Query 026096
Match_columns 243
No_of_seqs 146 out of 195
Neff 3.9
Searched_HMMs 46136
Date Fri Mar 29 03:43:23 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/026096.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/026096hhsearch_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 1.1E-39 2.3E-44 245.7 6.0 72 100-171 1-72 (72)
2 PF00643 zf-B_box: B-box zinc 96.4 0.00091 2E-08 44.1 0.4 37 59-99 5-42 (42)
3 cd00021 BBOX B-Box-type zinc f 94.8 0.017 3.8E-07 36.8 1.5 36 59-98 2-38 (39)
4 smart00336 BBOX B-Box-type zin 93.6 0.05 1.1E-06 35.1 1.9 35 59-97 5-40 (42)
5 PRK01343 zinc-binding protein; 87.2 0.25 5.4E-06 36.4 0.7 29 148-176 9-38 (57)
6 PF12855 Ecl1: Life-span regul 86.0 0.18 3.9E-06 35.0 -0.5 29 148-176 6-37 (43)
7 PF03884 DUF329: Domain of unk 85.5 0.1 2.3E-06 38.2 -2.0 29 148-176 2-35 (57)
8 PRK00418 DNA gyrase inhibitor; 84.5 0.35 7.6E-06 36.1 0.4 29 148-176 6-39 (62)
9 COG3024 Uncharacterized protei 83.9 0.39 8.4E-06 36.3 0.4 29 148-176 7-40 (65)
10 PF10013 DUF2256: Uncharacteri 73.7 1.1 2.4E-05 31.2 0.1 23 148-170 8-39 (42)
11 PF09889 DUF2116: Uncharacteri 65.8 1.8 3.8E-05 32.0 -0.3 30 149-178 4-33 (59)
12 PF13240 zinc_ribbon_2: zinc-r 62.9 3.5 7.7E-05 24.9 0.7 16 151-166 2-17 (23)
13 PF02207 zf-UBR: Putative zinc 57.3 4.9 0.00011 29.7 0.8 33 70-102 11-48 (71)
14 KOG4367 Predicted Zn-finger pr 55.3 3.9 8.5E-05 41.4 -0.0 36 57-96 223-260 (699)
15 PF13248 zf-ribbon_3: zinc-rib 54.0 7.3 0.00016 23.8 1.1 19 148-166 2-20 (26)
16 cd02340 ZZ_NBR1_like Zinc fing 52.7 8.6 0.00019 26.2 1.3 27 73-99 15-43 (43)
17 COG4338 Uncharacterized protei 51.3 1.4 3.1E-05 32.0 -2.8 24 147-170 11-43 (54)
18 PF06467 zf-FCS: MYM-type Zinc 47.8 4.1 9E-05 26.6 -0.8 24 147-170 5-40 (43)
19 KOG2177 Predicted E3 ubiquitin 45.3 11 0.00023 31.2 1.1 38 59-101 88-127 (386)
20 PF01412 ArfGap: Putative GTPa 38.6 8.5 0.00018 30.8 -0.5 50 70-119 11-72 (116)
21 COG4068 Uncharacterized protei 37.1 11 0.00024 28.3 0.0 23 148-170 8-30 (64)
22 KOG0006 E3 ubiquitin-protein l 35.8 21 0.00046 34.9 1.6 45 22-79 173-228 (446)
23 PF04438 zf-HIT: HIT zinc fing 33.1 12 0.00027 23.9 -0.3 21 150-170 4-29 (30)
24 cd02341 ZZ_ZZZ3 Zinc finger, Z 29.0 34 0.00075 24.0 1.4 27 73-99 16-48 (48)
25 smart00105 ArfGap Putative GTP 28.5 16 0.00034 29.1 -0.5 42 72-114 3-57 (112)
26 PF04570 DUF581: Protein of un 26.6 21 0.00045 26.3 -0.1 29 147-175 15-52 (58)
27 smart00396 ZnF_UBR1 Putative z 25.3 73 0.0016 23.7 2.6 29 67-95 8-41 (71)
28 TIGR00412 redox_disulf_2 small 23.8 1E+02 0.0022 22.3 3.2 32 107-139 33-66 (76)
29 PF06156 DUF972: Protein of un 21.4 59 0.0013 26.4 1.6 31 46-77 76-107 (107)
30 smart00746 TRASH metallochaper 21.2 54 0.0012 18.4 1.0 11 161-171 23-33 (39)
31 PF08002 DUF1697: Protein of u 21.1 55 0.0012 27.1 1.4 30 105-135 16-48 (137)
32 PRK05707 DNA polymerase III su 21.0 1E+02 0.0022 29.0 3.3 92 44-136 4-113 (328)
33 KOG2807 RNA polymerase II tran 20.7 42 0.0009 32.9 0.7 19 70-88 351-374 (378)
34 KOG4582 Uncharacterized conser 20.2 68 0.0015 29.8 1.9 57 42-101 131-199 (278)
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=1.1e-39 Score=245.75 Aligned_cols=72 Identities=65% Similarity=1.157 Sum_probs=71.1
Q ss_pred EeccccceeecchhhhhhcccceeeEEecCceEEEeeCCCCCCCCCCCCCcccccccccCCCCeeeeccccc
Q 026096 100 RRSSYHDVIRVSEIQKYLDITGVQTYIINSARIVFLNERPQPRPGKGVTNTCLVCERSLLDSFTFCSLGCKI 171 (243)
Q Consensus 100 RRssYhdVVRv~DIqkllD~S~IQtYvINsakVVFLn~RPq~r~~kg~~~~Ce~C~R~L~D~~rFCSL~CKv 171 (243)
|||||||||||+|||||||||+||||+|||+||||||+|||+++++++++.|++|+|+|+|+|+||||+|||
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=96.45 E-value=0.00091 Score=44.11 Aligned_cols=37 Identities=32% Similarity=0.820 Sum_probs=29.4
Q ss_pred cccccccCCCCCcceeccccCCCcCCccccc-cCCCCceeEE
Q 026096 59 QCKLHADAHKSECNMYCLDCMNGALCSLCLS-LHRDHRAIQI 99 (243)
Q Consensus 59 ~C~~H~~~~knE~N~FCldC~~~~lC~~Cl~-~H~~HrvlQI 99 (243)
.|..|.. ...++||.+|. ..+|..|.. .|++|.++.|
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 23789999998 899999977 5999987754
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=94.75 E-value=0.017 Score=36.80 Aligned_cols=36 Identities=25% Similarity=0.588 Sum_probs=27.6
Q ss_pred cccccccCCCCCcceeccccCCCcCCccccc-cCCCCceeE
Q 026096 59 QCKLHADAHKSECNMYCLDCMNGALCSLCLS-LHRDHRAIQ 98 (243)
Q Consensus 59 ~C~~H~~~~knE~N~FCldC~~~~lC~~Cl~-~H~~HrvlQ 98 (243)
.|+.|.. +...+||.+|. ..+|..|.. .|++|.++-
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 4777753 23589999997 899999965 688887654
No 4
>smart00336 BBOX B-Box-type zinc finger.
Probab=93.59 E-value=0.05 Score=35.12 Aligned_cols=35 Identities=31% Similarity=0.836 Sum_probs=27.4
Q ss_pred cccccccCCCCCcceeccccCCCcCCccccc-cCCCCcee
Q 026096 59 QCKLHADAHKSECNMYCLDCMNGALCSLCLS-LHRDHRAI 97 (243)
Q Consensus 59 ~C~~H~~~~knE~N~FCldC~~~~lC~~Cl~-~H~~Hrvl 97 (243)
.|..|.. ....+||.+|. ..+|..|.. .|++|.++
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 4777763 23589999998 889999976 58888765
No 5
>PRK01343 zinc-binding protein; Provisional
Probab=87.21 E-value=0.25 Score=36.38 Aligned_cols=29 Identities=24% Similarity=0.543 Sum_probs=23.1
Q ss_pred CCcccccccccCCCC-eeeecccccccccc
Q 026096 148 TNTCLVCERSLLDSF-TFCSLGCKIAGTSK 176 (243)
Q Consensus 148 ~~~Ce~C~R~L~D~~-rFCSL~CKv~~~~~ 176 (243)
...|-+|++.....+ -|||-.||..+..+
T Consensus 9 ~~~CP~C~k~~~~~~rPFCS~RC~~iDLg~ 38 (57)
T PRK01343 9 TRPCPECGKPSTREAYPFCSERCRDIDLNR 38 (57)
T ss_pred CCcCCCCCCcCcCCCCcccCHHHhhhhHHH
Confidence 456999999887655 59999999876553
No 6
>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=86.03 E-value=0.18 Score=35.01 Aligned_cols=29 Identities=28% Similarity=0.812 Sum_probs=24.1
Q ss_pred CCccccccccc---CCCCeeeecccccccccc
Q 026096 148 TNTCLVCERSL---LDSFTFCSLGCKIAGTSK 176 (243)
Q Consensus 148 ~~~Ce~C~R~L---~D~~rFCSL~CKv~~~~~ 176 (243)
.+.|.+|+|-+ .+...|||-.|++.+...
T Consensus 6 ~~yC~~Cdk~~~~~~~~~lYCSe~Cr~~D~~~ 37 (43)
T PF12855_consen 6 NDYCIVCDKQIDPPDDGSLYCSEECRLKDQEK 37 (43)
T ss_pred hhHHHHhhccccCCCCCccccCHHHHhHhhhc
Confidence 56799999999 678999999999865543
No 7
>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=85.50 E-value=0.1 Score=38.22 Aligned_cols=29 Identities=31% Similarity=0.724 Sum_probs=17.8
Q ss_pred CCcccccccccCC----CCe-eeecccccccccc
Q 026096 148 TNTCLVCERSLLD----SFT-FCSLGCKIAGTSK 176 (243)
Q Consensus 148 ~~~Ce~C~R~L~D----~~r-FCSL~CKv~~~~~ 176 (243)
+..|-+|++...- +|+ |||-.||+.+..+
T Consensus 2 ~v~CP~C~k~~~~~~~n~~rPFCS~RCk~iDLg~ 35 (57)
T PF03884_consen 2 TVKCPICGKPVEWSPENPFRPFCSERCKLIDLGR 35 (57)
T ss_dssp EEE-TTT--EEE-SSSSS--SSSSHHHHHHHHS-
T ss_pred cccCCCCCCeecccCCCCcCCcccHhhcccCHHH
Confidence 3469999998875 676 9999999876654
No 8
>PRK00418 DNA gyrase inhibitor; Reviewed
Probab=84.51 E-value=0.35 Score=36.14 Aligned_cols=29 Identities=28% Similarity=0.681 Sum_probs=22.5
Q ss_pred CCcccccccccC---C-CCe-eeecccccccccc
Q 026096 148 TNTCLVCERSLL---D-SFT-FCSLGCKIAGTSK 176 (243)
Q Consensus 148 ~~~Ce~C~R~L~---D-~~r-FCSL~CKv~~~~~ 176 (243)
.-.|-+|++.+. + +|+ |||-.||+.+..+
T Consensus 6 ~v~CP~C~k~~~w~~~~~~rPFCS~RCk~IDLg~ 39 (62)
T PRK00418 6 TVNCPTCGKPVEWGEISPFRPFCSKRCQLIDLGE 39 (62)
T ss_pred cccCCCCCCcccccCCCCcCCcccHHHHhhhHHH
Confidence 456999999874 3 575 9999999876553
No 9
>COG3024 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=83.87 E-value=0.39 Score=36.31 Aligned_cols=29 Identities=31% Similarity=0.732 Sum_probs=22.9
Q ss_pred CCcccccccccCC----CCe-eeecccccccccc
Q 026096 148 TNTCLVCERSLLD----SFT-FCSLGCKIAGTSK 176 (243)
Q Consensus 148 ~~~Ce~C~R~L~D----~~r-FCSL~CKv~~~~~ 176 (243)
+-.|-+|++.+.- +|| |||-.||+-+..+
T Consensus 7 ~v~CP~Cgkpv~w~~~s~frPFCSkRCklIDLg~ 40 (65)
T COG3024 7 TVPCPTCGKPVVWGEESPFRPFCSKRCKLIDLGE 40 (65)
T ss_pred cccCCCCCCcccccccCCcCcchhHhhhhcchhh
Confidence 3459999998864 666 9999999876654
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=73.70 E-value=1.1 Score=31.24 Aligned_cols=23 Identities=35% Similarity=0.925 Sum_probs=19.8
Q ss_pred CCcccccccccC---------CCCeeeecccc
Q 026096 148 TNTCLVCERSLL---------DSFTFCSLGCK 170 (243)
Q Consensus 148 ~~~Ce~C~R~L~---------D~~rFCSL~CK 170 (243)
..+|.+|+|.+. |..+|||-.|.
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=65.83 E-value=1.8 Score=31.99 Aligned_cols=30 Identities=23% Similarity=0.552 Sum_probs=24.7
Q ss_pred CcccccccccCCCCeeeeccccccccccch
Q 026096 149 NTCLVCERSLLDSFTFCSLGCKIAGTSKNF 178 (243)
Q Consensus 149 ~~Ce~C~R~L~D~~rFCSL~CKv~~~~~~~ 178 (243)
.+|..||..+...-.|||-.|+-...+++.
T Consensus 4 kHC~~CG~~Ip~~~~fCS~~C~~~~~k~qk 33 (59)
T PF09889_consen 4 KHCPVCGKPIPPDESFCSPKCREEYRKRQK 33 (59)
T ss_pred CcCCcCCCcCCcchhhhCHHHHHHHHHHHH
Confidence 579999999999999999999965555443
No 12
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=62.95 E-value=3.5 Score=24.85 Aligned_cols=16 Identities=31% Similarity=0.816 Sum_probs=14.4
Q ss_pred ccccccccCCCCeeee
Q 026096 151 CLVCERSLLDSFTFCS 166 (243)
Q Consensus 151 Ce~C~R~L~D~~rFCS 166 (243)
|..|+..+.+...||+
T Consensus 2 Cp~CG~~~~~~~~fC~ 17 (23)
T PF13240_consen 2 CPNCGAEIEDDAKFCP 17 (23)
T ss_pred CcccCCCCCCcCcchh
Confidence 7889999999999986
No 13
>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=57.26 E-value=4.9 Score=29.67 Aligned_cols=33 Identities=30% Similarity=0.658 Sum_probs=23.5
Q ss_pred CcceeccccCC---CcCCccc-cc-cCCCCceeEEEec
Q 026096 70 ECNMYCLDCMN---GALCSLC-LS-LHRDHRAIQIRRS 102 (243)
Q Consensus 70 E~N~FCldC~~---~~lC~~C-l~-~H~~HrvlQIRRs 102 (243)
+--..|++|.. .++|..| .. .|.+|+++.++-.
T Consensus 11 q~~y~C~tC~~~~~~~iC~~CF~~~~H~gH~~~~~~~~ 48 (71)
T PF02207_consen 11 QIFYRCLTCSLDESSGICEECFANSCHEGHRVVYYRSS 48 (71)
T ss_dssp -EEEEETTTBSSTT-BBEHHHHCTSGGGGSSEEEEE--
T ss_pred CEEEECccCCCCCCEEEchhhCCCCCcCCCcEEEEEeC
Confidence 55678999974 5799999 54 8999998777654
No 14
>KOG4367 consensus Predicted Zn-finger protein [Function unknown]
Probab=55.28 E-value=3.9 Score=41.36 Aligned_cols=36 Identities=31% Similarity=0.731 Sum_probs=27.9
Q ss_pred cccccccccCCCCCcceeccccCCCcCCccccc--cCCCCce
Q 026096 57 FVQCKLHADAHKSECNMYCLDCMNGALCSLCLS--LHRDHRA 96 (243)
Q Consensus 57 F~~C~~H~~~~knE~N~FCldC~~~~lC~~Cl~--~H~~Hrv 96 (243)
-..|..|.... ..|||+.|. .++|..|+. .|..|.|
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 45688887532 479999998 899999997 6777753
No 15
>PF13248 zf-ribbon_3: zinc-ribbon domain
Probab=54.02 E-value=7.3 Score=23.75 Aligned_cols=19 Identities=21% Similarity=0.494 Sum_probs=15.9
Q ss_pred CCcccccccccCCCCeeee
Q 026096 148 TNTCLVCERSLLDSFTFCS 166 (243)
Q Consensus 148 ~~~Ce~C~R~L~D~~rFCS 166 (243)
...|..|+..+.+..+||+
T Consensus 2 ~~~Cp~Cg~~~~~~~~fC~ 20 (26)
T PF13248_consen 2 EMFCPNCGAEIDPDAKFCP 20 (26)
T ss_pred cCCCcccCCcCCcccccCh
Confidence 3568999998888899996
No 16
>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=52.68 E-value=8.6 Score=26.21 Aligned_cols=27 Identities=33% Similarity=0.781 Sum_probs=20.3
Q ss_pred eeccccCCCcCCccccc--cCCCCceeEE
Q 026096 73 MYCLDCMNGALCSLCLS--LHRDHRAIQI 99 (243)
Q Consensus 73 ~FCldC~~~~lC~~Cl~--~H~~HrvlQI 99 (243)
.-|+.|.+--||..|.. .|..|+.++|
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 55888877889999955 5777776653
No 17
>COG4338 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=51.30 E-value=1.4 Score=31.96 Aligned_cols=24 Identities=33% Similarity=0.881 Sum_probs=20.7
Q ss_pred CCCcccccccccC---------CCCeeeecccc
Q 026096 147 VTNTCLVCERSLL---------DSFTFCSLGCK 170 (243)
Q Consensus 147 ~~~~Ce~C~R~L~---------D~~rFCSL~CK 170 (243)
....|++|+|.+. |...|||-.|+
T Consensus 11 p~KICpvCqRPFsWRkKW~~cWDeVKyCSeRCr 43 (54)
T COG4338 11 PDKICPVCQRPFSWRKKWARCWDEVKYCSERCR 43 (54)
T ss_pred chhhhhhhcCchHHHHHHHHHHHHHHHHHHHHH
Confidence 4678999999985 57899999998
No 18
>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=47.82 E-value=4.1 Score=26.62 Aligned_cols=24 Identities=29% Similarity=0.715 Sum_probs=15.0
Q ss_pred CCCcccccccccCC-C-----------Ceeeecccc
Q 026096 147 VTNTCLVCERSLLD-S-----------FTFCSLGCK 170 (243)
Q Consensus 147 ~~~~Ce~C~R~L~D-~-----------~rFCSL~CK 170 (243)
....|..|++.+.. + ..|||..|.
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 45689999877743 2 379999985
No 19
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=45.33 E-value=11 Score=31.18 Aligned_cols=38 Identities=29% Similarity=0.691 Sum_probs=30.1
Q ss_pred cccccccCCCCCcceeccccCCCcCCcccc-c-cCCCCceeEEEe
Q 026096 59 QCKLHADAHKSECNMYCLDCMNGALCSLCL-S-LHRDHRAIQIRR 101 (243)
Q Consensus 59 ~C~~H~~~~knE~N~FCldC~~~~lC~~Cl-~-~H~~HrvlQIRR 101 (243)
.|..|... ..+||..|. ..+|..|. . .|..|.++.+..
T Consensus 88 ~c~~~~~~----~~~~c~~~~-~~~c~~c~~~~~h~~h~~~~~~~ 127 (386)
T KOG2177|consen 88 LCEKHGEE----LKLFCEEDE-KLLCVLCRESGEHRGHPVLPLEE 127 (386)
T ss_pred hhhhcCCc----ceEEecccc-cccCCCCCCcccccCCccccHHH
Confidence 78877753 679999997 78999996 3 899998776554
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=38.61 E-value=8.5 Score=30.80 Aligned_cols=50 Identities=28% Similarity=0.358 Sum_probs=29.2
Q ss_pred CcceeccccC-----------CCcCCccccccCCCCc-eeEEEeccccceeecchhhhhhcc
Q 026096 70 ECNMYCLDCM-----------NGALCSLCLSLHRDHR-AIQIRRSSYHDVIRVSEIQKYLDI 119 (243)
Q Consensus 70 E~N~FCldC~-----------~~~lC~~Cl~~H~~Hr-vlQIRRssYhdVVRv~DIqkllD~ 119 (243)
.-|..|.||. +.-+|..|...|+.-. .+-.-|+.-.|-...+||+.+...
T Consensus 11 ~~N~~CaDCg~~~p~w~s~~~GiflC~~Cag~HR~lg~~is~VkSi~~d~w~~~ev~~~~~~ 72 (116)
T PF01412_consen 11 PGNKVCADCGAPNPTWASLNYGIFLCLECAGIHRSLGVHISRVKSITMDNWSPEEVQRMREG 72 (116)
T ss_dssp TTCTB-TTT-SBS--EEETTTTEEE-HHHHHHHHHHTTTT--EEETTTS---HHHHHHHHHS
T ss_pred cCcCcCCCCCCCCCCEEEeecChhhhHHHHHHHHHhcccchhccccccCCCCHHHHHHHHHH
Confidence 4588899995 2248999988787421 223337777888888888887654
No 21
>COG4068 Uncharacterized protein containing a Zn-ribbon [Function unknown]
Probab=37.07 E-value=11 Score=28.32 Aligned_cols=23 Identities=26% Similarity=0.694 Sum_probs=21.0
Q ss_pred CCcccccccccCCCCeeeecccc
Q 026096 148 TNTCLVCERSLLDSFTFCSLGCK 170 (243)
Q Consensus 148 ~~~Ce~C~R~L~D~~rFCSL~CK 170 (243)
..+|.+|+..+...-+|||-.|.
T Consensus 8 H~HC~VCg~aIp~de~~CSe~C~ 30 (64)
T COG4068 8 HRHCVVCGKAIPPDEQVCSEECG 30 (64)
T ss_pred CccccccCCcCCCccchHHHHHH
Confidence 45799999999999999999997
No 22
>KOG0006 consensus E3 ubiquitin-protein ligase (Parkin protein) [Posttranslational modification, protein turnover, chaperones]
Probab=35.84 E-value=21 Score=34.94 Aligned_cols=45 Identities=33% Similarity=0.575 Sum_probs=31.4
Q ss_pred cccccccCCCCCCchhhhhcCCCCCcHHHHhcccccccccccccCCC-----------CCcceeccccC
Q 026096 22 PKNRRIMGGGGPEEEDEEMSNKWPPWLRPLLQTSFFVQCKLHADAHK-----------SECNMYCLDCM 79 (243)
Q Consensus 22 ~~~~~~~~~~~~~~~~~~~~~~~P~WL~~LL~~~FF~~C~~H~~~~k-----------nE~N~FCldC~ 79 (243)
+|+|||-| .++.-+ .|- |..+||=.|..|.++-| |-+|+-|+.|.
T Consensus 173 Lks~Ripg--~Ces~~------~pg-----~fAEFfFKC~ah~~~~k~~aa~lhli~~N~~ni~C~~Ct 228 (446)
T KOG0006|consen 173 LKSKRIPG--VCESCC------TPG-----LFAEFFFKCGAHPTSDKETAAALHLIATNSRNITCITCT 228 (446)
T ss_pred hhcccCcc--cccccc------CCc-----chHhheehhccCCCccccchhHHHHhhcccccceeEEec
Confidence 67888855 122212 343 66789999999997633 67899999996
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=33.05 E-value=12 Score=23.86 Aligned_cols=21 Identities=33% Similarity=0.746 Sum_probs=12.3
Q ss_pred cccccccccC-----CCCeeeecccc
Q 026096 150 TCLVCERSLL-----DSFTFCSLGCK 170 (243)
Q Consensus 150 ~Ce~C~R~L~-----D~~rFCSL~CK 170 (243)
.|.+|+..-. -..+||||.|.
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 4677776211 14689999984
No 24
>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=29.00 E-value=34 Score=23.98 Aligned_cols=27 Identities=33% Similarity=0.751 Sum_probs=18.8
Q ss_pred eeccccC--CCcCCccccc---cCC-CCceeEE
Q 026096 73 MYCLDCM--NGALCSLCLS---LHR-DHRAIQI 99 (243)
Q Consensus 73 ~FCldC~--~~~lC~~Cl~---~H~-~HrvlQI 99 (243)
.-|++|. +--||..|.. .|. +|+.+.|
T Consensus 16 ~~C~~C~~~d~DlC~~C~~~~~~H~~~H~~~~i 48 (48)
T cd02341 16 YHCSECDDGDFDLCQDCVVKGESHQEDHWLVKI 48 (48)
T ss_pred EECCCCCCCCCccCHHHHhCcCCCCCCCceeeC
Confidence 5588888 7789999954 343 5766654
No 25
>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=28.52 E-value=16 Score=29.13 Aligned_cols=42 Identities=31% Similarity=0.483 Sum_probs=26.9
Q ss_pred ceeccccCC-----------CcCCccccccCCCC--ceeEEEeccccceeecchhh
Q 026096 72 NMYCLDCMN-----------GALCSLCLSLHRDH--RAIQIRRSSYHDVIRVSEIQ 114 (243)
Q Consensus 72 N~FCldC~~-----------~~lC~~Cl~~H~~H--rvlQIRRssYhdVVRv~DIq 114 (243)
|..|.||.. .-+|..|...|+.. ++-. .|+.-.|...-++|+
T Consensus 3 N~~CaDC~~~~p~w~s~~~GifvC~~CsgiHR~lg~his~-VkSl~md~w~~~~i~ 57 (112)
T smart00105 3 NKKCFDCGAPNPTWASVNLGVFLCIECSGIHRSLGVHISK-VRSLTLDTWTEEELR 57 (112)
T ss_pred CCcccCCCCCCCCcEEeccceeEhHHhHHHHHhcCCCcCe-eeecccCCCCHHHHH
Confidence 788999962 23789998888864 2222 445556665556664
No 26
>PF04570 DUF581: Protein of unknown function (DUF581); InterPro: IPR007650 This is a family of uncharacterised proteins.
Probab=26.57 E-value=21 Score=26.31 Aligned_cols=29 Identities=28% Similarity=0.686 Sum_probs=21.7
Q ss_pred CCCcccccccccC---CC--Ce----eeeccccccccc
Q 026096 147 VTNTCLVCERSLL---DS--FT----FCSLGCKIAGTS 175 (243)
Q Consensus 147 ~~~~Ce~C~R~L~---D~--~r----FCSL~CKv~~~~ 175 (243)
.-..|-.|.|.|. |. |+ |||..|.-..|.
T Consensus 15 FL~~C~~C~k~L~~~~DiymYrGd~aFCS~ECR~~qi~ 52 (58)
T PF04570_consen 15 FLSFCYLCKKKLDPGKDIYMYRGDKAFCSEECRSQQIL 52 (58)
T ss_pred HHHHHHccCCCCCCCCCeeeeccccccccHHHHHHHHH
Confidence 3468999999998 32 33 999999865554
No 27
>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=25.28 E-value=73 Score=23.70 Aligned_cols=29 Identities=31% Similarity=0.579 Sum_probs=21.1
Q ss_pred CCCCcceeccccCC---CcCCccccc--cCCCCc
Q 026096 67 HKSECNMYCLDCMN---GALCSLCLS--LHRDHR 95 (243)
Q Consensus 67 ~knE~N~FCldC~~---~~lC~~Cl~--~H~~Hr 95 (243)
.++|.-..|++|.. ..+|..|.. .|.+|+
T Consensus 8 ~~~~~~y~C~tC~~~~~~~iC~~Cf~~~~H~gH~ 41 (71)
T smart00396 8 TGGEVIYRCKTCGLDPTCVLCSDCFRSNCHKGHD 41 (71)
T ss_pred CCCCEEEECcCCCCCCCEeEChHHCCCCCCCCCC
Confidence 34566688999973 358888854 799998
No 28
>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=23.75 E-value=1e+02 Score=22.30 Aligned_cols=32 Identities=9% Similarity=0.318 Sum_probs=22.5
Q ss_pred eeecchhhhh--hcccceeeEEecCceEEEeeCCC
Q 026096 107 VIRVSEIQKY--LDITGVQTYIINSARIVFLNERP 139 (243)
Q Consensus 107 VVRv~DIqkl--lD~S~IQtYvINsakVVFLn~RP 139 (243)
+++++|+... +++.+|-|.++||..+ +....|
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 7999999999988655 554434
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=21.44 E-value=59 Score=26.35 Aligned_cols=31 Identities=29% Similarity=0.578 Sum_probs=25.2
Q ss_pred CcHHHHhcccccccccccccCCC-CCcceeccc
Q 026096 46 PWLRPLLQTSFFVQCKLHADAHK-SECNMYCLD 77 (243)
Q Consensus 46 ~WL~~LL~~~FF~~C~~H~~~~k-nE~N~FCld 77 (243)
.=|..|..+- |=-|..|.+.++ +|-.+||++
T Consensus 76 ~NL~~LY~EG-FHICn~~yG~~R~~edClFCl~ 107 (107)
T PF06156_consen 76 DNLARLYQEG-FHICNVHYGSRRNDEDCLFCLS 107 (107)
T ss_pred HHHHHHHhcC-eeeCcHHhCCcCCCCCCcccCC
Confidence 5688888888 788999998888 577789875
No 30
>smart00746 TRASH metallochaperone-like domain.
Probab=21.15 E-value=54 Score=18.45 Aligned_cols=11 Identities=45% Similarity=0.884 Sum_probs=8.3
Q ss_pred CCeeeeccccc
Q 026096 161 SFTFCSLGCKI 171 (243)
Q Consensus 161 ~~rFCSL~CKv 171 (243)
.+.|||..|..
T Consensus 23 ~~~FCs~~c~~ 33 (39)
T smart00746 23 VFYFCSSKCLS 33 (39)
T ss_pred EEEEeCHHHHH
Confidence 36789988874
No 31
>PF08002 DUF1697: Protein of unknown function (DUF1697); InterPro: IPR012545 This family contains many hypothetical bacterial proteins.; PDB: 2HIY_B.
Probab=21.12 E-value=55 Score=27.07 Aligned_cols=30 Identities=37% Similarity=0.656 Sum_probs=20.7
Q ss_pred cceeecchhhhh---hcccceeeEEecCceEEEe
Q 026096 105 HDVIRVSEIQKY---LDITGVQTYIINSARIVFL 135 (243)
Q Consensus 105 hdVVRv~DIqkl---lD~S~IQtYvINsakVVFL 135 (243)
++-|+..|+..+ +-..+|+||+ +|.-|||=
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 456777888775 6788999995 88889987
No 32
>PRK05707 DNA polymerase III subunit delta'; Validated
Probab=20.97 E-value=1e+02 Score=29.01 Aligned_cols=92 Identities=15% Similarity=0.273 Sum_probs=49.0
Q ss_pred CCCcHHHHhccccccccccccc---CCCC----------CcceeccccCCC---cCCccccc-cCCCCc-eeEEEecccc
Q 026096 44 WPPWLRPLLQTSFFVQCKLHAD---AHKS----------ECNMYCLDCMNG---ALCSLCLS-LHRDHR-AIQIRRSSYH 105 (243)
Q Consensus 44 ~P~WL~~LL~~~FF~~C~~H~~---~~kn----------E~N~FCldC~~~---~lC~~Cl~-~H~~Hr-vlQIRRssYh 105 (243)
.-|||...++.-+-..--.|.- +..+ -+-++|.+=.+. .-|+.|.. ....|+ ++.|..-.-.
T Consensus 4 ~yPWl~~~~~~~~~~~r~~ha~Lf~G~~G~GK~~~A~~~A~~llC~~~~~~~~Cg~C~sC~~~~~g~HPD~~~i~~~~~~ 83 (328)
T PRK05707 4 IYPWQQSLWQQLAGRGRHPHAYLLHGPAGIGKRALAERLAAALLCEAPQGGGACGSCKGCQLLRAGSHPDNFVLEPEEAD 83 (328)
T ss_pred CCCCcHHHHHHHHHCCCcceeeeeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHhcCCCCCEEEEeccCCC
Confidence 4589988887665554444431 1111 113456431111 25777754 444555 4444332223
Q ss_pred ceeecchhhhhhcccceeeEEecCceEEEee
Q 026096 106 DVIRVSEIQKYLDITGVQTYIINSARIVFLN 136 (243)
Q Consensus 106 dVVRv~DIqkllD~S~IQtYvINsakVVFLn 136 (243)
..|+|++|..+.+--..=++ .++.|||.|.
T Consensus 84 ~~i~id~iR~l~~~~~~~~~-~~~~kv~iI~ 113 (328)
T PRK05707 84 KTIKVDQVRELVSFVVQTAQ-LGGRKVVLIE 113 (328)
T ss_pred CCCCHHHHHHHHHHHhhccc-cCCCeEEEEC
Confidence 56899999887654333222 4578888884
No 33
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=20.69 E-value=42 Score=32.89 Aligned_cols=19 Identities=37% Similarity=0.742 Sum_probs=14.2
Q ss_pred CcceeccccC-----CCcCCcccc
Q 026096 70 ECNMYCLDCM-----NGALCSLCL 88 (243)
Q Consensus 70 E~N~FCldC~-----~~~lC~~Cl 88 (243)
=+|.||+||. ....|+.|-
T Consensus 351 Ck~~FCldCDv~iHesLh~CpgCe 374 (378)
T KOG2807|consen 351 CKNVFCLDCDVFIHESLHNCPGCE 374 (378)
T ss_pred ccceeeccchHHHHhhhhcCCCcC
Confidence 3689999995 235788886
No 34
>KOG4582 consensus Uncharacterized conserved protein, contains ZZ-type Zn-finger [General function prediction only]
Probab=20.15 E-value=68 Score=29.79 Aligned_cols=57 Identities=19% Similarity=0.328 Sum_probs=36.2
Q ss_pred CCCCCcHHHHhcc-ccc-----c---cccccccCCCCCcceeccccCCCcCCccccc---cCCCCceeEEEe
Q 026096 42 NKWPPWLRPLLQT-SFF-----V---QCKLHADAHKSECNMYCLDCMNGALCSLCLS---LHRDHRAIQIRR 101 (243)
Q Consensus 42 ~~~P~WL~~LL~~-~FF-----~---~C~~H~~~~knE~N~FCldC~~~~lC~~Cl~---~H~~HrvlQIRR 101 (243)
...+.||.+-+.+ -++ . .|..|.-... -.-|..|.+.-||..|-. .|..|..|||.+
T Consensus 131 ~~~~~~~~~~~~~~H~~~~~~~v~CD~C~~~~IvG~---RyKC~~C~dYDLCe~Ce~~~~~h~~H~~lR~~t 199 (278)
T KOG4582|consen 131 ASLVITLNPVVGEMHPNISKLSVPCDNCGKPGIVGA---RYKCTVCPDYDLCERCEAGNEHHAAHAMLRLHT 199 (278)
T ss_pred hhhhhhcCCCccccCCCcccccccCCCccCCccccc---eeeecCCCccchhHHhhcCCCCCcccceeeccc
Confidence 3456777776552 234 2 4444543221 245999988889999943 456788888877
Done!