Query 026068
Match_columns 244
No_of_seqs 145 out of 188
Neff 3.9
Searched_HMMs 46136
Date Fri Mar 29 03:21:40 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/026068.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/026068hhsearch_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 1.7E-39 3.7E-44 244.8 5.8 72 70-141 1-72 (72)
2 PF00643 zf-B_box: B-box zinc 96.7 0.00065 1.4E-08 44.8 1.2 37 29-69 5-42 (42)
3 cd00021 BBOX B-Box-type zinc f 95.2 0.014 3E-07 37.3 2.0 36 29-68 2-38 (39)
4 smart00336 BBOX B-Box-type zin 94.2 0.042 9E-07 35.5 2.4 35 29-67 5-40 (42)
5 PF12855 Ecl1: Life-span regul 85.6 0.19 4E-06 35.0 -0.6 29 118-146 6-37 (43)
6 PF03884 DUF329: Domain of unk 80.5 0.23 4.9E-06 36.5 -1.9 28 119-146 3-35 (57)
7 PF10013 DUF2256: Uncharacteri 72.2 1.1 2.4E-05 31.3 -0.2 23 118-140 8-39 (42)
8 PRK01343 zinc-binding protein; 67.6 1.8 3.8E-05 32.0 0.0 28 118-145 9-37 (57)
9 PF02207 zf-UBR: Putative zinc 63.0 3.8 8.2E-05 30.3 1.0 34 39-72 10-48 (71)
10 PF09889 DUF2116: Uncharacteri 62.5 2.2 4.8E-05 31.5 -0.3 26 119-144 4-29 (59)
11 PF13240 zinc_ribbon_2: zinc-r 61.9 3.4 7.5E-05 24.9 0.5 16 121-136 2-17 (23)
12 COG4338 Uncharacterized protei 55.8 0.98 2.1E-05 32.8 -3.0 24 117-140 11-43 (54)
13 PRK00418 DNA gyrase inhibitor; 54.5 5.8 0.00013 29.7 0.8 28 118-145 6-38 (62)
14 PF13248 zf-ribbon_3: zinc-rib 50.1 8.4 0.00018 23.5 0.9 18 119-136 3-20 (26)
15 cd02340 ZZ_NBR1_like Zinc fing 49.9 11 0.00023 25.7 1.5 27 43-69 15-43 (43)
16 KOG4367 Predicted Zn-finger pr 49.5 6.4 0.00014 39.9 0.4 35 27-65 223-259 (699)
17 COG3024 Uncharacterized protei 48.5 11 0.00024 28.6 1.4 28 119-146 8-40 (65)
18 KOG2177 Predicted E3 ubiquitin 44.8 11 0.00024 31.0 1.1 38 29-71 88-127 (386)
19 smart00396 ZnF_UBR1 Putative z 40.9 31 0.00068 25.7 2.9 30 37-66 8-42 (71)
20 PF01412 ArfGap: Putative GTPa 39.9 8.1 0.00018 30.9 -0.4 50 39-89 10-72 (116)
21 PF06467 zf-FCS: MYM-type Zinc 39.3 7.3 0.00016 25.4 -0.6 24 117-140 5-40 (43)
22 PF04570 DUF581: Protein of un 30.4 16 0.00035 26.9 -0.1 28 118-145 16-52 (58)
23 PF04438 zf-HIT: HIT zinc fing 30.3 13 0.00029 23.7 -0.5 20 120-140 4-29 (30)
24 COG4068 Uncharacterized protei 30.3 15 0.00032 27.7 -0.3 22 119-140 9-30 (64)
25 cd02341 ZZ_ZZZ3 Zinc finger, Z 29.9 35 0.00077 23.9 1.6 27 43-69 16-48 (48)
26 PHA03301 envelope glycoprotein 26.6 87 0.0019 28.7 3.8 17 210-226 182-199 (226)
27 PF08002 DUF1697: Protein of u 25.6 37 0.0008 28.1 1.2 30 75-105 16-48 (137)
28 PLN00209 ribosomal protein S27 25.6 77 0.0017 25.3 2.9 58 60-140 20-84 (86)
29 TIGR00412 redox_disulf_2 small 23.0 1.1E+02 0.0025 22.1 3.3 33 76-109 32-66 (76)
30 KOG4582 Uncharacterized conser 22.9 56 0.0012 30.4 2.0 29 43-71 168-199 (278)
31 smart00105 ArfGap Putative GTP 22.5 23 0.0005 28.2 -0.5 43 41-84 2-57 (112)
32 KOG3362 Predicted BBOX Zn-fing 21.6 57 0.0012 28.5 1.6 28 116-143 116-148 (156)
33 smart00746 TRASH metallochaper 21.4 47 0.001 18.7 0.8 10 132-141 24-33 (39)
34 PRK05707 DNA polymerase III su 20.6 68 0.0015 30.2 2.1 93 13-106 3-113 (328)
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=1.7e-39 Score=244.83 Aligned_cols=72 Identities=67% Similarity=1.146 Sum_probs=71.1
Q ss_pred EeccccceeeecchhhhhcccceeeEEECCceEEEeeCCCCCCCCCCCCCcccccccccCCCCeeeeecccc
Q 026068 70 RRSSYHNVVRVNEIQKFIDISCVQTYIINSAKIVFLNERPQPRPGKGVTNTCEICCRSLLDSFRFCSLGCKL 141 (244)
Q Consensus 70 RRssYhdVVRv~DIqkllD~S~IQtYvINsakVVFLn~RPq~r~~kg~~~~Ce~C~R~L~D~~rFCSL~CKv 141 (244)
|||||||||||+|||||||||+||||+|||+||||||+|||+++++++++.|++|+|+|+|+|+||||+|||
T Consensus 1 Rr~sY~dVVrv~di~kl~D~s~IQtY~iNs~kVVfLn~Rpq~~~~~~~~~~C~~C~R~L~d~~~fCSl~CKv 72 (72)
T PF04640_consen 1 RRYSYHDVVRVSDIQKLLDCSGIQTYVINSAKVVFLNPRPQSRPSKGSGNICETCHRSLQDPYRFCSLSCKV 72 (72)
T ss_pred CcccccceEEHHHhHhhccccccEEEEeCCceEEEEccCCcCCCCCCCCCccCCCCCCCCCCCeEEeeeEEC
Confidence 799999999999999999999999999999999999999999999999999999999999999999999997
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=96.73 E-value=0.00065 Score=44.84 Aligned_cols=37 Identities=38% Similarity=0.908 Sum_probs=29.8
Q ss_pred CCccCCCCCCCCcceecccCCCCcCCcchhcC-CCCCceeEE
Q 026068 29 PCVVHGDSNKSECNMFCLDCMGNAFCSYCLIN-HKDHRVVQI 69 (244)
Q Consensus 29 ~C~~H~~~~knE~N~FCldC~~~~~C~~Cl~~-H~~HrvlQI 69 (244)
.|..|.. .+.++||.+|.. .+|..|... |++|.++.|
T Consensus 5 ~C~~H~~---~~~~~~C~~C~~-~~C~~C~~~~H~~H~~~~i 42 (42)
T PF00643_consen 5 KCPEHPE---EPLSLFCEDCNE-PLCSECTVSGHKGHKIVPI 42 (42)
T ss_dssp B-SSTTT---SBEEEEETTTTE-EEEHHHHHTSTTTSEEEEC
T ss_pred cCccCCc---cceEEEecCCCC-ccCccCCCCCCCCCEEeEC
Confidence 6888864 448899999998 899999774 999988764
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=95.20 E-value=0.014 Score=37.26 Aligned_cols=36 Identities=31% Similarity=0.626 Sum_probs=28.0
Q ss_pred CCccCCCCCCCCcceecccCCCCcCCcchhc-CCCCCceeE
Q 026068 29 PCVVHGDSNKSECNMFCLDCMGNAFCSYCLI-NHKDHRVVQ 68 (244)
Q Consensus 29 ~C~~H~~~~knE~N~FCldC~~~~~C~~Cl~-~H~~HrvlQ 68 (244)
.|+.|.. +...+||.+|.. .+|..|.. .|++|.++.
T Consensus 2 ~C~~H~~---~~~~~fC~~~~~-~iC~~C~~~~H~~H~~~~ 38 (39)
T cd00021 2 LCDEHGE---EPLSLFCETDRA-LLCVDCDLSVHSGHRRVP 38 (39)
T ss_pred CCCccCC---cceEEEeCccCh-hhhhhcChhhcCCCCEee
Confidence 5788843 346899999987 89999965 599987754
No 4
>smart00336 BBOX B-Box-type zinc finger.
Probab=94.22 E-value=0.042 Score=35.51 Aligned_cols=35 Identities=37% Similarity=0.868 Sum_probs=27.7
Q ss_pred CCccCCCCCCCCcceecccCCCCcCCcchhc-CCCCCcee
Q 026068 29 PCVVHGDSNKSECNMFCLDCMGNAFCSYCLI-NHKDHRVV 67 (244)
Q Consensus 29 ~C~~H~~~~knE~N~FCldC~~~~~C~~Cl~-~H~~Hrvl 67 (244)
.|..|.. ....+||.+|.. .+|..|.. .|++|.++
T Consensus 5 ~C~~h~~---~~~~~~C~~c~~-~iC~~C~~~~H~~H~~~ 40 (42)
T smart00336 5 KCDSHGD---EPAEFFCEECGA-LLCRTCDEAEHRGHTVV 40 (42)
T ss_pred cCCCCCC---CceEEECCCCCc-ccccccChhhcCCCcee
Confidence 5888853 335899999997 89999976 58899765
No 5
>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=85.57 E-value=0.19 Score=34.98 Aligned_cols=29 Identities=24% Similarity=0.663 Sum_probs=24.4
Q ss_pred CCccccccccc---CCCCeeeeeccccCeeec
Q 026068 118 TNTCEICCRSL---LDSFRFCSLGCKLGAMKR 146 (244)
Q Consensus 118 ~~~Ce~C~R~L---~D~~rFCSL~CKv~~~~~ 146 (244)
.+.|.+|+|.+ .+...|||-.|++.....
T Consensus 6 ~~yC~~Cdk~~~~~~~~~lYCSe~Cr~~D~~~ 37 (43)
T PF12855_consen 6 NDYCIVCDKQIDPPDDGSLYCSEECRLKDQEK 37 (43)
T ss_pred hhHHHHhhccccCCCCCccccCHHHHhHhhhc
Confidence 46799999999 678999999999876553
No 6
>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=80.48 E-value=0.23 Score=36.47 Aligned_cols=28 Identities=43% Similarity=0.816 Sum_probs=17.1
Q ss_pred CcccccccccCC----CCe-eeeeccccCeeec
Q 026068 119 NTCEICCRSLLD----SFR-FCSLGCKLGAMKR 146 (244)
Q Consensus 119 ~~Ce~C~R~L~D----~~r-FCSL~CKv~~~~~ 146 (244)
..|-+|++...- +|+ |||-.||+..+.+
T Consensus 3 v~CP~C~k~~~~~~~n~~rPFCS~RCk~iDLg~ 35 (57)
T PF03884_consen 3 VKCPICGKPVEWSPENPFRPFCSERCKLIDLGR 35 (57)
T ss_dssp EE-TTT--EEE-SSSSS--SSSSHHHHHHHHS-
T ss_pred ccCCCCCCeecccCCCCcCCcccHhhcccCHHH
Confidence 469999998865 564 9999999766654
No 7
>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=72.19 E-value=1.1 Score=31.30 Aligned_cols=23 Identities=30% Similarity=0.967 Sum_probs=19.7
Q ss_pred CCcccccccccC---------CCCeeeeeccc
Q 026068 118 TNTCEICCRSLL---------DSFRFCSLGCK 140 (244)
Q Consensus 118 ~~~Ce~C~R~L~---------D~~rFCSL~CK 140 (244)
..+|.+|+|.+. |..+|||-.|.
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 8
>PRK01343 zinc-binding protein; Provisional
Probab=67.62 E-value=1.8 Score=31.97 Aligned_cols=28 Identities=25% Similarity=0.600 Sum_probs=22.1
Q ss_pred CCcccccccccCCC-CeeeeeccccCeee
Q 026068 118 TNTCEICCRSLLDS-FRFCSLGCKLGAMK 145 (244)
Q Consensus 118 ~~~Ce~C~R~L~D~-~rFCSL~CKv~~~~ 145 (244)
...|-+|++..... .-|||-.|+...+.
T Consensus 9 ~~~CP~C~k~~~~~~rPFCS~RC~~iDLg 37 (57)
T PRK01343 9 TRPCPECGKPSTREAYPFCSERCRDIDLN 37 (57)
T ss_pred CCcCCCCCCcCcCCCCcccCHHHhhhhHH
Confidence 35699999987755 58999999965554
No 9
>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=63.01 E-value=3.8 Score=30.28 Aligned_cols=34 Identities=35% Similarity=0.607 Sum_probs=23.8
Q ss_pred CCcceecccCCC---CcCCcch-hc-CCCCCceeEEEec
Q 026068 39 SECNMFCLDCMG---NAFCSYC-LI-NHKDHRVVQIRRS 72 (244)
Q Consensus 39 nE~N~FCldC~~---~~~C~~C-l~-~H~~HrvlQIRRs 72 (244)
++-...|++|.. .++|..| .. .|.+|+++.++-.
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 355566999986 4699999 44 7999998877654
No 10
>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=62.50 E-value=2.2 Score=31.50 Aligned_cols=26 Identities=23% Similarity=0.608 Sum_probs=22.1
Q ss_pred CcccccccccCCCCeeeeeccccCee
Q 026068 119 NTCEICCRSLLDSFRFCSLGCKLGAM 144 (244)
Q Consensus 119 ~~Ce~C~R~L~D~~rFCSL~CKv~~~ 144 (244)
..|..||..+...-.|||-.|+=...
T Consensus 4 kHC~~CG~~Ip~~~~fCS~~C~~~~~ 29 (59)
T PF09889_consen 4 KHCPVCGKPIPPDESFCSPKCREEYR 29 (59)
T ss_pred CcCCcCCCcCCcchhhhCHHHHHHHH
Confidence 47999999999889999999985433
No 11
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=61.91 E-value=3.4 Score=24.92 Aligned_cols=16 Identities=31% Similarity=0.870 Sum_probs=14.4
Q ss_pred ccccccccCCCCeeee
Q 026068 121 CEICCRSLLDSFRFCS 136 (244)
Q Consensus 121 Ce~C~R~L~D~~rFCS 136 (244)
|..|+..|.+...||+
T Consensus 2 Cp~CG~~~~~~~~fC~ 17 (23)
T PF13240_consen 2 CPNCGAEIEDDAKFCP 17 (23)
T ss_pred CcccCCCCCCcCcchh
Confidence 7889999999999986
No 12
>COG4338 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=55.80 E-value=0.98 Score=32.81 Aligned_cols=24 Identities=29% Similarity=0.881 Sum_probs=20.8
Q ss_pred CCCcccccccccC---------CCCeeeeeccc
Q 026068 117 VTNTCEICCRSLL---------DSFRFCSLGCK 140 (244)
Q Consensus 117 ~~~~Ce~C~R~L~---------D~~rFCSL~CK 140 (244)
.+.+|++|+|.+. |..+|||-.|+
T Consensus 11 p~KICpvCqRPFsWRkKW~~cWDeVKyCSeRCr 43 (54)
T COG4338 11 PDKICPVCQRPFSWRKKWARCWDEVKYCSERCR 43 (54)
T ss_pred chhhhhhhcCchHHHHHHHHHHHHHHHHHHHHH
Confidence 3578999999985 57899999999
No 13
>PRK00418 DNA gyrase inhibitor; Reviewed
Probab=54.50 E-value=5.8 Score=29.71 Aligned_cols=28 Identities=32% Similarity=0.679 Sum_probs=21.6
Q ss_pred CCcccccccccC---C-CC-eeeeeccccCeee
Q 026068 118 TNTCEICCRSLL---D-SF-RFCSLGCKLGAMK 145 (244)
Q Consensus 118 ~~~Ce~C~R~L~---D-~~-rFCSL~CKv~~~~ 145 (244)
+-.|-+|++.+. + .| -|||-.||+..+.
T Consensus 6 ~v~CP~C~k~~~w~~~~~~rPFCS~RCk~IDLg 38 (62)
T PRK00418 6 TVNCPTCGKPVEWGEISPFRPFCSKRCQLIDLG 38 (62)
T ss_pred cccCCCCCCcccccCCCCcCCcccHHHHhhhHH
Confidence 456999999874 2 45 7999999976654
No 14
>PF13248 zf-ribbon_3: zinc-ribbon domain
Probab=50.05 E-value=8.4 Score=23.51 Aligned_cols=18 Identities=22% Similarity=0.571 Sum_probs=15.3
Q ss_pred CcccccccccCCCCeeee
Q 026068 119 NTCEICCRSLLDSFRFCS 136 (244)
Q Consensus 119 ~~Ce~C~R~L~D~~rFCS 136 (244)
..|..|+..+.+..+||+
T Consensus 3 ~~Cp~Cg~~~~~~~~fC~ 20 (26)
T PF13248_consen 3 MFCPNCGAEIDPDAKFCP 20 (26)
T ss_pred CCCcccCCcCCcccccCh
Confidence 468999998888899996
No 15
>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=49.86 E-value=11 Score=25.75 Aligned_cols=27 Identities=30% Similarity=0.697 Sum_probs=20.3
Q ss_pred eecccCCCCcCCcchhc--CCCCCceeEE
Q 026068 43 MFCLDCMGNAFCSYCLI--NHKDHRVVQI 69 (244)
Q Consensus 43 ~FCldC~~~~~C~~Cl~--~H~~HrvlQI 69 (244)
.-|+.|..--+|..|.. .|..|+.++|
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 44888876679999955 5878887754
No 16
>KOG4367 consensus Predicted Zn-finger protein [Function unknown]
Probab=49.47 E-value=6.4 Score=39.94 Aligned_cols=35 Identities=29% Similarity=0.705 Sum_probs=27.8
Q ss_pred CCCCccCCCCCCCCcceecccCCCCcCCcchhc--CCCCCc
Q 026068 27 FIPCVVHGDSNKSECNMFCLDCMGNAFCSYCLI--NHKDHR 65 (244)
Q Consensus 27 F~~C~~H~~~~knE~N~FCldC~~~~~C~~Cl~--~H~~Hr 65 (244)
-..|..|... ...|||+.|.. ++|..|+. .|..|.
T Consensus 223 ~~~ct~h~~e---~~smyc~~ck~-pvc~~clee~khs~he 259 (699)
T KOG4367|consen 223 VSTCTDHELE---NHSMYCVQCKM-PVCYQCLEEGKHSSHE 259 (699)
T ss_pred hhhccCCCCC---CceEEEEecCC-hHHHHHHHhhcccchh
Confidence 3479999763 36799999988 89999998 577774
No 17
>COG3024 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=48.51 E-value=11 Score=28.63 Aligned_cols=28 Identities=29% Similarity=0.586 Sum_probs=21.7
Q ss_pred CcccccccccCC----C-CeeeeeccccCeeec
Q 026068 119 NTCEICCRSLLD----S-FRFCSLGCKLGAMKR 146 (244)
Q Consensus 119 ~~Ce~C~R~L~D----~-~rFCSL~CKv~~~~~ 146 (244)
--|-+|++.+.- + +-|||-.||+-.+.+
T Consensus 8 v~CP~Cgkpv~w~~~s~frPFCSkRCklIDLg~ 40 (65)
T COG3024 8 VPCPTCGKPVVWGEESPFRPFCSKRCKLIDLGE 40 (65)
T ss_pred ccCCCCCCcccccccCCcCcchhHhhhhcchhh
Confidence 359999998853 4 579999999766653
No 18
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=44.79 E-value=11 Score=31.05 Aligned_cols=38 Identities=26% Similarity=0.656 Sum_probs=29.9
Q ss_pred CCccCCCCCCCCcceecccCCCCcCCcchh--cCCCCCceeEEEe
Q 026068 29 PCVVHGDSNKSECNMFCLDCMGNAFCSYCL--INHKDHRVVQIRR 71 (244)
Q Consensus 29 ~C~~H~~~~knE~N~FCldC~~~~~C~~Cl--~~H~~HrvlQIRR 71 (244)
.|..|... ..+||..|.. .+|..|. ..|.+|.++.+..
T Consensus 88 ~c~~~~~~----~~~~c~~~~~-~~c~~c~~~~~h~~h~~~~~~~ 127 (386)
T KOG2177|consen 88 LCEKHGEE----LKLFCEEDEK-LLCVLCRESGEHRGHPVLPLEE 127 (386)
T ss_pred hhhhcCCc----ceEEeccccc-ccCCCCCCcccccCCccccHHH
Confidence 67777543 6799999987 8999996 3799998877743
No 19
>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=40.87 E-value=31 Score=25.67 Aligned_cols=30 Identities=30% Similarity=0.541 Sum_probs=22.3
Q ss_pred CCCCcceecccCCCC---cCCcchhc--CCCCCce
Q 026068 37 NKSECNMFCLDCMGN---AFCSYCLI--NHKDHRV 66 (244)
Q Consensus 37 ~knE~N~FCldC~~~---~~C~~Cl~--~H~~Hrv 66 (244)
.++|....|++|... .+|..|.. .|.+|++
T Consensus 8 ~~~~~~y~C~tC~~~~~~~iC~~Cf~~~~H~gH~~ 42 (71)
T smart00396 8 TGGEVIYRCKTCGLDPTCVLCSDCFRSNCHKGHDY 42 (71)
T ss_pred CCCCEEEECcCCCCCCCEeEChHHCCCCCCCCCCE
Confidence 356666779999753 58888855 6999973
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=39.85 E-value=8.1 Score=30.94 Aligned_cols=50 Identities=20% Similarity=0.350 Sum_probs=30.0
Q ss_pred CCcceecccCCCC-----------cCCcchhcCCCC--CceeEEEeccccceeeecchhhhhcc
Q 026068 39 SECNMFCLDCMGN-----------AFCSYCLINHKD--HRVVQIRRSSYHNVVRVNEIQKFIDI 89 (244)
Q Consensus 39 nE~N~FCldC~~~-----------~~C~~Cl~~H~~--HrvlQIRRssYhdVVRv~DIqkllD~ 89 (244)
..-|..|.||... -+|..|...|+. .++-+| |+.-.|-...+||+.+...
T Consensus 10 ~~~N~~CaDCg~~~p~w~s~~~GiflC~~Cag~HR~lg~~is~V-kSi~~d~w~~~ev~~~~~~ 72 (116)
T PF01412_consen 10 KPGNKVCADCGAPNPTWASLNYGIFLCLECAGIHRSLGVHISRV-KSITMDNWSPEEVQRMREG 72 (116)
T ss_dssp STTCTB-TTT-SBS--EEETTTTEEE-HHHHHHHHHHTTTT--E-EETTTS---HHHHHHHHHS
T ss_pred CcCcCcCCCCCCCCCCEEEeecChhhhHHHHHHHHHhcccchhc-cccccCCCCHHHHHHHHHH
Confidence 4578999999641 289999887863 334444 7788888888888877554
No 21
>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=39.26 E-value=7.3 Score=25.44 Aligned_cols=24 Identities=29% Similarity=0.693 Sum_probs=14.8
Q ss_pred CCCcccccccccCC------------CCeeeeeccc
Q 026068 117 VTNTCEICCRSLLD------------SFRFCSLGCK 140 (244)
Q Consensus 117 ~~~~Ce~C~R~L~D------------~~rFCSL~CK 140 (244)
....|..|++.+.. ...|||..|.
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 35689999887732 1489999885
No 22
>PF04570 DUF581: Protein of unknown function (DUF581); InterPro: IPR007650 This is a family of uncharacterised proteins.
Probab=30.36 E-value=16 Score=26.95 Aligned_cols=28 Identities=29% Similarity=0.670 Sum_probs=21.4
Q ss_pred CCcccccccccC---CC--C----eeeeeccccCeee
Q 026068 118 TNTCEICCRSLL---DS--F----RFCSLGCKLGAMK 145 (244)
Q Consensus 118 ~~~Ce~C~R~L~---D~--~----rFCSL~CKv~~~~ 145 (244)
-..|..|.|.|. |. | -|||..|.-..|.
T Consensus 16 L~~C~~C~k~L~~~~DiymYrGd~aFCS~ECR~~qi~ 52 (58)
T PF04570_consen 16 LSFCYLCKKKLDPGKDIYMYRGDKAFCSEECRSQQIL 52 (58)
T ss_pred HHHHHccCCCCCCCCCeeeeccccccccHHHHHHHHH
Confidence 468999999997 32 3 5999999866554
No 23
>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=30.32 E-value=13 Score=23.72 Aligned_cols=20 Identities=35% Similarity=0.929 Sum_probs=12.5
Q ss_pred cccccccccCC------CCeeeeeccc
Q 026068 120 TCEICCRSLLD------SFRFCSLGCK 140 (244)
Q Consensus 120 ~Ce~C~R~L~D------~~rFCSL~CK 140 (244)
.|.+|+. ... ..+||||.|.
T Consensus 4 ~C~vC~~-~~kY~Cp~C~~~~CSl~C~ 29 (30)
T PF04438_consen 4 LCSVCGN-PAKYRCPRCGARYCSLACY 29 (30)
T ss_dssp EETSSSS-EESEE-TTT--EESSHHHH
T ss_pred CCccCcC-CCEEECCCcCCceeCcEeE
Confidence 4777776 321 3689999984
No 24
>COG4068 Uncharacterized protein containing a Zn-ribbon [Function unknown]
Probab=30.30 E-value=15 Score=27.72 Aligned_cols=22 Identities=23% Similarity=0.674 Sum_probs=20.3
Q ss_pred CcccccccccCCCCeeeeeccc
Q 026068 119 NTCEICCRSLLDSFRFCSLGCK 140 (244)
Q Consensus 119 ~~Ce~C~R~L~D~~rFCSL~CK 140 (244)
..|.+|+..+...-+|||-.|.
T Consensus 9 ~HC~VCg~aIp~de~~CSe~C~ 30 (64)
T COG4068 9 RHCVVCGKAIPPDEQVCSEECG 30 (64)
T ss_pred ccccccCCcCCCccchHHHHHH
Confidence 4799999999988999999997
No 25
>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=29.94 E-value=35 Score=23.94 Aligned_cols=27 Identities=33% Similarity=0.894 Sum_probs=19.0
Q ss_pred eecccCC--CCcCCcchhc---CCC-CCceeEE
Q 026068 43 MFCLDCM--GNAFCSYCLI---NHK-DHRVVQI 69 (244)
Q Consensus 43 ~FCldC~--~~~~C~~Cl~---~H~-~HrvlQI 69 (244)
.-|+.|. .--+|..|.. .|+ +|+++.|
T Consensus 16 ~~C~~C~~~d~DlC~~C~~~~~~H~~~H~~~~i 48 (48)
T cd02341 16 YHCSECDDGDFDLCQDCVVKGESHQEDHWLVKI 48 (48)
T ss_pred EECCCCCCCCCccCHHHHhCcCCCCCCCceeeC
Confidence 4488888 5579999954 353 6777664
No 26
>PHA03301 envelope glycoprotein L; Provisional
Probab=26.55 E-value=87 Score=28.69 Aligned_cols=17 Identities=47% Similarity=0.532 Sum_probs=11.6
Q ss_pred CCCCCc-ccccCCCCCCC
Q 026068 210 SSGDEA-TTKLSPATPPI 226 (244)
Q Consensus 210 ~~~~~~-~~~~~p~tpp~ 226 (244)
..+|+. .|.+++.||||
T Consensus 182 ~~~dea~~qp~~~atp~~ 199 (226)
T PHA03301 182 APDDEASPQPKSLATPPP 199 (226)
T ss_pred CCCcccCCCCCCCCCCCC
Confidence 333443 48999998887
No 27
>PF08002 DUF1697: Protein of unknown function (DUF1697); InterPro: IPR012545 This family contains many hypothetical bacterial proteins.; PDB: 2HIY_B.
Probab=25.64 E-value=37 Score=28.15 Aligned_cols=30 Identities=30% Similarity=0.604 Sum_probs=20.9
Q ss_pred cceeeecchhhh---hcccceeeEEECCceEEEe
Q 026068 75 HNVVRVNEIQKF---IDISCVQTYIINSAKIVFL 105 (244)
Q Consensus 75 hdVVRv~DIqkl---lD~S~IQtYvINsakVVFL 105 (244)
++-|+..|+..+ +-..+||||+ +|.-|||=
T Consensus 16 ~nki~MaeLr~~l~~~Gf~~V~Tyi-~SGNvvf~ 48 (137)
T PF08002_consen 16 KNKIKMAELREALEDLGFTNVRTYI-QSGNVVFE 48 (137)
T ss_dssp BS---HHHHHHHHHHCT-EEEEEET-TTTEEEEE
T ss_pred CCcccHHHHHHHHHHcCCCCceEEE-eeCCEEEe
Confidence 455777777775 6788999995 88899998
No 28
>PLN00209 ribosomal protein S27; Provisional
Probab=25.60 E-value=77 Score=25.30 Aligned_cols=58 Identities=28% Similarity=0.330 Sum_probs=38.4
Q ss_pred CCCCCceeEEEeccccceeeecchhhhhcccceeeEEECCceEEEeeCCCCCCCCCCCCCcccccccccCCC-------C
Q 026068 60 NHKDHRVVQIRRSSYHNVVRVNEIQKFIDISCVQTYIINSAKIVFLNERPQPRPGKGVTNTCEICCRSLLDS-------F 132 (244)
Q Consensus 60 ~H~~HrvlQIRRssYhdVVRv~DIqkllD~S~IQtYvINsakVVFLn~RPq~r~~kg~~~~Ce~C~R~L~D~-------~ 132 (244)
.|+..+++|-=+|-+.|| |.-||..||+-.-....+ -.|..|+..|..+ .
T Consensus 20 khK~k~Lv~~PnS~Fm~V-------kCp~C~n~q~VFShA~t~----------------V~C~~Cg~~L~~PTGGKa~l~ 76 (86)
T PLN00209 20 KHKLKRLVQSPNSFFMDV-------KCQGCFNITTVFSHSQTV----------------VVCGSCQTVLCQPTGGKARLT 76 (86)
T ss_pred hhhceeeecCCCCEEEEE-------ECCCCCCeeEEEecCceE----------------EEccccCCEeeccCCCCeEec
Confidence 577778888877777666 567888888744333333 2488888888653 2
Q ss_pred eeeeeccc
Q 026068 133 RFCSLGCK 140 (244)
Q Consensus 133 rFCSL~CK 140 (244)
.=||+..|
T Consensus 77 ~gc~fr~k 84 (86)
T PLN00209 77 EGCSFRKK 84 (86)
T ss_pred CCceEEec
Confidence 34665555
No 29
>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=22.98 E-value=1.1e+02 Score=22.10 Aligned_cols=33 Identities=6% Similarity=0.328 Sum_probs=22.9
Q ss_pred ceeeecchhhh--hcccceeeEEECCceEEEeeCCC
Q 026068 76 NVVRVNEIQKF--IDISCVQTYIINSAKIVFLNERP 109 (244)
Q Consensus 76 dVVRv~DIqkl--lD~S~IQtYvINsakVVFLn~RP 109 (244)
.+++++|+... +++.+|-|.++||..+ +....|
T Consensus 32 ~~~~v~~~~~a~~~~v~~vPti~i~G~~~-~~G~~~ 66 (76)
T TIGR00412 32 EFEKVTDMNEILEAGVTATPGVAVDGELV-IMGKIP 66 (76)
T ss_pred EEEEeCCHHHHHHcCCCcCCEEEECCEEE-EEeccC
Confidence 35666665554 8999999999988655 554433
No 30
>KOG4582 consensus Uncharacterized conserved protein, contains ZZ-type Zn-finger [General function prediction only]
Probab=22.92 E-value=56 Score=30.36 Aligned_cols=29 Identities=21% Similarity=0.588 Sum_probs=23.0
Q ss_pred eecccCCCCcCCcchhc---CCCCCceeEEEe
Q 026068 43 MFCLDCMGNAFCSYCLI---NHKDHRVVQIRR 71 (244)
Q Consensus 43 ~FCldC~~~~~C~~Cl~---~H~~HrvlQIRR 71 (244)
+-|+.|...-||..|-. .|..|..|||.+
T Consensus 168 yKC~~C~dYDLCe~Ce~~~~~h~~H~~lR~~t 199 (278)
T KOG4582|consen 168 YKCTVCPDYDLCERCEAGNEHHAAHAMLRLHT 199 (278)
T ss_pred eeecCCCccchhHHhhcCCCCCcccceeeccc
Confidence 44999988779999943 466799999877
No 31
>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=22.54 E-value=23 Score=28.20 Aligned_cols=43 Identities=23% Similarity=0.417 Sum_probs=26.5
Q ss_pred cceecccCCCC-----------cCCcchhcCCCCC--ceeEEEeccccceeeecchh
Q 026068 41 CNMFCLDCMGN-----------AFCSYCLINHKDH--RVVQIRRSSYHNVVRVNEIQ 84 (244)
Q Consensus 41 ~N~FCldC~~~-----------~~C~~Cl~~H~~H--rvlQIRRssYhdVVRv~DIq 84 (244)
-|..|.||... -+|..|..-|+.. ++-.| |+.-.|...-.+|+
T Consensus 2 ~N~~CaDC~~~~p~w~s~~~GifvC~~CsgiHR~lg~his~V-kSl~md~w~~~~i~ 57 (112)
T smart00105 2 GNKKCFDCGAPNPTWASVNLGVFLCIECSGIHRSLGVHISKV-RSLTLDTWTEEELR 57 (112)
T ss_pred CCCcccCCCCCCCCcEEeccceeEhHHhHHHHHhcCCCcCee-eecccCCCCHHHHH
Confidence 47889999752 2788998888753 33333 45555555545553
No 32
>KOG3362 consensus Predicted BBOX Zn-finger protein [General function prediction only]
Probab=21.56 E-value=57 Score=28.52 Aligned_cols=28 Identities=18% Similarity=0.476 Sum_probs=18.5
Q ss_pred CCCCcccccccccC-----CCCeeeeeccccCe
Q 026068 116 GVTNTCEICCRSLL-----DSFRFCSLGCKLGA 143 (244)
Q Consensus 116 g~~~~Ce~C~R~L~-----D~~rFCSL~CKv~~ 143 (244)
..-..|.+||-.-. -..+|||++|-.-|
T Consensus 116 P~r~fCaVCG~~S~ysC~~CG~kyCsv~C~~~H 148 (156)
T KOG3362|consen 116 PLRKFCAVCGYDSKYSCVNCGTKYCSVRCLKTH 148 (156)
T ss_pred CcchhhhhcCCCchhHHHhcCCceeechhhhhc
Confidence 34567999982111 14799999997544
No 33
>smart00746 TRASH metallochaperone-like domain.
Probab=21.44 E-value=47 Score=18.73 Aligned_cols=10 Identities=50% Similarity=0.999 Sum_probs=7.8
Q ss_pred Ceeeeecccc
Q 026068 132 FRFCSLGCKL 141 (244)
Q Consensus 132 ~rFCSL~CKv 141 (244)
+.|||..|..
T Consensus 24 ~~FCs~~c~~ 33 (39)
T smart00746 24 FYFCSSKCLS 33 (39)
T ss_pred EEEeCHHHHH
Confidence 6889888864
No 34
>PRK05707 DNA polymerase III subunit delta'; Validated
Probab=20.65 E-value=68 Score=30.21 Aligned_cols=93 Identities=11% Similarity=0.247 Sum_probs=48.7
Q ss_pred CCCccHHHHhcccCCCCCccCCC---CCCC----------CcceecccCCCC---cCCcchhc-CCCCCc-eeEEEeccc
Q 026068 13 MGPQWLKPMLRASYFIPCVVHGD---SNKS----------ECNMFCLDCMGN---AFCSYCLI-NHKDHR-VVQIRRSSY 74 (244)
Q Consensus 13 ~~P~WL~~LL~t~FF~~C~~H~~---~~kn----------E~N~FCldC~~~---~~C~~Cl~-~H~~Hr-vlQIRRssY 74 (244)
..-|||+..++.-+-..--.|.- +..+ -+-++|.+=... .-|+.|.. ....|+ ++.|..-.=
T Consensus 3 ~~yPWl~~~~~~~~~~~r~~ha~Lf~G~~G~GK~~~A~~~A~~llC~~~~~~~~Cg~C~sC~~~~~g~HPD~~~i~~~~~ 82 (328)
T PRK05707 3 EIYPWQQSLWQQLAGRGRHPHAYLLHGPAGIGKRALAERLAAALLCEAPQGGGACGSCKGCQLLRAGSHPDNFVLEPEEA 82 (328)
T ss_pred cCCCCcHHHHHHHHHCCCcceeeeeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHhcCCCCCEEEEeccCC
Confidence 35699999887655444334422 1111 024555421111 24777744 333443 444433211
Q ss_pred cceeeecchhhhhcccceeeEEECCceEEEee
Q 026068 75 HNVVRVNEIQKFIDISCVQTYIINSAKIVFLN 106 (244)
Q Consensus 75 hdVVRv~DIqkllD~S~IQtYvINsakVVFLn 106 (244)
...|+|++|..+++--..=++ .++.|||.|.
T Consensus 83 ~~~i~id~iR~l~~~~~~~~~-~~~~kv~iI~ 113 (328)
T PRK05707 83 DKTIKVDQVRELVSFVVQTAQ-LGGRKVVLIE 113 (328)
T ss_pred CCCCCHHHHHHHHHHHhhccc-cCCCeEEEEC
Confidence 346889999988654433222 4677898884
Done!