.17 Aligned_cols=25 Identities=40% Similarity=0.862 Sum_probs=15.2
Q ss_pred CCcccccccccCC----CCe-eeecccccc
Q 028109 114 TNTCEVCDRSLLD----SFR-FCSLGCKNF 138 (213)
Q Consensus 114 ~~~C~~C~R~L~d----~~r-FCSL~CK~~ 138 (213)
+..|-+|++...- +|+ |||-.||.+
T Consensus 2 ~v~CP~C~k~~~~~~~n~~rPFCS~RCk~i 31 (57)
T PF03884_consen 2 TVKCPICGKPVEWSPENPFRPFCSERCKLI 31 (57)
T ss_dssp EEE-TTT--EEE-SSSSS--SSSSHHHHHH
T ss_pred cccCCCCCCeecccCCCCcCCcccHhhccc
Confidence 3469999998875 676 999999933
No 9
>PRK00418 DNA gyrase inhibitor; Reviewed
Probab=80.06 E-value=0.71 Score=33.81 Aligned_cols=26 Identities=35% Similarity=0.811 Sum_probs=19.9
Q ss_pred CCcccccccccC---C-CCe-eeeccccccc
Q 028109 114 TNTCEVCDRSLL---D-SFR-FCSLGCKNFQ 139 (213)
Q Consensus 114 ~~~C~~C~R~L~---d-~~r-FCSL~CK~~~ 139 (213)
.-.|-+|++.+. + +|+ |||-.||.+.
T Consensus 6 ~v~CP~C~k~~~w~~~~~~rPFCS~RCk~ID 36 (62)
T PRK00418 6 TVNCPTCGKPVEWGEISPFRPFCSKRCQLID 36 (62)
T ss_pred cccCCCCCCcccccCCCCcCCcccHHHHhhh
Confidence 457999999874 3 565 9999999443
No 10
>PF10013 DUF2256: Uncharacterized protein conserved in bacteria (DUF2256); InterPro: IPR017136 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=77.56 E-value=0.74 Score=31.45 Aligned_cols=23 Identities=35% Similarity=1.002 Sum_probs=19.7
Q ss_pred CCcccccccccC---------CCCeeeecccc
Q 028109 114 TNTCEVCDRSLL---------DSFRFCSLGCK 136 (213)
Q Consensus 114 ~~~C~~C~R~L~---------d~~rFCSL~CK 136 (213)
..+|.+|+|... |..+|||-.|.
T Consensus 8 ~K~C~~C~rpf~WRKKW~~~Wd~VkYCS~rCR 39 (42)
T PF10013_consen 8 SKICPVCGRPFTWRKKWARCWDEVKYCSDRCR 39 (42)
T ss_pred CCcCcccCCcchHHHHHHHhchhhccHHHHhc
Confidence 457999999996 57899999996
No 11
>PF09889 DUF2116: Uncharacterized protein containing a Zn-ribbon (DUF2116); InterPro: IPR019216 This entry contains various hypothetical prokaryotic proteins whose functions are unknown. They contain a conserved zinc ribbon motif in the N-terminal part and a predicted transmembrane segment in the C-terminal part.
Probab=70.81 E-value=1.3 Score=32.08 Aligned_cols=22 Identities=32% Similarity=0.868 Sum_probs=20.6
Q ss_pred CcccccccccCCCCeeeecccc
Q 028109 115 NTCEVCDRSLLDSFRFCSLGCK 136 (213)
Q Consensus 115 ~~C~~C~R~L~d~~rFCSL~CK 136 (213)
..|..||..+..+-.|||-.|+
T Consensus 4 kHC~~CG~~Ip~~~~fCS~~C~ 25 (59)
T PF09889_consen 4 KHCPVCGKPIPPDESFCSPKCR 25 (59)
T ss_pred CcCCcCCCcCCcchhhhCHHHH
Confidence 4799999999999999999999
No 12
>KOG4367 consensus Predicted Zn-finger protein [Function unknown]
Probab=65.97 E-value=2.1 Score=42.39 Aligned_cols=36 Identities=31% Similarity=0.738 Sum_probs=29.2
Q ss_pred cccCCCCCCCCCCCcceecccCCCCcCCccccc--ccCCCce
Q 028109 23 FVQCKLHPDSHKSECNMYCLDCMNGAFCSLCLD--YHKDHRA 62 (213)
Q Consensus 23 F~~C~~H~~~~knE~N~FCldC~~~~lC~~Cl~--~H~~Hr~ 62 (213)
-..|..|.... ..|||+.|. .++|..||. .|..|.|
T Consensus 223 ~~~ct~h~~e~---~smyc~~ck-~pvc~~clee~khs~hev 260 (699)
T KOG4367|consen 223 VSTCTDHELEN---HSMYCVQCK-MPVCYQCLEEGKHSSHEV 260 (699)
T ss_pred hhhccCCCCCC---ceEEEEecC-ChHHHHHHHhhcccchhh
Confidence 45799998743 679999998 899999998 6777763
No 13
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=64.90 E-value=3 Score=24.60 Aligned_cols=16 Identities=31% Similarity=0.926 Sum_probs=14.3
Q ss_pred ccccccccCCCCeeee
Q 028109 117 CEVCDRSLLDSFRFCS 132 (213)
Q Consensus 117 C~~C~R~L~d~~rFCS 132 (213)
|..|+..|.|...||+
T Consensus 2 Cp~CG~~~~~~~~fC~ 17 (23)
T PF13240_consen 2 CPNCGAEIEDDAKFCP 17 (23)
T ss_pred CcccCCCCCCcCcchh
Confidence 8889999999889986
No 14
>PF02207 zf-UBR: Putative zinc finger in N-recognin (UBR box); InterPro: IPR003126 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 N-end rule-based degradation signal, which targets a protein for ubiquitin-dependent proteolysis, comprises a destabilising amino-terminal residue and a specific internal lysine residue. This entry describes a putative zinc finger in N-recognin, a recognition component of the N-end rule pathway []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0004842 ubiquitin-protein ligase activity, 0008270 zinc ion binding; PDB: 3NY1_B 3NIS_F 3NIM_A 3NIK_A 3NII_A 3NIH_A 3NIL_D 3NIN_B 3NIJ_A 3NIT_A ....
Probab=64.18 E-value=3.3 Score=29.94 Aligned_cols=34 Identities=29% Similarity=0.655 Sum_probs=24.1
Q ss_pred CCcceecccCCC---CcCCccc-cc-ccCCCceeEEEec
Q 028109 35 SECNMYCLDCMN---GAFCSLC-LD-YHKDHRAIQIRRS 68 (213)
Q Consensus 35 nE~N~FCldC~~---~~lC~~C-l~-~H~~Hr~lQIRRs 68 (213)
++--..|++|.. .++|..| .. .|.+|+++.++-.
T Consensus 10 ~q~~y~C~tC~~~~~~~iC~~CF~~~~H~gH~~~~~~~~ 48 (71)
T PF02207_consen 10 GQIFYRCLTCSLDESSGICEECFANSCHEGHRVVYYRSS 48 (71)
T ss_dssp T-EEEEETTTBSSTT-BBEHHHHCTSGGGGSSEEEEE--
T ss_pred CCEEEECccCCCCCCEEEchhhCCCCCcCCCcEEEEEeC
Confidence 366678999974 5799999 44 8999998877655
No 15
>COG4338 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=60.24 E-value=0.72 Score=32.74 Aligned_cols=24 Identities=33% Similarity=0.931 Sum_probs=20.9
Q ss_pred CCCcccccccccC---------CCCeeeecccc
Q 028109 113 VTNTCEVCDRSLL---------DSFRFCSLGCK 136 (213)
Q Consensus 113 ~~~~C~~C~R~L~---------d~~rFCSL~CK 136 (213)
...+|++|+|.+. |...|||-.|+
T Consensus 11 p~KICpvCqRPFsWRkKW~~cWDeVKyCSeRCr 43 (54)
T COG4338 11 PDKICPVCQRPFSWRKKWARCWDEVKYCSERCR 43 (54)
T ss_pred chhhhhhhcCchHHHHHHHHHHHHHHHHHHHHH
Confidence 4678999999985 57899999999
No 16
>PF06467 zf-FCS: MYM-type Zinc finger with FCS sequence motif; InterPro: IPR010507 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. MYM-type zinc fingers were identified in MYM family proteins []. Human protein Q14202 from SWISSPROT is involved in a chromosomal translocation and may be responsible for X-linked retardation in XQ13.1 []. Q9UBW7 from SWISSPROT is also involved in disease. In myeloproliferative disorders it is fused to FGF receptor 1 []; in atypical myeloproliferative disorders it is rearranged []. Members of the family generally are involved in development. This Zn-finger domain functions as a transcriptional trans-activator of late vaccinia viral genes, and orthologues are also found in all nucleocytoplasmic large DNA viruses, NCLDV. This domain is also found fused to the C termini of recombinases from certain prokaryotic transposons []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2L8E_A 2DAS_A.
Probab=55.49 E-value=2.8 Score=26.83 Aligned_cols=24 Identities=29% Similarity=0.758 Sum_probs=15.2
Q ss_pred CCCcccccccccCC-C-----------Ceeeecccc
Q 028109 113 VTNTCEVCDRSLLD-S-----------FRFCSLGCK 136 (213)
Q Consensus 113 ~~~~C~~C~R~L~d-~-----------~rFCSL~CK 136 (213)
....|..|++.+.. + ..|||..|-
T Consensus 5 ~~~~C~~C~~~~~~~~~~~~~~~~g~~~~FCS~~C~ 40 (43)
T PF06467_consen 5 KMKTCSYCKKYIPNKPTMIEVQYDGKMKQFCSQSCL 40 (43)
T ss_dssp SCEE-TTT--EEECCC----EE-TTTTSCCSSHHHH
T ss_pred cCCcCcccCCcccCCCccccccccCcccChhCHHHH
Confidence 46789999987743 2 379999985
No 17
>cd02340 ZZ_NBR1_like Zinc finger, ZZ type. Zinc finger present in Drosophila ref(2)P, NBR1, Human sequestosome 1 and related proteins. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding. Drosophila ref(2)P appears to control the multiplication of sigma rhabdovirus. NBR1 (Next to BRCA1 gene 1 protein) interacts with fasciculation and elongation protein zeta-1 (FEZ1) and calcium and integrin binding protein (CIB), and may function in cell signalling pathways. Sequestosome 1 is a phosphotyrosine independent ligand for the Lck SH2 domain and binds noncovalently to ubiquitin via its UBA domain.
Probab=53.70 E-value=7.9 Score=25.82 Aligned_cols=27 Identities=30% Similarity=0.707 Sum_probs=20.4
Q ss_pred eecccCCCCcCCccccc--ccCCCceeEE
Q 028109 39 MYCLDCMNGAFCSLCLD--YHKDHRAIQI 65 (213)
Q Consensus 39 ~FCldC~~~~lC~~Cl~--~H~~Hr~lQI 65 (213)
.-|+.|.+--||..|.. .|..|..++|
T Consensus 15 y~C~~C~d~dLC~~C~~~~~H~~H~f~~~ 43 (43)
T cd02340 15 YKCLVCPDYDLCESCEAKGVHPEHAMLKI 43 (43)
T ss_pred EECCCCCCccchHHhhCcCCCCCCCEEeC
Confidence 56888887889999955 5777776653
No 18
>PF13248 zf-ribbon_3: zinc-ribbon domain
Probab=52.55 E-value=7.2 Score=23.26 Aligned_cols=18 Identities=22% Similarity=0.621 Sum_probs=15.4
Q ss_pred CcccccccccCCCCeeee
Q 028109 115 NTCEVCDRSLLDSFRFCS 132 (213)
Q Consensus 115 ~~C~~C~R~L~d~~rFCS 132 (213)
..|..|+..+.+..+||+
T Consensus 3 ~~Cp~Cg~~~~~~~~fC~ 20 (26)
T PF13248_consen 3 MFCPNCGAEIDPDAKFCP 20 (26)
T ss_pred CCCcccCCcCCcccccCh
Confidence 468999998888899996
No 19
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=45.76 E-value=10 Score=30.63 Aligned_cols=39 Identities=21% Similarity=0.618 Sum_probs=30.1
Q ss_pred cCCCCCCCCCCCcceecccCCCCcCCcccc-c-ccCCCceeEEEec
Q 028109 25 QCKLHPDSHKSECNMYCLDCMNGAFCSLCL-D-YHKDHRAIQIRRS 68 (213)
Q Consensus 25 ~C~~H~~~~knE~N~FCldC~~~~lC~~Cl-~-~H~~Hr~lQIRRs 68 (213)
.|..|... ..+||..|. ..+|..|. . .|.+|.++.+...
T Consensus 88 ~c~~~~~~----~~~~c~~~~-~~~c~~c~~~~~h~~h~~~~~~~~ 128 (386)
T KOG2177|consen 88 LCEKHGEE----LKLFCEEDE-KLLCVLCRESGEHRGHPVLPLEEA 128 (386)
T ss_pred hhhhcCCc----ceEEecccc-cccCCCCCCcccccCCccccHHHH
Confidence 67777652 779999998 78999996 3 8999987766543
No 20
>PF01412 ArfGap: Putative GTPase activating protein for Arf; InterPro: IPR001164 This entry describes a family of small GTPase activating proteins, for example ARF1-directed GTPase-activating protein, the cycle control GTPase activating protein (GAP) GCS1 which is important for the regulation of the ADP ribosylation factor ARF, a member of the Ras superfamily of GTP-binding proteins []. The GTP-bound form of ARF is essential for the maintenance of normal Golgi morphology, it participates in recruitment of coat proteins which are required for budding and fission of membranes. Before the fusion with an acceptor compartment the membrane must be uncoated. This step required the hydrolysis of GTP associated to ARF. These proteins contain a characteristic zinc finger motif (Cys-x2-Cys-x(16,17)-x2-Cys) which displays some similarity to the C4-type GATA zinc finger. The ARFGAP domain display no obvious similarity to other GAP proteins. The 3D structure of the ARFGAP domain of the PYK2-associated protein beta has been solved []. It consists of a three-stranded beta-sheet surrounded by 5 alpha helices. The domain is organised around a central zinc atom which is coordinated by 4 cysteines. The ARFGAP domain is clearly unrelated to the other GAP proteins structures which are exclusively helical. Classical GAP proteins accelerate GTPase activity by supplying an arginine finger to the active site. The crystal structure of ARFGAP bound to ARF revealed that the ARFGAP domain does not supply an arginine to the active site which suggests a more indirect role of the ARFGAP domain in the GTPase hydrolysis []. The Rev protein of human immunodeficiency virus type 1 (HIV-1) facilitates nuclear export of unspliced and partly-spliced viral RNAs []. Rev contains an RNA-binding domain and an effector domain; the latter is believed to interact with a cellular cofactor required for the Rev response and hence HIV-1 replication. Human Rev interacting protein (hRIP) specifically interacts with the Rev effector. The amino acid sequence of hRIP is characterised by an N-terminal, C-4 class zinc finger motif.; GO: 0008060 ARF GTPase activator activity, 0008270 zinc ion binding, 0032312 regulation of ARF GTPase activity; PDB: 2P57_A 2CRR_A 2OWA_B 3O47_B 3DWD_A 1DCQ_A 2CRW_A 3MDB_D 3FEH_A 3LJU_X ....
Probab=41.44 E-value=8.5 Score=30.17 Aligned_cols=52 Identities=23% Similarity=0.305 Sum_probs=30.6
Q ss_pred CCcceecccCCC-----------CcCCcccccccCCCc-eeEEEeccccceeeechhhhhhccc
Q 028109 35 SECNMYCLDCMN-----------GAFCSLCLDYHKDHR-AIQIRRSSYHDVIRVSEIQKVLDIS 86 (213)
Q Consensus 35 nE~N~FCldC~~-----------~~lC~~Cl~~H~~Hr-~lQIRRssY~dVVRv~dIqkl~D~S 86 (213)
..-|..|.||.. .-+|..|...|+.-. .+-.-|+.-.|-....||+.+....
T Consensus 10 ~~~N~~CaDCg~~~p~w~s~~~GiflC~~Cag~HR~lg~~is~VkSi~~d~w~~~ev~~~~~~G 73 (116)
T PF01412_consen 10 KPGNKVCADCGAPNPTWASLNYGIFLCLECAGIHRSLGVHISRVKSITMDNWSPEEVQRMREGG 73 (116)
T ss_dssp STTCTB-TTT-SBS--EEETTTTEEE-HHHHHHHHHHTTTT--EEETTTS---HHHHHHHHHSH
T ss_pred CcCcCcCCCCCCCCCCEEEeecChhhhHHHHHHHHHhcccchhccccccCCCCHHHHHHHHHHC
Confidence 457899999962 248999988887322 2223377888888888888876553
No 21
>COG4068 Uncharacterized protein containing a Zn-ribbon [Function unknown]
Probab=39.77 E-value=9 Score=28.23 Aligned_cols=23 Identities=26% Similarity=0.676 Sum_probs=21.1
Q ss_pred CCcccccccccCCCCeeeecccc
Q 028109 114 TNTCEVCDRSLLDSFRFCSLGCK 136 (213)
Q Consensus 114 ~~~C~~C~R~L~d~~rFCSL~CK 136 (213)
...|.+|+..+...-+|||-.|.
T Consensus 8 H~HC~VCg~aIp~de~~CSe~C~ 30 (64)
T COG4068 8 HRHCVVCGKAIPPDEQVCSEECG 30 (64)
T ss_pred CccccccCCcCCCccchHHHHHH
Confidence 35799999999998999999999
No 22
>PF04438 zf-HIT: HIT zinc finger; InterPro: IPR007529 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 HIT-type zinc finger, which contains 7 conserved cysteines and one histidine that can potentially coordinate two zinc atoms. It has been named after the first protein that originally defined the domain: the yeast HIT1 protein (P46973 from SWISSPROT) []. The HIT-type zinc finger displays some sequence similarities to the MYND-type zinc finger. The function of this domain is unknown but it is mainly found in nuclear proteins involved in gene regulation and chromatin remodeling. This domain is also found in the thyroid receptor interacting protein 3 (TRIP-3) Q15649 from SWISSPROT, that specifically interacts with the ligand binding domain of the thyroid receptor. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 2YQP_A 2YQQ_A 1X4S_A.
Probab=37.85 E-value=9.3 Score=23.89 Aligned_cols=21 Identities=38% Similarity=0.880 Sum_probs=12.6
Q ss_pred cccccccccCC-----CCeeeecccc
Q 028109 116 TCEVCDRSLLD-----SFRFCSLGCK 136 (213)
Q Consensus 116 ~C~~C~R~L~d-----~~rFCSL~CK 136 (213)
.|.+|+..-.- ..+||||.|.
T Consensus 4 ~C~vC~~~~kY~Cp~C~~~~CSl~C~ 29 (30)
T PF04438_consen 4 LCSVCGNPAKYRCPRCGARYCSLACY 29 (30)
T ss_dssp EETSSSSEESEE-TTT--EESSHHHH
T ss_pred CCccCcCCCEEECCCcCCceeCcEeE
Confidence 47777762211 3689999984
No 23
>cd02341 ZZ_ZZZ3 Zinc finger, ZZ type. Zinc finger present in ZZZ3 (ZZ finger containing 3) and related proteins. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding.
Probab=36.21 E-value=22 Score=24.45 Aligned_cols=27 Identities=30% Similarity=0.705 Sum_probs=19.2
Q ss_pred eecccCC--CCcCCccccc---ccC-CCceeEE
Q 028109 39 MYCLDCM--NGAFCSLCLD---YHK-DHRAIQI 65 (213)
Q Consensus 39 ~FCldC~--~~~lC~~Cl~---~H~-~Hr~lQI 65 (213)
.-|++|. +--||..|.. .|+ +|+.+.|
T Consensus 16 ~~C~~C~~~d~DlC~~C~~~~~~H~~~H~~~~i 48 (48)
T cd02341 16 YHCSECDDGDFDLCQDCVVKGESHQEDHWLVKI 48 (48)
T ss_pred EECCCCCCCCCccCHHHHhCcCCCCCCCceeeC
Confidence 5688888 7789999955 343 6766654
No 24
>smart00396 ZnF_UBR1 Putative zinc finger in N-recognin, a recognition component of the N-end rule pathway. Domain is involved in recognition of N-end rule substrates in yeast Ubr1p
Probab=30.46 E-value=51 Score=24.00 Aligned_cols=29 Identities=31% Similarity=0.572 Sum_probs=21.5
Q ss_pred CCCCcceecccCCC---CcCCccccc--ccCCCc
Q 028109 33 HKSECNMYCLDCMN---GAFCSLCLD--YHKDHR 61 (213)
Q Consensus 33 ~knE~N~FCldC~~---~~lC~~Cl~--~H~~Hr 61 (213)
.++|.-..|++|.. ..+|..|.. .|.+|+
T Consensus 8 ~~~~~~y~C~tC~~~~~~~iC~~Cf~~~~H~gH~ 41 (71)
T smart00396 8 TGGEVIYRCKTCGLDPTCVLCSDCFRSNCHKGHD 41 (71)
T ss_pred CCCCEEEECcCCCCCCCEeEChHHCCCCCCCCCC
Confidence 34577788999973 358888844 799998
No 25
>PF04570 DUF581: Protein of unknown function (DUF581); InterPro: IPR007650 This is a family of uncharacterised proteins.
Probab=28.11 E-value=18 Score=26.13 Aligned_cols=24 Identities=38% Similarity=0.928 Sum_probs=18.9
Q ss_pred CCCcccccccccC---CC--Ce----eeecccc
Q 028109 113 VTNTCEVCDRSLL---DS--FR----FCSLGCK 136 (213)
Q Consensus 113 ~~~~C~~C~R~L~---d~--~r----FCSL~CK 136 (213)
.-..|-.|.|.|. |- |+ |||..|-
T Consensus 15 FL~~C~~C~k~L~~~~DiymYrGd~aFCS~ECR 47 (58)
T PF04570_consen 15 FLSFCYLCKKKLDPGKDIYMYRGDKAFCSEECR 47 (58)
T ss_pred HHHHHHccCCCCCCCCCeeeeccccccccHHHH
Confidence 4568999999998 32 33 9999996
No 26
>smart00105 ArfGap Putative GTP-ase activating proteins for the small GTPase, ARF. Putative zinc fingers with GTPase activating proteins (GAPs) towards the small GTPase, Arf. The GAP of ARD1 stimulates GTPase hydrolysis for ARD1 but not ARFs.
Probab=25.67 E-value=20 Score=27.90 Aligned_cols=43 Identities=26% Similarity=0.384 Sum_probs=27.1
Q ss_pred cceecccCCC-----------CcCCcccccccCCCc--eeEEEeccccceeeechhh
Q 028109 37 CNMYCLDCMN-----------GAFCSLCLDYHKDHR--AIQIRRSSYHDVIRVSEIQ 80 (213)
Q Consensus 37 ~N~FCldC~~-----------~~lC~~Cl~~H~~Hr--~lQIRRssY~dVVRv~dIq 80 (213)
-|..|.||.. .-+|..|..-|+... +-. .|+.-.|...-.||+
T Consensus 2 ~N~~CaDC~~~~p~w~s~~~GifvC~~CsgiHR~lg~his~-VkSl~md~w~~~~i~ 57 (112)
T smart00105 2 GNKKCFDCGAPNPTWASVNLGVFLCIECSGIHRSLGVHISK-VRSLTLDTWTEEELR 57 (112)
T ss_pred CCCcccCCCCCCCCcEEeccceeEhHHhHHHHHhcCCCcCe-eeecccCCCCHHHHH
Confidence 4889999962 137888888888642 222 445555655555554
No 27
>TIGR00412 redox_disulf_2 small redox-active disulfide protein 2. This small protein is found in three archaeal species so far (Methanococcus jannaschii, Archeoglobus fulgidus, and Methanobacterium thermoautotrophicum) as well as in Anabaena PCC7120. It is homologous to thioredoxins, glutaredoxins, and protein disulfide isomerases, and shares with them a redox-active disulfide. The redox active disulfide region CXXC motif resembles neither thioredoxin nor glutaredoxin. A closely related protein found in the same three Archaea, described by redox_disulf_1, has a glutaredoxin-like CP[YH]C sequence; it has been characterized in functional assays as redox-active but unlikely to be a thioredoxin or glutaredoxin.
Probab=24.44 E-value=1.2e+02 Score=21.57 Aligned_cols=32 Identities=9% Similarity=0.360 Sum_probs=22.4
Q ss_pred eeeechhhhh--hcccceeeEEEcCeEEEEeeCCC
Q 028109 73 VIRVSEIQKV--LDISGVQTYVINSARVVFLNERP 105 (213)
Q Consensus 73 VVRv~dIqkl--~D~S~IQtYvINsakVVFLn~RP 105 (213)
+++++|+... +++.+|-|.++||..+ +....|
T Consensus 33 ~~~v~~~~~a~~~~v~~vPti~i~G~~~-~~G~~~ 66 (76)
T TIGR00412 33 FEKVTDMNEILEAGVTATPGVAVDGELV-IMGKIP 66 (76)
T ss_pred EEEeCCHHHHHHcCCCcCCEEEECCEEE-EEeccC
Confidence 5666655554 7899999999988665 554433
No 28
>KOG4582 consensus Uncharacterized conserved protein, contains ZZ-type Zn-finger [General function prediction only]
Probab=24.33 E-value=70 Score=29.12 Aligned_cols=56 Identities=18% Similarity=0.287 Sum_probs=35.4
Q ss_pred CCCCcHHHHhcc-ccc--------ccCCCCCCCCCCCcceecccCCCCcCCccccc---ccCCCceeEEEe
Q 028109 9 RWPPWLKPLLRE-SFF--------VQCKLHPDSHKSECNMYCLDCMNGAFCSLCLD---YHKDHRAIQIRR 67 (213)
Q Consensus 9 ~~P~WL~~LL~~-~FF--------~~C~~H~~~~knE~N~FCldC~~~~lC~~Cl~---~H~~Hr~lQIRR 67 (213)
..+.||.+-+.+ -++ +.|..|.-.. --.-|+.|.+.-||..|-. .|..|..|||.+
T Consensus 132 ~~~~~~~~~~~~~H~~~~~~~v~CD~C~~~~IvG---~RyKC~~C~dYDLCe~Ce~~~~~h~~H~~lR~~t 199 (278)
T KOG4582|consen 132 SLVITLNPVVGEMHPNISKLSVPCDNCGKPGIVG---ARYKCTVCPDYDLCERCEAGNEHHAAHAMLRLHT 199 (278)
T ss_pred hhhhhcCCCccccCCCcccccccCCCccCCcccc---ceeeecCCCccchhHHhhcCCCCCcccceeeccc
Confidence 345566665542 233 2445554432 2266999998889999944 456788898887
No 29
>PF06156 DUF972: Protein of unknown function (DUF972); InterPro: IPR010377 FUNCTION: Involved in initiation control of chromosome replication. SUBUNIT: Interacts with both DnaA and DnaN, acting as a bridge between these two proteins. SIMILARITY: Belongs to the YabA family.
Probab=22.60 E-value=53 Score=26.06 Aligned_cols=30 Identities=33% Similarity=0.637 Sum_probs=23.9
Q ss_pred cHHHHhcccccccCCCCCCCCC-CCcceeccc
Q 028109 13 WLKPLLRESFFVQCKLHPDSHK-SECNMYCLD 43 (213)
Q Consensus 13 WL~~LL~~~FF~~C~~H~~~~k-nE~N~FCld 43 (213)
=|..|..+- |=.|..|.+.++ +|-.+||++
T Consensus 77 NL~~LY~EG-FHICn~~yG~~R~~edClFCl~ 107 (107)
T PF06156_consen 77 NLARLYQEG-FHICNVHYGSRRNDEDCLFCLS 107 (107)
T ss_pred HHHHHHhcC-eeeCcHHhCCcCCCCCCcccCC
Confidence 466777777 788999999887 577799985
No 30
>smart00746 TRASH metallochaperone-like domain.
Probab=22.48 E-value=49 Score=18.23 Aligned_cols=10 Identities=50% Similarity=1.035 Sum_probs=8.1
Q ss_pred CCeeeecccc
Q 028109 127 SFRFCSLGCK 136 (213)
Q Consensus 127 ~~rFCSL~CK 136 (213)
.+.|||..|.
T Consensus 23 ~~~FCs~~c~ 32 (39)
T smart00746 23 VFYFCSSKCL 32 (39)
T ss_pred EEEEeCHHHH
Confidence 3689999887
No 31
>cd02337 ZZ_CBP Zinc finger, ZZ type. Zinc finger present in CBP/p300 and related proteins. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding. CREB-binding protein (CBP) is a large multidomain protein that provides binding sites for transcriptional coactivators, the role of the ZZ domain in CBP/p300 is unclear.
Probab=21.37 E-value=31 Score=22.82 Aligned_cols=29 Identities=17% Similarity=0.507 Sum_probs=21.6
Q ss_pred cceecccCCCCcCCccccc-ccCCCceeEE
Q 028109 37 CNMYCLDCMNGAFCSLCLD-YHKDHRAIQI 65 (213)
Q Consensus 37 ~N~FCldC~~~~lC~~Cl~-~H~~Hr~lQI 65 (213)
.-.-|..|.+--+|..|.. ..+.|...||
T Consensus 12 ~r~~C~~C~dfDLC~~C~~~~~H~H~~~~~ 41 (41)
T cd02337 12 TRWHCTVCEDYDLCITCYNTKNHPHKMEKL 41 (41)
T ss_pred CceECCCCcchhhHHHHhCCCCCCcccccC
Confidence 4477999987789999976 4447777664
No 32
>PF12773 DZR: Double zinc ribbon
Probab=20.93 E-value=43 Score=22.00 Aligned_cols=12 Identities=25% Similarity=0.603 Sum_probs=5.9
Q ss_pred CCcccccccccC
Q 028109 114 TNTCEVCDRSLL 125 (213)
Q Consensus 114 ~~~C~~C~R~L~ 125 (213)
...|..|+..|.
T Consensus 12 ~~fC~~CG~~l~ 23 (50)
T PF12773_consen 12 AKFCPHCGTPLP 23 (50)
T ss_pred ccCChhhcCChh
Confidence 344555555554
No 33
>cd02344 ZZ_HERC2 Zinc finger, ZZ type. Zinc finger present in HERC2 and related proteins. HERC2 is a potential E3 ubiquitin protein ligase and/or guanine nucleotide exchange factor. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding.
Probab=20.26 E-value=60 Score=22.13 Aligned_cols=27 Identities=26% Similarity=0.631 Sum_probs=19.4
Q ss_pred ceecccCCCCcCCccccc--ccC-CCceeE
Q 028109 38 NMYCLDCMNGAFCSLCLD--YHK-DHRAIQ 64 (213)
Q Consensus 38 N~FCldC~~~~lC~~Cl~--~H~-~Hr~lQ 64 (213)
-.-|+.|.+--||..|.. .|. .|.-+.
T Consensus 15 RykC~~C~dyDLC~~Cf~~~~H~~~H~F~r 44 (45)
T cd02344 15 RFKCRNCDDFDFCENCFKTRKHNTRHTFGR 44 (45)
T ss_pred eEECCCCCCccchHHhhCCCCcCCCCceee
Confidence 367999998899999966 453 565443
Done!