Query 026847
Match_columns 232
No_of_seqs 151 out of 235
Neff 3.7
Searched_HMMs 46136
Date Fri Mar 29 13:34:12 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/026847.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/026847hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF03791 KNOX2: KNOX2 domain ; 99.9 1.6E-26 3.5E-31 164.1 7.2 50 97-150 3-52 (52)
2 PF03790 KNOX1: KNOX1 domain ; 99.9 8.1E-24 1.7E-28 146.5 3.0 43 34-76 1-43 (45)
3 KOG0773 Transcription factor M 99.2 5.9E-12 1.3E-16 114.3 0.3 176 33-216 49-227 (342)
4 PF03789 ELK: ELK domain ; In 88.5 0.12 2.5E-06 31.4 -0.3 15 206-220 1-15 (22)
5 PF12022 DUF3510: Domain of un 70.3 19 0.00041 29.2 6.5 62 104-165 43-115 (125)
6 PF11288 DUF3089: Protein of u 61.6 3 6.5E-05 37.2 0.3 29 33-65 110-138 (207)
7 PF08134 cIII: cIII protein fa 57.2 12 0.00025 26.2 2.6 23 189-213 14-36 (44)
8 PF13097 CENP-U: CENP-A nucleo 54.9 35 0.00076 30.1 5.8 46 101-149 102-148 (175)
9 PF03792 PBC: PBC domain; Int 52.6 69 0.0015 28.7 7.3 43 33-75 26-79 (191)
10 COG3747 Phage terminase, small 51.7 40 0.00087 29.4 5.5 72 105-177 68-158 (160)
11 PF07425 Pardaxin: Pardaxin; 48.0 12 0.00026 24.6 1.3 18 36-53 5-22 (33)
12 KOG4460 Nuclear pore complex, 45.4 39 0.00085 35.1 5.2 39 105-150 568-606 (741)
13 cd02696 MurNAc-LAA N-acetylmur 41.7 46 0.001 26.9 4.3 42 175-218 4-46 (172)
14 PF00252 Ribosomal_L16: Riboso 39.6 23 0.0005 29.1 2.2 40 190-231 33-75 (133)
15 PF14195 DUF4316: Domain of un 38.9 42 0.00091 25.6 3.3 40 167-212 11-57 (70)
16 PF06295 DUF1043: Protein of u 38.7 57 0.0012 26.6 4.3 37 109-149 34-70 (128)
17 KOG4445 Uncharacterized conser 37.8 57 0.0012 31.6 4.7 46 104-151 135-180 (368)
18 PF12167 DUF3596: Domain of un 35.6 48 0.001 24.1 3.1 29 189-217 27-55 (64)
19 KOG0774 Transcription factor P 33.4 4.1E+02 0.0088 25.6 9.5 112 33-150 28-168 (334)
20 PF05190 MutS_IV: MutS family 32.6 54 0.0012 23.6 3.0 26 100-125 1-26 (92)
21 PF09820 AAA-ATPase_like: Pred 32.3 1.3E+02 0.0029 27.2 6.1 70 131-213 166-256 (284)
22 PF09651 Cas_APE2256: CRISPR-a 32.0 43 0.00093 27.4 2.6 26 197-228 74-99 (136)
23 KOG3821 Heparin sulfate cell s 31.5 3E+02 0.0064 28.5 8.8 95 99-213 280-391 (563)
24 PRK11677 hypothetical protein; 29.5 97 0.0021 26.1 4.3 43 103-149 32-74 (134)
25 PF12805 FUSC-like: FUSC-like 28.6 2.6E+02 0.0057 25.0 7.2 45 101-149 237-281 (284)
26 PF01153 Glypican: Glypican; 27.8 2.3E+02 0.0051 28.7 7.4 98 101-213 274-388 (557)
27 KOG2946 Uncharacterized conser 27.5 55 0.0012 30.2 2.8 41 182-222 42-83 (234)
28 COG3105 Uncharacterized protei 27.4 1.7E+02 0.0038 25.0 5.5 42 104-149 38-79 (138)
29 PF12627 PolyA_pol_RNAbd: Prob 27.2 51 0.0011 22.7 2.0 18 200-217 24-41 (64)
30 PF09712 PHA_synth_III_E: Poly 26.4 57 0.0012 30.3 2.7 22 191-213 268-290 (293)
31 PLN02759 Formate--tetrahydrofo 26.0 33 0.00071 35.7 1.1 18 2-19 110-130 (637)
32 KOG2828 Acetyl-CoA hydrolase [ 25.9 40 0.00087 33.5 1.7 37 25-61 413-451 (454)
33 PF02290 SRP14: Signal recogni 25.5 60 0.0013 25.3 2.3 19 100-118 70-88 (93)
34 PF10057 DUF2294: Uncharacteri 25.3 69 0.0015 25.6 2.7 37 195-231 60-103 (118)
35 CHL00044 rpl16 ribosomal prote 25.3 72 0.0016 26.6 2.9 42 187-230 29-75 (135)
36 COG5023 Tubulin [Cytoskeleton] 24.2 67 0.0014 32.0 2.8 22 186-215 146-167 (443)
37 PHA03397 vlf-1 very late expre 23.8 65 0.0014 31.1 2.7 31 33-64 12-42 (363)
38 PF02344 Myc-LZ: Myc leucine z 23.3 99 0.0021 20.5 2.6 18 196-213 9-26 (32)
39 PRK13507 formate--tetrahydrofo 22.3 42 0.00092 34.6 1.1 28 2-29 103-134 (587)
40 PF01563 Alpha_E3_glycop: Alph 21.7 52 0.0011 24.3 1.2 23 36-58 28-50 (56)
41 COG1913 Predicted Zn-dependent 21.4 75 0.0016 28.3 2.3 21 193-213 114-134 (181)
42 TIGR02883 spore_cwlD N-acetylm 20.7 1.8E+02 0.0038 24.6 4.4 42 174-217 4-46 (189)
No 1
>PF03791 KNOX2: KNOX2 domain ; InterPro: IPR005541 The MEINOX region is comprised of two domains, KNOX1 and KNOX2. KNOX1 plays a role in suppressing target gene expression. KNOX2, essential for function, is thought to be necessary for homo-dimerization [].; GO: 0003677 DNA binding, 0005634 nucleus
Probab=99.93 E-value=1.6e-26 Score=164.14 Aligned_cols=50 Identities=44% Similarity=0.602 Sum_probs=47.5
Q ss_pred CCCCCCCchhHHHHHHHHHHHHHHHHHhhhhhcchHHHHHHHHHHHHHHHHhhC
Q 026847 97 LSPHERQELDNFLAQYLIVLCTFKEQLQQHVRVHAVEAVMGCREIENTLQALTG 150 (232)
Q Consensus 97 ~~~g~DPELDqFMeaYc~mL~kyKEEL~kPv~v~f~EA~~F~~~IEsQL~sLtg 150 (232)
.+++.||||||||++||.||+||||||+|| |+||++|||+||+||++|||
T Consensus 3 ~~~~~dpELDqFMeaYc~~L~kykeeL~~p----~~EA~~f~~~ie~qL~~Lt~ 52 (52)
T PF03791_consen 3 SSIGADPELDQFMEAYCDMLVKYKEELQRP----FQEAMEFCREIEQQLSSLTG 52 (52)
T ss_pred CCCCCCccHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHhC
Confidence 356899999999999999999999999999 69999999999999999996
No 2
>PF03790 KNOX1: KNOX1 domain ; InterPro: IPR005540 The MEINOX region is comprised of two domains, KNOX1 and KNOX2. KNOX1 plays a role in suppressing target gene expression. KNOX2, essential for function, is thought to be necessary for homo-dimerization [].; GO: 0003677 DNA binding, 0005634 nucleus
Probab=99.88 E-value=8.1e-24 Score=146.52 Aligned_cols=43 Identities=49% Similarity=0.772 Sum_probs=40.1
Q ss_pred HHHHHHHhhCCChHHHHHHHHcchhccCCCCchhhHHHHHHhh
Q 026847 34 QLIKAEIASHPLYEQLLAAHVSCLRVATPIDQLPLIDAQLAQS 76 (232)
Q Consensus 34 ~~iKAkI~sHPlYp~LL~AyvdC~KVGAPpev~~rLde~~a~~ 76 (232)
+.|||+|++||+||+||+|||+|||||||||++++||++++++
T Consensus 1 e~iKA~I~~HP~Y~~Ll~Ayi~C~KVGAP~e~~~~L~e~~~~~ 43 (45)
T PF03790_consen 1 EAIKAKIASHPLYPRLLAAYIDCQKVGAPPEVVARLDEILAES 43 (45)
T ss_pred ChHHHHHHcCCCcHHHHHHHHHHHhcCCCHHHHHHHHHHHHHh
Confidence 3699999999999999999999999999999999999987654
No 3
>KOG0773 consensus Transcription factor MEIS1 and related HOX domain proteins [Transcription]
Probab=99.15 E-value=5.9e-12 Score=114.26 Aligned_cols=176 Identities=16% Similarity=0.118 Sum_probs=130.2
Q ss_pred HHHHHHHHhhCCChHHHHHHHHcchhccCCCCchhhHHHHHHhhhhhhhhhcccccccCCCCCCCCCCCCCchhHHHHHH
Q 026847 33 VQLIKAEIASHPLYEQLLAAHVSCLRVATPIDQLPLIDAQLAQSHHVLRSYGSLQQANNNNNHSLSPHERQELDNFLAQY 112 (232)
Q Consensus 33 ~~~iKAkI~sHPlYp~LL~AyvdC~KVGAPpev~~rLde~~a~~~~~~~k~ss~~~~~~~~~~~~~~g~DPELDqFMeaY 112 (232)
....|+.+.+||+|..++.||++|++++.|.+.+.++++..+.......++..++.. + ........+++|+.||..|
T Consensus 49 ~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~n~~~~--s-~~~~~~~~~~~~~~~~~k~ 125 (342)
T KOG0773|consen 49 LASSKYLTAAQELLDEFCSAGLDCLKGKMPYDPVPRSPASLSPPEDKGARRGNATRE--S-ATLKAWLEEHRLNPYPSKL 125 (342)
T ss_pred cccccccccchhHHhHHhhccccccccccCcCccccccccccCcccccccccccccc--c-cccccchhhhhhccCchHH
Confidence 455899999999999999999999999999999999877554433332222211110 0 1122467899999999999
Q ss_pred HHHHHHHHHHHhhhhhcchHHHHHHHHHHHHHHHHhhCCCCCCCCCCCCCCchhhhccccCCCCCCC-CccccCCCCCCc
Q 026847 113 LIVLCTFKEQLQQHVRVHAVEAVMGCREIENTLQALTGVSLGEGTGATMSDDEDDLHMDFSLDQSAS-DSHDLMGFGPLL 191 (232)
Q Consensus 113 c~mL~kyKEEL~kPv~v~f~EA~~F~~~IEsQL~sLtg~S~gEg~gat~SddE~d~d~~~~~~d~~~-d~~d~~gfgpl~ 191 (232)
+.+|..++..|+.++.+ ++++.++++++..+...++.++....+.+...++++.+. .+..+. -..+.+|++|..
T Consensus 126 ~~~ll~~~~~~~~~~~~--~~~~~a~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~q~~~~~~~~~~~~~~ 200 (342)
T KOG0773|consen 126 EKILLAVITKLTLTQVS--TWFANARRRLKKELKMTWGPTPLALDGISRHFSDLEKEK---AIGGQLSSSEELLGESEQD 200 (342)
T ss_pred HHHHHHHHHHhhhhhHH--HHHHHHHHHHHhccCCCCCCccccccchhhhhhhhhhcc---ccccccccccccccccccc
Confidence 99999999999999633 899999999999999999887766555543333332211 111222 236688899988
Q ss_pred cChhhhhHH--HHHHHHHHHHHhhccc
Q 026847 192 PTETERSLM--ERVRQELKIELKQVMT 216 (232)
Q Consensus 192 ~te~erslm--ervrqelk~elkqg~~ 216 (232)
..+.+++-+ ++++..++..+++.++
T Consensus 201 ~~~~~~~~~~~~~~~~~~~~~~~~~~~ 227 (342)
T KOG0773|consen 201 DSEDESGPSGSEPPLRLAKQSLRQQRS 227 (342)
T ss_pred ccccccCcccccCCccccccccccccc
Confidence 888888877 8888888888888775
No 4
>PF03789 ELK: ELK domain ; InterPro: IPR005539 This domain is required for the nuclear localisation of these proteins []. All of these proteins are members of the Tale/Knox homeodomain family, a subfamily, containing homeobox IPR001356 from INTERPRO.; GO: 0003677 DNA binding, 0005634 nucleus
Probab=88.55 E-value=0.12 Score=31.43 Aligned_cols=15 Identities=40% Similarity=0.492 Sum_probs=13.2
Q ss_pred HHHHHHhhcccceeE
Q 026847 206 ELKIELKQVMTTYIY 220 (232)
Q Consensus 206 elk~elkqg~~~~~~ 220 (232)
|||++|+++|...|.
T Consensus 1 ELK~~LlrkY~g~i~ 15 (22)
T PF03789_consen 1 ELKHQLLRKYSGYIS 15 (22)
T ss_pred CHHHHHHHHHhHhHH
Confidence 799999999998763
No 5
>PF12022 DUF3510: Domain of unknown function (DUF3510); InterPro: IPR024603 The COG complex comprises eight proteins (COG1-8) and plays critical roles in Golgi structure and function []. This uncharacterised domain is found in the C-terminal of COG complex subunit 2 proteins.
Probab=70.35 E-value=19 Score=29.24 Aligned_cols=62 Identities=24% Similarity=0.305 Sum_probs=38.3
Q ss_pred chhHHHHHH---------HHHHHHHHHHHhhhhhcchHHHHHHHHHHHHHHHHhhCCCCCCC--CCCCCCCch
Q 026847 104 ELDNFLAQY---------LIVLCTFKEQLQQHVRVHAVEAVMGCREIENTLQALTGVSLGEG--TGATMSDDE 165 (232)
Q Consensus 104 ELDqFMeaY---------c~mL~kyKEEL~kPv~v~f~EA~~F~~~IEsQL~sLtg~S~gEg--~gat~SddE 165 (232)
-|.+|.+.| .+++.+.-..++.-+...+.|...-.+++|.+|+.|-......+ .+.++||||
T Consensus 43 Pl~~F~~~~~~~~~~~~~~~~~~~v~~~v~~~y~~~~~evL~sv~KtEeSL~rlkk~~~~~~~~~~~~~sD~d 115 (125)
T PF12022_consen 43 PLKSFLEEYSSYLSPEIIEEWLQKVITEVTERYYEIASEVLTSVRKTEESLKRLKKRRKRTSGSSSGGMSDDD 115 (125)
T ss_pred HHHHHHHHhhccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccccccCCCCCcHH
Confidence 456666666 33444455555555555566777888899999999986643322 234556654
No 6
>PF11288 DUF3089: Protein of unknown function (DUF3089); InterPro: IPR021440 This family of proteins has no known function.
Probab=61.58 E-value=3 Score=37.15 Aligned_cols=29 Identities=38% Similarity=0.663 Sum_probs=26.5
Q ss_pred HHHHHHHHhhCCChHHHHHHHHcchhccCCCCc
Q 026847 33 VQLIKAEIASHPLYEQLLAAHVSCLRVATPIDQ 65 (232)
Q Consensus 33 ~~~iKAkI~sHPlYp~LL~AyvdC~KVGAPpev 65 (232)
...||.+|..||++.+||+||+ ||.|+-+
T Consensus 110 ~~LL~e~~~~~pl~~rLVAAYl----iG~~v~~ 138 (207)
T PF11288_consen 110 LRLLKEEIAGDPLRKRLVAAYL----IGYPVTV 138 (207)
T ss_pred HHHHHHHhcCchHHhhhheeee----cCccccH
Confidence 5679999999999999999999 9999765
No 7
>PF08134 cIII: cIII protein family; InterPro: IPR012995 This family consists of the CIII family of regulatory proteins. The lambda CIII protein has 54 amino acids and it forms an amphipathic helix within its amino acid sequence. Lambda CIII stabilises the lambda CII protein and the host sigma factor 32, responsible for transcribing genes of the heat shock regulon [].
Probab=57.23 E-value=12 Score=26.23 Aligned_cols=23 Identities=39% Similarity=0.616 Sum_probs=18.6
Q ss_pred CCccChhhhhHHHHHHHHHHHHHhh
Q 026847 189 PLLPTETERSLMERVRQELKIELKQ 213 (232)
Q Consensus 189 pl~~te~erslmervrqelk~elkq 213 (232)
...|+||| |=.||||=++--.||
T Consensus 14 AyYP~ESE--Lskr~rrLIRaa~k~ 36 (44)
T PF08134_consen 14 AYYPTESE--LSKRIRRLIRAARKQ 36 (44)
T ss_pred eecCcHHH--HHHHHHHHHHHHHHH
Confidence 56899999 889999977766665
No 8
>PF13097 CENP-U: CENP-A nucleosome associated complex (NAC) subunit
Probab=54.93 E-value=35 Score=30.15 Aligned_cols=46 Identities=15% Similarity=0.274 Sum_probs=39.0
Q ss_pred CCCchhHHHHHHHHHHHHHHHHHhhhhhcchHHHH-HHHHHHHHHHHHhh
Q 026847 101 ERQELDNFLAQYLIVLCTFKEQLQQHVRVHAVEAV-MGCREIENTLQALT 149 (232)
Q Consensus 101 ~DPELDqFMeaYc~mL~kyKEEL~kPv~v~f~EA~-~F~~~IEsQL~sLt 149 (232)
+=-|||-...++-.++..||+.+.-.+ -.+|+ .|+..+.-||-.+-
T Consensus 102 DItELDVvL~~FEk~~~eYkq~ieS~~---cr~AI~~F~~~~keqL~~~i 148 (175)
T PF13097_consen 102 DITELDVVLSAFEKTALEYKQSIESKI---CRKAINKFYSNFKEQLIEMI 148 (175)
T ss_pred cchHHHHHHHHHHHHHHHHHHhhccHH---HHHHHHHHHHHHHHHHHHHH
Confidence 346999999999999999999999887 57776 68999998887653
No 9
>PF03792 PBC: PBC domain; InterPro: IPR005542 Pbx proteins are members of the TALE (three-amino-acid loop extension) family of atypical homeodomain proteins, whose members are characterised by a three-residue insertion in the first helix of the homeodomain involved in their interaction with Hox proteins. Examination of Pbx1 has shown that, in addition to the homeodomain, a short 16-residue C-terminal tail is essential for maximal cooperative interactions with Hox partners as well as for maximal monomeric binding of Pbx1 to DNA. The PBX domain is a bipartite acidic domain [].; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0005634 nucleus
Probab=52.59 E-value=69 Score=28.72 Aligned_cols=43 Identities=23% Similarity=0.273 Sum_probs=32.6
Q ss_pred HHHHHHHHhhCCChHHHHHHHHcch-hcc---------CCCC-chhhHHHHHHh
Q 026847 33 VQLIKAEIASHPLYEQLLAAHVSCL-RVA---------TPID-QLPLIDAQLAQ 75 (232)
Q Consensus 33 ~~~iKAkI~sHPlYp~LL~AyvdC~-KVG---------APpe-v~~rLde~~a~ 75 (232)
....|-.|-+||+||.|-+..++-. |++ .||| ++.|||-++.+
T Consensus 26 aqa~K~~l~~hr~k~ALfsVLcE~KEkt~LSir~~qee~p~dpQl~RLDNML~A 79 (191)
T PF03792_consen 26 AQARKHALNCHRMKPALFSVLCEIKEKTVLSIRNIQEEDPPDPQLMRLDNMLLA 79 (191)
T ss_pred HHHhchhhcCCCCchhhHHHHHHHHhhcCccccccCCcCCCchhhhhhhcchhh
Confidence 4679999999999999999886654 211 2454 88999988754
No 10
>COG3747 Phage terminase, small subunit [DNA replication, recombination, and repair]
Probab=51.65 E-value=40 Score=29.44 Aligned_cols=72 Identities=22% Similarity=0.272 Sum_probs=46.0
Q ss_pred hhHH-HHHHHH---HHHHHHHHHhhh---------hhcchHHHHHHHHHHHHHHHHhh---CCCC---CCCCCCCCCCch
Q 026847 105 LDNF-LAQYLI---VLCTFKEQLQQH---------VRVHAVEAVMGCREIENTLQALT---GVSL---GEGTGATMSDDE 165 (232)
Q Consensus 105 LDqF-MeaYc~---mL~kyKEEL~kP---------v~v~f~EA~~F~~~IEsQL~sLt---g~S~---gEg~gat~SddE 165 (232)
-|.+ .+.||. .+.++.++|.+| .||+-+=|+...+..+.+|-.|. |-+| .+-.+-+|-++|
T Consensus 68 ~D~~~Le~YC~~ysiY~~av~~lkk~G~ii~~~~~g~~krNPav~~~sdA~~~l~klaSeLGltP~arakLa~~~~~~~e 147 (160)
T COG3747 68 ADLTLLELYCVAYSIYRNAVAHLKKHGFIITNQFSGRVKRNPAVQAASDAIRNLLKLASELGLTPSARAKLAALNMAPGE 147 (160)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHcceeeeccccceecCChHHHHHHHHHHHHHHHHHHhCCChHHHHhhhhhhcCCCC
Confidence 3444 578886 456666777777 23777788999999999988886 2222 233444555555
Q ss_pred hhhccccCCCCC
Q 026847 166 DDLHMDFSLDQS 177 (232)
Q Consensus 166 ~d~d~~~~~~d~ 177 (232)
+| |...|.|+|
T Consensus 148 ~d-~d~~~~F~~ 158 (160)
T COG3747 148 ED-DDEFNPFAP 158 (160)
T ss_pred cc-ccccCCCCC
Confidence 43 555667765
No 11
>PF07425 Pardaxin: Pardaxin; InterPro: IPR009990 This family consists of several Pardaxin proteins. Pardaxin, a 33-amino-acid pore-forming polypeptide toxin isolated from the Red Sea Moses sole Pardachirus marmoratus, has a helix-hinge-helix structure. This is a common structural motif found both in antibacterial peptides that can act selectively on bacterial membranes (e.g., cecropin), and in cytotoxic peptides that can lyse both mammalian and bacterial cells (e.g., melittin). Pardaxin possesses a high antibacterial activity with a significantly reduced haemolytic activity towards human red blood cells compared with melittin []. Pardaxin has also been found to have a shark repellent action [].; GO: 0005576 extracellular region; PDB: 1XC0_A 2KNS_A.
Probab=47.98 E-value=12 Score=24.56 Aligned_cols=18 Identities=39% Similarity=0.645 Sum_probs=15.2
Q ss_pred HHHHHhhCCChHHHHHHH
Q 026847 36 IKAEIASHPLYEQLLAAH 53 (232)
Q Consensus 36 iKAkI~sHPlYp~LL~Ay 53 (232)
+--||++.|++..||+|-
T Consensus 5 lipkiissplfktllsav 22 (33)
T PF07425_consen 5 LIPKIISSPLFKTLLSAV 22 (33)
T ss_dssp CHHHHCCTTTCHHHHHHH
T ss_pred hhhHHHccHHHHHHHHHH
Confidence 346899999999999884
No 12
>KOG4460 consensus Nuclear pore complex, Nup88/rNup84 component [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport]
Probab=45.42 E-value=39 Score=35.12 Aligned_cols=39 Identities=28% Similarity=0.425 Sum_probs=33.5
Q ss_pred hhHHHHHHHHHHHHHHHHHhhhhhcchHHHHHHHHHHHHHHHHhhC
Q 026847 105 LDNFLAQYLIVLCTFKEQLQQHVRVHAVEAVMGCREIENTLQALTG 150 (232)
Q Consensus 105 LDqFMeaYc~mL~kyKEEL~kPv~v~f~EA~~F~~~IEsQL~sLtg 150 (232)
..-|-|.|..-=.+-|+|+|+| +-..|+.+++||+.|..
T Consensus 568 ~~vfrEqYi~~~dlV~~e~qrH-------~~~l~~~k~~QlQ~l~~ 606 (741)
T KOG4460|consen 568 TQVFREQYILKQDLVKEEIQRH-------VKLLCDQKKKQLQDLSY 606 (741)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHH
Confidence 3458899998888999999999 46899999999999973
No 13
>cd02696 MurNAc-LAA N-acetylmuramoyl-L-alanine amidase or MurNAc-LAA (also known as peptidoglycan aminohydrolase, NAMLA amidase, NAMLAA, Amidase 3, and peptidoglycan amidase; EC 3.5.1.28) is an autolysin that hydrolyzes the amide bond between N-acetylmuramoyl and L-amino acids in certain cell wall glycopeptides. These proteins are Zn-dependent peptidases with highly conserved residues involved in cation co-ordination. MurNAc-LAA in this family is one of several peptidoglycan hydrolases (PGHs) found in bacterial and bacteriophage or prophage genomes that are involved in the degradation of the peptidoglycan. In Escherichia coli, there are five MurNAc-LAAs present: AmiA, AmiB, AmiC and AmiD that are periplasmic, and AmpD that is cytoplasmic. Three of these (AmiA, AmiB and AmiC) belong to this family, the other two (AmiD and AmpD) do not. E. coli AmiA, AmiB and AmiC play an important role in cleaving the septum to release daughter cells after cell division. In general, bacterial MurNAc-LAAs
Probab=41.73 E-value=46 Score=26.94 Aligned_cols=42 Identities=12% Similarity=0.011 Sum_probs=28.6
Q ss_pred CCCCCCccccCCCCCCccChhhhhHHHHHHHHHHHHHhh-cccce
Q 026847 175 DQSASDSHDLMGFGPLLPTETERSLMERVRQELKIELKQ-VMTTY 218 (232)
Q Consensus 175 ~d~~~d~~d~~gfgpl~~te~erslmervrqelk~elkq-g~~~~ 218 (232)
+||+-.+.|....|+= --.|...+.++...+|.+|++ |++-.
T Consensus 4 ld~GHg~~~~Ga~~~~--g~~E~~~~~~ia~~l~~~L~~~G~~v~ 46 (172)
T cd02696 4 IDPGHGGKDPGAVGND--GLKEKDINLAIALKLAKLLEAAGAKVV 46 (172)
T ss_pred EeCCCCCCCCCCcCCC--CCchHHHHHHHHHHHHHHHHHCCCEEE
Confidence 4555555554444442 445666999999999999998 88643
No 14
>PF00252 Ribosomal_L16: Ribosomal protein L16p/L10e; InterPro: IPR016180 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This entry represents a structural domain with an alpha/beta-hammerhead fold, where the beta-hammerhead motif is similar to that in barrel-sandwich hybrids. Domains of this structure can be found in ribosomal proteins L10e and L16. ; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005840 ribosome; PDB: 2ZJR_J 1Y69_K 3DLL_J 2ZJQ_J 2ZJP_J 3PIO_J 3CF5_J 3PIP_J 2ZKR_h 3J11_O ....
Probab=39.61 E-value=23 Score=29.09 Aligned_cols=40 Identities=20% Similarity=0.274 Sum_probs=30.5
Q ss_pred CccChhh---hhHHHHHHHHHHHHHhhcccceeEEEEEEEEEEee
Q 026847 190 LLPTETE---RSLMERVRQELKIELKQVMTTYIYIYIYINITITT 231 (232)
Q Consensus 190 l~~te~e---rslmervrqelk~elkqg~~~~~~~~~~~~~~~~~ 231 (232)
|+..|+. -+.+|.+|+=+++.||.+++ ++|.+|-|+.+|.
T Consensus 33 l~a~~~g~l~~~qlEa~R~~i~r~lkk~~~--~~i~v~p~~~vTk 75 (133)
T PF00252_consen 33 LKALEPGRLTSNQLEAARIAINRYLKKNGK--LWIRVFPHHPVTK 75 (133)
T ss_dssp EEESS-EEEEHHHHHHHHHHHHHHHHHTST--EEESSSCEEEEEE
T ss_pred EEEeeeeeechhhhHHHHHHHHHHhhhhee--EEEEeeeeeeeee
Confidence 4555555 46899999999999999655 7787787877764
No 15
>PF14195 DUF4316: Domain of unknown function (DUF4316)
Probab=38.89 E-value=42 Score=25.55 Aligned_cols=40 Identities=23% Similarity=0.417 Sum_probs=26.1
Q ss_pred hhccccCCCCCCCCccccCCCCCCccC-------hhhhhHHHHHHHHHHHHHh
Q 026847 167 DLHMDFSLDQSASDSHDLMGFGPLLPT-------ETERSLMERVRQELKIELK 212 (232)
Q Consensus 167 d~d~~~~~~d~~~d~~d~~gfgpl~~t-------e~erslmervrqelk~elk 212 (232)
-.+-|+||||+...- +|-=|| +.=.|+++||+..-+..-+
T Consensus 11 ~~EqNYnMIDGiiNN------~~~~p~~~ele~~~~K~Sv~~rLke~~~~~~~ 57 (70)
T PF14195_consen 11 STEQNYNMIDGIINN------GPEAPTVAELEKPEEKPSVLERLKEKKEEIAK 57 (70)
T ss_pred HhhcccccccccccC------CCCCCccccccCccccccHHHHHHhhHHHHhc
Confidence 356788999987754 344443 2237999999976554443
No 16
>PF06295 DUF1043: Protein of unknown function (DUF1043); InterPro: IPR009386 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=38.69 E-value=57 Score=26.60 Aligned_cols=37 Identities=19% Similarity=0.195 Sum_probs=29.6
Q ss_pred HHHHHHHHHHHHHHHhhhhhcchHHHHHHHHHHHHHHHHhh
Q 026847 109 LAQYLIVLCTFKEQLQQHVRVHAVEAVMGCREIENTLQALT 149 (232)
Q Consensus 109 MeaYc~mL~kyKEEL~kPv~v~f~EA~~F~~~IEsQL~sLt 149 (232)
.+.=-.-|..||.++..| |..+...+++|...-+.|-
T Consensus 34 L~~~k~el~~yk~~V~~H----F~~ta~Ll~~l~~~Y~~l~ 70 (128)
T PF06295_consen 34 LEQAKQELEQYKQEVNDH----FAQTAELLDNLTQDYQKLY 70 (128)
T ss_pred HHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHH
Confidence 334455689999999999 8999999999888777664
No 17
>KOG4445 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]
Probab=37.75 E-value=57 Score=31.64 Aligned_cols=46 Identities=11% Similarity=0.192 Sum_probs=35.4
Q ss_pred chhHHHHHHHHHHHHHHHHHhhhhhcchHHHHHHHHHHHHHHHHhhCC
Q 026847 104 ELDNFLAQYLIVLCTFKEQLQQHVRVHAVEAVMGCREIENTLQALTGV 151 (232)
Q Consensus 104 ELDqFMeaYc~mL~kyKEEL~kPv~v~f~EA~~F~~~IEsQL~sLtg~ 151 (232)
+-|+||--||. .+|-.++.+-+|--|++|-.-...+-.|.+++|.+
T Consensus 135 ~C~Hy~H~~Cl--aRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpV 180 (368)
T KOG4445|consen 135 ACDHYMHFACL--ARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPV 180 (368)
T ss_pred hhHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhH
Confidence 67999999994 45555555555445788999999999999999865
No 18
>PF12167 DUF3596: Domain of unknown function (DUF3596); InterPro: IPR022000 This N-terminal domain is found in Bacteriophage P27p02, it is functionally uncharacterised, though it is considered to be an integrase. Integrase is necessary for integration of the phage into the host genome by site-specific recombination. In conjunction with excisionase, integrase is also necessary for excision of the prophage from the host genome. This domain is found in related proteins in other bacteriophage, and prophage regions of bacterial genomes. The domain is approximately 90 amino acids in length and is found is associated with the C-terminal domain characterised by PF00589 from PFAM.
Probab=35.60 E-value=48 Score=24.07 Aligned_cols=29 Identities=28% Similarity=0.284 Sum_probs=25.9
Q ss_pred CCccChhhhhHHHHHHHHHHHHHhhcccc
Q 026847 189 PLLPTETERSLMERVRQELKIELKQVMTT 217 (232)
Q Consensus 189 pl~~te~erslmervrqelk~elkqg~~~ 217 (232)
+|-||-.-|...+++|++++.+++.|-.+
T Consensus 27 ~l~dT~~N~k~a~~~~~~I~~~I~~G~Fd 55 (64)
T PF12167_consen 27 GLPDTPANRKKAERLRAEIEAEIALGTFD 55 (64)
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHhCCCc
Confidence 48889999999999999999999999654
No 19
>KOG0774 consensus Transcription factor PBX and related HOX domain proteins [Transcription]
Probab=33.43 E-value=4.1e+02 Score=25.57 Aligned_cols=112 Identities=19% Similarity=0.178 Sum_probs=63.0
Q ss_pred HHHHHHHHhhCCChHHHHHHHHcch-h---------ccCCCC-chhhHHHHHHhhhhhh--hhhcccccccCCCCCCCCC
Q 026847 33 VQLIKAEIASHPLYEQLLAAHVSCL-R---------VATPID-QLPLIDAQLAQSHHVL--RSYGSLQQANNNNNHSLSP 99 (232)
Q Consensus 33 ~~~iKAkI~sHPlYp~LL~AyvdC~-K---------VGAPpe-v~~rLde~~a~~~~~~--~k~ss~~~~~~~~~~~~~~ 99 (232)
..+.|-.|-+||+||.|.+-.+.-. | =-.||| ++-|||.++..+- |. .+-.+.....+.+.+.
T Consensus 28 aqa~K~~lnch~mk~AlfsVLcE~KeKt~lsir~~qdeep~dpqlmRLDnML~AEG-VagPekgga~~~~Asgg~hs--- 103 (334)
T KOG0774|consen 28 AQARKHALNCHRMKPALFSVLCEIKEKTVLSIRGMQDEEPPDPQLMRLDNMLLAEG-VAGPEKGGARAAAASGGDHS--- 103 (334)
T ss_pred HHhhhhccccccchHHHHHHHHHhhhhheeeeccccccCCCChHHHHHHHHHHHhc-ccCccccchhhhhccCCChH---
Confidence 4578999999999999998765432 2 235888 9999999875431 11 1100000000000000
Q ss_pred CCCCchhHHHHHHHHHHHHHHHHH----------------hhhhhcchHHHHHHHHHHHHHHHHhhC
Q 026847 100 HERQELDNFLAQYLIVLCTFKEQL----------------QQHVRVHAVEAVMGCREIENTLQALTG 150 (232)
Q Consensus 100 g~DPELDqFMeaYc~mL~kyKEEL----------------~kPv~v~f~EA~~F~~~IEsQL~sLtg 150 (232)
.....|-|.-.-|-..|.||.+.- .|| +-++|.-.+...|...++.++.
T Consensus 104 dYR~kL~qiR~iy~~ElekyeqaCneftthV~nlL~eQsr~RP--i~~ke~e~m~~~i~~kF~~iq~ 168 (334)
T KOG0774|consen 104 DYRAKLLQIRQIYHNELEKYEQACNEFTTHVMNLLREQSRTRP--IMPKEIERMVQIISKKFSHIQM 168 (334)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCC--CCHHHHHHHHHHHHHHHHHHHH
Confidence 122456666666666666665431 234 2466777777777777776663
No 20
>PF05190 MutS_IV: MutS family domain IV C-terminus.; InterPro: IPR007861 Mismatch repair contributes to the overall fidelity of DNA replication and is essential for combating the adverse effects of damage to the genome. It involves the correction of mismatched base pairs that have been missed by the proofreading element of the DNA polymerase complex. The post-replicative Mismatch Repair System (MMRS) of Escherichia coli involves MutS (Mutator S), MutL and MutH proteins, and acts to correct point mutations or small insertion/deletion loops produced during DNA replication []. MutS and MutL are involved in preventing recombination between partially homologous DNA sequences. The assembly of MMRS is initiated by MutS, which recognises and binds to mispaired nucleotides and allows further action of MutL and MutH to eliminate a portion of newly synthesized DNA strand containing the mispaired base []. MutS can also collaborate with methyltransferases in the repair of O(6)-methylguanine damage, which would otherwise pair with thymine during replication to create an O(6)mG:T mismatch []. MutS exists as a dimer, where the two monomers have different conformations and form a heterodimer at the structural level []. Only one monomer recognises the mismatch specifically and has ADP bound. Non-specific major groove DNA-binding domains from both monomers embrace the DNA in a clamp-like structure. Mismatch binding induces ATP uptake and a conformational change in the MutS protein, resulting in a clamp that translocates on DNA. MutS is a modular protein with a complex structure [], and is composed of: N-terminal mismatch-recognition domain, which is similar in structure to tRNA endonuclease. Connector domain, which is similar in structure to Holliday junction resolvase ruvC. Core domain, which is composed of two separate subdomains that join together to form a helical bundle; from within the core domain, two helices act as levers that extend towards (but do not touch) the DNA. Clamp domain, which is inserted between the two subdomains of the core domain at the top of the lever helices; the clamp domain has a beta-sheet structure. ATPase domain (connected to the core domain), which has a classical Walker A motif. HTH (helix-turn-helix) domain, which is involved in dimer contacts. The MutS family of proteins is named after the Salmonella typhimurium MutS protein involved in mismatch repair. Homologues of MutS have been found in many species including eukaryotes (MSH 1, 2, 3, 4, 5, and 6 proteins), archaea and bacteria, and together these proteins have been grouped into the MutS family. Although many of these proteins have similar activities to the E. coli MutS, there is significant diversity of function among the MutS family members. Human MSH has been implicated in non-polyposis colorectal carcinoma (HNPCC) and is a mismatch binding protein [].This diversity is even seen within species, where many species encode multiple MutS homologues with distinct functions []. Inter-species homologues may have arisen through frequent ancient horizontal gene transfer of MutS (and MutL) from bacteria to archaea and eukaryotes via endosymbiotic ancestors of mitochondria and chloroplasts []. This entry represents the clamp domain (domain 4) found in proteins of the MutS family. The clamp domain is inserted within the core domain at the top of the lever helices. It has a beta-sheet structure [].; GO: 0005524 ATP binding, 0030983 mismatched DNA binding, 0006298 mismatch repair; PDB: 2WTU_A 1OH7_A 1OH5_B 1W7A_B 1NG9_A 1OH8_B 1WBD_A 1WB9_A 3K0S_A 1OH6_A ....
Probab=32.60 E-value=54 Score=23.57 Aligned_cols=26 Identities=23% Similarity=0.295 Sum_probs=19.1
Q ss_pred CCCCchhHHHHHHHHHHHHHHHHHhh
Q 026847 100 HERQELDNFLAQYLIVLCTFKEQLQQ 125 (232)
Q Consensus 100 g~DPELDqFMeaYc~mL~kyKEEL~k 125 (232)
|-||+||+..+.|..+.....+.+.+
T Consensus 1 g~d~~Ld~~~~~~~~~~~~l~~~~~~ 26 (92)
T PF05190_consen 1 GFDEELDELREEYEEIEEELEELLEE 26 (92)
T ss_dssp TSSHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHH
Confidence 35899999999988877665555444
No 21
>PF09820 AAA-ATPase_like: Predicted AAA-ATPase; InterPro: IPR018631 This entry is predicted to be an AAA-ATPase domain []. It is usually found together with IPR012547 from INTERPRO.
Probab=32.27 E-value=1.3e+02 Score=27.17 Aligned_cols=70 Identities=31% Similarity=0.304 Sum_probs=40.2
Q ss_pred hHHHHHHHHHHHHHHHH---------hhCCCCC--CCCCCCCCCchhhhccccCCCCCCCCccccCCCCCCccChhh-hh
Q 026847 131 AVEAVMGCREIENTLQA---------LTGVSLG--EGTGATMSDDEDDLHMDFSLDQSASDSHDLMGFGPLLPTETE-RS 198 (232)
Q Consensus 131 f~EA~~F~~~IEsQL~s---------Ltg~S~g--Eg~gat~SddE~d~d~~~~~~d~~~d~~d~~gfgpl~~te~e-rs 198 (232)
+.|...|++.+-+.+.. |||+++- ++..+ . -..-.+.++. + +-.+.+|| ||.| +.
T Consensus 166 ~~~~~~~lr~ff~~~k~~~~~l~~~~iTGi~~i~k~si~S---~--lNn~~~~s~~-~--~f~~~~GF-----T~~Ev~~ 232 (284)
T PF09820_consen 166 YEEMREFLRNFFSVLKKDNPYLRFAFITGILPISKESIFS---G--LNNLEDISLD-P--RFSEYFGF-----TEEEVET 232 (284)
T ss_pred HHHHHHHHHHHHHHhcccchhhhhhheeccchhhhccCcc---c--cCCceecccc-h--hHhhhcCc-----CHHHHHH
Confidence 56777788887766665 4455432 22211 1 1111112222 2 44678887 8999 88
Q ss_pred HHHHH---------HHHHHHHHhh
Q 026847 199 LMERV---------RQELKIELKQ 213 (232)
Q Consensus 199 lmerv---------rqelk~elkq 213 (232)
++.+. +.|+..++|.
T Consensus 233 ll~~~~~~~~~~~~~~~~~~~lk~ 256 (284)
T PF09820_consen 233 LLKYYIENLAEEQDREELLEELKE 256 (284)
T ss_pred HHHHHHHHhhhccchHHHHHHHHH
Confidence 88877 4667778875
No 22
>PF09651 Cas_APE2256: CRISPR-associated protein (Cas_APE2256); InterPro: IPR013442 Clustered Regularly Interspaced Short Palindromic Repeats (CRISPR) are a family of DNA direct repeats separated by regularly sized non-repetitive spacer sequences that are found in most bacterial and archaeal genomes []. CRISPRs appear to provide acquired resistance against bacteriophages, possibly acting with an RNA interference-like mechanism to inhibit gene functions of invasive DNA elements [, ]. Differences in the number and type of spacers between CRISPR repeats correlate with phage sensitivity. It is thought that following phage infection, bacteria integrate new spacers derived from phage genomic sequences, and that the removal or addition of particular spacers modifies the phage-resistance phenotype of the cell. Therefore, the specificity of CRISPRs may be determined by spacer-phage sequence similarity. In addition, there are many protein families known as CRISPR-associated sequences (Cas), which are encoded in the vicinity of CRISPR loci []. CRISPR/cas gene regions can be quite large, with up to 20 different, tandem-arranged cas genes next to a CRISPR cluster or filling the region between two repeat clusters. Cas genes and CRISPRs are found on mobile genetic elements such as plasmids, and have undergone extensive horizontal transfer. Cas proteins are thought to be involved in the propagation and functioning of CRISPRs. Some Cas proteins show similarity to helicases and repair proteins, although the functions of most are unknown. Cas families can be divided into subtypes according to operon organisation and phylogeny. This entry represents a conserved region of about 150 amino acids found in a family of Cas proteins in at least five archaeal and three bacterial species. In six of eight species, the protein is encoded the vicinity of a CRISPR/Cas locus.; PDB: 3QYF_A.
Probab=31.99 E-value=43 Score=27.42 Aligned_cols=26 Identities=27% Similarity=0.273 Sum_probs=20.2
Q ss_pred hhHHHHHHHHHHHHHhhcccceeEEEEEEEEE
Q 026847 197 RSLMERVRQELKIELKQVMTTYIYIYIYINIT 228 (232)
Q Consensus 197 rslmervrqelk~elkqg~~~~~~~~~~~~~~ 228 (232)
++||+.|.++++...+.||+ +|+|+|
T Consensus 74 ~~Lv~~~~~~v~~~~~~~~~------v~~n~T 99 (136)
T PF09651_consen 74 RNLVRWVAEEVKNYKGRGYE------VIFNAT 99 (136)
T ss_dssp HHHHHHTHHHHHHHHHTT-E------EEEE-S
T ss_pred HHHHHHHHHHHHHhhcCCCe------EEEEeC
Confidence 78999999999988888876 566765
No 23
>KOG3821 consensus Heparin sulfate cell surface proteoglycan [Signal transduction mechanisms]
Probab=31.55 E-value=3e+02 Score=28.55 Aligned_cols=95 Identities=22% Similarity=0.323 Sum_probs=66.3
Q ss_pred CCCCCchhHHHHHHHHHHHHHHHHHhh---------hhhcchHHHHHHHH----HHHHHHHHhhCCCCCCCCCCCCCCch
Q 026847 99 PHERQELDNFLAQYLIVLCTFKEQLQQ---------HVRVHAVEAVMGCR----EIENTLQALTGVSLGEGTGATMSDDE 165 (232)
Q Consensus 99 ~g~DPELDqFMeaYc~mL~kyKEEL~k---------Pv~v~f~EA~~F~~----~IEsQL~sLtg~S~gEg~gat~SddE 165 (232)
...--+||-=-.+|.+-|.+.-+.|.. |+-|.+-||+|.+. +++++....||.+.--..++ ..+.+
T Consensus 280 lA~~adLd~~W~~~idSl~~L~~~l~g~~~iesvl~~i~v~iseAIm~~q~N~~~lt~kV~q~Cg~p~~~p~~~-~~~~~ 358 (563)
T KOG3821|consen 280 LANQADLDPEWRNYIDSLLELADKLEGPFNIESVLLPIHVKISEAIMAAQENSDKLTAKVFQGCGPPKPTPARR-PPESE 358 (563)
T ss_pred hhhhcccchHHHHHHHHHHHHHHhhcCcchHHHHHhhhhhHHHHHHHHHHHhhHHHHHHHHhhcCCCCCCcccC-CCCch
Confidence 345556999999999999999988875 56788899999986 58888889998764333333 12222
Q ss_pred hhhccccCCCCCCCCccccCCCCCCccChhh----hhHHHHHHHHHHHHHhh
Q 026847 166 DDLHMDFSLDQSASDSHDLMGFGPLLPTETE----RSLMERVRQELKIELKQ 213 (232)
Q Consensus 166 ~d~d~~~~~~d~~~d~~d~~gfgpl~~te~e----rslmervrqelk~elkq 213 (232)
+ -|.|.=|-|.= -..+-|+|+|+|..||+
T Consensus 359 -~------------------~f~~~~~~~~~~~~~~~~L~~~~~e~~~kL~~ 391 (563)
T KOG3821|consen 359 -D------------------RFKPKHPEERPTTAAGTTLDRLVTEFKEKLKL 391 (563)
T ss_pred -h------------------hcCCCCcccCCcCCCcchHHHHHHHHHHHHHH
Confidence 1 34454333322 14678999999999985
No 24
>PRK11677 hypothetical protein; Provisional
Probab=29.51 E-value=97 Score=26.06 Aligned_cols=43 Identities=16% Similarity=0.159 Sum_probs=32.9
Q ss_pred CchhHHHHHHHHHHHHHHHHHhhhhhcchHHHHHHHHHHHHHHHHhh
Q 026847 103 QELDNFLAQYLIVLCTFKEQLQQHVRVHAVEAVMGCREIENTLQALT 149 (232)
Q Consensus 103 PELDqFMeaYc~mL~kyKEEL~kPv~v~f~EA~~F~~~IEsQL~sLt 149 (232)
.+|.+=.+.=-.-|..||+||..| |.+....+++|-.+-+.|-
T Consensus 32 ~~le~eLe~~k~ele~YkqeV~~H----Fa~TA~Ll~~L~~~Y~~Ly 74 (134)
T PRK11677 32 QALQYELEKNKAELEEYRQELVSH----FARSAELLDTMAKDYRQLY 74 (134)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHH
Confidence 445555555566799999999999 8999999988877766554
No 25
>PF12805 FUSC-like: FUSC-like inner membrane protein yccS
Probab=28.57 E-value=2.6e+02 Score=25.03 Aligned_cols=45 Identities=22% Similarity=0.284 Sum_probs=36.2
Q ss_pred CCCchhHHHHHHHHHHHHHHHHHhhhhhcchHHHHHHHHHHHHHHHHhh
Q 026847 101 ERQELDNFLAQYLIVLCTFKEQLQQHVRVHAVEAVMGCREIENTLQALT 149 (232)
Q Consensus 101 ~DPELDqFMeaYc~mL~kyKEEL~kPv~v~f~EA~~F~~~IEsQL~sLt 149 (232)
..++|++-+++--.-+..|+++ ..|. ..|+..-++.+-.-|++|.
T Consensus 237 ~~~~l~~~l~~l~~~l~~~~~~-~~~~---~~~~~~~l~~l~~~l~~i~ 281 (284)
T PF12805_consen 237 HRNRLKRALEALEESLEFLRQQ-DQPE---NREALLALRNLLDNLRNID 281 (284)
T ss_pred CchHHHHHHHHHHHHHHHHHHh-cCcc---CHHHHHHHHHHHHHHHHHH
Confidence 5688999999988888888888 6664 6888888888887777763
No 26
>PF01153 Glypican: Glypican; InterPro: IPR001863 Glypicans [, ] are a family of heparan sulphate proteoglycans which are anchored to cell membranes by a glycosylphosphatidylinositol (GPI) linkage. Six members (GPC1-6) are known in vertebrates []. Structurally, these proteins consist of three separate domains: A signal sequence; An extracellular domain of about 500 residues that contains 12 conserved cysteines probably involved in disulphide bonds and which also contains the sites of attachment of the heparan sulphate glycosaminoglycan side chains; A C-terminal hydrophobic region which is post-translationally removed after formation of the GPI-anchor. ; GO: 0043395 heparan sulfate proteoglycan binding, 0005578 proteinaceous extracellular matrix, 0016020 membrane; PDB: 3ODN_A 4AD7_A 4ACR_C.
Probab=27.78 E-value=2.3e+02 Score=28.68 Aligned_cols=98 Identities=23% Similarity=0.315 Sum_probs=54.2
Q ss_pred CCCchhHHHHHHHHHHHHHHHHHhh---------hhhcchHHHHHHHH----HHHHHHHHhhCCCCCCCCCCCCCCchhh
Q 026847 101 ERQELDNFLAQYLIVLCTFKEQLQQ---------HVRVHAVEAVMGCR----EIENTLQALTGVSLGEGTGATMSDDEDD 167 (232)
Q Consensus 101 ~DPELDqFMeaYc~mL~kyKEEL~k---------Pv~v~f~EA~~F~~----~IEsQL~sLtg~S~gEg~gat~SddE~d 167 (232)
.--|||.--..|.+.|.+.-+.|.. |+.++..||++.+. +|.+++...||.+.-...++.-+..+..
T Consensus 274 ~~a~Ld~~W~~~i~~l~~l~~~l~g~~~~e~vl~~i~~~IseAIm~~q~n~~~is~kV~~~CG~p~~~~~~~~~~~~~~~ 353 (557)
T PF01153_consen 274 NQAELDPEWRNYIDSLEKLADRLEGPFNIESVLLPIDVKISEAIMNAQENGPEISAKVFQGCGNPKPSPSRSSRSPEDRF 353 (557)
T ss_dssp HHHCCHHHHHHHHHHHHHHHHHHCTTTSCHHHHCCHHHHHHHHHHHHHHCHHHHHHHHHHHCT--B--------------
T ss_pred hHHhhhHHHHHHHHHHHHHHHHhcCCcCHHHHHHHHHHHHHHHHHHHHHhchhhHHHHhccccCCccCCCcccccccccc
Confidence 3457999999999999999887665 46678899999875 5888899999876544343321221111
Q ss_pred hccccCCCCCCCCccccCCCCCCccChhhh----hHHHHHHHHHHHHHhh
Q 026847 168 LHMDFSLDQSASDSHDLMGFGPLLPTETER----SLMERVRQELKIELKQ 213 (232)
Q Consensus 168 ~d~~~~~~d~~~d~~d~~gfgpl~~te~er----slmervrqelk~elkq 213 (232)
. ...|++.-+.+... .-++|++.|++..||.
T Consensus 354 ~---------------k~~~~~~~~e~r~t~~agt~L~~lv~ef~~kL~~ 388 (557)
T PF01153_consen 354 K---------------KKRFRPSAPEERPTTAAGTSLDRLVREFKSKLKD 388 (557)
T ss_dssp -----------------------------SS-H---HHHHHHHHHHHHHH
T ss_pred c---------------ccccccCCcccCCccchhhhHHHHHHHHHHHHHH
Confidence 0 11334433322221 1288999999999986
No 27
>KOG2946 consensus Uncharacterized conserved protein [Function unknown]
Probab=27.50 E-value=55 Score=30.17 Aligned_cols=41 Identities=32% Similarity=0.351 Sum_probs=31.8
Q ss_pred cccCCCCCCccChhhhhHHHHHHHHHHHHHhh-cccceeEEE
Q 026847 182 HDLMGFGPLLPTETERSLMERVRQELKIELKQ-VMTTYIYIY 222 (232)
Q Consensus 182 ~d~~gfgpl~~te~erslmervrqelk~elkq-g~~~~~~~~ 222 (232)
.+..|||=+.-.-++-+|=|-||++||+++.. |||=|-|+|
T Consensus 42 a~n~g~g~~~~~~e~dTldePv~~tlkrD~~~I~~kl~~Vl~ 83 (234)
T KOG2946|consen 42 AGNSGFGWLLEVNEEDTLDEPVLETLKRDLRAIGSKLKHVLY 83 (234)
T ss_pred ccccCcccccccCCCCcccchHHHHHHHHHHHHHhceEEEEc
Confidence 44557666666666789999999999999875 777777776
No 28
>COG3105 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=27.36 E-value=1.7e+02 Score=25.05 Aligned_cols=42 Identities=17% Similarity=0.198 Sum_probs=34.2
Q ss_pred chhHHHHHHHHHHHHHHHHHhhhhhcchHHHHHHHHHHHHHHHHhh
Q 026847 104 ELDNFLAQYLIVLCTFKEQLQQHVRVHAVEAVMGCREIENTLQALT 149 (232)
Q Consensus 104 ELDqFMeaYc~mL~kyKEEL~kPv~v~f~EA~~F~~~IEsQL~sLt 149 (232)
-|-.=|+.--.-|..||+||.+| |.+....++.|-+.-+.|-
T Consensus 38 ~~q~ELe~~K~~ld~~rqel~~H----Fa~sAeLlktl~~dYqkly 79 (138)
T COG3105 38 KLQYELEKVKAQLDEYRQELVKH----FARSAELLKTLAQDYQKLY 79 (138)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHH
Confidence 34445666777899999999999 8999999999988777664
No 29
>PF12627 PolyA_pol_RNAbd: Probable RNA and SrmB- binding site of polymerase A; PDB: 1OU5_B 3H38_A 3H3A_B 3H39_B 3H37_A 3AQN_A 3AQK_A 3AQM_B 3AQL_B 1MIY_A ....
Probab=27.16 E-value=51 Score=22.70 Aligned_cols=18 Identities=33% Similarity=0.414 Sum_probs=14.7
Q ss_pred HHHHHHHHHHHHhhcccc
Q 026847 200 MERVRQELKIELKQVMTT 217 (232)
Q Consensus 200 mervrqelk~elkqg~~~ 217 (232)
.|||++||++=|+.++-.
T Consensus 24 ~ERi~~El~kil~~~~~~ 41 (64)
T PF12627_consen 24 KERIREELEKILSSPNPS 41 (64)
T ss_dssp HHHHHHHHHHHHTSTTHH
T ss_pred HHHHHHHHHHHHcCCCHH
Confidence 589999999988877543
No 30
>PF09712 PHA_synth_III_E: Poly(R)-hydroxyalkanoic acid synthase subunit (PHA_synth_III_E)
Probab=26.40 E-value=57 Score=30.26 Aligned_cols=22 Identities=41% Similarity=0.727 Sum_probs=17.9
Q ss_pred ccChhh-hhHHHHHHHHHHHHHhh
Q 026847 191 LPTETE-RSLMERVRQELKIELKQ 213 (232)
Q Consensus 191 ~~te~e-rslmervrqelk~elkq 213 (232)
|||.+| .++=+|| +|||+|++.
T Consensus 268 lPTr~evd~l~k~l-~eLrre~r~ 290 (293)
T PF09712_consen 268 LPTRSEVDELYKRL-HELRREVRA 290 (293)
T ss_pred CCCHHHHHHHHHHH-HHHHHHHHH
Confidence 999999 6666666 789988874
No 31
>PLN02759 Formate--tetrahydrofolate ligase
Probab=26.00 E-value=33 Score=35.66 Aligned_cols=18 Identities=39% Similarity=0.841 Sum_probs=12.2
Q ss_pred CCCccc-ccc--CCCCCCCCC
Q 026847 2 QEPSLG-VMG--SSSSGGGGG 19 (232)
Q Consensus 2 ~~~~~~-~~~--~~~~~~~~~ 19 (232)
.||++| .|| ||..|||-+
T Consensus 110 RePSlGP~FGiKGGAaGGGys 130 (637)
T PLN02759 110 RQPSQGPTFGIKGGAAGGGYS 130 (637)
T ss_pred ecCCcCCcCCcccccCCCccc
Confidence 589999 565 665666643
No 32
>KOG2828 consensus Acetyl-CoA hydrolase [Energy production and conversion]
Probab=25.94 E-value=40 Score=33.54 Aligned_cols=37 Identities=22% Similarity=0.112 Sum_probs=26.7
Q ss_pred ccccchhhHHHHH--HHHhhCCChHHHHHHHHcchhccC
Q 026847 25 GHHDQTATVQLIK--AEIASHPLYEQLLAAHVSCLRVAT 61 (232)
Q Consensus 25 ~~~~~t~~~~~iK--AkI~sHPlYp~LL~AyvdC~KVGA 61 (232)
+.+|--+-.++.. -+|..||.|..|+.||+|-.||=.
T Consensus 413 A~L~Gks~rqRayElI~i~~p~dre~L~k~afdr~kvmp 451 (454)
T KOG2828|consen 413 ADLWGKSPRQRAYELIQICAPPDREALLKAAFDRAKVMP 451 (454)
T ss_pred HHHhCCCHHHHHHHHHHhhCCchHHHHHHHHHHHHhccc
Confidence 4466644333333 368999999999999999888743
No 33
>PF02290 SRP14: Signal recognition particle 14kD protein; InterPro: IPR003210 The signal recognition particle (SRP) is a multimeric protein, which along with its conjugate receptor (SR), is involved in targeting secretory proteins to the rough endoplasmic reticulum (RER) membrane in eukaryotes, or to the plasma membrane in prokaryotes [, ]. SRP recognises the signal sequence of the nascent polypeptide on the ribosome, retards its elongation, and docks the SRP-ribosome-polypeptide complex to the RER membrane via the SR receptor. Eukaryotic SRP consists of six polypeptides (SRP9, SRP14, SRP19, SRP54, SRP68 and SRP72) and a single 300 nucleotide 7S RNA molecule. The RNA component catalyses the interaction of SRP with its SR receptor []. In higher eukaryotes, the SRP complex consists of the Alu domain and the S domain linked by the SRP RNA. The Alu domain consists of a heterodimer of SRP9 and SRP14 bound to the 5' and 3' terminal sequences of SRP RNA. This domain is necessary for retarding the elongation of the nascent polypeptide chain, which gives SRP time to dock the ribosome-polypeptide complex to the RER membrane. In archaea, the SRP complex contains 7S RNA like its eukaryotic counterpart, yet only includes two of the six protein subunits found in the eukarytic complex: SRP19 and SRP54 []. This entry represents the 14 kDa SRP14 component. Both SRP9 and SRP14 have the same (beta)-alpha-beta(3)-alpha fold. The heterodimer has pseudo two-fold symmetry and is saddle-like, consisting of a curved six-stranded beta-sheet that has four helices packed on the convex side and an exposed concave surface lined with positively charged residues. The SRP9/SRP14 heterodimer is essential for SRP RNA binding, mediating the pausing of synthesis of ribosome associated nascent polypeptides that have been engaged by the targeting domain of SRP [].; GO: 0008312 7S RNA binding, 0030942 endoplasmic reticulum signal peptide binding, 0006614 SRP-dependent cotranslational protein targeting to membrane, 0005786 signal recognition particle, endoplasmic reticulum targeting; PDB: 1914_A 1RY1_D 1E8O_B 2W9J_B.
Probab=25.52 E-value=60 Score=25.32 Aligned_cols=19 Identities=32% Similarity=0.496 Sum_probs=15.9
Q ss_pred CCCCchhHHHHHHHHHHHH
Q 026847 100 HERQELDNFLAQYLIVLCT 118 (232)
Q Consensus 100 g~DPELDqFMeaYc~mL~k 118 (232)
....+|+.|..+|+.+|..
T Consensus 70 V~~~~l~~F~~~Y~~v~K~ 88 (93)
T PF02290_consen 70 VDPDDLDKFWQSYANVLKA 88 (93)
T ss_dssp EETTCHHHHHHHHHHHHHH
T ss_pred ECHHHHHHHHHHHHHHHHh
Confidence 3558999999999999853
No 34
>PF10057 DUF2294: Uncharacterized conserved protein (DUF2294); InterPro: IPR018745 This domain of unknown function is found in a family of hypothetical bacterial proteins with no known function. It is also found at the C terminus of proteins provisionally annotated as response regulators.
Probab=25.34 E-value=69 Score=25.56 Aligned_cols=37 Identities=30% Similarity=0.467 Sum_probs=22.6
Q ss_pred hhhhHHHHHHHHHHHHHhhccccee-------EEEEEEEEEEee
Q 026847 195 TERSLMERVRQELKIELKQVMTTYI-------YIYIYINITITT 231 (232)
Q Consensus 195 ~erslmervrqelk~elkqg~~~~~-------~~~~~~~~~~~~ 231 (232)
..+.+..++|+.|...+++-.+..| ++.+|.+|.+.|
T Consensus 60 ~g~~lv~~~R~~l~~~~~~~l~~~ie~i~g~~V~~l~~D~~~~t 103 (118)
T PF10057_consen 60 EGRELVKQVRTSLIESLKPELKEMIEEILGVKVISLFSDISLET 103 (118)
T ss_pred chHHHHHHHHHHHHHHHHHHHHHHHHHHhCCeeEEEEEEcccCC
Confidence 3566777777776666555444433 467777776544
No 35
>CHL00044 rpl16 ribosomal protein L16
Probab=25.34 E-value=72 Score=26.60 Aligned_cols=42 Identities=24% Similarity=0.309 Sum_probs=29.4
Q ss_pred CCC--CccChhh---hhHHHHHHHHHHHHHhhcccceeEEEEEEEEEEe
Q 026847 187 FGP--LLPTETE---RSLMERVRQELKIELKQVMTTYIYIYIYINITIT 230 (232)
Q Consensus 187 fgp--l~~te~e---rslmervrqelk~elkqg~~~~~~~~~~~~~~~~ 230 (232)
||. |...|+. -+.+|..|+=+.+.||.+| +|+|-+|-++.+|
T Consensus 29 ~G~~GL~a~e~~~i~~~qiEaaR~~i~r~lkk~~--~i~irv~P~~pvt 75 (135)
T CHL00044 29 FGRYALQALEPAWITSRQIEAGRRAITRYARRGG--KIWIRIFPDKPVT 75 (135)
T ss_pred eccEEEEEccCcEECHHHHHHHHHHHHHhhhcCc--EEEEEECCCcceE
Confidence 444 4455554 3579999999999999977 4555566666555
No 36
>COG5023 Tubulin [Cytoskeleton]
Probab=24.24 E-value=67 Score=32.01 Aligned_cols=22 Identities=41% Similarity=0.773 Sum_probs=18.8
Q ss_pred CCCCCccChhhhhHHHHHHHHHHHHHhhcc
Q 026847 186 GFGPLLPTETERSLMERVRQELKIELKQVM 215 (232)
Q Consensus 186 gfgpl~~te~erslmervrqelk~elkqg~ 215 (232)
|||.| ||||+|.|.-++.|+-|
T Consensus 146 G~Gsl--------LLerl~~eypkK~~~tf 167 (443)
T COG5023 146 GLGSL--------LLERLREEYPKKIKLTF 167 (443)
T ss_pred cHHHH--------HHHHHHHhcchhheeEE
Confidence 88866 89999999988888766
No 37
>PHA03397 vlf-1 very late expression factor 1; Provisional
Probab=23.84 E-value=65 Score=31.11 Aligned_cols=31 Identities=23% Similarity=0.433 Sum_probs=26.1
Q ss_pred HHHHHHHHhhCCChHHHHHHHHcchhccCCCC
Q 026847 33 VQLIKAEIASHPLYEQLLAAHVSCLRVATPID 64 (232)
Q Consensus 33 ~~~iKAkI~sHPlYp~LL~AyvdC~KVGAPpe 64 (232)
-..-|.+|-+||+|+.....=++=||- +|++
T Consensus 12 ~~~w~~~i~~~~~f~~~~~~~~~rq~~-~~~~ 42 (363)
T PHA03397 12 YNIWKLVIQNHPRFEEVFDLAIDRQKC-TPDE 42 (363)
T ss_pred HHHHHHHHhccchHHHHHHHHHHhhcC-CCcc
Confidence 456789999999999999999999994 4443
No 38
>PF02344 Myc-LZ: Myc leucine zipper domain; InterPro: IPR003327 This family consists of the leucine zipper dimerisation domain found in both cellular c-Myc proto-oncogenes and viral v-Myc oncogenes. Dimerisation via the leucine zipper motif with other basic helix-loop-helix-leucine zipper (b/HLH/lz) proteins is required for efficient DNA binding []. The Myc-Max dimer is a transactivating complex activating expression of growth related genes promoting cell proliferation. The dimerisation is facilitated via interdigitating leucine residues every 7th position of the alpha helix. Like charge repulsion of adjacent residues in this region preturbs the formation of homodimers with heterodimers being promoted by opposing charge attractions. It has been demonstrated that in transgenic mice the balance between oncogene-induced proliferation and apoptosis in a given tissue can be a critical determinant in the initiation and maintenance of the tumor [].; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus; PDB: 1NKP_D 1A93_A 2A93_A.
Probab=23.29 E-value=99 Score=20.53 Aligned_cols=18 Identities=39% Similarity=0.612 Sum_probs=15.2
Q ss_pred hhhHHHHHHHHHHHHHhh
Q 026847 196 ERSLMERVRQELKIELKQ 213 (232)
Q Consensus 196 erslmervrqelk~elkq 213 (232)
|..++.|-|+-|||.|.|
T Consensus 9 ekeqLrrr~eqLK~kLeq 26 (32)
T PF02344_consen 9 EKEQLRRRREQLKHKLEQ 26 (32)
T ss_dssp HHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 445889999999999987
No 39
>PRK13507 formate--tetrahydrofolate ligase; Provisional
Probab=22.32 E-value=42 Score=34.57 Aligned_cols=28 Identities=29% Similarity=0.367 Sum_probs=15.7
Q ss_pred CCCccc-ccc--CCCCCCCCCC-CCCCccccc
Q 026847 2 QEPSLG-VMG--SSSSGGGGGG-GDVSGHHDQ 29 (232)
Q Consensus 2 ~~~~~~-~~~--~~~~~~~~~~-~~~~~~~~~ 29 (232)
.||++| .|| ||..|||-+. --+...|++
T Consensus 103 RePSlGP~FGiKGGAaGGGysQv~Pme~iNLH 134 (587)
T PRK13507 103 RQPSGGPTMNIKGSAAGGGLSQCIPLTPFSLG 134 (587)
T ss_pred ecCCcCCcCCcccccCCCccccccchhhcccc
Confidence 589999 565 6655666433 122344554
No 40
>PF01563 Alpha_E3_glycop: Alphavirus E3 glycoprotein; InterPro: IPR002533 Alphaviruses are enveloped RNA viruses that use arthropods such as mosquitoes for transmission to their vertebrate hosts, and include Semliki Forest and Sindbis viruses []. Alphaviruses consist of three structural proteins: the core nucleocapsid protein C, and the envelope proteins P62 and E1 (IPR002548 from INTERPRO) that associate as a heterodimer. The viral membrane-anchored surface glycoproteins are responsible for receptor recognition and entry into target cells through membrane fusion. The proteolytic maturation of P62 into E2 (IPR000936 from INTERPRO) and E3 causes a change in the viral surface. Together the E1, E2, and sometimes E3 glycoprotein "spikes" form an E1/E2 dimer or an E1/E2/E3 trimer, where E2 extends from the centre to the vertices, E1 fills the space between the vertices, and E3, if present, is at the distal end of the spike [, ]. Upon exposure of the virus to the acidity of the endosome, E1 dissociates from E2 to form an E1 homotrimer, which is necessary for the fusion step to drive the cellular and viral membranes together []. This entry represents the alphaviral E3 glycoprotein. Most alphaviruses lose the peripheral protein E3, but in Semliki viruses it remains associated with the viral surface.; GO: 0004252 serine-type endopeptidase activity, 0019028 viral capsid, 0055036 virion membrane; PDB: 3J0C_H 3J0G_N 3N40_P 3N41_A 3N44_A 3N42_A 3N43_A.
Probab=21.69 E-value=52 Score=24.31 Aligned_cols=23 Identities=26% Similarity=0.518 Sum_probs=16.9
Q ss_pred HHHHHhhCCChHHHHHHHHcchh
Q 026847 36 IKAEIASHPLYEQLLAAHVSCLR 58 (232)
Q Consensus 36 iKAkI~sHPlYp~LL~AyvdC~K 58 (232)
|=..=+.||-|-.||.|-+.|.-
T Consensus 28 mLe~Nvd~p~Y~~LL~a~l~C~~ 50 (56)
T PF01563_consen 28 MLEDNVDNPGYDDLLEAVLRCPS 50 (56)
T ss_dssp HHHCTSSSTTHHHHHHHHCC--S
T ss_pred HHHHhCCCccHHHHHHHHhhCCC
Confidence 44445789999999999999953
No 41
>COG1913 Predicted Zn-dependent proteases [General function prediction only]
Probab=21.44 E-value=75 Score=28.31 Aligned_cols=21 Identities=33% Similarity=0.339 Sum_probs=18.0
Q ss_pred ChhhhhHHHHHHHHHHHHHhh
Q 026847 193 TETERSLMERVRQELKIELKQ 213 (232)
Q Consensus 193 te~erslmervrqelk~elkq 213 (232)
|+...=++|||..|.-|||--
T Consensus 114 ~pd~~lf~ERv~KEv~HElGH 134 (181)
T COG1913 114 TPDRELFKERVVKEVLHELGH 134 (181)
T ss_pred CCChHHHHHHHHHHHHHHhhh
Confidence 677777999999999999854
No 42
>TIGR02883 spore_cwlD N-acetylmuramoyl-L-alanine amidase CwlD. Members of this protein family are the CwlD family of N-acetylmuramoyl-L-alanine amidase. This family has been called the germination-specific N-acetylmuramoyl-L-alanine amidase. CwlD is required, along with the putative deactylase PdaA, to make muramic delta-lactam, a novel peptidoglycan constituent found only in spores. CwlD mutants show a germination defect.
Probab=20.70 E-value=1.8e+02 Score=24.62 Aligned_cols=42 Identities=14% Similarity=0.023 Sum_probs=28.2
Q ss_pred CCCCCCCccccCCCCCCccChhhhhHHHHHHHHHHHHHhh-cccc
Q 026847 174 LDQSASDSHDLMGFGPLLPTETERSLMERVRQELKIELKQ-VMTT 217 (232)
Q Consensus 174 ~~d~~~d~~d~~gfgpl~~te~erslmervrqelk~elkq-g~~~ 217 (232)
++||+..|.|...-||-=-.|.+ +--++-..|+..|++ |++-
T Consensus 4 ~iDpGHGg~d~GA~~~~g~~E~~--~~l~ia~~l~~~L~~~G~~V 46 (189)
T TIGR02883 4 VIDPGHGGIDGGAVGKDGTLEKD--ITLEIALKLKDYLQEQGALV 46 (189)
T ss_pred EEeCCCCCCCCCCCCCCCccHHH--HHHHHHHHHHHHHHhCCCEE
Confidence 57888888888777764225655 555777777777765 5543
Done!