Query psy13666
Match_columns 278
No_of_seqs 208 out of 1361
Neff 6.6
Searched_HMMs 46136
Date Fri Aug 16 17:19:37 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy13666.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/13666hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 COG3023 ampD N-acetyl-anhydrom 100.0 5.9E-68 1.3E-72 470.7 20.6 221 26-274 30-257 (257)
2 PRK11789 N-acetyl-anhydromuran 100.0 2.6E-44 5.7E-49 311.2 16.7 151 13-185 13-180 (185)
3 PF01510 Amidase_2: N-acetylmu 100.0 1E-29 2.2E-34 207.0 4.4 125 29-174 4-131 (132)
4 cd06583 PGRP Peptidoglycan rec 100.0 6.4E-28 1.4E-32 194.7 14.2 118 33-174 1-125 (126)
5 smart00644 Ami_2 Ami_2. 99.9 1.9E-25 4.1E-30 181.3 14.1 118 33-172 2-126 (126)
6 PHA00447 lysozyme 99.9 5E-25 1.1E-29 183.9 14.6 127 32-183 8-139 (142)
7 smart00701 PGRP Animal peptido 99.8 1E-18 2.2E-23 145.9 15.0 128 13-164 3-142 (142)
8 COG5632 N-acetylmuramoyl-L-ala 99.6 1.8E-14 3.9E-19 132.3 11.7 133 30-183 20-163 (302)
9 PF01471 PG_binding_1: Putativ 98.6 6E-08 1.3E-12 68.0 5.2 50 214-268 2-57 (57)
10 TIGR02869 spore_SleB spore cor 97.6 9.4E-05 2E-09 65.3 5.9 53 211-268 10-68 (201)
11 COG3409 Putative peptidoglycan 96.6 0.0048 1E-07 52.3 6.2 56 212-272 43-106 (185)
12 PRK10594 murein L,D-transpepti 95.1 0.044 9.5E-07 55.8 6.2 28 237-269 314-341 (608)
13 COG3409 Putative peptidoglycan 92.1 0.34 7.4E-06 40.8 5.5 52 213-269 126-184 (185)
14 COG2989 Uncharacterized protei 90.7 0.47 1E-05 47.5 5.6 55 210-269 234-297 (561)
15 PF08823 PG_binding_2: Putativ 76.2 4.9 0.00011 29.8 4.1 49 215-266 16-72 (74)
16 PF09374 PG_binding_3: Predict 72.7 4.4 9.5E-05 29.8 3.1 17 253-269 15-31 (72)
17 PF06028 DUF915: Alpha/beta hy 60.5 52 0.0011 30.0 8.3 97 34-162 12-111 (255)
18 KOG1565|consensus 59.8 13 0.00028 37.1 4.5 48 216-268 29-85 (469)
19 COG4483 Uncharacterized protei 53.8 25 0.00053 25.6 3.9 51 219-273 6-56 (68)
20 cd08798 Death_NFkB2_p100 Death 43.9 56 0.0012 24.5 4.6 50 175-229 15-67 (76)
21 COG4814 Uncharacterized protei 38.4 63 0.0014 30.0 5.0 27 137-163 119-145 (288)
22 PF01527 HTH_Tnp_1: Transposas 31.1 31 0.00067 24.6 1.5 27 130-156 5-38 (76)
23 PRK00745 4-oxalocrotonate taut 29.6 93 0.002 21.2 3.8 28 131-158 11-39 (62)
24 KOG2983|consensus 29.5 1.1E+02 0.0025 28.5 5.2 71 106-186 185-270 (334)
25 PRK06765 homoserine O-acetyltr 29.4 1.2E+02 0.0026 29.3 5.7 32 131-162 137-169 (389)
26 PF12000 Glyco_trans_4_3: Gkyc 28.6 56 0.0012 28.1 2.9 27 138-165 51-77 (171)
27 KOG0237|consensus 28.4 35 0.00076 35.2 1.8 28 133-160 101-128 (788)
28 PLN02611 glutamate--cysteine l 28.1 81 0.0018 31.7 4.3 66 103-176 63-132 (482)
29 PHA00675 hypothetical protein 27.6 52 0.0011 24.8 2.1 30 129-158 20-56 (78)
30 PRK02220 4-oxalocrotonate taut 26.7 1.8E+02 0.004 19.6 4.9 28 131-158 11-39 (61)
31 PF09684 Tail_P2_I: Phage tail 26.5 71 0.0015 25.9 3.1 93 169-277 33-137 (139)
32 PTZ00397 macrophage migration 26.0 2.2E+02 0.0048 22.2 5.8 28 132-159 69-97 (116)
33 PRK15067 ethanolamine ammonia 25.4 82 0.0018 31.2 3.7 33 133-165 198-231 (461)
34 PRK11126 2-succinyl-6-hydroxy- 25.1 1.1E+02 0.0025 25.9 4.3 26 137-162 49-74 (242)
35 cd08797 Death_NFkB1_p105 Death 24.7 1.7E+02 0.0037 21.9 4.5 48 177-229 17-67 (76)
36 TIGR02240 PHA_depoly_arom poly 23.3 1.2E+02 0.0026 26.8 4.2 26 137-162 74-99 (276)
37 TIGR03695 menH_SHCHC 2-succiny 22.8 1.5E+02 0.0033 24.2 4.6 28 136-163 51-79 (251)
38 cd08802 Death_UNC5B Death doma 22.3 1.1E+02 0.0024 23.3 3.2 53 176-230 21-76 (84)
39 PTZ00450 macrophage migration 22.2 1.8E+02 0.004 23.1 4.6 30 132-161 69-99 (113)
40 COG0151 PurD Phosphoribosylami 21.4 80 0.0017 31.2 2.8 23 132-154 95-117 (428)
41 PF07750 GcrA: GcrA cell cycle 20.8 1.1E+02 0.0024 26.0 3.2 32 131-162 2-40 (162)
42 PF10979 DUF2786: Protein of u 20.6 1.8E+02 0.004 19.1 3.6 23 132-154 19-41 (43)
43 PLN02733 phosphatidylcholine-s 20.5 1.1E+02 0.0023 30.3 3.5 29 134-162 142-170 (440)
No 1
>COG3023 ampD N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]
Probab=100.00 E-value=5.9e-68 Score=470.73 Aligned_cols=221 Identities=38% Similarity=0.673 Sum_probs=195.8
Q ss_pred CCCCC-CCCccEEEEEecCC-CCHHHHHHHHcCCCCCcceeEEEecCCCCCCCCCcEEEEeecCCccccccCCCCCCCCC
Q psy13666 26 YDSRD-GMSVKYLILHYTVY-NFAHIITAFTSNRAHNLHSSHYVISEKEGKYLPGGKVIQIVPDNMRAWHAGIGKWRRDR 103 (278)
Q Consensus 26 ~~~R~-~~~i~~IViH~Ta~-~~~~s~~~~~~~~~~~~vSaHy~I~~d~~~~~~~G~I~qlV~e~~~AwHAG~s~w~g~~ 103 (278)
++.++ +.++++||+|||++ +.+.+...++. +..+||+||+|+++ |+|+|+||+++||||||+|.|+|+.
T Consensus 30 ~~~~~~~~~~~~iv~hytg~~d~~~~~~~l~~--~~~~VSaHylI~~d-------g~I~q~Vp~~~rAWHAGvS~w~Gr~ 100 (257)
T COG3023 30 ISLPPGGFGPDFIVLHYTGALDPKAHPFFLTI--PELRVSAHYLIDRD-------GRIVQLVPEERRAWHAGVSSWQGRE 100 (257)
T ss_pred cCCCCccCCCCEEEEeeccccCcccCchheec--cCCceeeEEEECCC-------CcEEeecCchhhhhhcccccccccc
Confidence 55666 88999999999955 56677777663 67899999999999 9999999999999999999999999
Q ss_pred CCCCceEEEEEecCCccCcccCCCCCCCCcHHHHHHHHHHHHHHHHHh-CCCCCceeecCCcCCCCCCCCCCCCChHHHH
Q psy13666 104 NLNSMSIGIHLVNGGVVGEKFRSTNYYPFDENQIHTLGLLGKDIVSQF-KIKPQYVLGHTDIAPGSKMDPGPLFPWGKLY 182 (278)
Q Consensus 104 ~~N~~SIGIEivn~G~~~~~~~~~~~~~~t~aQi~al~~L~~~L~~ry-~I~~~~VvgH~Diap~rK~DPG~~FpW~~L~ 182 (278)
++|++||||||+|+|... ...|||++||++|++|+++|++|| +|++.+|+||+||+|+||.|||+.|||++|+
T Consensus 101 ~~Nd~SIGIElvN~G~~~------~~~py~~AQiqal~~L~k~i~~ryP~I~~~~I~GHsDIAP~RK~DPG~~FpWk~l~ 174 (257)
T COG3023 101 RCNDFSIGIELVNRGTDA------SGPPYTEAQIQALIALLKDIIARYPNITPERIVGHSDIAPGRKTDPGPLFPWKRLA 174 (257)
T ss_pred cccCCceeEEEeeCCCCC------CCCCCCHHHHHHHHHHHHHHHHHccCCCHHHcccccccCcccCCCCCCCCCHHHHH
Confidence 999999999999998742 237999999999999999999999 7999999999999999999999999999999
Q ss_pred HHhCCCCcCCcchhhHHHHHhhcCCCCCCCCCCCHHHHHHHHHHcCCCCCCC--C--hHHHHHHHHhhhccCCCCCcCCC
Q psy13666 183 LDYGIGAWLSPDEMTVEAIVRKFKPARPYPRKLDRGIFLELLKAYGYNVTIT--N--KRSVIRAFKTHFSANQNPERIYA 258 (278)
Q Consensus 183 ~~~gig~w~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~q~~L~~~GY~~~~~--~--~~~~v~aFQ~hf~~~~~~~~~dG 258 (278)
+.+|+|+|++++++..... .+ .+++|.+||++|++|||+++.+ | ++.||+||||||| |.++||
T Consensus 175 ~~~gigaw~~~~~~~~~~~--~~-------~~~~v~~lq~~L~~YGY~v~~~~~d~~t~~vv~aFQ~hfr----p~~~dg 241 (257)
T COG3023 175 EALGIGAWLDTAQVQKYLA--LL-------KGEDVAALQEMLARYGYGVEIGVFDQETQQVVRAFQMHFR----PGLYDG 241 (257)
T ss_pred hhcCcccCCcHhhhhhhhh--hh-------ccCCHHHHHHHHHHhCcCCCcchhhHHHHHHHHHHHHHhC----CCCCCC
Confidence 8789999999875543221 11 1278999999999999999873 2 3999999999997 899999
Q ss_pred CCChHHHHHHHHHHhh
Q psy13666 259 DITTEDMFWAWALVAK 274 (278)
Q Consensus 259 ~~~~~T~a~l~aL~~k 274 (278)
++|.||.|||.||++|
T Consensus 242 ~~d~et~a~l~al~~k 257 (257)
T COG3023 242 EADVETIAILQALLEK 257 (257)
T ss_pred CCChHHHHHHHHHhcC
Confidence 9999999999999986
No 2
>PRK11789 N-acetyl-anhydromuranmyl-L-alanine amidase; Provisional
Probab=100.00 E-value=2.6e-44 Score=311.20 Aligned_cols=151 Identities=32% Similarity=0.574 Sum_probs=133.4
Q ss_pred EeeCCCCCCCCCCCCCCC-CCCccEEEEEecCCCCH-----HHHHHHHcC-----------CCCCcceeEEEecCCCCCC
Q psy13666 13 IDPFPEWEKNRNHYDSRD-GMSVKYLILHYTVYNFA-----HIITAFTSN-----------RAHNLHSSHYVISEKEGKY 75 (278)
Q Consensus 13 ~~~~p~~~~~~n~~~~R~-~~~i~~IViH~Ta~~~~-----~s~~~~~~~-----------~~~~~vSaHy~I~~d~~~~ 75 (278)
+.++|||| |+.|+ +..|++||||+|+++.+ ...++|++. ....+|||||+|++|
T Consensus 13 ~~~~~spn-----~~~Rp~~~~i~~iViH~~~~~~~~~~~~~i~~~f~~~ld~~~h~~f~~~~~~~vSaHy~I~rd---- 83 (185)
T PRK11789 13 ARRVPSPN-----FDARPDGEDISLLVIHNISLPPGEFGGPYIDALFTNRLDPDAHPYFAEIAGLRVSAHFLIRRD---- 83 (185)
T ss_pred CEECCCcC-----CCCCCCCCCceEEEEEecCCCccccCcHHHHHHhccCCCcccCchhhhcCCCcEeEEEEECCC----
Confidence 46789999 88888 67899999999998643 334555532 134689999999999
Q ss_pred CCCcEEEEeecCCccccccCCCCCCCCCCCCCceEEEEEecCCccCcccCCCCCCCCcHHHHHHHHHHHHHHHHHhCCCC
Q psy13666 76 LPGGKVIQIVPDNMRAWHAGIGKWRRDRNLNSMSIGIHLVNGGVVGEKFRSTNYYPFDENQIHTLGLLGKDIVSQFKIKP 155 (278)
Q Consensus 76 ~~~G~I~qlV~e~~~AwHAG~s~w~g~~~~N~~SIGIEivn~G~~~~~~~~~~~~~~t~aQi~al~~L~~~L~~ry~I~~ 155 (278)
|+|+|+|+++++|||||.|.|.|+.++|+.|||||+||.+ ..+||++|+++|++|+++||++|+|++
T Consensus 84 ---G~I~Q~V~~~~~AwHAG~s~w~G~~~~N~~SIGIEl~G~~----------~~~~t~aQ~~aL~~L~~~L~~~y~i~~ 150 (185)
T PRK11789 84 ---GEIVQFVSFDDRAWHAGVSSFQGRERCNDFSIGIELEGTD----------TLPFTDAQYQALAALTRALRAAYPIIA 150 (185)
T ss_pred ---CeEEEecccccccccccccccCCcCCCCCCEEEEEEECCC----------CCCccHHHHHHHHHHHHHHHHHcCCCH
Confidence 9999999999999999999999999999999999999653 368999999999999999999999999
Q ss_pred CceeecCCcCCCCCCCCCCCCChHHHHHHh
Q psy13666 156 QYVLGHTDIAPGSKMDPGPLFPWGKLYLDY 185 (278)
Q Consensus 156 ~~VvgH~Diap~rK~DPG~~FpW~~L~~~~ 185 (278)
.+|+||+|++|+||.||||.|||++|++..
T Consensus 151 ~~IvGH~diap~rk~DPgp~fdw~~l~~~l 180 (185)
T PRK11789 151 ERITGHSDIAPGRKTDPGPAFDWQRFRALL 180 (185)
T ss_pred HhEEehhhcCCCCCCCCCCCCCHHHHHHHh
Confidence 999999999999999999999999998653
No 3
>PF01510 Amidase_2: N-acetylmuramoyl-L-alanine amidase; InterPro: IPR002502 Proteins families containing this domain include zinc amidases that have N-acetylmuramoyl-L-alanine amidase activity 3.5.1.28 from EC This enzyme domain cleaves the amide bond between N-acetylmuramoyl and L-amino acids in bacterial cell walls (preferentially: D-lactyl-L-Ala). The structure is known for the Bacteriophage T7 structure and shows that two of the conserved histidines are zinc binding.; GO: 0008745 N-acetylmuramoyl-L-alanine amidase activity, 0009253 peptidoglycan catabolic process; PDB: 2RKQ_A 2EAV_A 2EAX_B 2XZ4_A 3TRU_A 3NKW_B 3QS0_B 3NW3_C 2Z9N_C 3NNO_B ....
Probab=99.96 E-value=1e-29 Score=206.98 Aligned_cols=125 Identities=35% Similarity=0.493 Sum_probs=103.3
Q ss_pred CCCCCccEEEEEecCCCCHHHHH--HHHcCCCCCcceeEEEecCCCCCCCCCcEEEEeecCCccccccCCCCCCCCCCCC
Q psy13666 29 RDGMSVKYLILHYTVYNFAHIIT--AFTSNRAHNLHSSHYVISEKEGKYLPGGKVIQIVPDNMRAWHAGIGKWRRDRNLN 106 (278)
Q Consensus 29 R~~~~i~~IViH~Ta~~~~~s~~--~~~~~~~~~~vSaHy~I~~d~~~~~~~G~I~qlV~e~~~AwHAG~s~w~g~~~~N 106 (278)
|...+|++||||+|+++...... .+.. ...++||||+|++| |+|+|+|+++.+|||||.+. .|
T Consensus 4 ~~~~~~~~IviH~t~~~~~~~~~~~~~~~--~~~~~s~H~~I~~d-------G~i~q~~~~~~~a~hag~~~------~N 68 (132)
T PF01510_consen 4 RRRRKPKGIVIHHTAGPSSAAANAVWFYW--RSSGASYHYVIDRD-------GTIYQGVPENRVAWHAGGGS------AN 68 (132)
T ss_dssp BCBSSEEEEEEEEESSSTTSSHHHHHHHH--HHSS-SSSEEEETT-------SEEEESSTTTBEESSSTTTT------CG
T ss_pred CCCCCCCEEEEEECCCCCchhHHHHHhhc--cCCCceEEEEEecC-------CeEEEeecchhceeccCCCc------cc
Confidence 44678999999999998642221 2221 23799999999999 99999999999999998643 89
Q ss_pred CceEEEEEecCCccCcccCCCCCCCCcHHHHHHHHHHHHHHHHHhCCCCC-ceeecCCcCCCCCCCCCC
Q psy13666 107 SMSIGIHLVNGGVVGEKFRSTNYYPFDENQIHTLGLLGKDIVSQFKIKPQ-YVLGHTDIAPGSKMDPGP 174 (278)
Q Consensus 107 ~~SIGIEivn~G~~~~~~~~~~~~~~t~aQi~al~~L~~~L~~ry~I~~~-~VvgH~Diap~rK~DPG~ 174 (278)
..|||||+++.+.. ....++|++|++++++|+++||++|+|++. .|+||.|+++.+|.|||+
T Consensus 69 ~~sigIe~~~~~~~------~~~~~~t~~Q~~a~~~L~~~l~~~~~i~~~~~I~~H~~~~~~~~~cPG~ 131 (132)
T PF01510_consen 69 ARSIGIELVGNGDD------SDDDPPTDAQIEALARLIADLCRRYGIPPNRGIVGHRDVSSTRKSCPGP 131 (132)
T ss_dssp TCEEEEEESSCTSC------TSSSHHHHHHHHHHHHHHHHHHHTTSEEEEEEEEEHHHTSSST-STTCH
T ss_pred cccEEEEEEecccc------ccCCCCCHHHHHHHHHHHHHHHHHCCcCCCCEEeeHHHCCCcCCCCccC
Confidence 99999999977520 134789999999999999999999999998 899999999988899995
No 4
>cd06583 PGRP Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20 kDa) extracellular proteins; intermediate PGRPs (PGRP-I) that are 40-45 kDa and are predicted to be transmembrane proteins; and long PGRPs (PGRP-L), up to 90 kDa, which may be either intracellular or transmembrane. Several structures of PGRPs are known in insects and mammals, some bound with substrates like Muramyl Tripeptide (MTP) or Tracheal Cytotoxin (TCT). The substrate binding site is conserved in PGRP-LCx, PGRP-LE, and PGRP-Ialpha proteins. This family includes Zn-dependent N-Acetylmuramoyl-L-alanine Amidase, EC:3.5.1.28. This enzyme cleaves the amide bond between N-acetylmuramoyl and L-amino acids, preferentially D-lactyl-L-Ala, in bacterial cell walls. The structure for the bacteriophage T7 lysozyme shows that two of
Probab=99.95 E-value=6.4e-28 Score=194.67 Aligned_cols=118 Identities=31% Similarity=0.443 Sum_probs=102.7
Q ss_pred CccEEEEEecCCCC----HHHHHHHHcC--CCCCcceeEEEecCCCCCCCCCcEEEEeecCCccccccCCCCCCCCCCCC
Q psy13666 33 SVKYLILHYTVYNF----AHIITAFTSN--RAHNLHSSHYVISEKEGKYLPGGKVIQIVPDNMRAWHAGIGKWRRDRNLN 106 (278)
Q Consensus 33 ~i~~IViH~Ta~~~----~~s~~~~~~~--~~~~~vSaHy~I~~d~~~~~~~G~I~qlV~e~~~AwHAG~s~w~g~~~~N 106 (278)
+|++||||+|+++. ...++.|.+. +.+.++|+||+|+++ |+|+|+++++.+|||||. +.|
T Consensus 1 ~~~~IviH~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~H~~I~~~-------G~i~q~~~~~~~a~hag~-------~~N 66 (126)
T cd06583 1 PVKYVVIHHTANPNCYTAAAAVRYLQNYHMRGWSDISYHFLVGGD-------GRIYQGRGWNYVGWHAGG-------NYN 66 (126)
T ss_pred CCCEEEEEeCCCCCchhHHHHHHHHHHHHhhCCCCcCceEEEcCC-------CEEEEECCCCccccccCC-------CCC
Confidence 48999999999986 4566666541 125899999999999 999999999999999974 589
Q ss_pred CceEEEEEecCCccCcccCCCCCCCCcHHHHHHHHHHHHHHHHHhCCC-CCceeecCCcCCCCCCCCCC
Q psy13666 107 SMSIGIHLVNGGVVGEKFRSTNYYPFDENQIHTLGLLGKDIVSQFKIK-PQYVLGHTDIAPGSKMDPGP 174 (278)
Q Consensus 107 ~~SIGIEivn~G~~~~~~~~~~~~~~t~aQi~al~~L~~~L~~ry~I~-~~~VvgH~Diap~rK~DPG~ 174 (278)
..|||||+|+... ..+++++|++++++|+++||++|+|+ ...|+||.++++. |.|||+
T Consensus 67 ~~sigIe~~g~~~---------~~~~~~~q~~~~~~L~~~l~~~~~i~~~~~i~~H~~~~~~-~~cPg~ 125 (126)
T cd06583 67 SYSIGIELIGNFD---------GGPPTAAQLEALAELLAYLVKRYGIPPDYRIVGHRDVSPG-TECPGD 125 (126)
T ss_pred CceEEEEEEeCCC---------CCCCCHHHHHHHHHHHHHHHHhCCCCCCCEEEecccCCCC-CCCCCC
Confidence 9999999996532 23899999999999999999999998 8999999999987 999996
No 5
>smart00644 Ami_2 Ami_2.
Probab=99.93 E-value=1.9e-25 Score=181.33 Aligned_cols=118 Identities=28% Similarity=0.398 Sum_probs=97.9
Q ss_pred CccEEEEEecCCCC---HHHHHHHHcCCCCC-cceeEEEecCCCCCCCCCcEEEEeecCCccccccCCCCCCCCCCCCCc
Q psy13666 33 SVKYLILHYTVYNF---AHIITAFTSNRAHN-LHSSHYVISEKEGKYLPGGKVIQIVPDNMRAWHAGIGKWRRDRNLNSM 108 (278)
Q Consensus 33 ~i~~IViH~Ta~~~---~~s~~~~~~~~~~~-~vSaHy~I~~d~~~~~~~G~I~qlV~e~~~AwHAG~s~w~g~~~~N~~ 108 (278)
+|++||||+|+++. ...++++.+ +.. ++|+||+|++| |+|+|+|+++++|||+|.+.|. +.|..
T Consensus 2 ~~~~IviH~t~~~~~~a~~~~~~~~~--~~~~~~~~H~~I~~d-------G~i~~~~~~~~~awh~~~~~~~---~~N~~ 69 (126)
T smart00644 2 PPRGIVIHHTANSNASCANEARYMQN--NHMNDIGYHFLVGGD-------GRVYQGVGWNYVAWHAGGAHTP---GYNDI 69 (126)
T ss_pred CCCEEEEecCCCCchhHHHHHHHHHh--cCCCceeeEEEEcCC-------CEEEEccCCccccccccccccc---CCCCC
Confidence 58999999999986 245566665 333 79999999999 9999999999999999988774 48999
Q ss_pred eEEEEEecCCccCcccCCCCCCCCcHHHHHHHHHHHHHHHHHhCCCC---CceeecCCcCCCCCCCC
Q psy13666 109 SIGIHLVNGGVVGEKFRSTNYYPFDENQIHTLGLLGKDIVSQFKIKP---QYVLGHTDIAPGSKMDP 172 (278)
Q Consensus 109 SIGIEivn~G~~~~~~~~~~~~~~t~aQi~al~~L~~~L~~ry~I~~---~~VvgH~Diap~rK~DP 172 (278)
|||||+|+... ....+|+++|+.++ .|++.+|++|+|+| .+|+||.|+++ |.||
T Consensus 70 sigIe~~g~~~-------~~~~~~~~a~~~a~-~ll~~~~~~~~~~~~~~~~i~~H~~~~~--~~cP 126 (126)
T smart00644 70 SIGIEFIGSFD-------SDDEPFAEALYAAL-DLLAKLLKGAGLPPDGRYRIVGHRDVAP--TEDP 126 (126)
T ss_pred EEEEEEEeCCc-------CCCCCCHHHHHHHH-HHHHHHHHcCCCCCCCCCeEecccCCCC--CCCc
Confidence 99999996532 11468999999776 55566999999985 89999999997 8998
No 6
>PHA00447 lysozyme
Probab=99.93 E-value=5e-25 Score=183.86 Aligned_cols=127 Identities=22% Similarity=0.327 Sum_probs=104.1
Q ss_pred CCccEEEEEecCCCCH-----HHHHHHHcCCCCCcceeEEEecCCCCCCCCCcEEEEeecCCccccccCCCCCCCCCCCC
Q psy13666 32 MSVKYLILHYTVYNFA-----HIITAFTSNRAHNLHSSHYVISEKEGKYLPGGKVIQIVPDNMRAWHAGIGKWRRDRNLN 106 (278)
Q Consensus 32 ~~i~~IViH~Ta~~~~-----~s~~~~~~~~~~~~vSaHy~I~~d~~~~~~~G~I~qlV~e~~~AwHAG~s~w~g~~~~N 106 (278)
..+++||||||++... ..+..|...+.+.+++|||+|+.| |+||+.++.+..+||+ .+.|
T Consensus 8 ~~~~~ivIHhta~~~~~~~~~r~iq~~H~~~gw~dIgYhf~I~~d-------G~I~eGR~~~~~gaH~--------~g~N 72 (142)
T PHA00447 8 SSTKAIFVHCSATKPSMDVGVREIRQWHKEQGWLDVGYHFIIRRD-------GTVEEGRPEDVVGSHV--------KGYN 72 (142)
T ss_pred CCCCEEEEeCCCCCCCccccHHHHHHHHHHCCCCCcCeEEEECCC-------CEEEECCCCCcccccc--------CCcC
Confidence 3579999999998632 444445444678899999999999 9999999999999999 4689
Q ss_pred CceEEEEEecCCccCcccCCCCCCCCcHHHHHHHHHHHHHHHHHhCCCCCceeecCCcCCCCCCCCCCCCChHHHHH
Q psy13666 107 SMSIGIHLVNGGVVGEKFRSTNYYPFDENQIHTLGLLGKDIVSQFKIKPQYVLGHTDIAPGSKMDPGPLFPWGKLYL 183 (278)
Q Consensus 107 ~~SIGIEivn~G~~~~~~~~~~~~~~t~aQi~al~~L~~~L~~ry~I~~~~VvgH~Diap~rK~DPG~~FpW~~L~~ 183 (278)
+.|||||+++. +.. ++..+.++|++|+++|..|+++|+++|+. ..|+||+|++| |.||| |+|.++.+
T Consensus 73 ~~sIGI~liG~-f~~---~~~~~~~~T~aQ~~al~~Ll~~L~~~~~~--~~I~GHrd~~~--t~cPg--~~l~~~~~ 139 (142)
T PHA00447 73 SNSVGVCLVGG-IDD---KGKFDANFTPAQMQSLKSLLVTLKAKYPG--AEIKAHHDVAP--KACPS--FDLQRWLK 139 (142)
T ss_pred CCeEEEEEecC-ccc---CCccCCCCCHHHHHHHHHHHHHHHHHCCC--CEEEeccCCCC--CCCCC--HHHHHHHh
Confidence 99999999953 111 11235789999999999999999999954 68999999987 89998 88877754
No 7
>smart00701 PGRP Animal peptidoglycan recognition proteins homologous to Bacteriophage T3 lysozyme. The bacteriophage molecule, but not its moth homologue, has been shown to have N-acetylmuramoyl-L-alanine amidase activity. One member of this family, Tag7, is a cytokine.
Probab=99.80 E-value=1e-18 Score=145.89 Aligned_cols=128 Identities=21% Similarity=0.267 Sum_probs=95.4
Q ss_pred EeeCCCCCCCCCCCCCCCCCCccEEEEEecCCCCH----------HHHHH-HHcCCCCCcceeEEEecCCCCCCCCCcEE
Q psy13666 13 IDPFPEWEKNRNHYDSRDGMSVKYLILHYTVYNFA----------HIITA-FTSNRAHNLHSSHYVISEKEGKYLPGGKV 81 (278)
Q Consensus 13 ~~~~p~~~~~~n~~~~R~~~~i~~IViH~Ta~~~~----------~s~~~-~~~~~~~~~vSaHy~I~~d~~~~~~~G~I 81 (278)
|+++-.|...+......-..+|++||||||+++.. ..+.. +...+.+..++|||+|+.| |+|
T Consensus 3 iv~R~~Wga~~~~~~~~~~~~v~~viiHHT~~~~~~~~~~~~~~~r~iq~~H~~~~gw~DIgYhflI~~d-------G~I 75 (142)
T smart00701 3 IVPRSEWGAKPRGHTPRLTRPVRYVIIHHTATPNCYTDAQCAQILRNIQAYHMEELGWCDIGYNFLVGGD-------GKV 75 (142)
T ss_pred EechhhcCCCCCCCccccCCCCCEEEEEeCCCCCCCCHHHHHHHHHHHHHHHHHcCCCCCcCCeEEEcCC-------CEE
Confidence 55566666211111111255789999999999642 12222 2233467899999999999 999
Q ss_pred EEeecCCccccccCCCCCCCCCCCCCceEEEEEecCCccCcccCCCCCCCCcHHHHHHHHHHHHHHHHHhCCCCC-ceee
Q psy13666 82 IQIVPDNMRAWHAGIGKWRRDRNLNSMSIGIHLVNGGVVGEKFRSTNYYPFDENQIHTLGLLGKDIVSQFKIKPQ-YVLG 160 (278)
Q Consensus 82 ~qlV~e~~~AwHAG~s~w~g~~~~N~~SIGIEivn~G~~~~~~~~~~~~~~t~aQi~al~~L~~~L~~ry~I~~~-~Vvg 160 (278)
|+..+.+.++.|++ +.|..|||||+++. . .....|++|+++|+.|++.++++|+|.|. .|+|
T Consensus 76 yeGR~~~~~gah~~--------g~N~~sigI~~iG~--~-------~~~~pt~~q~~al~~Li~~~~~~~~i~p~~~i~g 138 (142)
T smart00701 76 YEGRGWNVVGAHTG--------GYNDISLGIAFIGN--F-------TDKLPTDAALDAAQDLLACAVQRGHLSPDYKLVG 138 (142)
T ss_pred EECCCCCccccccc--------CCCCCeEEEEEEeC--C-------CCCCCcHHHHHHHHHHHHHHHHcCCCCCCCEEEe
Confidence 99988887777773 58999999999842 1 23467899999999999999999999987 7999
Q ss_pred cCCc
Q psy13666 161 HTDI 164 (278)
Q Consensus 161 H~Di 164 (278)
|+|+
T Consensus 139 hrd~ 142 (142)
T smart00701 139 HRQV 142 (142)
T ss_pred ecCC
Confidence 9985
No 8
>COG5632 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]
Probab=99.57 E-value=1.8e-14 Score=132.29 Aligned_cols=133 Identities=22% Similarity=0.320 Sum_probs=99.9
Q ss_pred CCCCccEEEEEecCCCCH--H-HHHHHHcCCCCCcceeEEEecCCCCCCCCCcEEEEeecCCccccccCCCCC-----CC
Q psy13666 30 DGMSVKYLILHYTVYNFA--H-IITAFTSNRAHNLHSSHYVISEKEGKYLPGGKVIQIVPDNMRAWHAGIGKW-----RR 101 (278)
Q Consensus 30 ~~~~i~~IViH~Ta~~~~--~-s~~~~~~~~~~~~vSaHy~I~~d~~~~~~~G~I~qlV~e~~~AwHAG~s~w-----~g 101 (278)
+-.+|.+||||+|+++.. + -++.+. ++....|.|+.||++ +|+|.+|.++.|||||.+.- .-
T Consensus 20 ~~m~pe~IviHnTAN~~s~ad~e~sYmk--Nn~~~~s~H~fVDd~--------eiiq~~P~n~nawhagd~t~~~~~~~~ 89 (302)
T COG5632 20 NAMKPEKIVIHNTANDGSTADNEISYMK--NNYNNASVHIFVDDA--------EIIQIIPLNENAWHAGDGTNARFTVAL 89 (302)
T ss_pred ccCCceEEEEecccCccccchhhhHHhh--CCCcceeEEEEEecc--------eeEEeccccccceecCCccCceeeeec
Confidence 478899999999999853 3 334444 366789999999998 99999999999999997630 00
Q ss_pred CCCCCCceEEEEEecCCccCcccCCCCCCCCcHHHHHHHHHHHHHHHHHhCCCCCceeecCCcCCCCCCCCCCC-CC--h
Q psy13666 102 DRNLNSMSIGIHLVNGGVVGEKFRSTNYYPFDENQIHTLGLLGKDIVSQFKIKPQYVLGHTDIAPGSKMDPGPL-FP--W 178 (278)
Q Consensus 102 ~~~~N~~SIGIEivn~G~~~~~~~~~~~~~~t~aQi~al~~L~~~L~~ry~I~~~~VvgH~Diap~rK~DPG~~-Fp--W 178 (278)
....|..|||||||-.-. .+ ..|. +--...+++++.||..++|...+|+-|.|+. + |.||-+. +. |
T Consensus 90 ~g~~N~~Sigve~Cy~k~-----gg---~~~~-~a~~~s~~~va~l~~e~~~~~~~v~~H~D~s-G-k~Cp~~~l~~~~~ 158 (302)
T COG5632 90 NGTGNRNSIGVEICYAKN-----GG---KIYE-ATTSRSAKVVAELCKEGHIAVSDITKHKDWS-G-KLCPARYLDKGRW 158 (302)
T ss_pred cCCcCcceeeeeeeeccc-----cc---hhhh-hcchhHHHHHHHHHHhcCccccCceecCCCC-C-CcCCcccccccch
Confidence 235789999999994321 01 1222 2234567899999999999999999999996 3 9999875 44 7
Q ss_pred HHHHH
Q psy13666 179 GKLYL 183 (278)
Q Consensus 179 ~~L~~ 183 (278)
..+.+
T Consensus 159 ~~~~~ 163 (302)
T COG5632 159 DAVTK 163 (302)
T ss_pred hHHhh
Confidence 77653
No 9
>PF01471 PG_binding_1: Putative peptidoglycan binding domain; InterPro: IPR002477 This entry represents peptidoglycan binding domain (PGBD), as well as related domains that share the same structure. PGBD may have a general peptidoglycan binding function, has a core structure consisting of a closed, three-helical bundle with a left-handed twist. It is found at the N or C terminus of a variety of enzymes involved in bacterial cell wall degradation [, , ]. Examples are: Muramoyl-pentapeptide carboxypeptidase (3.4.17.8 from EC) N-acetylmuramoyl-L-alanine amidase cwlA precursor (cell wall hydrolase, autolysin, 3.5.1.28 from EC) Autolytic lysozyme (1,4-beta-N-acetylmuramidase, autolysin, 3.2.1.17 from EC) Membrane-bound lytic murein transglycosylase B Zinc-containing D-alanyl-D-alanine-cleaving carboxypeptidase, VanX []. Many of the proteins having this domain are as yet uncharacterised. However, some are known to belong to MEROPS peptidase family M15 (clan MD), subfamily M15A metallopeptidases. A number of the proteins belonging to subfamily M15A are non-peptidase homologues as they either have been found experimentally to be without peptidase activity, or lack amino acid residues that are believed to be essential for the catalytic activity. Eukaryotic enzymes can contain structurally similar PGBD-like domains. Matrix metalloproteinases (MMP), which catalyse extracellular matrix degradation, have N-terminal domains that resemble PGBD. Examples are gelatinase A (MMP-2), which degrades type IV collagen [], stromelysin-1 (MMP-3), which plays a role in arthritis and tumour invasion [, ], and gelatinase B (MMP-9) secreted by neutrophils as part of the innate immune defence mechanism []. Several MMPs are implicated in cancer progression, since degradation of the extracellular matrix is an essential step in the cascade of metastasis [].; GO: 0008152 metabolic process; PDB: 1L6J_A 3BKH_A 3BKV_A 1GXD_A 1EAK_D 1CK7_A 1SLM_A 1LBU_A 1SU3_B.
Probab=98.63 E-value=6e-08 Score=68.00 Aligned_cols=50 Identities=16% Similarity=0.183 Sum_probs=40.8
Q ss_pred CCCHHHHHHHHHHcCCCC-CCCC-----hHHHHHHHHhhhccCCCCCcCCCCCChHHHHHH
Q psy13666 214 KLDRGIFLELLKAYGYNV-TITN-----KRSVIRAFKTHFSANQNPERIYADITTEDMFWA 268 (278)
Q Consensus 214 ~~~v~~~q~~L~~~GY~~-~~~~-----~~~~v~aFQ~hf~~~~~~~~~dG~~~~~T~a~l 268 (278)
+++|..+|..|..+||.. ..++ ++.+|++||+.+ ++.+||++|.+||++|
T Consensus 2 ~~~v~~lq~~L~~~gy~~~~~~g~~~~~t~~Av~~fQ~~~-----gL~~tG~~d~~T~~~L 57 (57)
T PF01471_consen 2 GPDVKALQQYLNRLGYYPGPVDGIFDPETREAVKAFQKAN-----GLPVTGVVDPETWEAL 57 (57)
T ss_dssp SHHHHHHHHHHHHTTTT-SSTTSBSHHHHHHHHHHHHHHT-----TS-SSSSBCHHHHHHH
T ss_pred cHHHHHHHHHHHHcCCCCCCCCCCcCHHHHHHHHHHHHHc-----CcCCCCccCHHHHhcC
Confidence 467899999999999983 3332 389999999998 7889999999998775
No 10
>TIGR02869 spore_SleB spore cortex-lytic enzyme. Members of this protein family are the spore cortex-lytic enzyme SleB from Bacillus subtilis and other Gram-positive, endospore-forming bacterial species. This protein is stored in an inactive form in the spore and activated during germination.
Probab=97.64 E-value=9.4e-05 Score=65.29 Aligned_cols=53 Identities=15% Similarity=0.066 Sum_probs=45.2
Q ss_pred CCCCCCHHHHHHHHHHcCCCCC-CCC-----hHHHHHHHHhhhccCCCCCcCCCCCChHHHHHH
Q psy13666 211 YPRKLDRGIFLELLKAYGYNVT-ITN-----KRSVIRAFKTHFSANQNPERIYADITTEDMFWA 268 (278)
Q Consensus 211 ~~~~~~v~~~q~~L~~~GY~~~-~~~-----~~~~v~aFQ~hf~~~~~~~~~dG~~~~~T~a~l 268 (278)
+..+++|.+||+.|...||... .++ ++.+|++||..+ ++..||++|..||..|
T Consensus 10 G~~g~~V~~LQ~~L~~lG~~~g~idG~fg~~T~~AV~~FQ~~~-----GL~~dG~vg~~T~~~L 68 (201)
T TIGR02869 10 GSTGSDVIEIQRRLKAWGYYNGKVDGVFGWLTYWAVRKFQSKN-----GLTVDGIVGPKTKAAL 68 (201)
T ss_pred CCCcHHHHHHHHHHHHcCCCCCCCCCccCHHHHHHHHHHHHHh-----CCCCCCCcCHHHHHHh
Confidence 4567899999999999998754 232 399999999998 7999999999998877
No 11
>COG3409 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]
Probab=96.64 E-value=0.0048 Score=52.30 Aligned_cols=56 Identities=16% Similarity=0.109 Sum_probs=46.9
Q ss_pred CCCCCHHHHHHHHHHcCCCC-C-CCC-----hHHHHHHHHhhhccCCCCC-cCCCCCChHHHHHHHHHH
Q psy13666 212 PRKLDRGIFLELLKAYGYNV-T-ITN-----KRSVIRAFKTHFSANQNPE-RIYADITTEDMFWAWALV 272 (278)
Q Consensus 212 ~~~~~v~~~q~~L~~~GY~~-~-~~~-----~~~~v~aFQ~hf~~~~~~~-~~dG~~~~~T~a~l~aL~ 272 (278)
..++.|..+|..|+..||.. . .++ +..+|++||..+ ++ .+||+++++|++.|..-.
T Consensus 43 ~~~~~v~~lq~~L~~~g~~~~~~~dg~~g~~t~~av~~fQ~~~-----gl~~~dG~~g~~t~~al~~~~ 106 (185)
T COG3409 43 AEGPSVRILQAALNALGYYPDGVIDGVYGPETAAAVRAFQQKN-----GLSPVDGIVGPATRAALPSQL 106 (185)
T ss_pred CCCchHHHHHHHHHhcCCCCCCCccCccCcccHHHHHHHhhhc-----CcccccccccHHHHHHHHHHh
Confidence 46789999999999999986 2 332 489999999998 67 699999999998888744
No 12
>PRK10594 murein L,D-transpeptidase; Provisional
Probab=95.11 E-value=0.044 Score=55.76 Aligned_cols=28 Identities=11% Similarity=0.055 Sum_probs=25.3
Q ss_pred HHHHHHHHhhhccCCCCCcCCCCCChHHHHHHH
Q psy13666 237 RSVIRAFKTHFSANQNPERIYADITTEDMFWAW 269 (278)
Q Consensus 237 ~~~v~aFQ~hf~~~~~~~~~dG~~~~~T~a~l~ 269 (278)
..+|++||+++ ++..||++|+.|.++|.
T Consensus 314 v~AVK~FQ~rh-----GL~~DGvIG~~T~~~LN 341 (608)
T PRK10594 314 VEAVKRFQAWQ-----GLGADGVIGPRTRDWLN 341 (608)
T ss_pred HHHHHHHHHHc-----CCCCCcCcCHHHHHHHc
Confidence 88999999998 89999999999977653
No 13
>COG3409 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]
Probab=92.08 E-value=0.34 Score=40.82 Aligned_cols=52 Identities=13% Similarity=0.169 Sum_probs=41.8
Q ss_pred CCCCHHHHHHHHHHcCCCCCC--C---C--hHHHHHHHHhhhccCCCCCcCCCCCChHHHHHHH
Q psy13666 213 RKLDRGIFLELLKAYGYNVTI--T---N--KRSVIRAFKTHFSANQNPERIYADITTEDMFWAW 269 (278)
Q Consensus 213 ~~~~v~~~q~~L~~~GY~~~~--~---~--~~~~v~aFQ~hf~~~~~~~~~dG~~~~~T~a~l~ 269 (278)
.+..+..+|..+...||.... + + ++.+|++||+.+ .+.+||+++.+||+.|.
T Consensus 126 ~~~~~~~~~~~~~~~~~~~~~~~dg~fg~~t~~~v~~~q~~~-----~l~~dgi~g~~t~~~l~ 184 (185)
T COG3409 126 GGGDVATLQQPLPLLGYRSGIRVDGIFGPQTEAAVKAFQRQY-----GLTVDGIVGPQTWAALR 184 (185)
T ss_pred cccchHHHHHHHHhcccccCCCCCCcccHHHHHHHHHHHHHh-----CCCCCeeecHHHHHHhh
Confidence 345677788889988887653 2 2 499999999998 78899999999998764
No 14
>COG2989 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=90.70 E-value=0.47 Score=47.55 Aligned_cols=55 Identities=11% Similarity=0.013 Sum_probs=42.8
Q ss_pred CCCCCCCHHHHHHHHHHcCCCCCCC-------Ch--HHHHHHHHhhhccCCCCCcCCCCCChHHHHHHH
Q psy13666 210 PYPRKLDRGIFLELLKAYGYNVTIT-------NK--RSVIRAFKTHFSANQNPERIYADITTEDMFWAW 269 (278)
Q Consensus 210 ~~~~~~~v~~~q~~L~~~GY~~~~~-------~~--~~~v~aFQ~hf~~~~~~~~~dG~~~~~T~a~l~ 269 (278)
++.+.+++..|.+.|..-|-++... +. ..+|++||..+ ++..||++|+.|.++|.
T Consensus 234 pG~~~~~v~aL~~~L~~~~~d~~~a~~~s~~yd~el~~avKrfQ~~~-----GL~~DGviG~~T~~aLn 297 (561)
T COG2989 234 PGVTSPDVPALRARLARSGMDLPSAAGSSPAYDPELVEAVKRFQARH-----GLPADGVIGPATRAALN 297 (561)
T ss_pred CCCCchhHHHHHHHHHhcCccchhhccCcccccHHHHHHHHHHHHHh-----CCCCCCcccHHHHHHhc
Confidence 3456678888888899999544311 22 78999999998 89999999999977764
No 15
>PF08823 PG_binding_2: Putative peptidoglycan binding domain; InterPro: IPR014927 This entry may be a peptidoglycan binding domain.
Probab=76.18 E-value=4.9 Score=29.83 Aligned_cols=49 Identities=20% Similarity=0.168 Sum_probs=31.0
Q ss_pred CCHHHHHHHHHHcCCCC-CCC---C--hHHHHHHHHhh--hccCCCCCcCCCCCChHHHH
Q psy13666 215 LDRGIFLELLKAYGYNV-TIT---N--KRSVIRAFKTH--FSANQNPERIYADITTEDMF 266 (278)
Q Consensus 215 ~~v~~~q~~L~~~GY~~-~~~---~--~~~~v~aFQ~h--f~~~~~~~~~dG~~~~~T~a 266 (278)
.....+|++|.+.||-- +.+ + +++|+++|+-- |- .-..-+|.+|....+
T Consensus 16 ~~~~evq~~L~~lGyy~g~~~g~~d~a~~~Al~~~~g~ENfE---~R~~~~~~ID~~VL~ 72 (74)
T PF08823_consen 16 DVAREVQEALKRLGYYKGEADGVWDEATEDALRAWAGTENFE---ERIRGDGKIDPVVLA 72 (74)
T ss_pred HHHHHHHHHHHHcCCccCCCCCcccHHHHHHHHHHHHHhhHH---hhcCCCCccCHHHHh
Confidence 45678999999999832 223 2 38888888644 21 112335668877644
No 16
>PF09374 PG_binding_3: Predicted Peptidoglycan domain; InterPro: IPR018537 This family contains a potential peptidoglycan binding domain. ; PDB: 2IKB_B 2IS5_A 2NR7_A.
Probab=72.72 E-value=4.4 Score=29.77 Aligned_cols=17 Identities=6% Similarity=-0.191 Sum_probs=9.3
Q ss_pred CCcCCCCCChHHHHHHH
Q psy13666 253 PERIYADITTEDMFWAW 269 (278)
Q Consensus 253 ~~~~dG~~~~~T~a~l~ 269 (278)
+..+||++|+.|.+.|.
T Consensus 15 ~v~~DG~iGp~Tl~Al~ 31 (72)
T PF09374_consen 15 DVAVDGIIGPKTLAALN 31 (72)
T ss_dssp -S--SS--SHHHHHHHH
T ss_pred ccCCCCCcCHHHHHHHh
Confidence 46789999999976654
No 17
>PF06028 DUF915: Alpha/beta hydrolase of unknown function (DUF915); InterPro: IPR010315 This family consists of bacterial proteins of unknown function, which are hydrolase-like.; PDB: 3LP5_A 3FLE_A 3DS8_A.
Probab=60.46 E-value=52 Score=30.05 Aligned_cols=97 Identities=16% Similarity=0.204 Sum_probs=56.1
Q ss_pred ccEEEEEecCCC---CHHHHHHHHcCCCCCcceeEEEecCCCCCCCCCcEEEEeecCCccccccCCCCCCCCCCCCCceE
Q psy13666 34 VKYLILHYTVYN---FAHIITAFTSNRAHNLHSSHYVISEKEGKYLPGGKVIQIVPDNMRAWHAGIGKWRRDRNLNSMSI 110 (278)
Q Consensus 34 i~~IViH~Ta~~---~~~s~~~~~~~~~~~~vSaHy~I~~d~~~~~~~G~I~qlV~e~~~AwHAG~s~w~g~~~~N~~SI 110 (278)
+=.|.||-..++ +...++.+.+......-.-..-|..+ |+|. +- --|.. +.+.--|
T Consensus 12 tPTifihG~~gt~~s~~~mi~~~~~~~~~~~~~l~v~V~~~-------G~v~-~~----G~~~~---------~~~nPiI 70 (255)
T PF06028_consen 12 TPTIFIHGYGGTANSFNHMINRLENKQGVAQKVLTVTVSKN-------GKVK-VS----GKLSK---------NAKNPII 70 (255)
T ss_dssp EEEEEE--TTGGCCCCHHHHHHHHHCSTS-S-EEEEEEETT-------SEEE-EE----S---T---------T-SS-EE
T ss_pred CcEEEECCCCCChhHHHHHHHHHHhhcCCCceEEEEEECCC-------CeEE-Ee----eecCC---------CCCCCEE
Confidence 446788887664 45677777622344555566888888 8884 21 11211 1122334
Q ss_pred EEEEecCCccCcccCCCCCCCCcHHHHHHHHHHHHHHHHHhCCCCCceeecC
Q psy13666 111 GIHLVNGGVVGEKFRSTNYYPFDENQIHTLGLLGKDIVSQFKIKPQYVLGHT 162 (278)
Q Consensus 111 GIEivn~G~~~~~~~~~~~~~~t~aQi~al~~L~~~L~~ry~I~~~~VvgH~ 162 (278)
=|.+.+. ...=...|-+-|..++.+|.++|+|..-++||||
T Consensus 71 qV~F~~n-----------~~~~~~~qa~wl~~vl~~L~~~Y~~~~~N~VGHS 111 (255)
T PF06028_consen 71 QVNFEDN-----------RNANYKKQAKWLKKVLKYLKKKYHFKKFNLVGHS 111 (255)
T ss_dssp EEEESST-----------T-CHHHHHHHHHHHHHHHHHHCC--SEEEEEEET
T ss_pred EEEecCC-----------CcCCHHHHHHHHHHHHHHHHHhcCCCEEeEEEEC
Confidence 4444432 1123456778899999999999999989999999
No 18
>KOG1565|consensus
Probab=59.81 E-value=13 Score=37.11 Aligned_cols=48 Identities=13% Similarity=0.301 Sum_probs=39.2
Q ss_pred CHHHHHHHHHHcCCCCCCC-------C-h-HHHHHHHHhhhccCCCCCcCCCCCChHHHHHH
Q psy13666 216 DRGIFLELLKAYGYNVTIT-------N-K-RSVIRAFKTHFSANQNPERIYADITTEDMFWA 268 (278)
Q Consensus 216 ~v~~~q~~L~~~GY~~~~~-------~-~-~~~v~aFQ~hf~~~~~~~~~dG~~~~~T~a~l 268 (278)
+...++..|..|||..+.+ + . +.+++.||.-| ++.++|.+|..|.+.+
T Consensus 29 ~~~~~~~yl~~~~y~~~~~~~~~~~~~~~~~~al~~~q~~~-----~l~~tG~lD~~Tl~~m 85 (469)
T KOG1565|consen 29 DKVALQDYLECYGYLPPTDLTATRASQNVLEDALKMMQDFF-----GLPVTGKLDNATLALM 85 (469)
T ss_pred chhHHHHHhhhcccCCCccccccccCchhhHHHHHhhhhhc-----CccccCCcchhhhhhc
Confidence 4667888999999998652 1 1 88999999998 8999999999996643
No 19
>COG4483 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=53.85 E-value=25 Score=25.64 Aligned_cols=51 Identities=20% Similarity=0.164 Sum_probs=30.2
Q ss_pred HHHHHHHHcCCCCCCCChHHHHHHHHhhhccCCCCCcCCCCCChHHHHHHHHHHh
Q psy13666 219 IFLELLKAYGYNVTITNKRSVIRAFKTHFSANQNPERIYADITTEDMFWAWALVA 273 (278)
Q Consensus 219 ~~q~~L~~~GY~~~~~~~~~~v~aFQ~hf~~~~~~~~~dG~~~~~T~a~l~aL~~ 273 (278)
.+|++|+.+|+-+=..+..-.+.--|..-. -+--.|+++.+.|+...+.+.
T Consensus 6 DVqQlLK~~G~ivyfg~r~~~iemm~~El~----~ly~~~ll~Ke~yl~a~~IL~ 56 (68)
T COG4483 6 DVQQLLKKFGIIVYFGKRLYDIEMMQIELS----ELYDSGLLDKEDYLRARLILR 56 (68)
T ss_pred HHHHHHHHCCeeeecCCHHHHHHHHHHHHH----HHHHhccccHHHHHHHHHHHH
Confidence 479999999987744333333333333321 011258999999976666543
No 20
>cd08798 Death_NFkB2_p100 Death domain of the Nuclear Factor-KappaB2 precursor protein p100. Death Domain (DD) of the Nuclear Factor-KappaB2 (NF-kB2) precursor protein p100. The NF-kB family of transcription factors play a central role in cardiovascular growth, stress response, and inflammation by controlling the expression of a network of different genes. There are five NF-kB proteins, all containing an N-terminal REL Homology Domain (RHD). NF-kB2 (or p52) is produced from the processing of the precursor protein p100, which contains ANK repeats and a C-terminal DD in addition to the RHD. It is regulated by the non-canonical NF-kB pathway. The p100 precursor is cytosolic and interacts with RelB. Upon phosphorylation by IKKalpha, p100 is processed to its 52kDa active, DNA binding form and the p52/RelB complex is translocated into the nucleus. The non-canonical pathway plays a role in adaptive immunity and lymphorganogenesis. In general, DDs are protein-protein interaction domains found i
Probab=43.95 E-value=56 Score=24.48 Aligned_cols=50 Identities=18% Similarity=0.317 Sum_probs=29.4
Q ss_pred CCChHHHHHHhCCCCc---CCcchhhHHHHHhhcCCCCCCCCCCCHHHHHHHHHHcCC
Q psy13666 175 LFPWGKLYLDYGIGAW---LSPDEMTVEAIVRKFKPARPYPRKLDRGIFLELLKAYGY 229 (278)
Q Consensus 175 ~FpW~~L~~~~gig~w---~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~q~~L~~~GY 229 (278)
.-||..|++..|++.- +...+-+.+.++..|.- .+-++..+..+|...|.
T Consensus 15 g~dW~~LA~kL~l~~l~~~f~~~~SPt~~LLd~yE~-----~~G~l~~L~~aL~~mG~ 67 (76)
T cd08798 15 DVPWMELAERLGLQSLVDTYKPTQSPPGSLLRSYEL-----AGGPLQGLIEALQDMGL 67 (76)
T ss_pred CCCHHHHHHHHCcchHHHHHhCCCCchHHHHHHhhc-----cCCCHHHHHHHHHHhCh
Confidence 3589999988887641 12222233344444421 24567778888888775
No 21
>COG4814 Uncharacterized protein with an alpha/beta hydrolase fold [General function prediction only]
Probab=38.44 E-value=63 Score=30.03 Aligned_cols=27 Identities=15% Similarity=0.113 Sum_probs=23.6
Q ss_pred HHHHHHHHHHHHHHhCCCCCceeecCC
Q psy13666 137 IHTLGLLGKDIVSQFKIKPQYVLGHTD 163 (278)
Q Consensus 137 i~al~~L~~~L~~ry~I~~~~VvgH~D 163 (278)
-.-+.....+|.++|+|+--+.||||-
T Consensus 119 s~wlk~~msyL~~~Y~i~k~n~VGhSm 145 (288)
T COG4814 119 SKWLKKAMSYLQKHYNIPKFNAVGHSM 145 (288)
T ss_pred HHHHHHHHHHHHHhcCCceeeeeeecc
Confidence 445788889999999999999999994
No 22
>PF01527 HTH_Tnp_1: Transposase; InterPro: IPR002514 Transposase proteins are necessary for efficient DNA transposition. This family consists of various Escherichia coli insertion elements and other bacterial transposases some of which are members of the IS3 family. This region includes a helix-turn-helix motif (HTH) at the N terminus followed by a leucine zipper (LZ) motif. The LZ motif has been shown to mediate oligomerisation of the transposase components in IS911 []. More information about these proteins can be found at Protein of the Month: Transposase [].; GO: 0003677 DNA binding, 0004803 transposase activity, 0006313 transposition, DNA-mediated; PDB: 2JN6_A 2RN7_A.
Probab=31.14 E-value=31 Score=24.56 Aligned_cols=27 Identities=7% Similarity=0.084 Sum_probs=17.6
Q ss_pred CCCcHHHHHHHHHHH-------HHHHHHhCCCCC
Q psy13666 130 YPFDENQIHTLGLLG-------KDIVSQFKIKPQ 156 (278)
Q Consensus 130 ~~~t~aQi~al~~L~-------~~L~~ry~I~~~ 156 (278)
..||+++...++.++ .++|++|||++.
T Consensus 5 ~~ys~e~K~~~v~~~~~~g~sv~~va~~~gi~~~ 38 (76)
T PF01527_consen 5 RRYSPEFKLQAVREYLESGESVSEVAREYGISPS 38 (76)
T ss_dssp ----HHHHHHHHHHHHHHHCHHHHHHHHHTS-HH
T ss_pred CCCCHHHHHHHHHHHHHCCCceEeeecccccccc
Confidence 468888887777776 588999999653
No 23
>PRK00745 4-oxalocrotonate tautomerase; Provisional
Probab=29.57 E-value=93 Score=21.21 Aligned_cols=28 Identities=18% Similarity=-0.011 Sum_probs=21.0
Q ss_pred CCcHHHHHHHHHHHHH-HHHHhCCCCCce
Q psy13666 131 PFDENQIHTLGLLGKD-IVSQFKIKPQYV 158 (278)
Q Consensus 131 ~~t~aQi~al~~L~~~-L~~ry~I~~~~V 158 (278)
..+++|.++|.+.+.+ +++.+++++..|
T Consensus 11 grs~eqk~~l~~~it~~l~~~~~~p~~~v 39 (62)
T PRK00745 11 GRTVEQKRKLVEEITRVTVETLGCPPESV 39 (62)
T ss_pred CCCHHHHHHHHHHHHHHHHHHcCCChhHE
Confidence 3588999888887776 556679987654
No 24
>KOG2983|consensus
Probab=29.51 E-value=1.1e+02 Score=28.45 Aligned_cols=71 Identities=27% Similarity=0.335 Sum_probs=49.3
Q ss_pred CCceEEEEEecCCccCcccCCCCCCCCcHHHHHHHHHHHHHHHHH---hCCCCC----ceeecC-------CcCC-CCCC
Q psy13666 106 NSMSIGIHLVNGGVVGEKFRSTNYYPFDENQIHTLGLLGKDIVSQ---FKIKPQ----YVLGHT-------DIAP-GSKM 170 (278)
Q Consensus 106 N~~SIGIEivn~G~~~~~~~~~~~~~~t~aQi~al~~L~~~L~~r---y~I~~~----~VvgH~-------Diap-~rK~ 170 (278)
|..-|||+---. ..+.++=.+|.+.+..|+.++.+. |..+-. .|+-|+ |+.| .+++
T Consensus 185 sn~lvg~~QRd~---------tnyYd~l~e~kd~~k~lI~eff~d~i~~kF~dedfvfDVYi~k~~kv~lID~Npf~~~T 255 (334)
T KOG2983|consen 185 SNELVGICQRDV---------TNYYDVLLEEKDLLKGLIEEFFKDKILFKFPDEDFVFDVYITKERKVWLIDFNPFCGST 255 (334)
T ss_pred ccceeeeeeccc---------hhHHHHHHHHHHHHHHHHHHHHHhhhhccCCCCCeeEEEEecCCCcEEEEeccCccCcc
Confidence 556677776421 235677888999999999999886 344422 455666 6666 5678
Q ss_pred CCCCCCChHHHHHHhC
Q psy13666 171 DPGPLFPWGKLYLDYG 186 (278)
Q Consensus 171 DPG~~FpW~~L~~~~g 186 (278)
|+ -+|.|++|.+..|
T Consensus 256 ds-LlftWeEl~si~~ 270 (334)
T KOG2983|consen 256 DS-LLFTWEELESING 270 (334)
T ss_pred cc-ceeeHHHHHhhcC
Confidence 85 4899999987644
No 25
>PRK06765 homoserine O-acetyltransferase; Provisional
Probab=29.35 E-value=1.2e+02 Score=29.29 Aligned_cols=32 Identities=19% Similarity=0.272 Sum_probs=26.4
Q ss_pred CCcHHHHHHHHHHHHHHHHHhCCCCCc-eeecC
Q psy13666 131 PFDENQIHTLGLLGKDIVSQFKIKPQY-VLGHT 162 (278)
Q Consensus 131 ~~t~aQi~al~~L~~~L~~ry~I~~~~-VvgH~ 162 (278)
.|+.--++.+++.+..+++..+|..-. |+|||
T Consensus 137 ~fP~~t~~d~~~~~~~ll~~lgi~~~~~vvG~S 169 (389)
T PRK06765 137 DFPVVTILDFVRVQKELIKSLGIARLHAVMGPS 169 (389)
T ss_pred CCCcCcHHHHHHHHHHHHHHcCCCCceEEEEEC
Confidence 466667777888888999999998766 99999
No 26
>PF12000 Glyco_trans_4_3: Gkycosyl transferase family 4 group; InterPro: IPR022623 This presumed domain is functionally uncharacterised and found in bacteria. This region is about 170 amino acids in length and is found N-terminal to PF00534 from PFAM. There is a single completely conserved residue G that may be functionally important.
Probab=28.59 E-value=56 Score=28.10 Aligned_cols=27 Identities=11% Similarity=0.326 Sum_probs=22.0
Q ss_pred HHHHHHHHHHHHHhCCCCCceeecCCcC
Q psy13666 138 HTLGLLGKDIVSQFKIKPQYVLGHTDIA 165 (278)
Q Consensus 138 ~al~~L~~~L~~ry~I~~~~VvgH~Dia 165 (278)
+++.+.+..|.++ |..|+-|+||+-+-
T Consensus 51 ~av~~a~~~L~~~-Gf~PDvI~~H~GWG 77 (171)
T PF12000_consen 51 QAVARAARQLRAQ-GFVPDVIIAHPGWG 77 (171)
T ss_pred HHHHHHHHHHHHc-CCCCCEEEEcCCcc
Confidence 5667777788777 99999999999663
No 27
>KOG0237|consensus
Probab=28.44 E-value=35 Score=35.18 Aligned_cols=28 Identities=14% Similarity=0.153 Sum_probs=23.3
Q ss_pred cHHHHHHHHHHHHHHHHHhCCCCCceee
Q psy13666 133 DENQIHTLGLLGKDIVSQFKIKPQYVLG 160 (278)
Q Consensus 133 t~aQi~al~~L~~~L~~ry~I~~~~Vvg 160 (278)
..||+++-....+++|.||+||-..-..
T Consensus 101 ~aAqlE~sK~fsK~fm~r~~IPTA~y~~ 128 (788)
T KOG0237|consen 101 QAAQLEASKNFSKDFMHRHNIPTAKYKT 128 (788)
T ss_pred HHHHhhhhHHHHHHHHHhcCCCcceeee
Confidence 4599999999999999999998544333
No 28
>PLN02611 glutamate--cysteine ligase
Probab=28.07 E-value=81 Score=31.68 Aligned_cols=66 Identities=15% Similarity=0.268 Sum_probs=37.3
Q ss_pred CCCCCceEEEEEecCCccCcccCCCCCCCCcHHHHHHHHHHHHHHHHHhCCCC----CceeecCCcCCCCCCCCCCCC
Q psy13666 103 RNLNSMSIGIHLVNGGVVGEKFRSTNYYPFDENQIHTLGLLGKDIVSQFKIKP----QYVLGHTDIAPGSKMDPGPLF 176 (278)
Q Consensus 103 ~~~N~~SIGIEivn~G~~~~~~~~~~~~~~t~aQi~al~~L~~~L~~ry~I~~----~~VvgH~Diap~rK~DPG~~F 176 (278)
.......||+|++--+.... ...+.+ ++.+..|+..|.++|+..| .+|+|=..-...=+.-||..|
T Consensus 63 k~~~~~~iG~E~E~f~~~~~-----~~~pv~---y~~i~~lL~~l~~~~gw~~~~e~g~iIgl~~~g~~ITlEPGgQi 132 (482)
T PLN02611 63 KPKEKWRIGTEHEKFGFELA-----TLRPMK---YDQIAQLLEGLAERFGWEKIMEGDNIIGLKQDGQSVSLEPGGQF 132 (482)
T ss_pred CCCCCCeeEEeeeeeeccCC-----CCCCCC---HHHHHHHHHHHHHhcCCceeccCCceecccCCCCceEecccceE
Confidence 44566789999995554221 112333 3357788899999998643 466663221011135566544
No 29
>PHA00675 hypothetical protein
Probab=27.59 E-value=52 Score=24.77 Aligned_cols=30 Identities=7% Similarity=0.173 Sum_probs=24.4
Q ss_pred CCCCcHHHHHHHHHHHH-------HHHHHhCCCCCce
Q psy13666 129 YYPFDENQIHTLGLLGK-------DIVSQFKIKPQYV 158 (278)
Q Consensus 129 ~~~~t~aQi~al~~L~~-------~L~~ry~I~~~~V 158 (278)
...+|++|.+.+..|.. .|+++|+++...|
T Consensus 20 ~AKLt~~qV~~IR~l~~r~G~s~~~IA~~fGVsrstV 56 (78)
T PHA00675 20 NAKLTDAEVERIRELHEVEGMSYAVLAEKFEQSKGAI 56 (78)
T ss_pred CcccCHHHHHHHHHHHHhcCccHHHHHHHhCCCHHHH
Confidence 46899999999988883 8889999986443
No 30
>PRK02220 4-oxalocrotonate tautomerase; Provisional
Probab=26.71 E-value=1.8e+02 Score=19.60 Aligned_cols=28 Identities=11% Similarity=-0.014 Sum_probs=20.1
Q ss_pred CCcHHHHHHHHHHHHH-HHHHhCCCCCce
Q psy13666 131 PFDENQIHTLGLLGKD-IVSQFKIKPQYV 158 (278)
Q Consensus 131 ~~t~aQi~al~~L~~~-L~~ry~I~~~~V 158 (278)
..|++|.++|.+.+.+ +++..++|+..|
T Consensus 11 Grs~eqk~~l~~~it~~l~~~~~~p~~~v 39 (61)
T PRK02220 11 GRTEEQLKALVKDVTAAVSKNTGAPAEHI 39 (61)
T ss_pred CCCHHHHHHHHHHHHHHHHHHhCcChhhE
Confidence 3588998887766655 556779987654
No 31
>PF09684 Tail_P2_I: Phage tail protein (Tail_P2_I); InterPro: IPR006521 These sequences represent a family of phage tail proteins from phage P2 protein and related temperates phage of Gram-negative bacteria.
Probab=26.53 E-value=71 Score=25.94 Aligned_cols=93 Identities=19% Similarity=0.201 Sum_probs=52.8
Q ss_pred CCCCCCCCChHHHHHHhCCCCcCCcchhh--HHHH-----HhhcCCCCCCCCCCCHHHHHHHHHHcCCCCCCCChHHHHH
Q psy13666 169 KMDPGPLFPWGKLYLDYGIGAWLSPDEMT--VEAI-----VRKFKPARPYPRKLDRGIFLELLKAYGYNVTITNKRSVIR 241 (278)
Q Consensus 169 K~DPG~~FpW~~L~~~~gig~w~~~~~~~--~~~~-----~~~~~~~~~~~~~~~v~~~q~~L~~~GY~~~~~~~~~~v~ 241 (278)
..||-..+| .|..++|+..|.+..+.. ...+ .-+++ -.+..+...|..+||++.+ +.
T Consensus 33 ~~~~~~~L~--~LA~~~~v~~~~~~~~~~~kR~li~~a~~~~r~k--------GT~~al~~~l~~lg~~~~i------~E 96 (139)
T PF09684_consen 33 DTCPEALLP--WLAWELGVDEWDPAWPEEQKRRLIKNAIEWHRYK--------GTPAALRRALEWLGYEAEI------IE 96 (139)
T ss_pred ccCCHHHHH--HHHHHhCcCccCCCCCHHHHHHHHHHHHHHHHHc--------CCHHHHHHHHHHcCCCeee------ee
Confidence 477876665 565667887675443321 1111 11211 2466788999999997643 33
Q ss_pred HHHhh--hccCC--CCCcCCC-CCChHHHHHHHHHHhhhCC
Q psy13666 242 AFKTH--FSANQ--NPERIYA-DITTEDMFWAWALVAKYGS 277 (278)
Q Consensus 242 aFQ~h--f~~~~--~~~~~dG-~~~~~T~a~l~aL~~ky~~ 277 (278)
-|+.. ..|.. .-...+. .++.++...|..+.+.|++
T Consensus 97 ~~~~~~~g~p~~f~~~v~~~~~~~~~~~~~~i~~~i~~~Kp 137 (139)
T PF09684_consen 97 WFEYDPRGRPYWFEVQVYLSDPPIDPEDAERIIRLIEEAKP 137 (139)
T ss_pred ccccCCCCCCceEEEEEEecCCCCCHHHHHHHHHHHHHhcC
Confidence 33333 11100 0111233 7889999999999888875
No 32
>PTZ00397 macrophage migration inhibition factor-like protein; Provisional
Probab=25.99 E-value=2.2e+02 Score=22.17 Aligned_cols=28 Identities=14% Similarity=0.255 Sum_probs=20.3
Q ss_pred CcHHHHHHHHHHHHHHHHH-hCCCCCcee
Q psy13666 132 FDENQIHTLGLLGKDIVSQ-FKIKPQYVL 159 (278)
Q Consensus 132 ~t~aQi~al~~L~~~L~~r-y~I~~~~Vv 159 (278)
.+.+|.+++.+-+.+++++ .||+|++|+
T Consensus 69 ~~~e~k~~l~~~i~~~l~~~lgi~~~rv~ 97 (116)
T PTZ00397 69 ISRSNNSSIAAAITKILASHLKVKSERVY 97 (116)
T ss_pred CCHHHHHHHHHHHHHHHHHHhCcCcccEE
Confidence 4678877777666666655 699998875
No 33
>PRK15067 ethanolamine ammonia lyase large subunit; Provisional
Probab=25.43 E-value=82 Score=31.19 Aligned_cols=33 Identities=18% Similarity=0.348 Sum_probs=28.5
Q ss_pred cHHHHHHHHHHHHHHHHHhCCC-CCceeecCCcC
Q psy13666 133 DENQIHTLGLLGKDIVSQFKIK-PQYVLGHTDIA 165 (278)
Q Consensus 133 t~aQi~al~~L~~~L~~ry~I~-~~~VvgH~Dia 165 (278)
+.+++.++..++.+++.+|.|| ...|++|-+.+
T Consensus 198 s~~~~~~ll~~l~~v~~~~~IPtQ~CVL~Hvttq 231 (461)
T PRK15067 198 SVENVSRLLHMLDEVIQRFEIPTQSCVLAHVTTQ 231 (461)
T ss_pred CHHHHHHHHHHHHHHHHHcCCCCcceEeeehhhH
Confidence 5688999999999999999998 46799998764
No 34
>PRK11126 2-succinyl-6-hydroxy-2,4-cyclohexadiene-1-carboxylate synthase; Provisional
Probab=25.11 E-value=1.1e+02 Score=25.94 Aligned_cols=26 Identities=15% Similarity=0.382 Sum_probs=21.5
Q ss_pred HHHHHHHHHHHHHHhCCCCCceeecC
Q psy13666 137 IHTLGLLGKDIVSQFKIKPQYVLGHT 162 (278)
Q Consensus 137 i~al~~L~~~L~~ry~I~~~~VvgH~ 162 (278)
++.++..+.++++..++.+-.++|||
T Consensus 49 ~~~~~~~l~~~l~~~~~~~~~lvG~S 74 (242)
T PRK11126 49 FADVSRLLSQTLQSYNILPYWLVGYS 74 (242)
T ss_pred HHHHHHHHHHHHHHcCCCCeEEEEEC
Confidence 55667777788888899889999999
No 35
>cd08797 Death_NFkB1_p105 Death domain of the Nuclear Factor-KappaB1 precursor protein p105. Death Domain (DD) of the Nuclear Factor-KappaB1 (NF-kB1) precursor protein p105. The NF-kB family of transcription factors play a central role in cardiovascular growth, stress response, and inflammation by controlling the expression of a network of different genes. There are five NF-kB proteins, all containing an N-terminal REL Homology Domain (RHD). NF-kB1 (or p50) is produced from the processing of the precursor protein p105, which contains ANK repeats and a C-terminal DD in addition to the RHD. It is regulated by the classical (or canonical) NF-kB pathway. In the cytosol, p50 forms an inactive complex with RelA (or p65) and the Inhibitor of NF-kB (IkB). Activation is triggered by the phosphorylation and degradation of IkB, resulting in the active DNA-binding p50-RelA dimer to migrate to the nucleus. The classical pathway regulates the majority of genes activated by NF-kB including those encod
Probab=24.65 E-value=1.7e+02 Score=21.88 Aligned_cols=48 Identities=19% Similarity=0.333 Sum_probs=29.5
Q ss_pred ChHHHHHHhCCCC---cCCcchhhHHHHHhhcCCCCCCCCCCCHHHHHHHHHHcCC
Q psy13666 177 PWGKLYLDYGIGA---WLSPDEMTVEAIVRKFKPARPYPRKLDRGIFLELLKAYGY 229 (278)
Q Consensus 177 pW~~L~~~~gig~---w~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~q~~L~~~GY 229 (278)
+|..|++..|++. .+...+-+.+.++..|.- .+-++..+..+|...|.
T Consensus 17 ~Wr~LA~kL~l~~l~~~f~~~pSPt~~LLd~~E~-----~~G~l~~L~~aL~~mG~ 67 (76)
T cd08797 17 NWETLAQKLGLGILNNAFRLSPSPSKTLLDNYEV-----SGGTVRELLAALKRMGY 67 (76)
T ss_pred CHHHHHHHHCchhHHHHHhCCCCcHHHHHHHHhc-----CCCCHHHHHHHHHHhCc
Confidence 5999998887764 122222233445554431 34577888888888885
No 36
>TIGR02240 PHA_depoly_arom poly(3-hydroxyalkanoate) depolymerase. This family consists of the polyhydroxyalkanoic acid (PHA) depolymerase of Pseudomonas oleovorans, Pseudomonas putida BM01, and related species. This enzyme is part of polyester storage and mobilization system as in many bacteria. However, species containing this enzyme are unusual in their capacity to produce aromatic polyesters when grown on carbon sources such as benzoic acid or phenylacetic acid.
Probab=23.27 E-value=1.2e+02 Score=26.80 Aligned_cols=26 Identities=12% Similarity=0.190 Sum_probs=22.1
Q ss_pred HHHHHHHHHHHHHHhCCCCCceeecC
Q psy13666 137 IHTLGLLGKDIVSQFKIKPQYVLGHT 162 (278)
Q Consensus 137 i~al~~L~~~L~~ry~I~~~~VvgH~ 162 (278)
++.+++.+.++++..++.+-.++|||
T Consensus 74 ~~~~~~~~~~~i~~l~~~~~~LvG~S 99 (276)
T TIGR02240 74 FPGLAKLAARMLDYLDYGQVNAIGVS 99 (276)
T ss_pred HHHHHHHHHHHHHHhCcCceEEEEEC
Confidence 56677778888888899889999999
No 37
>TIGR03695 menH_SHCHC 2-succinyl-6-hydroxy-2,4-cyclohexadiene-1-carboxylate synthase. This protein catalyzes the formation of SHCHC, or (1 R,6 R)-2-succinyl-6-hydroxy-2,4-cyclohexadiene-1-carboxylate, by elmination of pyruvate from 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate (SEPHCHC). Note that SHCHC synthase activity previously was attributed to MenD, which in fact is SEPHCHC synthase.
Probab=22.81 E-value=1.5e+02 Score=24.23 Aligned_cols=28 Identities=14% Similarity=0.339 Sum_probs=19.8
Q ss_pred HHHHHHH-HHHHHHHHhCCCCCceeecCC
Q psy13666 136 QIHTLGL-LGKDIVSQFKIKPQYVLGHTD 163 (278)
Q Consensus 136 Qi~al~~-L~~~L~~ry~I~~~~VvgH~D 163 (278)
.++.+++ ++..++++++..+-.++|||-
T Consensus 51 ~~~~~~~~~~~~~~~~~~~~~~~l~G~S~ 79 (251)
T TIGR03695 51 DFEEAAQDILATLLDQLGIEPFFLVGYSM 79 (251)
T ss_pred hHHHHHHHHHHHHHHHcCCCeEEEEEecc
Confidence 3444443 477788888887778999994
No 38
>cd08802 Death_UNC5B Death domain found in Uncoordinated-5B. Death Domain (DD) found in Uncoordinated-5B (UNC5B). UNC5B is part of the UNC-5 homolog family. It is a receptor for the secreted netrin-1 and plays a role in axonal guidance, angiogenesis, and apoptosis. UNC5B signaling is involved in the netrin-1-induced proliferation and migration of renal proximal tubular cells. It is also required for vascular patterning during embryonic development, and its activation inhibits sprouting angiogenesis. UNC5 proteins are transmembrane proteins with an extracellular domain consisting of two immunoglobulin repeats, two thrombospondin type-I modules and an intracellular region containing a ZU-5 domain, UPA domain and a DD. In general, DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including CARD (Caspase activatio
Probab=22.27 E-value=1.1e+02 Score=23.27 Aligned_cols=53 Identities=11% Similarity=0.183 Sum_probs=29.2
Q ss_pred CChHHHHHHhCCCC---cCCcchhhHHHHHhhcCCCCCCCCCCCHHHHHHHHHHcCCC
Q psy13666 176 FPWGKLYLDYGIGA---WLSPDEMTVEAIVRKFKPARPYPRKLDRGIFLELLKAYGYN 230 (278)
Q Consensus 176 FpW~~L~~~~gig~---w~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~q~~L~~~GY~ 230 (278)
=+|..|++..|++. ++...+-+...++..+... ...+.++..|...|...|..
T Consensus 21 ~DW~~LAekL~ld~yl~~f~~~psPT~~LLd~WE~~--~~~~~~v~~L~~~L~~mgR~ 76 (84)
T cd08802 21 NDWRLLAQKLSMDRYLNYFATKASPTGVILDLWEAR--HQDDGDLNSLASALEEMGKS 76 (84)
T ss_pred CcHHHHHHHcCchhHHHHHHcCCCcHHHHHHHHHhc--CCCcccHHHHHHHHHHcCcc
Confidence 36999998888763 2211111223333333211 11345777888888888853
No 39
>PTZ00450 macrophage migration inhibitory factor-like protein; Provisional
Probab=22.22 E-value=1.8e+02 Score=23.08 Aligned_cols=30 Identities=7% Similarity=0.132 Sum_probs=19.3
Q ss_pred CcHHHHHHHHH-HHHHHHHHhCCCCCceeec
Q psy13666 132 FDENQIHTLGL-LGKDIVSQFKIKPQYVLGH 161 (278)
Q Consensus 132 ~t~aQi~al~~-L~~~L~~ry~I~~~~VvgH 161 (278)
.+.+|-+.+.. |+.-|.+..+||+++|+=.
T Consensus 69 ~~~~~n~~~s~~i~~~l~~~LgIp~dRiYI~ 99 (113)
T PTZ00450 69 YAPSKPKMMTPRITAAITKECGIPAERIYVF 99 (113)
T ss_pred cCHHHHHHHHHHHHHHHHHHcCCCcccEEEE
Confidence 34566666644 4444556779999988743
No 40
>COG0151 PurD Phosphoribosylamine-glycine ligase [Nucleotide transport and metabolism]
Probab=21.44 E-value=80 Score=31.17 Aligned_cols=23 Identities=17% Similarity=0.270 Sum_probs=21.1
Q ss_pred CcHHHHHHHHHHHHHHHHHhCCC
Q psy13666 132 FDENQIHTLGLLGKDIVSQFKIK 154 (278)
Q Consensus 132 ~t~aQi~al~~L~~~L~~ry~I~ 154 (278)
=-.||++.-....+++|+||+||
T Consensus 95 k~AA~lE~SK~faK~fm~k~~IP 117 (428)
T COG0151 95 KAAAQLEGSKAFAKDFMKKYGIP 117 (428)
T ss_pred HHHHHHHhhHHHHHHHHHHcCCC
Confidence 35689999999999999999998
No 41
>PF07750 GcrA: GcrA cell cycle regulator; InterPro: IPR011681 GcrA, together with CtrA (see IPR001789 from INTERPRO and IPR001867 from INTERPRO), form a master cell cycle regulator. These bacterial regulators are involved in controlling the progression and asymmetric polar morphogenesis []. During this process, there are temporal and spatial variations in the concentrations of GcrA and CtrA. The variation in concentration produces time and space dependent transcriptional regulation of modular functions that implement cell-cycle processes []. More specifically, GcrA acts as an activator of components of the replisome and the segregation machinery [].
Probab=20.82 E-value=1.1e+02 Score=26.04 Aligned_cols=32 Identities=19% Similarity=0.377 Sum_probs=27.5
Q ss_pred CCcHHHHHHHHHHHH------HHHHHhC-CCCCceeecC
Q psy13666 131 PFDENQIHTLGLLGK------DIVSQFK-IKPQYVLGHT 162 (278)
Q Consensus 131 ~~t~aQi~al~~L~~------~L~~ry~-I~~~~VvgH~ 162 (278)
.||+++++.|.+|.. +|.++.| ++.+.|+|.-
T Consensus 2 ~Wtde~~~~L~~lw~~G~SasqIA~~lg~vsRnAViGk~ 40 (162)
T PF07750_consen 2 SWTDERVERLRKLWAEGLSASQIARQLGGVSRNAVIGKA 40 (162)
T ss_pred CCCHHHHHHHHHHHHcCCCHHHHHHHhCCcchhhhhhhh
Confidence 479999999999976 6889999 8999999963
No 42
>PF10979 DUF2786: Protein of unknown function (DUF2786); InterPro: IPR024498 This domain is found in proteins that have no known function.
Probab=20.59 E-value=1.8e+02 Score=19.12 Aligned_cols=23 Identities=9% Similarity=0.211 Sum_probs=18.6
Q ss_pred CcHHHHHHHHHHHHHHHHHhCCC
Q psy13666 132 FDENQIHTLGLLGKDIVSQFKIK 154 (278)
Q Consensus 132 ~t~aQi~al~~L~~~L~~ry~I~ 154 (278)
.++..-++....+..||.+|+|.
T Consensus 19 ~~~~EA~~A~~kAq~Lm~ky~i~ 41 (43)
T PF10979_consen 19 SNEHEAEAALAKAQRLMAKYGID 41 (43)
T ss_pred CCHHHHHHHHHHHHHHHHHhCCc
Confidence 55655667788999999999995
No 43
>PLN02733 phosphatidylcholine-sterol O-acyltransferase
Probab=20.48 E-value=1.1e+02 Score=30.33 Aligned_cols=29 Identities=10% Similarity=0.056 Sum_probs=25.7
Q ss_pred HHHHHHHHHHHHHHHHHhCCCCCceeecC
Q psy13666 134 ENQIHTLGLLGKDIVSQFKIKPQYVLGHT 162 (278)
Q Consensus 134 ~aQi~al~~L~~~L~~ry~I~~~~VvgH~ 162 (278)
+..++.+.+++..+.++++..+-.++|||
T Consensus 142 ~~~~~~Lk~lIe~~~~~~g~~kV~LVGHS 170 (440)
T PLN02733 142 PETMDGLKKKLETVYKASGGKKVNIISHS 170 (440)
T ss_pred HHHHHHHHHHHHHHHHHcCCCCEEEEEEC
Confidence 45578899999999999998889999999
Done!