Query 008273
Match_columns 571
No_of_seqs 144 out of 408
Neff 3.5
Searched_HMMs 46136
Date Thu Mar 28 21:42:55 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/008273.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/008273hhsearch_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 1.9E-16 4.1E-21 132.7 10.5 97 359-459 1-99 (100)
2 PF03754 DUF313: Domain of unk 98.1 6.4E-06 1.4E-10 74.8 6.5 80 353-432 18-114 (114)
3 PF09217 EcoRII-N: Restriction 97.6 0.00017 3.6E-09 68.9 7.4 89 356-444 7-110 (156)
4 PF10844 DUF2577: Protein of u 68.6 22 0.00047 31.6 7.0 84 350-455 12-97 (100)
5 smart00249 PHD PHD zinc finger 68.4 2.7 5.8E-05 30.0 1.1 25 77-101 10-34 (47)
6 PF04014 Antitoxin-MazE: Antid 59.9 14 0.00031 28.2 3.7 31 427-458 13-43 (47)
7 KOG4718 Non-SMC (structural ma 35.3 15 0.00032 37.8 0.5 18 82-99 195-212 (235)
8 PF13248 zf-ribbon_3: zinc-rib 33.7 20 0.00043 24.8 0.8 15 77-91 12-26 (26)
9 TIGR01439 lp_hng_hel_AbrB loop 32.1 78 0.0017 22.9 3.8 28 427-455 13-40 (43)
10 cd06919 Asp_decarbox Aspartate 30.1 2.8E+02 0.0061 26.0 7.7 76 359-445 10-88 (111)
11 TIGR00223 panD L-aspartate-alp 30.0 2.7E+02 0.0059 26.7 7.8 76 359-445 11-89 (126)
12 PRK05449 aspartate alpha-decar 28.5 3E+02 0.0064 26.4 7.7 76 359-445 11-89 (126)
13 PF02643 DUF192: Uncharacteriz 28.1 1.1E+02 0.0025 27.3 4.8 51 394-444 50-107 (108)
14 COG1998 RPS31 Ribosomal protei 26.7 28 0.00062 28.5 0.7 6 89-94 36-41 (51)
15 TIGR01643 YD_repeat_2x YD repe 26.1 96 0.0021 22.5 3.3 21 392-412 4-24 (42)
16 COG2947 Uncharacterized conser 25.8 75 0.0016 31.2 3.4 108 427-549 36-147 (156)
17 TIGR00375 conserved hypothetic 25.6 30 0.00065 37.7 0.8 43 54-106 238-281 (374)
18 PF03120 DNA_ligase_OB: NAD-de 25.4 52 0.0011 29.0 2.1 32 427-459 42-74 (82)
19 COG2002 AbrB Regulators of sta 25.0 1E+02 0.0022 26.7 3.8 31 428-460 21-51 (89)
20 PF09149 DUF1935: Domain of un 25.0 80 0.0017 28.7 3.3 68 385-458 13-80 (104)
21 PF09297 zf-NADH-PPase: NADH p 23.0 39 0.00085 24.1 0.8 24 58-90 5-30 (32)
22 PF12760 Zn_Tnp_IS1595: Transp 22.4 48 0.001 25.5 1.2 26 58-90 20-46 (46)
23 PRK09838 periplasmic copper-bi 21.6 1.4E+02 0.0031 27.6 4.3 27 432-458 86-113 (115)
24 PF08922 DUF1905: Domain of un 21.6 2.1E+02 0.0045 24.5 5.0 79 359-444 1-79 (80)
25 PF06051 DUF928: Domain of Unk 21.5 1.3E+02 0.0027 29.7 4.2 77 335-430 41-119 (189)
26 PF05593 RHS_repeat: RHS Repea 21.5 1.4E+02 0.0031 21.9 3.5 22 391-412 3-24 (38)
27 COG5569 Uncharacterized conser 21.4 85 0.0019 29.1 2.7 27 429-455 78-104 (108)
28 PRK00085 recO DNA repair prote 20.3 33 0.00072 33.7 -0.1 34 76-116 140-177 (247)
29 cd02775 MopB_CT Molybdopterin- 20.1 2.1E+02 0.0045 23.7 4.6 32 428-461 30-61 (101)
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=99.68 E-value=1.9e-16 Score=132.73 Aligned_cols=97 Identities=24% Similarity=0.412 Sum_probs=69.7
Q ss_pred EEEecccccCCCCCcEEeehhhhcccCCCCCCCCCceEEEEeCCCCeEEEEEEEcCCCCCcceec-cCchhhhhccCCCC
Q 008273 359 FEKMLSASDAGRIGRLVLPKKCAEAYFPPISQPEGLPLKVQDSKGKEWIFQFRFWPNNNSRMYVL-EGVTPCIQNMQLQA 437 (571)
Q Consensus 359 F~KvLT~SDVgklgRLVIPK~~AEa~FP~L~~~eG~~L~V~D~~GK~W~FRfr~wpNn~SR~YVL-~GWs~FVRsK~Lqa 437 (571)
|.|+|+++|+.+.++|+||++.++.+. +....++.+.++|..|+.|.+++.++. .++.|+| .||.+||++++|++
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--GNKRKSREVTLKDPDGRSWPVKLKYRK--NSGRYYLTGGWKKFVRDNGLKE 76 (100)
T ss_dssp EEEE--TTCCCCTT-EEE-HHHHTTTS----SS--CEEEEEETTTEEEEEEEEEEC--CTTEEEEETTHHHHHHHCT--T
T ss_pred CEEEEEccCcCCCCEEEeCHHHHHHhC--CCcCCCeEEEEEeCCCCEEEEEEEEEc--cCCeEEECCCHHHHHHHcCCCC
Confidence 899999999998889999999999982 112357899999999999999999873 3333556 59999999999999
Q ss_pred CCEEEEEEec-CCCeEEEEEEeC
Q 008273 438 GDIVTFSRLE-PEGKLVMGFRKA 459 (571)
Q Consensus 438 GDtVvF~R~e-p~GkL~IGvRRa 459 (571)
||.|+|+... ...++.|.+.|+
T Consensus 77 GD~~~F~~~~~~~~~~~v~i~~~ 99 (100)
T PF02362_consen 77 GDVCVFELIGNSNFTLKVHIFRK 99 (100)
T ss_dssp T-EEEEEE-SSSCE-EEEEEE--
T ss_pred CCEEEEEEecCCCceEEEEEEEC
Confidence 9999999975 334679998886
No 2
>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=98.10 E-value=6.4e-06 Score=74.76 Aligned_cols=80 Identities=21% Similarity=0.427 Sum_probs=63.9
Q ss_pred CcccceEEEecccccCCC-CCcEEeehhhhcc--cCCC-----C-------CCCCCceEEEEeCCCCeEEEEEEEcCC-C
Q 008273 353 SVITPLFEKMLSASDAGR-IGRLVLPKKCAEA--YFPP-----I-------SQPEGLPLKVQDSKGKEWIFQFRFWPN-N 416 (571)
Q Consensus 353 s~~~~LF~KvLT~SDVgk-lgRLVIPK~~AEa--~FP~-----L-------~~~eG~~L~V~D~~GK~W~FRfr~wpN-n 416 (571)
.....+++|+|++|||.. .+||.||-..... +|=+ | ....|+.+.+.|..++.|..+++.|.- +
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 7999999876533 3321 2 235789999999999999999999964 4
Q ss_pred CCcceecc-Cchhhhhc
Q 008273 417 NSRMYVLE-GVTPCIQN 432 (571)
Q Consensus 417 ~SR~YVL~-GWs~FVRs 432 (571)
.+-.|+|. ||.+.|++
T Consensus 98 ~~~~YvL~~gWn~VV~~ 114 (114)
T PF03754_consen 98 GTSNYVLNSGWNKVVED 114 (114)
T ss_pred CceEEEEEcChHhhccC
Confidence 56689995 99998863
No 3
>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=97.61 E-value=0.00017 Score=68.91 Aligned_cols=89 Identities=21% Similarity=0.347 Sum_probs=57.4
Q ss_pred cceEEEecccccCCCC----CcEEeehhhhcccCCCCCC----CCCceEEEEeCCC--CeEEEEEEEcCC----CCCcce
Q 008273 356 TPLFEKMLSASDAGRI----GRLVLPKKCAEAYFPPISQ----PEGLPLKVQDSKG--KEWIFQFRFWPN----NNSRMY 421 (571)
Q Consensus 356 ~~LF~KvLT~SDVgkl----gRLVIPK~~AEa~FP~L~~----~eG~~L~V~D~~G--K~W~FRfr~wpN----n~SR~Y 421 (571)
...|.|.||+.|++.. .++.|||..++.+||.+.. .+.+.|.+++..+ ..|+||++|+.| ..+..|
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 4689999999999963 5899999988999988654 3458899999877 679999999943 246679
Q ss_pred eccCchhhhhccC-CCCCCEEEEE
Q 008273 422 VLEGVTPCIQNMQ-LQAGDIVTFS 444 (571)
Q Consensus 422 VL~GWs~FVRsK~-LqaGDtVvF~ 444 (571)
-++.|+....--+ =.+||.++|-
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 9999986665333 3689988776
No 4
>PF10844 DUF2577: Protein of unknown function (DUF2577); InterPro: IPR022555 This family of proteins has no known function
Probab=68.60 E-value=22 Score=31.58 Aligned_cols=84 Identities=13% Similarity=0.184 Sum_probs=48.0
Q ss_pred CCCCcccceEEEecccccCC--CCCcEEeehhhhcccCCCCCCCCCceEEEEeCCCCeEEEEEEEcCCCCCcceeccCch
Q 008273 350 DSNSVITPLFEKMLSASDAG--RIGRLVLPKKCAEAYFPPISQPEGLPLKVQDSKGKEWIFQFRFWPNNNSRMYVLEGVT 427 (571)
Q Consensus 350 d~ns~~~~LF~KvLT~SDVg--klgRLVIPK~~AEa~FP~L~~~eG~~L~V~D~~GK~W~FRfr~wpNn~SR~YVL~GWs 427 (571)
+.+......|-++++.+-+. -.++++|+++. -++|..-......+.+....+. ...
T Consensus 12 ~~~~p~~i~~G~V~s~~PL~I~i~~~liL~~~~--L~i~~~l~~~~~~~~~~~~~~~------------~~~-------- 69 (100)
T PF10844_consen 12 EASNPVDIVIGTVVSVPPLKIKIDQKLILDKDF--LIIPELLKDYTRDITIEHNSET------------DNI-------- 69 (100)
T ss_pred hcCCCceeEEEEEEecccEEEEECCeEEEchHH--EEeehhccceEEEEEEeccccc------------cce--------
Confidence 33344445899999999744 23569999862 3455421222233333322110 000
Q ss_pred hhhhccCCCCCCEEEEEEecCCCeEEEE
Q 008273 428 PCIQNMQLQAGDIVTFSRLEPEGKLVMG 455 (571)
Q Consensus 428 ~FVRsK~LqaGDtVvF~R~ep~GkL~IG 455 (571)
.|.-...|++||.|...+.+.+.+|+|-
T Consensus 70 ~i~~~~~Lk~GD~V~ll~~~~gQ~yiVl 97 (100)
T PF10844_consen 70 TITFTDGLKVGDKVLLLRVQGGQKYIVL 97 (100)
T ss_pred eEEEecCCcCCCEEEEEEecCCCEEEEE
Confidence 0556678999999999997533366654
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 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=59.91 E-value=14 Score=28.22 Aligned_cols=31 Identities=26% Similarity=0.329 Sum_probs=24.3
Q ss_pred hhhhhccCCCCCCEEEEEEecCCCeEEEEEEe
Q 008273 427 TPCIQNMQLQAGDIVTFSRLEPEGKLVMGFRK 458 (571)
Q Consensus 427 s~FVRsK~LqaGDtVvF~R~ep~GkL~IGvRR 458 (571)
.++.+..+|++||.|.|.-. .+|++.|.-.+
T Consensus 13 k~~~~~l~l~~Gd~v~i~~~-~~g~i~i~p~~ 43 (47)
T PF04014_consen 13 KEIREKLGLKPGDEVEIEVE-GDGKIVIRPVK 43 (47)
T ss_dssp HHHHHHTTSSTTTEEEEEEE-TTSEEEEEEST
T ss_pred HHHHHHcCCCCCCEEEEEEe-CCCEEEEEECC
Confidence 36788889999999999986 46677775443
No 7
>KOG4718 consensus Non-SMC (structural maintenance of chromosomes) element 1 protein (NSE1) [Chromatin structure and dynamics]
Probab=35.26 E-value=15 Score=37.76 Aligned_cols=18 Identities=39% Similarity=0.829 Sum_probs=15.4
Q ss_pred cccccCCCccccchhhhh
Q 008273 82 RCCESCGKRVHCGCITSV 99 (571)
Q Consensus 82 R~C~~C~KrlHCGCIaS~ 99 (571)
+.|.+||-|.|||||.--
T Consensus 195 ~rCg~c~i~~h~~c~qty 212 (235)
T KOG4718|consen 195 IRCGSCNIQYHRGCIQTY 212 (235)
T ss_pred eccCcccchhhhHHHHHH
Confidence 468899999999999753
No 8
>PF13248 zf-ribbon_3: zinc-ribbon domain
Probab=33.67 E-value=20 Score=24.76 Aligned_cols=15 Identities=20% Similarity=0.662 Sum_probs=12.4
Q ss_pred CCCCccccccCCCcc
Q 008273 77 NASGWRCCESCGKRV 91 (571)
Q Consensus 77 ~~sGWR~C~~C~Krl 91 (571)
.+.++|-|..||.+|
T Consensus 12 ~~~~~~fC~~CG~~L 26 (26)
T PF13248_consen 12 IDPDAKFCPNCGAKL 26 (26)
T ss_pred CCcccccChhhCCCC
Confidence 467899999999875
No 9
>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=32.11 E-value=78 Score=22.93 Aligned_cols=28 Identities=18% Similarity=0.465 Sum_probs=22.7
Q ss_pred hhhhhccCCCCCCEEEEEEecCCCeEEEE
Q 008273 427 TPCIQNMQLQAGDIVTFSRLEPEGKLVMG 455 (571)
Q Consensus 427 s~FVRsK~LqaGDtVvF~R~ep~GkL~IG 455 (571)
.+|.+..++..||.|.+... .+|.+.|.
T Consensus 13 ~~~r~~l~~~~gd~~~i~~~-~~~~l~l~ 40 (43)
T TIGR01439 13 KEIREKLGLKEGDRLEVIRV-EDGEIILR 40 (43)
T ss_pred HHHHHHcCcCCCCEEEEEEe-CCCEEEEE
Confidence 47899999999999999976 36766653
No 10
>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=30.11 E-value=2.8e+02 Score=26.03 Aligned_cols=76 Identities=18% Similarity=0.218 Sum_probs=52.7
Q ss_pred EEEecccccCCCCCcEEeehhhhcc--cCCCCCCCCCceEEEEeC-CCCeEEEEEEEcCCCCCcceeccCchhhhhccCC
Q 008273 359 FEKMLSASDAGRIGRLVLPKKCAEA--YFPPISQPEGLPLKVQDS-KGKEWIFQFRFWPNNNSRMYVLEGVTPCIQNMQL 435 (571)
Q Consensus 359 F~KvLT~SDVgklgRLVIPK~~AEa--~FP~L~~~eG~~L~V~D~-~GK~W~FRfr~wpNn~SR~YVL~GWs~FVRsK~L 435 (571)
=.-+.|..|+..-|.+.|..+-.++ .+| +..+.+.|. +|.+|. .|.+..-..|+..-+.| .-++..
T Consensus 10 HratVT~a~L~YeGSitID~~Ll~aagi~~------~E~V~I~Nv~NG~Rf~-TYvI~g~~gSg~I~lNG----AAAr~~ 78 (111)
T cd06919 10 HRATVTEADLNYEGSITIDEDLLEAAGILP------YEKVLVVNVNNGARFE-TYVIPGERGSGVICLNG----AAARLG 78 (111)
T ss_pred cceEEeccccccceeEEECHHHHHhcCCCC------CCEEEEEECCCCcEEE-EEEEEcCCCCCEEEeCC----HHHhcC
Confidence 3457889999999999999886554 456 578889998 787665 33443222345544544 456788
Q ss_pred CCCCEEEEEE
Q 008273 436 QAGDIVTFSR 445 (571)
Q Consensus 436 qaGDtVvF~R 445 (571)
+.||.|+++-
T Consensus 79 ~~GD~vII~s 88 (111)
T cd06919 79 QPGDRVIIMA 88 (111)
T ss_pred CCCCEEEEEE
Confidence 9999998753
No 11
>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=30.03 E-value=2.7e+02 Score=26.66 Aligned_cols=76 Identities=14% Similarity=0.297 Sum_probs=52.8
Q ss_pred EEEecccccCCCCCcEEeehhhhcc--cCCCCCCCCCceEEEEeC-CCCeEEEEEEEcCCCCCcceeccCchhhhhccCC
Q 008273 359 FEKMLSASDAGRIGRLVLPKKCAEA--YFPPISQPEGLPLKVQDS-KGKEWIFQFRFWPNNNSRMYVLEGVTPCIQNMQL 435 (571)
Q Consensus 359 F~KvLT~SDVgklgRLVIPK~~AEa--~FP~L~~~eG~~L~V~D~-~GK~W~FRfr~wpNn~SR~YVL~GWs~FVRsK~L 435 (571)
=.-+.|..|+..-|.+.|..+-.++ .+| +-.+.+.|. +|.+|. .|.+.....|+..-+.| .-++..
T Consensus 11 HratVT~a~L~Y~GSItID~~Lm~aagi~p------~E~V~V~Nv~NG~Rf~-TYvI~G~~GSg~I~lNG----AAArl~ 79 (126)
T TIGR00223 11 HRATVTHANLNYEGSITIDEDLLDAAGILE------NEKVDIVNVNNGKRFS-TYAIAGKRGSRIICVNG----AAARCV 79 (126)
T ss_pred cceEEeccccccceeEEECHHHHHhcCCCC------CCEEEEEECCCCcEEE-EEEEEcCCCCCEEEeCC----HHHhcC
Confidence 3457889999989999999876554 466 578888998 787665 33443222344444444 456788
Q ss_pred CCCCEEEEEE
Q 008273 436 QAGDIVTFSR 445 (571)
Q Consensus 436 qaGDtVvF~R 445 (571)
++||.|+++-
T Consensus 80 ~~GD~VII~s 89 (126)
T TIGR00223 80 SVGDIVIIAS 89 (126)
T ss_pred CCCCEEEEEE
Confidence 9999998763
No 12
>PRK05449 aspartate alpha-decarboxylase; Provisional
Probab=28.51 E-value=3e+02 Score=26.38 Aligned_cols=76 Identities=14% Similarity=0.279 Sum_probs=52.5
Q ss_pred EEEecccccCCCCCcEEeehhhhcc--cCCCCCCCCCceEEEEeC-CCCeEEEEEEEcCCCCCcceeccCchhhhhccCC
Q 008273 359 FEKMLSASDAGRIGRLVLPKKCAEA--YFPPISQPEGLPLKVQDS-KGKEWIFQFRFWPNNNSRMYVLEGVTPCIQNMQL 435 (571)
Q Consensus 359 F~KvLT~SDVgklgRLVIPK~~AEa--~FP~L~~~eG~~L~V~D~-~GK~W~FRfr~wpNn~SR~YVL~GWs~FVRsK~L 435 (571)
=.-+.|..|+..-|.+.|..+-.++ .+| ...+.+.|. +|.+|. .|.+..-..|+..-+.| .-++..
T Consensus 11 HratVT~a~L~Y~GSitID~~Ll~aagi~p------~E~V~V~Nv~NG~Rf~-TYvI~g~~GSg~I~lNG----AAAr~~ 79 (126)
T PRK05449 11 HRATVTEADLNYEGSITIDEDLLDAAGILE------NEKVQIVNVNNGARFE-TYVIAGERGSGVICLNG----AAARLV 79 (126)
T ss_pred cceEEeccccccceeEEECHHHHHhcCCCC------CCEEEEEECCCCcEEE-EEEEEcCCCCCEEEeCC----HHHhcC
Confidence 3457889999999999999986554 466 578888998 787665 33443212344444444 456788
Q ss_pred CCCCEEEEEE
Q 008273 436 QAGDIVTFSR 445 (571)
Q Consensus 436 qaGDtVvF~R 445 (571)
+.||.|+++-
T Consensus 80 ~~GD~vII~a 89 (126)
T PRK05449 80 QVGDLVIIAA 89 (126)
T ss_pred CCCCEEEEEE
Confidence 9999988753
No 13
>PF02643 DUF192: Uncharacterized ACR, COG1430; InterPro: IPR003795 This entry describes proteins of unknown function.; PDB: 3M7A_B 3PJY_B.
Probab=28.10 E-value=1.1e+02 Score=27.26 Aligned_cols=51 Identities=24% Similarity=0.289 Sum_probs=28.2
Q ss_pred ceEEEEeCCCCeEEEEEEEcCCC-------CCcceeccCchhhhhccCCCCCCEEEEE
Q 008273 394 LPLKVQDSKGKEWIFQFRFWPNN-------NSRMYVLEGVTPCIQNMQLQAGDIVTFS 444 (571)
Q Consensus 394 ~~L~V~D~~GK~W~FRfr~wpNn-------~SR~YVL~GWs~FVRsK~LqaGDtVvF~ 444 (571)
+.|.+.|..|+.=....-..|.. ..-.|+|+-=..++.+.++++||.|.|-
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 56666777776555444332211 2236888855567889999999999873
No 14
>COG1998 RPS31 Ribosomal protein S27AE [Translation, ribosomal structure and biogenesis]
Probab=26.74 E-value=28 Score=28.46 Aligned_cols=6 Identities=50% Similarity=1.104 Sum_probs=4.4
Q ss_pred Cccccc
Q 008273 89 KRVHCG 94 (571)
Q Consensus 89 KrlHCG 94 (571)
+|+|||
T Consensus 36 dR~~CG 41 (51)
T COG1998 36 DRWACG 41 (51)
T ss_pred ceeEec
Confidence 488887
No 15
>TIGR01643 YD_repeat_2x YD repeat (two copies). This model describes two tandem copies of a 21-residue extracellular repeat found in Gram-negative, Gram-positive, and animal proteins. The repeat is named for a YD dipeptide, the most strongly conserved motif of the repeat. These repeats appear in general to be involved in binding carbohydrate; the chicken teneurin-1 YD-repeat region has been shown to bind heparin.
Probab=26.09 E-value=96 Score=22.47 Aligned_cols=21 Identities=14% Similarity=0.213 Sum_probs=17.9
Q ss_pred CCceEEEEeCCCCeEEEEEEE
Q 008273 392 EGLPLKVQDSKGKEWIFQFRF 412 (571)
Q Consensus 392 eG~~L~V~D~~GK~W~FRfr~ 412 (571)
.|..+.+.|..|..|+|.|--
T Consensus 4 ~g~l~~~~~p~G~~~~~~YD~ 24 (42)
T TIGR01643 4 AGRLTGSTDADGTTTRYTYDA 24 (42)
T ss_pred CCCEEEEECCCCCEEEEEECC
Confidence 578889999999999998754
No 16
>COG2947 Uncharacterized conserved protein [Function unknown]
Probab=25.82 E-value=75 Score=31.15 Aligned_cols=108 Identities=16% Similarity=0.194 Sum_probs=52.6
Q ss_pred hhhhhccCCCCCCEEEEEEecCCCeEEEEEEeCC--CCCCcchhhhccccCCCCCCCCCCCCCCCCCccccccccchhcc
Q 008273 427 TPCIQNMQLQAGDIVTFSRLEPEGKLVMGFRKAS--SASASDQDNEANKAGTGIPANGHAELADPSSWSKVDKSGYIATE 504 (571)
Q Consensus 427 s~FVRsK~LqaGDtVvF~R~ep~GkL~IGvRRa~--~~~~s~q~~~~~~~~~g~~~~~~~~~~~~~~~~k~~~~~~~~~~ 504 (571)
.+|+|+ .+.||.+.||-..-.+-=++|+-+-. ..+.+.|..... ..-.-.+-.++--|.-||-.-.+.-.
T Consensus 36 RNfmR~--M~iGD~~fFYHSNc~~pgIvGl~~V~~~a~pD~tq~d~~s------pYyDPka~~e~pRW~~Vdv~~v~~~~ 107 (156)
T COG2947 36 RNFMRD--MKIGDLGFFYHSNCKPPGIVGLAEVCALAHPDPTQFDPAS------PYYDPKATPEDPRWYCVDVRFVRKLP 107 (156)
T ss_pred HHHHHh--cccCceEEEEecCCCCCCceehhhhhhccCCCccccCCCC------cccCcccccCCCCeeEEeeHHHhhcC
Confidence 478888 78999999998753443344544432 333333322211 11222333445567776654333322
Q ss_pred ccCCCccccccccccccC--CccceeeecchhhhhhhhcHHHHhccc
Q 008273 505 ALGAKSSISRKRKNTTLG--SKSKRLKIENEDVIELKLTWEEAQGLL 549 (571)
Q Consensus 505 ~~~~~~~~~~kk~~~~iG--~k~krl~~~~~d~~eLKlTweeaq~ll 549 (571)
-+..-.-+....+.-.++ .|+-||.|-. +|=||+|.+|
T Consensus 108 ~~vtL~~lK~~~~~~~~~~l~~g~RLSV~P-------Vt~~ew~~i~ 147 (156)
T COG2947 108 RPVTLKELKANPELAEMSLLVKGNRLSVQP-------VTPEEWKEIL 147 (156)
T ss_pred CCccHHHHhcCcchhhhhhhhccCeeeeee-------CCHHHHHHHH
Confidence 221111121223333333 4777888744 4445555444
No 17
>TIGR00375 conserved hypothetical protein TIGR00375. The member of this family from Methanococcus jannaschii, MJ0043, is considerably longer and appears to contain an intein N-terminal to the region of homology.
Probab=25.59 E-value=30 Score=37.75 Aligned_cols=43 Identities=23% Similarity=0.339 Sum_probs=28.7
Q ss_pred HHHHhh-ccccccccccccccccCCCCCccccccCCCccccchhhhhhhhhhhh
Q 008273 54 LTLILC-VYRSIYEEGRFCDTFHVNASGWRCCESCGKRVHCGCITSVHAFTLLD 106 (571)
Q Consensus 54 ~~a~LC-~CgsayE~~~FCd~FH~~~sGWR~C~~C~KrlHCGCIaS~~~~~lLD 106 (571)
|+-+-| +|+.-|+.. + ..+-||+ |. |||+|-=| |.--..+|=|
T Consensus 238 Yh~~~c~~C~~~~~~~---~---~~~~~~~-Cp-CG~~i~~G--V~~Rv~eLad 281 (374)
T TIGR00375 238 YHQTACEACGEPAVSE---D---AETACAN-CP-CGGRIKKG--VSDRLRELSD 281 (374)
T ss_pred cchhhhcccCCcCCch---h---hhhcCCC-CC-CCCcceec--hHHHHHHHhc
Confidence 678889 998877643 1 1233788 88 99998766 4444555656
No 18
>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=25.40 E-value=52 Score=28.97 Aligned_cols=32 Identities=22% Similarity=0.377 Sum_probs=21.8
Q ss_pred hhhhhccCCCCCCEEEEEEecCCC-eEEEEEEeC
Q 008273 427 TPCIQNMQLQAGDIVTFSRLEPEG-KLVMGFRKA 459 (571)
Q Consensus 427 s~FVRsK~LqaGDtVvF~R~ep~G-kL~IGvRRa 459 (571)
.+|+++++|..||.|.++|. .+. -.++++-+.
T Consensus 42 ~~~i~~~~i~~Gd~V~V~ra-GdVIP~I~~vv~~ 74 (82)
T PF03120_consen 42 YDYIKELDIRIGDTVLVTRA-GDVIPKIVGVVKE 74 (82)
T ss_dssp HHHHHHTT-BBT-EEEEEEE-TTTEEEEEEE-GG
T ss_pred HHHHHHcCCCCCCEEEEEEC-CCccceEeEeehh
Confidence 58999999999999999995 344 355555443
No 19
>COG2002 AbrB Regulators of stationary/sporulation gene expression [Transcription]
Probab=24.99 E-value=1e+02 Score=26.75 Aligned_cols=31 Identities=13% Similarity=0.268 Sum_probs=23.1
Q ss_pred hhhhccCCCCCCEEEEEEecCCCeEEEEEEeCC
Q 008273 428 PCIQNMQLQAGDIVTFSRLEPEGKLVMGFRKAS 460 (571)
Q Consensus 428 ~FVRsK~LqaGDtVvF~R~ep~GkL~IGvRRa~ 460 (571)
+.-+..++++||.|.|+.....|+ |-.+|..
T Consensus 21 eiR~~lgi~~Gd~lei~~~~~~~~--ivl~k~~ 51 (89)
T COG2002 21 EIREALGIKEGDVLEIIVDGDGGR--IVLKKYK 51 (89)
T ss_pred HHHHHhCCCCCCEEEEEEeCCCCE--EEEEECC
Confidence 556788999999999999865576 4445543
No 20
>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=24.99 E-value=80 Score=28.67 Aligned_cols=68 Identities=21% Similarity=0.358 Sum_probs=39.9
Q ss_pred CCCCCCCCCceEEEEeCCCCeEEEEEEEcCCCCCcceeccCchhhhhccCCCCCCEEEEEEecCCCeEEEEEEe
Q 008273 385 FPPISQPEGLPLKVQDSKGKEWIFQFRFWPNNNSRMYVLEGVTPCIQNMQLQAGDIVTFSRLEPEGKLVMGFRK 458 (571)
Q Consensus 385 FP~L~~~eG~~L~V~D~~GK~W~FRfr~wpNn~SR~YVL~GWs~FVRsK~LqaGDtVvF~R~ep~GkL~IGvRR 458 (571)
.|-++..+|+..++.|...+.|.|- |+++.|.+.=--.|-..-.+++.+.....+..++|.+.+.+--
T Consensus 13 ~~cF~~~~GlLfRiv~~~~~~WaFY------NDT~~y~m~V~v~F~~~S~v~~lg~t~~~~~~~~g~~~~~v~V 80 (104)
T PF09149_consen 13 YPCFKERNGLLFRIVDEKEGRWAFY------NDTKDYEMHVTVTFGPDSSVKPLGNTTVEREEEDGETVAEVVV 80 (104)
T ss_dssp EESSTTTT-SEEEEEETTTTEEEEE------E--SSEEEEEEEEEETT-EEEE-TT-EEEEE-TTSEEEEEEEE
T ss_pred EEeecCCCcEEEEEEECCCCEEEEE------eCCCcEEEEEEEEECCCCcEEECCCcEEEEecCCCcEEEEEEE
Confidence 3334344499999999888899873 6777777654445555555677766666644567766655543
No 21
>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=23.01 E-value=39 Score=24.14 Aligned_cols=24 Identities=33% Similarity=0.861 Sum_probs=12.8
Q ss_pred hh-ccccccccccccccccCCCCCc-cccccCCCc
Q 008273 58 LC-VYRSIYEEGRFCDTFHVNASGW-RCCESCGKR 90 (571)
Q Consensus 58 LC-~CgsayE~~~FCd~FH~~~sGW-R~C~~C~Kr 90 (571)
-| +||+.-+ ..+.|| |-|..||..
T Consensus 5 fC~~CG~~t~---------~~~~g~~r~C~~Cg~~ 30 (32)
T PF09297_consen 5 FCGRCGAPTK---------PAPGGWARRCPSCGHE 30 (32)
T ss_dssp B-TTT--BEE---------E-SSSS-EEESSSS-E
T ss_pred ccCcCCcccc---------CCCCcCEeECCCCcCE
Confidence 36 7776543 345677 678999865
No 22
>PF12760 Zn_Tnp_IS1595: Transposase zinc-ribbon domain; InterPro: IPR024442 This zinc binding domain is found in a range of transposase proteins such as ISSPO8, ISSOD11, ISRSSP2 etc. It may be a zinc-binding beta ribbon domain that could bind DNA.
Probab=22.43 E-value=48 Score=25.45 Aligned_cols=26 Identities=23% Similarity=0.645 Sum_probs=18.0
Q ss_pred hh-ccccccccccccccccCCCCCccccccCCCc
Q 008273 58 LC-VYRSIYEEGRFCDTFHVNASGWRCCESCGKR 90 (571)
Q Consensus 58 LC-~CgsayE~~~FCd~FH~~~sGWR~C~~C~Kr 90 (571)
-| +||+. +.+.....+-..|..|+++
T Consensus 20 ~CP~Cg~~-------~~~~~~~~~~~~C~~C~~q 46 (46)
T PF12760_consen 20 VCPHCGST-------KHYRLKTRGRYRCKACRKQ 46 (46)
T ss_pred CCCCCCCe-------eeEEeCCCCeEECCCCCCc
Confidence 48 99985 2233344788899999875
No 23
>PRK09838 periplasmic copper-binding protein; Provisional
Probab=21.59 E-value=1.4e+02 Score=27.58 Aligned_cols=27 Identities=19% Similarity=0.284 Sum_probs=19.4
Q ss_pred ccCCCCCCEEEEEE-ecCCCeEEEEEEe
Q 008273 432 NMQLQAGDIVTFSR-LEPEGKLVMGFRK 458 (571)
Q Consensus 432 sK~LqaGDtVvF~R-~ep~GkL~IGvRR 458 (571)
-.+|++||.|.|.- ...++.+++.+|+
T Consensus 86 l~~lk~G~~V~F~~~~~~~~~~i~~i~~ 113 (115)
T PRK09838 86 MSEIKTGDKVAFNFVQQGNLSLLQDIKV 113 (115)
T ss_pred hccCCCCCEEEEEEEEcCCcEEEEEEee
Confidence 35899999999954 3455566667765
No 24
>PF08922 DUF1905: Domain of unknown function (DUF1905); InterPro: IPR015018 This family consist of hypothetical bacterial proteins. ; PDB: 2D9R_A.
Probab=21.55 E-value=2.1e+02 Score=24.54 Aligned_cols=79 Identities=20% Similarity=0.294 Sum_probs=38.4
Q ss_pred EEEecccccCCCCCcEEeehhhhcccCCCCCCCCCceEEEEeCCCCeEEEEEEEcCCCCCcceeccCchhhhhccCCCCC
Q 008273 359 FEKMLSASDAGRIGRLVLPKKCAEAYFPPISQPEGLPLKVQDSKGKEWIFQFRFWPNNNSRMYVLEGVTPCIQNMQLQAG 438 (571)
Q Consensus 359 F~KvLT~SDVgklgRLVIPK~~AEa~FP~L~~~eG~~L~V~D~~GK~W~FRfr~wpNn~SR~YVL~GWs~FVRsK~LqaG 438 (571)
|+-+|-+.+-+. .-+.||.+-++.+-.. .-..+.+.++ ..|..|+= +..| .....|+|-==.+..++-++.+|
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 445555554432 3577998777664442 1123455554 36665555 5554 23345666433577788999999
Q ss_pred CEEEEE
Q 008273 439 DIVTFS 444 (571)
Q Consensus 439 DtVvF~ 444 (571)
|+|.+.
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 25
>PF06051 DUF928: Domain of Unknown Function (DUF928); InterPro: IPR010328 This is a family of uncharacterised bacterial proteins.
Probab=21.49 E-value=1.3e+02 Score=29.74 Aligned_cols=77 Identities=22% Similarity=0.452 Sum_probs=43.1
Q ss_pred cCCCCCcHhhhhhcCCCCCcccceEEEecccccCCCCCcEEeehhhhcccCCCCCCCCCceEEEEeCCCC--eEEEEEEE
Q 008273 335 YWPRFTDQDLQQISGDSNSVITPLFEKMLSASDAGRIGRLVLPKKCAEAYFPPISQPEGLPLKVQDSKGK--EWIFQFRF 412 (571)
Q Consensus 335 ~~Prv~d~Elq~~s~d~ns~~~~LF~KvLT~SDVgklgRLVIPK~~AEa~FP~L~~~eG~~L~V~D~~GK--~W~FRfr~ 412 (571)
|.|..++...+..--|.+ -..++++.+.-++...+-++-||.. .|+| .-|+ .|.|...+
T Consensus 41 YvP~~~~~~~eF~L~d~~--~~~iy~~~~~l~~~~GIv~i~LP~~-----~~~L------------e~gk~Y~W~~~l~C 101 (189)
T PF06051_consen 41 YVPYTSAETVEFVLQDEQ--GNPIYQTTFPLPQQPGIVSITLPED-----QPPL------------EVGKTYRWYFSLIC 101 (189)
T ss_pred EecCCCCcceEEEEecCC--CCEEeEEEEecCCCCCEEEEECCCC-----CCCC------------CCCCeEEEEEEEEE
Confidence 445555554433333333 3468888887776555556666721 2222 1343 78888777
Q ss_pred cCCCCCcceeccCchhhh
Q 008273 413 WPNNNSRMYVLEGVTPCI 430 (571)
Q Consensus 413 wpNn~SR~YVL~GWs~FV 430 (571)
-+++.+...+.+||...|
T Consensus 102 d~~~~s~~~~v~G~I~Rv 119 (189)
T PF06051_consen 102 DPQDRSDDIFVEGWIQRV 119 (189)
T ss_pred CCCCCCCCceEEEEEEEe
Confidence 655566555566776443
No 26
>PF05593 RHS_repeat: RHS Repeat; InterPro: IPR006530 These sequences contain two tandem copies of a 21-residue extracellular repeat that is found in Gram-negative, Gram-positive, and animal proteins. The repeat is named for a YD dipeptide, the most strongly conserved motif of the repeat. These repeats appear in general to be involved in binding carbohydrate; the chicken teneurin-1 YD-repeat region has been shown to bind heparin [, , ].
Probab=21.46 E-value=1.4e+02 Score=21.86 Aligned_cols=22 Identities=18% Similarity=0.335 Sum_probs=17.7
Q ss_pred CCCceEEEEeCCCCeEEEEEEE
Q 008273 391 PEGLPLKVQDSKGKEWIFQFRF 412 (571)
Q Consensus 391 ~eG~~L~V~D~~GK~W~FRfr~ 412 (571)
..|..+.+.|..|.+|+|.|--
T Consensus 3 ~~G~l~~~~d~~G~~~~y~YD~ 24 (38)
T PF05593_consen 3 ANGRLTSVTDPDGRTTRYTYDA 24 (38)
T ss_pred CCCCEEEEEcCCCCEEEEEECC
Confidence 3578889999999999877653
No 27
>COG5569 Uncharacterized conserved protein [Function unknown]
Probab=21.45 E-value=85 Score=29.10 Aligned_cols=27 Identities=30% Similarity=0.308 Sum_probs=21.1
Q ss_pred hhhccCCCCCCEEEEEEecCCCeEEEE
Q 008273 429 CIQNMQLQAGDIVTFSRLEPEGKLVMG 455 (571)
Q Consensus 429 FVRsK~LqaGDtVvF~R~ep~GkL~IG 455 (571)
=..=.+|++||.|.|--.+.+|++.+.
T Consensus 78 ~a~lsglKeGdkV~fvferv~gk~tv~ 104 (108)
T COG5569 78 QAKLSGLKEGDKVEFVFERVNGKLTVQ 104 (108)
T ss_pred HHHhhccccCCcEEEEEEeeCCEEEEE
Confidence 344578999999998877779987664
No 28
>PRK00085 recO DNA repair protein RecO; Reviewed
Probab=20.29 E-value=33 Score=33.70 Aligned_cols=34 Identities=26% Similarity=0.685 Sum_probs=26.0
Q ss_pred CCCCCc----cccccCCCccccchhhhhhhhhhhhcCCcceeccc
Q 008273 76 VNASGW----RCCESCGKRVHCGCITSVHAFTLLDAGGIECMTCA 116 (571)
Q Consensus 76 ~~~sGW----R~C~~C~KrlHCGCIaS~~~~~lLD~GGv~C~~C~ 116 (571)
....|| ..|..||+.+. ..+-..-.||+-|..|.
T Consensus 140 L~~~G~~p~l~~C~~Cg~~~~-------~~~f~~~~gg~~c~~c~ 177 (247)
T PRK00085 140 LAELGYGLDLDHCAVCGAPGD-------HRYFSPKEGGAVCSECG 177 (247)
T ss_pred HHHcCCccchhhHhcCCCCCC-------ceEEecccCCccccccc
Confidence 455666 49999999986 23445778999999997
No 29
>cd02775 MopB_CT Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and tungsten-containing enzymes, including formate dehydrogenase-H (Fdh-H) and -N (Fdh-N), several forms of nitrate reductase (Nap, Nas, NarG), dimethylsulfoxide reductase (DMSOR), thiosulfate reductase, formylmethanofuran dehydrogenase, and arsenite oxidase. Molybdenum is present in most of these enzymes in the form of molybdopterin, a modified pterin ring with a dithiolene side chain, which is responsible for ligating the Mo. In many bacterial and archaeal species, molybdopterin is in the form of a dinucleotide, with two molybdopterin dinucleotide units per molybdenum. These proteins can function as monomers, heterodimers, or heterotrimers, depending on the protein and organism. Also included in the MopB superfamily is
Probab=20.11 E-value=2.1e+02 Score=23.73 Aligned_cols=32 Identities=16% Similarity=0.331 Sum_probs=25.1
Q ss_pred hhhhccCCCCCCEEEEEEecCCCeEEEEEEeCCC
Q 008273 428 PCIQNMQLQAGDIVTFSRLEPEGKLVMGFRKASS 461 (571)
Q Consensus 428 ~FVRsK~LqaGDtVvF~R~ep~GkL~IGvRRa~~ 461 (571)
+-+++.+|+.||.|.++- +.|++.+.++....
T Consensus 30 ~da~~lgl~~Gd~v~v~~--~~g~~~~~v~~~~~ 61 (101)
T cd02775 30 EDAAALGIKDGDLVRVES--RRGSVVLRAKVTDG 61 (101)
T ss_pred HHHHHcCCCCCCEEEEEc--CCcEEEEEEEECCC
Confidence 346789999999999995 47888888876654
Done!