Query 006267
Match_columns 653
No_of_seqs 245 out of 502
Neff 3.6
Searched_HMMs 46136
Date Thu Mar 28 20:47:49 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/006267.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/006267hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF02362 B3: B3 DNA binding do 99.7 3.1E-16 6.8E-21 134.2 11.0 98 359-460 1-100 (100)
2 PF07496 zf-CW: CW-type Zinc F 99.6 4.3E-16 9.4E-21 123.1 2.1 44 591-635 1-49 (50)
3 PF03754 DUF313: Domain of unk 98.0 1E-05 2.3E-10 74.6 6.5 80 353-432 18-114 (114)
4 PF09217 EcoRII-N: Restriction 97.6 0.00014 3.1E-09 70.4 7.2 89 356-444 7-110 (156)
5 smart00249 PHD PHD zinc finger 77.9 2.8 6E-05 30.6 3.2 30 589-618 10-45 (47)
6 PF10844 DUF2577: Protein of u 73.1 14 0.00029 33.5 6.9 84 350-455 12-97 (100)
7 smart00249 PHD PHD zinc finger 62.0 3.9 8.5E-05 29.8 1.0 25 77-101 10-34 (47)
8 PF04014 Antitoxin-MazE: Antid 55.8 20 0.00043 28.0 4.0 31 427-458 13-43 (47)
9 PF00628 PHD: PHD-finger; Int 37.8 23 0.00051 27.3 1.9 16 587-602 8-23 (51)
10 TIGR01439 lp_hng_hel_AbrB loop 30.5 85 0.0018 23.2 3.8 28 427-455 13-40 (43)
11 KOG4718 Non-SMC (structural ma 28.7 21 0.00045 37.3 0.3 18 82-99 195-212 (235)
12 PF02643 DUF192: Uncharacteriz 28.1 1.1E+02 0.0024 27.9 4.8 51 394-444 50-107 (108)
13 cd06919 Asp_decarbox Aspartate 27.2 3.6E+02 0.0079 25.8 8.0 75 360-445 11-88 (111)
14 TIGR00223 panD L-aspartate-alp 26.9 3.6E+02 0.0077 26.3 8.0 75 360-445 12-89 (126)
15 PRK05449 aspartate alpha-decar 26.8 3.6E+02 0.0077 26.3 8.0 75 360-445 12-89 (126)
16 PF13248 zf-ribbon_3: zinc-rib 26.1 31 0.00068 24.2 0.7 15 77-91 12-26 (26)
17 COG2002 AbrB Regulators of sta 24.6 1E+02 0.0022 27.3 3.8 27 428-454 21-47 (89)
18 PF02261 Asp_decarbox: Asparta 24.5 5.5E+02 0.012 24.7 8.8 75 359-444 11-88 (116)
19 PF09149 DUF1935: Domain of un 23.9 84 0.0018 29.0 3.3 66 385-456 13-78 (104)
20 COG1998 RPS31 Ribosomal protei 22.6 42 0.00092 27.9 1.0 6 89-94 36-41 (51)
21 PF08922 DUF1905: Domain of un 22.3 2.2E+02 0.0049 24.8 5.4 79 359-444 1-79 (80)
22 PF03120 DNA_ligase_OB: NAD-de 20.9 71 0.0015 28.6 2.1 31 427-458 42-73 (82)
23 PRK03760 hypothetical protein; 20.2 1.7E+02 0.0038 27.4 4.6 49 391-445 68-116 (117)
24 PF09297 zf-NADH-PPase: NADH p 20.1 54 0.0012 23.8 1.0 25 58-91 5-31 (32)
No 1
>PF02362 B3: B3 DNA binding domain; InterPro: IPR003340 Two DNA binding proteins, RAV1 and RAV2 from Arabidopsis thaliana contain two distinct amino acid sequence domains found only in higher plant species. The N-terminal regions of RAV1 and RAV2 are homologous to the AP2 DNA-binding domain (see IPR001471 from INTERPRO) present in a family of transcription factors, while the C-terminal region exhibits homology to the highly conserved C-terminal domain, designated B3, of VP1/ABI3 transcription factors []. The AP2 and B3-like domains of RAV1 bind autonomously to the CAACA and CACCTG motifs, respectively, and together achieve a high affinity and specificity of binding. It has been suggested that the AP2 and B3-like domains of RAV1 are connected by a highly flexible structure enabling the two domains to bind to the CAACA and CACCTG motifs in various spacings and orientations [].; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent; PDB: 1WID_A 1YEL_A.
Probab=99.67 E-value=3.1e-16 Score=134.15 Aligned_cols=98 Identities=24% Similarity=0.420 Sum_probs=70.2
Q ss_pred EEEecccccCCCCCcEEeehhhhhhcCCCCCCCCCceEEEEeCCCCeEEEEEEEeCCCCCcceec-cCchhhhhccCCCC
Q 006267 359 FEKMLSASDAGRIGRLVLPKKCAEAYFPPISQPEGLPLKVQDSKGKEWIFQFRFWPNNNSRMYVL-EGVTPCIQNMQLQA 437 (653)
Q Consensus 359 F~KvLT~SDVgklgRLVIPK~~AEa~FPpL~~~~G~~L~v~D~~Gk~W~Frfs~w~Nn~SR~YVL-~GWs~FVrsK~Lqa 437 (653)
|.|+|+++|+.+..+|+||++.+++|. +....++.|.++|..|+.|.+++.++ +.++.|++ .||..||++++|++
T Consensus 1 F~K~l~~s~~~~~~~l~iP~~f~~~~~--~~~~~~~~v~l~~~~g~~W~v~~~~~--~~~~~~~l~~GW~~Fv~~n~L~~ 76 (100)
T PF02362_consen 1 FFKVLKPSDVSSSCRLIIPKEFAKKHG--GNKRKSREVTLKDPDGRSWPVKLKYR--KNSGRYYLTGGWKKFVRDNGLKE 76 (100)
T ss_dssp EEEE--TTCCCCTT-EEE-HHHHTTTS----SS--CEEEEEETTTEEEEEEEEEE--CCTTEEEEETTHHHHHHHCT--T
T ss_pred CEEEEEccCcCCCCEEEeCHHHHHHhC--CCcCCCeEEEEEeCCCCEEEEEEEEE--ccCCeEEECCCHHHHHHHcCCCC
Confidence 899999999998889999999999982 12235789999999999999999987 33333556 59999999999999
Q ss_pred CCEEEEEEec-CCCeEEEEEEeCC
Q 006267 438 GDIVTFSRLE-PEGKLVMGFRKAS 460 (653)
Q Consensus 438 GDtVvF~R~e-~~GkL~IGVRRa~ 460 (653)
||.|+|+... ...++.|.+.|++
T Consensus 77 GD~~~F~~~~~~~~~~~v~i~~~~ 100 (100)
T PF02362_consen 77 GDVCVFELIGNSNFTLKVHIFRKS 100 (100)
T ss_dssp T-EEEEEE-SSSCE-EEEEEE---
T ss_pred CCEEEEEEecCCCceEEEEEEECc
Confidence 9999999975 3456799998863
No 2
>PF07496 zf-CW: CW-type Zinc Finger; InterPro: IPR011124 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 a CW-type zinc finger motif, named for its conserved cysteine and tryptophan residues. It is predicted to be a highly specialised mononuclear four-cysteine (C4) zinc finger that plays a role in DNA binding and/or promoting protein-protein interactions in complicated eukaryotic processes including chromatin methylation status and early embryonic development. Weak homology to members of IPR001965 from INTERPRO further evidences these predictions. The domain is found exclusively in vertebrates, vertebrate-infecting parasites and higher plants []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2RR4_A 2E61_A 2L7P_A.
Probab=99.58 E-value=4.3e-16 Score=123.10 Aligned_cols=44 Identities=39% Similarity=0.835 Sum_probs=30.2
Q ss_pred CceEecCCCccccccCCCC-----CCCCCceeecCCCCCCCCCCCCcccc
Q 006267 591 IQWVQCEDCSKWRKVPANA-----RLPSKWTCSGNLWDPERYNQHLVICL 635 (653)
Q Consensus 591 ~~WVQCD~C~KWRrLP~~~-----~lP~kW~CsmN~WDp~~~sCsaPEE~ 635 (653)
++|||||.|+|||+||.++ .+|+.|+|+||+ |+.+++|++|||.
T Consensus 1 ~~WVQCd~C~KWR~lp~~~~~~~~~~~d~W~C~~n~-~~~~~sC~~pee~ 49 (50)
T PF07496_consen 1 DYWVQCDSCLKWRRLPEEVDPIREELPDPWYCSMNP-DPPFNSCDAPEEI 49 (50)
T ss_dssp -EEEE-TTT--EEEE-CCHHCTSCCSSTT--GGGSS--CCC-STTS--SS
T ss_pred CeEEECCCCCceeeCChhhCcccccCCCeEEcCCCC-CCCCCCCCCcccC
Confidence 4799999999999999985 468899999999 8999999999995
No 3
>PF03754 DUF313: Domain of unknown function (DUF313) ; InterPro: IPR005508 This is a family of proteins from Arabidopsis thaliana (Mouse-ear cress) with uncharacterised function.
Probab=98.03 E-value=1e-05 Score=74.63 Aligned_cols=80 Identities=21% Similarity=0.427 Sum_probs=63.9
Q ss_pred CcccceEEEecccccCCC-CCcEEeehhhhhh--cCCC-----C-------CCCCCceEEEEeCCCCeEEEEEEEeCC-C
Q 006267 353 SVITPLFEKMLSASDAGR-IGRLVLPKKCAEA--YFPP-----I-------SQPEGLPLKVQDSKGKEWIFQFRFWPN-N 416 (653)
Q Consensus 353 s~~~~LF~KvLT~SDVgk-lgRLVIPK~~AEa--~FPp-----L-------~~~~G~~L~v~D~~Gk~W~Frfs~w~N-n 416 (653)
.....+++|+|++|||.. .+||.||-..... +|=+ | ....|+.+.+.|..++.|..+++.|.- +
T Consensus 18 ~d~kli~~K~L~~tDv~~~qsRLsmP~~qi~~~dFLt~eE~~~i~~~~~~~~~~~Gv~V~lvdp~~~~~~m~lkkW~mg~ 97 (114)
T PF03754_consen 18 EDPKLIIEKTLFKTDVDPHQSRLSMPFNQIIDNDFLTEEEKRIIKEEKKNNDKKKGVEVILVDPSLRKWTMRLKKWNMGN 97 (114)
T ss_pred CCCeEEEeeeecccCCCCCCceeeccHHHhcccccCCHHHHHHHHHhhccCcccCCceEEEECCcCcEEEEEEEEecccC
Confidence 456789999999999995 7999999876633 2222 2 235789999999999999999999964 4
Q ss_pred CCcceecc-Cchhhhhc
Q 006267 417 NSRMYVLE-GVTPCIQN 432 (653)
Q Consensus 417 ~SR~YVL~-GWs~FVrs 432 (653)
.+-.|+|. ||.+.|++
T Consensus 98 ~~~~YvL~~gWn~VV~~ 114 (114)
T PF03754_consen 98 GTSNYVLNSGWNKVVED 114 (114)
T ss_pred CceEEEEEcChHhhccC
Confidence 46689995 99998863
No 4
>PF09217 EcoRII-N: Restriction endonuclease EcoRII, N-terminal; InterPro: IPR023372 There are four classes of restriction endonucleases: types I, II,III and IV. All types of enzymes recognise specific short DNA sequences and carry out the endonucleolytic cleavage of DNA to give specific double-stranded fragments with terminal 5'-phosphates. They differ in their recognition sequence, subunit composition, cleavage position, and cofactor requirements [, ], as summarised below: Type I enzymes (3.1.21.3 from EC) cleave at sites remote from recognition site; require both ATP and S-adenosyl-L-methionine to function; multifunctional protein with both restriction and methylase (2.1.1.72 from EC) activities. Type II enzymes (3.1.21.4 from EC) cleave within or at short specific distances from recognition site; most require magnesium; single function (restriction) enzymes independent of methylase. Type III enzymes (3.1.21.5 from EC) cleave at sites a short distance from recognition site; require ATP (but doesn't hydrolyse it); S-adenosyl-L-methionine stimulates reaction but is not required; exists as part of a complex with a modification methylase methylase (2.1.1.72 from EC). Type IV enzymes target methylated DNA. Type II restriction endonucleases (3.1.21.4 from EC) are components of prokaryotic DNA restriction-modification mechanisms that protect the organism against invading foreign DNA. These site-specific deoxyribonucleases catalyse the endonucleolytic cleavage of DNA to give specific double-stranded fragments with terminal 5'-phosphates. Of the 3000 restriction endonucleases that have been characterised, most are homodimeric or tetrameric enzymes that cleave target DNA at sequence-specific sites close to the recognition site. For homodimeric enzymes, the recognition site is usually a palindromic sequence 4-8 bp in length. Most enzymes require magnesium ions as a cofactor for catalysis. Although they can vary in their mode of recognition, many restriction endonucleases share a similar structural core comprising four beta-strands and one alpha-helix, as well as a similar mechanism of cleavage, suggesting a common ancestral origin []. However, there is still considerable diversity amongst restriction endonucleases [, ]. The target site recognition process triggers large conformational changes of the enzyme and the target DNA, leading to the activation of the catalytic centres. Like other DNA binding proteins, restriction enzymes are capable of non-specific DNA binding as well, which is the prerequisite for efficient target site location by facilitated diffusion. Non-specific binding usually does not involve interactions with the bases but only with the DNA backbone []. This entry represents the N-terminal effector-binding domain of the type II restriction endonuclease EcoRII, which has a DNA recognition fold, allowing for binding to 5'-CCWGG sequences. It assumes a structure composed of an eight-stranded beta-sheet with the strands in the order of b2, b5, b4, b3, b7, b6, b1 and b8. They are mostly antiparallel to each other except that b3 is parallel to b7. Alternatively, it may also be viewed as consisting of two mini beta-sheets of four antiparallel beta-strands, sheet I from beta-strands b2, b5, b4, b3 and sheet II from strands b7, b6, b1, b8, folded into an open mixed beta-barrel with a novel topology. Sheet I has a simple Greek key motif while sheet II does not []. The domain represented by this entry is only found in bacterial proteins.; PDB: 3HQF_A 1NA6_A.
Probab=97.62 E-value=0.00014 Score=70.35 Aligned_cols=89 Identities=21% Similarity=0.347 Sum_probs=57.6
Q ss_pred cceEEEecccccCCCC----CcEEeehhhhhhcCCCCCC----CCCceEEEEeCCC--CeEEEEEEEeCC----CCCcce
Q 006267 356 TPLFEKMLSASDAGRI----GRLVLPKKCAEAYFPPISQ----PEGLPLKVQDSKG--KEWIFQFRFWPN----NNSRMY 421 (653)
Q Consensus 356 ~~LF~KvLT~SDVgkl----gRLVIPK~~AEa~FPpL~~----~~G~~L~v~D~~G--k~W~Frfs~w~N----n~SR~Y 421 (653)
...|.|.||+.|++.+ .++.|||..++..||.+.. .+.+.|.+++..+ ..|+||++|+-| ..+..|
T Consensus 7 ~~~~~K~LSaNDtGaTGgHQaGiyIpk~~~~~lFp~~~~~~~~Np~~~~~~~~~s~~~~~~~~r~iYYnn~~~~gTRNE~ 86 (156)
T PF09217_consen 7 WAIYCKRLSANDTGATGGHQAGIYIPKSAAELLFPSINHTKEENPDIWLKARWQSHFVTDSQVRFIYYNNRLFGGTRNEY 86 (156)
T ss_dssp EEEEEEE--CCCCTTTSSS--EEEE-HHHHHHH-GGG-SSSSSS-EEEEEEEETTTT---EEEEEEEE-CCCTTSS--EE
T ss_pred eEEEEEEccCCCCCCcCcccceeEecccHHHHhCCCCCcccccCCceeEEEEECCCCccceeEEEEEEcccccCCCcCce
Confidence 3689999999999964 5899999999999998764 3458899998877 678899999922 136678
Q ss_pred eccCchhhhhccC-CCCCCEEEEE
Q 006267 422 VLEGVTPCIQNMQ-LQAGDIVTFS 444 (653)
Q Consensus 422 VL~GWs~FVrsK~-LqaGDtVvF~ 444 (653)
-+++|+....--+ =.+||.++|-
T Consensus 87 RIT~~G~~~~~~~~~~tGaL~vla 110 (156)
T PF09217_consen 87 RITRFGRGFPLQNPENTGALLVLA 110 (156)
T ss_dssp EEE---TTSGGG-GGGTT-EEEEE
T ss_pred EEeeecCCCccCCccccccEEEEE
Confidence 9999987666444 3789988876
No 5
>smart00249 PHD PHD zinc finger. The plant homeodomain (PHD) finger is a C4HC3 zinc-finger-like motif found in nuclear proteins thought to be involved in epigenetics and chromatin-mediated transcriptional regulation. The PHD finger binds two zinc ions using the so-called 'cross-brace' motif and is thus structurally related to the PF10844 DUF2577: Protein of unknown function (DUF2577); InterPro: IPR022555 This family of proteins has no known function
Probab=73.05 E-value=14 Score=33.49 Aligned_cols=84 Identities=13% Similarity=0.184 Sum_probs=48.4
Q ss_pred CCCCcccceEEEecccccCC--CCCcEEeehhhhhhcCCCCCCCCCceEEEEeCCCCeEEEEEEEeCCCCCcceeccCch
Q 006267 350 DSNSVITPLFEKMLSASDAG--RIGRLVLPKKCAEAYFPPISQPEGLPLKVQDSKGKEWIFQFRFWPNNNSRMYVLEGVT 427 (653)
Q Consensus 350 d~ns~~~~LF~KvLT~SDVg--klgRLVIPK~~AEa~FPpL~~~~G~~L~v~D~~Gk~W~Frfs~w~Nn~SR~YVL~GWs 427 (653)
+.+......|-++++.+-+. -.++++|+++.. ++|..-......+.+....+. ...
T Consensus 12 ~~~~p~~i~~G~V~s~~PL~I~i~~~liL~~~~L--~i~~~l~~~~~~~~~~~~~~~------------~~~-------- 69 (100)
T PF10844_consen 12 EASNPVDIVIGTVVSVPPLKIKIDQKLILDKDFL--IIPELLKDYTRDITIEHNSET------------DNI-------- 69 (100)
T ss_pred hcCCCceeEEEEEEecccEEEEECCeEEEchHHE--EeehhccceEEEEEEeccccc------------cce--------
Confidence 34444445899999999743 234599988642 455422222223333222110 000
Q ss_pred hhhhccCCCCCCEEEEEEecCCCeEEEE
Q 006267 428 PCIQNMQLQAGDIVTFSRLEPEGKLVMG 455 (653)
Q Consensus 428 ~FVrsK~LqaGDtVvF~R~e~~GkL~IG 455 (653)
.|.-...|++||.|...+.+.+.+|+|=
T Consensus 70 ~i~~~~~Lk~GD~V~ll~~~~gQ~yiVl 97 (100)
T PF10844_consen 70 TITFTDGLKVGDKVLLLRVQGGQKYIVL 97 (100)
T ss_pred eEEEecCCcCCCEEEEEEecCCCEEEEE
Confidence 0555678999999999998755566663
No 7
>smart00249 PHD PHD zinc finger. The plant homeodomain (PHD) finger is a C4HC3 zinc-finger-like motif found in nuclear proteins thought to be involved in epigenetics and chromatin-mediated transcriptional regulation. The PHD finger binds two zinc ions using the so-called 'cross-brace' motif and is thus structurally related to the PF04014 Antitoxin-MazE: Antidote-toxin recognition MazE; InterPro: IPR007159 This domain is found in AbrB from Bacillus subtilis. The product of the abrB gene is an ambiactive repressor and activator of the transcription of genes expressed during the transition state between vegetative growth and the onset of stationary phase and sporulation []. AbrB is thought to interact directly with the transcription initiation regions of genes under its control []. AbrB contains a helix-turn-helix structure, but this domain ends before the helix-turn-helix begins []. The product of the B. subtilis gene spoVT is another member of this family and is also a transcriptional regulator []. DNA-binding activity in this AbrB homologue requires hexamerisation []. Another family member has been isolated from the Sulfolobus solfataricus and has been identified as a homologue of bacterial repressor-like proteins. The Escherichia coli family member SohA or Prl1F appears to be bifunctional and is able to regulate its own expression as well as relieve the export block imposed by high-level synthesis of beta-galactosidase hybrid proteins [].; PDB: 2L66_A 2GLW_A 3TND_D 2W1T_B 2RO5_B 2FY9_A 2RO3_B 1UB4_C 3ZVK_G 1YFB_B ....
Probab=55.78 E-value=20 Score=27.96 Aligned_cols=31 Identities=26% Similarity=0.338 Sum_probs=24.2
Q ss_pred hhhhhccCCCCCCEEEEEEecCCCeEEEEEEe
Q 006267 427 TPCIQNMQLQAGDIVTFSRLEPEGKLVMGFRK 458 (653)
Q Consensus 427 s~FVrsK~LqaGDtVvF~R~e~~GkL~IGVRR 458 (653)
.++.+..+|++||.|.|.-.+ +|++.|.-.+
T Consensus 13 k~~~~~l~l~~Gd~v~i~~~~-~g~i~i~p~~ 43 (47)
T PF04014_consen 13 KEIREKLGLKPGDEVEIEVEG-DGKIVIRPVK 43 (47)
T ss_dssp HHHHHHTTSSTTTEEEEEEET-TSEEEEEEST
T ss_pred HHHHHHcCCCCCCEEEEEEeC-CCEEEEEECC
Confidence 467888999999999999874 6677765443
No 9
>PF00628 PHD: PHD-finger; InterPro: IPR019787 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 PHD (homeodomain) zinc finger domain [,], which is a C4HC3 zinc-finger-like motif found in nuclear proteins thought to be involved in chromatin-mediated transcriptional regulation. The PHD finger motif is reminiscent of, but distinct from the C3HC4 type RING finger. The function of this domain is not yet known but in analogy with the LIM domain it could be involved in protein-protein interaction and be important for the assembly or activity of multicomponent complexes involved in transcriptional activation or repression. Alternatively, the interactions could be intra-molecular and be important in maintaining the structural integrity of the protein. In similarity to the RING finger and the LIM domain, the PHD finger is thought to bind two zinc ions. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0005515 protein binding; PDB: 3ZVY_A 2LGG_A 3SOW_A 3SOU_B 3ASL_A 3ASK_A 3ZVZ_B 3T6R_A 2LGK_A 3SOX_B ....
Probab=37.78 E-value=23 Score=27.32 Aligned_cols=16 Identities=25% Similarity=0.989 Sum_probs=0.0
Q ss_pred CCCCCceEecCCCccc
Q 006267 587 VGEKIQWVQCEDCSKW 602 (653)
Q Consensus 587 ~ge~~~WVQCD~C~KW 602 (653)
..+...+||||.|..|
T Consensus 8 ~~~~~~~i~C~~C~~~ 23 (51)
T PF00628_consen 8 SDDDGDMIQCDSCNRW 23 (51)
T ss_dssp SCTTSSEEEBSTTSCE
T ss_pred cCCCCCeEEcCCCChh
No 10
>TIGR01439 lp_hng_hel_AbrB looped-hinge helix DNA binding domain, AbrB family. This DNA-binding domain family includes AbrB, a transition state regulator in Bacillus subtilis, whose DNA-binding domain structure in solution was determined by NMR. The domain binds DNA as a dimer in what is termed a looped-hinge helix fold. Some members of the family have two copies of the domain in tandem. The domain is found usually at the N-terminus of a small protein. This model excludes members of family TIGR02609.
Probab=30.50 E-value=85 Score=23.18 Aligned_cols=28 Identities=21% Similarity=0.514 Sum_probs=22.6
Q ss_pred hhhhhccCCCCCCEEEEEEecCCCeEEEE
Q 006267 427 TPCIQNMQLQAGDIVTFSRLEPEGKLVMG 455 (653)
Q Consensus 427 s~FVrsK~LqaGDtVvF~R~e~~GkL~IG 455 (653)
..|.+..++..||.|.+.... +|.+.|-
T Consensus 13 ~~~r~~l~~~~gd~~~i~~~~-~~~l~l~ 40 (43)
T TIGR01439 13 KEIREKLGLKEGDRLEVIRVE-DGEIILR 40 (43)
T ss_pred HHHHHHcCcCCCCEEEEEEeC-CCEEEEE
Confidence 478999999999999999764 6666653
No 11
>KOG4718 consensus Non-SMC (structural maintenance of chromosomes) element 1 protein (NSE1) [Chromatin structure and dynamics]
Probab=28.70 E-value=21 Score=37.35 Aligned_cols=18 Identities=39% Similarity=0.829 Sum_probs=15.6
Q ss_pred cccccCCCceeechhhhh
Q 006267 82 RCCESCGKRVHCGCITSV 99 (653)
Q Consensus 82 R~C~~C~KrlHCGCI~S~ 99 (653)
+.|.+||-|.|||||.--
T Consensus 195 ~rCg~c~i~~h~~c~qty 212 (235)
T KOG4718|consen 195 IRCGSCNIQYHRGCIQTY 212 (235)
T ss_pred eccCcccchhhhHHHHHH
Confidence 568999999999999753
No 12
>PF02643 DUF192: Uncharacterized ACR, COG1430; InterPro: IPR003795 This entry describes proteins of unknown function.; PDB: 3M7A_B 3PJY_B.
Probab=28.11 E-value=1.1e+02 Score=27.90 Aligned_cols=51 Identities=24% Similarity=0.289 Sum_probs=28.5
Q ss_pred ceEEEEeCCCCeEEEEEEEeCCC-------CCcceeccCchhhhhccCCCCCCEEEEE
Q 006267 394 LPLKVQDSKGKEWIFQFRFWPNN-------NSRMYVLEGVTPCIQNMQLQAGDIVTFS 444 (653)
Q Consensus 394 ~~L~v~D~~Gk~W~Frfs~w~Nn-------~SR~YVL~GWs~FVrsK~LqaGDtVvF~ 444 (653)
+.|.+.|..|++=....-..|.. ..-.|||+-=..++.++++++||.|.|-
T Consensus 50 LDi~fld~~g~Vv~i~~~~~P~~~~~~~~~~~a~~vLE~~aG~~~~~~i~~Gd~v~~~ 107 (108)
T PF02643_consen 50 LDIAFLDSDGRVVKIERMVPPWRTYPCPSYKPARYVLELPAGWFEKLGIKVGDRVRIE 107 (108)
T ss_dssp EEEEEE-TTSBEEEEEEEE-TT--S-EEECCEECEEEEEETTHHHHHT--TT-EEE--
T ss_pred EEEEEECCCCeEEEEEccCCCCccCCCCCCCccCEEEEcCCCchhhcCCCCCCEEEec
Confidence 56666676666555444332211 1236899866677899999999999873
No 13
>cd06919 Asp_decarbox Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production. Decarboxylation of aspartate is the major route of beta-alanine production in bacteria, and is catalyzed by the enzyme L-aspartate decarboxylase (ADC), EC:4.1.1.11 which requires a pyruvoyl group for its activity. The pyruvoyl cofactor is covalently bound to the enzyme. The protein is synthesized as a proenzyme and cleaved via self-processing at Gly23-Ser24 to yield an alpha chain (C-terminal fragment) and beta chain (N-terminal fragment), and the pyruvoyl group. Beta-alanine is required for the biosynthesis of pantothenate, in which the enzyme plays a critical regulatory role. The active site of the tetrameric enzyme is located at the interface of two subunits, with a Lysine and a Histidine from the beta chain of one subunit forming the active site with residues from the alpha chain of the adjacent subunit. This alignment
Probab=27.15 E-value=3.6e+02 Score=25.76 Aligned_cols=75 Identities=19% Similarity=0.222 Sum_probs=52.4
Q ss_pred EEecccccCCCCCcEEeehhhhhh--cCCCCCCCCCceEEEEeC-CCCeEEEEEEEeCCCCCcceeccCchhhhhccCCC
Q 006267 360 EKMLSASDAGRIGRLVLPKKCAEA--YFPPISQPEGLPLKVQDS-KGKEWIFQFRFWPNNNSRMYVLEGVTPCIQNMQLQ 436 (653)
Q Consensus 360 ~KvLT~SDVgklgRLVIPK~~AEa--~FPpL~~~~G~~L~v~D~-~Gk~W~Frfs~w~Nn~SR~YVL~GWs~FVrsK~Lq 436 (653)
.-+.|..|+...|.+.|..+-.++ .+| +..+.+.|. +|..|. .|.+..-..|+.--+.| .-++..+
T Consensus 11 ratVT~a~L~YeGSitID~~Ll~aagi~~------~E~V~I~Nv~NG~Rf~-TYvI~g~~gSg~I~lNG----AAAr~~~ 79 (111)
T cd06919 11 RATVTEADLNYEGSITIDEDLLEAAGILP------YEKVLVVNVNNGARFE-TYVIPGERGSGVICLNG----AAARLGQ 79 (111)
T ss_pred ceEEeccccccceeEEECHHHHHhcCCCC------CCEEEEEECCCCcEEE-EEEEEcCCCCCEEEeCC----HHHhcCC
Confidence 456788999988999999887665 344 478888998 677665 34444222355555555 4567889
Q ss_pred CCCEEEEEE
Q 006267 437 AGDIVTFSR 445 (653)
Q Consensus 437 aGDtVvF~R 445 (653)
.||.|+++-
T Consensus 80 ~GD~vII~s 88 (111)
T cd06919 80 PGDRVIIMA 88 (111)
T ss_pred CCCEEEEEE
Confidence 999998764
No 14
>TIGR00223 panD L-aspartate-alpha-decarboxylase. Members of this family are aspartate 1-decarboxylase, the enzyme that makes beta-alanine and C02 from aspartate. Beta-alanine is then used to make the vitamin pantothenate, from which coenzyme A is made. Aspartate 1-decarboxylase is synthesized as a proenzyme, then cleaved to an alpha (C-terminal) and beta (N-terminal) subunit with a pyruvoyl group.
Probab=26.89 E-value=3.6e+02 Score=26.34 Aligned_cols=75 Identities=15% Similarity=0.302 Sum_probs=52.3
Q ss_pred EEecccccCCCCCcEEeehhhhhh--cCCCCCCCCCceEEEEeC-CCCeEEEEEEEeCCCCCcceeccCchhhhhccCCC
Q 006267 360 EKMLSASDAGRIGRLVLPKKCAEA--YFPPISQPEGLPLKVQDS-KGKEWIFQFRFWPNNNSRMYVLEGVTPCIQNMQLQ 436 (653)
Q Consensus 360 ~KvLT~SDVgklgRLVIPK~~AEa--~FPpL~~~~G~~L~v~D~-~Gk~W~Frfs~w~Nn~SR~YVL~GWs~FVrsK~Lq 436 (653)
.-+.|..|+...|.+.|..+-.++ .+| +..+.+.|. +|..|. .|.+.....|+..-|.| .-++..+
T Consensus 12 ratVT~a~L~Y~GSItID~~Lm~aagi~p------~E~V~V~Nv~NG~Rf~-TYvI~G~~GSg~I~lNG----AAArl~~ 80 (126)
T TIGR00223 12 RATVTHANLNYEGSITIDEDLLDAAGILE------NEKVDIVNVNNGKRFS-TYAIAGKRGSRIICVNG----AAARCVS 80 (126)
T ss_pred ceEEeccccccceeEEECHHHHHhcCCCC------CCEEEEEECCCCcEEE-EEEEEcCCCCCEEEeCC----HHHhcCC
Confidence 456788999988999999887665 355 377888888 777665 34444222355555555 4567889
Q ss_pred CCCEEEEEE
Q 006267 437 AGDIVTFSR 445 (653)
Q Consensus 437 aGDtVvF~R 445 (653)
+||.|+++-
T Consensus 81 ~GD~VII~s 89 (126)
T TIGR00223 81 VGDIVIIAS 89 (126)
T ss_pred CCCEEEEEE
Confidence 999998764
No 15
>PRK05449 aspartate alpha-decarboxylase; Provisional
Probab=26.78 E-value=3.6e+02 Score=26.32 Aligned_cols=75 Identities=15% Similarity=0.277 Sum_probs=52.2
Q ss_pred EEecccccCCCCCcEEeehhhhhh--cCCCCCCCCCceEEEEeC-CCCeEEEEEEEeCCCCCcceeccCchhhhhccCCC
Q 006267 360 EKMLSASDAGRIGRLVLPKKCAEA--YFPPISQPEGLPLKVQDS-KGKEWIFQFRFWPNNNSRMYVLEGVTPCIQNMQLQ 436 (653)
Q Consensus 360 ~KvLT~SDVgklgRLVIPK~~AEa--~FPpL~~~~G~~L~v~D~-~Gk~W~Frfs~w~Nn~SR~YVL~GWs~FVrsK~Lq 436 (653)
.-+.|..|+...|.+.|..+-.++ .+|. ..+.+.|. +|..|. .|.+..-..|+.--+.| .-++..+
T Consensus 12 ratVT~a~L~Y~GSitID~~Ll~aagi~p~------E~V~V~Nv~NG~Rf~-TYvI~g~~GSg~I~lNG----AAAr~~~ 80 (126)
T PRK05449 12 RATVTEADLNYEGSITIDEDLLDAAGILEN------EKVQIVNVNNGARFE-TYVIAGERGSGVICLNG----AAARLVQ 80 (126)
T ss_pred ceEEeccccccceeEEECHHHHHhcCCCCC------CEEEEEECCCCcEEE-EEEEEcCCCCCEEEeCC----HHHhcCC
Confidence 456888999988999999887765 3553 77888888 677665 34444222345555555 4577889
Q ss_pred CCCEEEEEE
Q 006267 437 AGDIVTFSR 445 (653)
Q Consensus 437 aGDtVvF~R 445 (653)
.||.|++.-
T Consensus 81 ~GD~vII~a 89 (126)
T PRK05449 81 VGDLVIIAA 89 (126)
T ss_pred CCCEEEEEE
Confidence 999998754
No 16
>PF13248 zf-ribbon_3: zinc-ribbon domain
Probab=26.15 E-value=31 Score=24.22 Aligned_cols=15 Identities=20% Similarity=0.662 Sum_probs=12.3
Q ss_pred CCCCccccccCCCce
Q 006267 77 NASGWRCCESCGKRV 91 (653)
Q Consensus 77 ~~sGWR~C~~C~Krl 91 (653)
.+.++|-|..||.+|
T Consensus 12 ~~~~~~fC~~CG~~L 26 (26)
T PF13248_consen 12 IDPDAKFCPNCGAKL 26 (26)
T ss_pred CCcccccChhhCCCC
Confidence 467899999999875
No 17
>COG2002 AbrB Regulators of stationary/sporulation gene expression [Transcription]
Probab=24.63 E-value=1e+02 Score=27.27 Aligned_cols=27 Identities=15% Similarity=0.357 Sum_probs=21.5
Q ss_pred hhhhccCCCCCCEEEEEEecCCCeEEE
Q 006267 428 PCIQNMQLQAGDIVTFSRLEPEGKLVM 454 (653)
Q Consensus 428 ~FVrsK~LqaGDtVvF~R~e~~GkL~I 454 (653)
...+..++++||.|.|+.....|++++
T Consensus 21 eiR~~lgi~~Gd~lei~~~~~~~~ivl 47 (89)
T COG2002 21 EIREALGIKEGDVLEIIVDGDGGRIVL 47 (89)
T ss_pred HHHHHhCCCCCCEEEEEEeCCCCEEEE
Confidence 456788999999999999876677443
No 18
>PF02261 Asp_decarbox: Aspartate decarboxylase; InterPro: IPR003190 Decarboxylation of aspartate is the major route of alanine production in bacteria, and is catalysed by the enzyme aspartate decarboxylase. The enzyme is translated as an inactive proenzyme of two chains, A and B. This family contains both chains of aspartate decarboxylase.; GO: 0004068 aspartate 1-decarboxylase activity, 0006523 alanine biosynthetic process; PDB: 1PYU_C 1AW8_A 1PYQ_B 3TM7_C 1PT1_A 1PQH_A 1PPY_B 1PT0_B 1PQF_A 1PQE_A ....
Probab=24.52 E-value=5.5e+02 Score=24.74 Aligned_cols=75 Identities=17% Similarity=0.266 Sum_probs=45.0
Q ss_pred EEEecccccCCCCCcEEeehhhhhh--cCCCCCCCCCceEEEEeC-CCCeEEEEEEEeCCCCCcceeccCchhhhhccCC
Q 006267 359 FEKMLSASDAGRIGRLVLPKKCAEA--YFPPISQPEGLPLKVQDS-KGKEWIFQFRFWPNNNSRMYVLEGVTPCIQNMQL 435 (653)
Q Consensus 359 F~KvLT~SDVgklgRLVIPK~~AEa--~FPpL~~~~G~~L~v~D~-~Gk~W~Frfs~w~Nn~SR~YVL~GWs~FVrsK~L 435 (653)
=.-+.|..|+...|.+.|..+-.++ .+|. -.+.+.+. +|..|.= |.+..-..|+.--|.| .-++..
T Consensus 11 HratVT~a~L~Y~GSitID~~Ll~aagi~p~------E~V~V~Nv~nG~Rf~T-YvI~g~~GSg~I~lNG----aAArl~ 79 (116)
T PF02261_consen 11 HRATVTEADLNYEGSITIDEDLLDAAGILPY------EQVQVVNVNNGERFET-YVIPGERGSGVICLNG----AAARLV 79 (116)
T ss_dssp EEEE--EEETTSTSCEEEEHHHHHHCT--TT------BEEEEEETTT--EEEE-EEEEESTTTT-EEEEG----GGGGCS
T ss_pred cceEEeccccccceeeEECHHHHHHcCCCcC------CEEEEEECCCCcEEEE-EEEEccCCCcEEEECC----HHHhcc
Confidence 3457899999999999999987665 4554 77888888 7876653 3333112244444444 457788
Q ss_pred CCCCEEEEE
Q 006267 436 QAGDIVTFS 444 (653)
Q Consensus 436 qaGDtVvF~ 444 (653)
++||.|+++
T Consensus 80 ~~GD~vII~ 88 (116)
T PF02261_consen 80 QVGDRVIIM 88 (116)
T ss_dssp -TT-EEEEE
T ss_pred CCCCEEEEE
Confidence 999988874
No 19
>PF09149 DUF1935: Domain of unknown function (DUF1935); InterPro: IPR015232 This entry represents a conserved region found in various bacterial and eukaryotic hypothetical proteins, as well as in the cysteine protease calpain. Its function has not, as yet, been defined. ; PDB: 1R75_A 2FE0_A.
Probab=23.89 E-value=84 Score=29.05 Aligned_cols=66 Identities=21% Similarity=0.387 Sum_probs=38.6
Q ss_pred CCCCCCCCCceEEEEeCCCCeEEEEEEEeCCCCCcceeccCchhhhhccCCCCCCEEEEEEecCCCeEEEEE
Q 006267 385 FPPISQPEGLPLKVQDSKGKEWIFQFRFWPNNNSRMYVLEGVTPCIQNMQLQAGDIVTFSRLEPEGKLVMGF 456 (653)
Q Consensus 385 FPpL~~~~G~~L~v~D~~Gk~W~Frfs~w~Nn~SR~YVL~GWs~FVrsK~LqaGDtVvF~R~e~~GkL~IGV 456 (653)
+|-++..+|+..++.|...+.|.|- |+++.|.+.=--.|-..-.+++.+.....+.+++|.+...+
T Consensus 13 ~~cF~~~~GlLfRiv~~~~~~WaFY------NDT~~y~m~V~v~F~~~S~v~~lg~t~~~~~~~~g~~~~~v 78 (104)
T PF09149_consen 13 YPCFKERNGLLFRIVDEKEGRWAFY------NDTKDYEMHVTVTFGPDSSVKPLGNTTVEREEEDGETVAEV 78 (104)
T ss_dssp EESSTTTT-SEEEEEETTTTEEEEE------E--SSEEEEEEEEEETT-EEEE-TT-EEEEE-TTSEEEEEE
T ss_pred EEeecCCCcEEEEEEECCCCEEEEE------eCCCcEEEEEEEEECCCCcEEECCCcEEEEecCCCcEEEEE
Confidence 3444444499999999888899873 77777777644555555556776655666445567655544
No 20
>COG1998 RPS31 Ribosomal protein S27AE [Translation, ribosomal structure and biogenesis]
Probab=22.65 E-value=42 Score=27.91 Aligned_cols=6 Identities=50% Similarity=1.104 Sum_probs=4.6
Q ss_pred Cceeec
Q 006267 89 KRVHCG 94 (653)
Q Consensus 89 KrlHCG 94 (653)
+|+|||
T Consensus 36 dR~~CG 41 (51)
T COG1998 36 DRWACG 41 (51)
T ss_pred ceeEec
Confidence 488887
No 21
>PF08922 DUF1905: Domain of unknown function (DUF1905); InterPro: IPR015018 This family consist of hypothetical bacterial proteins. ; PDB: 2D9R_A.
Probab=22.29 E-value=2.2e+02 Score=24.78 Aligned_cols=79 Identities=20% Similarity=0.294 Sum_probs=39.1
Q ss_pred EEEecccccCCCCCcEEeehhhhhhcCCCCCCCCCceEEEEeCCCCeEEEEEEEeCCCCCcceeccCchhhhhccCCCCC
Q 006267 359 FEKMLSASDAGRIGRLVLPKKCAEAYFPPISQPEGLPLKVQDSKGKEWIFQFRFWPNNNSRMYVLEGVTPCIQNMQLQAG 438 (653)
Q Consensus 359 F~KvLT~SDVgklgRLVIPK~~AEa~FPpL~~~~G~~L~v~D~~Gk~W~Frfs~w~Nn~SR~YVL~GWs~FVrsK~LqaG 438 (653)
|+-+|-+.+-+. --+.||.+-++.+-.. +...+.+.++ ..|..|+= +..| .....|+|-==.+..++-++.+|
T Consensus 1 F~a~l~~~~~~~-~fv~vP~~v~~~l~~~--~~g~v~V~~t-I~g~~~~~--sl~p-~g~G~~~Lpv~~~vRk~~g~~~G 73 (80)
T PF08922_consen 1 FTATLWKGEGGW-TFVEVPFDVAEELGEG--GWGRVPVRGT-IDGHPWRT--SLFP-MGNGGYILPVKAAVRKAIGKEAG 73 (80)
T ss_dssp EEEE-EE-TTS--EEEE--S-HHHHH--S----S-EEEEEE-ETTEEEEE--EEEE-SSTT-EEEEE-HHHHHHHT--TT
T ss_pred CeEEEEecCCce-EEEEeCHHHHHHhccc--cCCceEEEEE-ECCEEEEE--EEEE-CCCCCEEEEEcHHHHHHcCCCCC
Confidence 445555544432 3467998877764433 2234555555 46655555 5554 23345666433577889999999
Q ss_pred CEEEEE
Q 006267 439 DIVTFS 444 (653)
Q Consensus 439 DtVvF~ 444 (653)
|+|.+.
T Consensus 74 d~V~v~ 79 (80)
T PF08922_consen 74 DTVEVT 79 (80)
T ss_dssp SEEEEE
T ss_pred CEEEEE
Confidence 999874
No 22
>PF03120 DNA_ligase_OB: NAD-dependent DNA ligase OB-fold domain; InterPro: IPR004150 DNA ligases catalyse the crucial step of joining the breaks in duplex DNA during DNA replication, repair and recombination, utilizing either ATP or NAD(+) as a cofactor []. This family is a small domain found after the adenylation domain DNA_ligase_N in NAD+-dependent ligases (IPR001679 from INTERPRO). OB-fold domains generally are involved in nucleic acid binding.; GO: 0003911 DNA ligase (NAD+) activity, 0006260 DNA replication, 0006281 DNA repair; PDB: 2OWO_A 1TAE_A 3UQ8_A 1DGS_A 1V9P_B 3SGI_A.
Probab=20.89 E-value=71 Score=28.61 Aligned_cols=31 Identities=23% Similarity=0.398 Sum_probs=20.5
Q ss_pred hhhhhccCCCCCCEEEEEEecCCC-eEEEEEEe
Q 006267 427 TPCIQNMQLQAGDIVTFSRLEPEG-KLVMGFRK 458 (653)
Q Consensus 427 s~FVrsK~LqaGDtVvF~R~e~~G-kL~IGVRR 458 (653)
.+|+++++|..||.|.++|.. +. -.++++-.
T Consensus 42 ~~~i~~~~i~~Gd~V~V~raG-dVIP~I~~vv~ 73 (82)
T PF03120_consen 42 YDYIKELDIRIGDTVLVTRAG-DVIPKIVGVVK 73 (82)
T ss_dssp HHHHHHTT-BBT-EEEEEEET-TTEEEEEEE-G
T ss_pred HHHHHHcCCCCCCEEEEEECC-CccceEeEeeh
Confidence 689999999999999999952 22 24445444
No 23
>PRK03760 hypothetical protein; Provisional
Probab=20.22 E-value=1.7e+02 Score=27.38 Aligned_cols=49 Identities=18% Similarity=0.430 Sum_probs=30.0
Q ss_pred CCCceEEEEeCCCCeEEEEEEEeCCCCCcceeccCchhhhhccCCCCCCEEEEEE
Q 006267 391 PEGLPLKVQDSKGKEWIFQFRFWPNNNSRMYVLEGVTPCIQNMQLQAGDIVTFSR 445 (653)
Q Consensus 391 ~~G~~L~v~D~~Gk~W~Frfs~w~Nn~SR~YVL~GWs~FVrsK~LqaGDtVvF~R 445 (653)
.+|..+.+.+ -+.|+. +.+.. .-.|+|+==..++.+.++++||.|.|.+
T Consensus 68 ~~g~Vv~i~~--~~P~~~---~~~~~-~a~~VLEl~aG~~~~~gi~~Gd~v~~~~ 116 (117)
T PRK03760 68 SNRRVVDFKT--LKPWRI---YVPKK-PARYIIEGPVGKIRVLKVEVGDEIEWID 116 (117)
T ss_pred CCCeEEEEEe--CCCccc---cCCCc-cceEEEEeCCChHHHcCCCCCCEEEEee
Confidence 3444444443 256652 22222 3348987444557899999999999876
No 24
>PF09297 zf-NADH-PPase: NADH pyrophosphatase zinc ribbon domain; InterPro: IPR015376 This domain has a zinc ribbon structure and is often found between two NUDIX domains.; GO: 0016787 hydrolase activity, 0046872 metal ion binding; PDB: 1VK6_A 2GB5_A.
Probab=20.13 E-value=54 Score=23.83 Aligned_cols=25 Identities=32% Similarity=0.800 Sum_probs=13.5
Q ss_pred hh-hccccccccccccccccCCCCc-cccccCCCce
Q 006267 58 LC-VYRSIYEEGRFCDTFHVNASGW-RCCESCGKRV 91 (653)
Q Consensus 58 lc-~c~sayE~~~fCe~FH~~~sGW-R~C~~C~Krl 91 (653)
.| +||+.-+ ..+.|| |-|.+||...
T Consensus 5 fC~~CG~~t~---------~~~~g~~r~C~~Cg~~~ 31 (32)
T PF09297_consen 5 FCGRCGAPTK---------PAPGGWARRCPSCGHEH 31 (32)
T ss_dssp B-TTT--BEE---------E-SSSS-EEESSSS-EE
T ss_pred ccCcCCcccc---------CCCCcCEeECCCCcCEe
Confidence 47 7777643 345677 6799998753
Done!