Query 012032
Match_columns 472
No_of_seqs 122 out of 266
Neff 5.6
Searched_HMMs 46136
Date Fri Mar 29 07:54:08 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/012032.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/012032hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2233 Alpha-N-acetylglucosam 100.0 3E-149 6E-154 1145.2 39.6 439 1-472 134-574 (666)
2 PF05089 NAGLU: Alpha-N-acetyl 100.0 3E-113 7E-118 862.8 16.9 258 1-265 75-332 (333)
3 PF12972 NAGLU_C: Alpha-N-acet 100.0 1.1E-50 2.3E-55 403.3 13.1 178 271-472 1-178 (267)
4 PF02449 Glyco_hydro_42: Beta- 94.4 0.058 1.2E-06 56.4 5.2 93 21-119 47-140 (374)
5 PF00150 Cellulase: Cellulase 93.7 0.36 7.8E-06 47.0 9.0 133 16-184 57-200 (281)
6 cd06593 GH31_xylosidase_YicI Y 81.2 21 0.00045 36.3 11.9 113 24-149 69-204 (308)
7 PF12891 Glyco_hydro_44: Glyco 80.7 1.7 3.7E-05 43.4 3.6 120 24-148 27-176 (239)
8 PF13812 PPR_3: Pentatricopept 71.1 2.6 5.6E-05 27.7 1.4 20 18-37 15-34 (34)
9 PF01229 Glyco_hydro_39: Glyco 67.7 8.3 0.00018 42.0 5.2 103 25-146 88-198 (486)
10 cd06592 GH31_glucosidase_KIAA1 58.5 65 0.0014 32.8 9.5 82 24-117 73-166 (303)
11 PF02065 Melibiase: Melibiase; 58.1 29 0.00064 37.1 7.1 122 24-153 107-236 (394)
12 PRK00035 hemH ferrochelatase; 53.4 2.4E+02 0.0051 29.0 12.7 152 8-180 69-268 (333)
13 PF05119 Terminase_4: Phage te 47.7 21 0.00046 29.8 3.3 31 8-38 55-85 (100)
14 PRK15014 6-phospho-beta-glucos 44.9 47 0.001 36.4 6.3 68 23-117 112-179 (477)
15 cd03198 GST_C_CLIC GST_C famil 44.1 65 0.0014 29.3 6.1 43 397-439 5-47 (134)
16 cd06594 GH31_glucosidase_YihQ 43.5 2E+02 0.0043 29.6 10.3 105 24-143 74-204 (317)
17 COG1422 Predicted membrane pro 41.3 85 0.0018 30.7 6.6 63 386-448 66-129 (201)
18 cd04257 AAK_AK-HSDH AAK_AK-HSD 40.7 18 0.00039 37.0 2.2 68 23-114 169-236 (294)
19 cd06388 PBP1_iGluR_AMPA_GluR4 40.3 89 0.0019 32.7 7.3 92 22-140 190-287 (371)
20 cd04247 AAK_AK-Hom3 AAK_AK-Hom 40.2 14 0.0003 38.3 1.2 70 21-114 176-246 (306)
21 PF03705 CheR_N: CheR methyltr 39.6 24 0.00051 26.5 2.1 20 18-37 24-43 (57)
22 TIGR00676 fadh2 5,10-methylene 36.5 39 0.00084 34.0 3.7 25 25-49 174-199 (272)
23 PF10629 DUF2475: Protein of u 36.3 16 0.00034 29.9 0.7 12 38-49 4-15 (71)
24 cd06389 PBP1_iGluR_AMPA_GluR2 35.2 1.3E+02 0.0028 31.3 7.5 59 21-94 187-250 (370)
25 PF00232 Glyco_hydro_1: Glycos 34.8 1.3E+02 0.0028 32.6 7.6 68 21-116 99-166 (455)
26 COG5005 Mu-like prophage prote 33.8 11 0.00025 34.2 -0.5 42 175-216 62-105 (140)
27 PF13410 GST_C_2: Glutathione 33.7 63 0.0014 24.6 3.8 28 418-446 3-30 (69)
28 cd06394 PBP1_iGluR_Kainate_KA1 33.6 92 0.002 32.3 6.1 67 21-102 197-268 (333)
29 PF02836 Glyco_hydro_2_C: Glyc 33.6 1.9E+02 0.004 29.1 8.1 106 22-145 37-152 (298)
30 cd06565 GH20_GcnA-like Glycosy 32.9 5.2E+02 0.011 26.3 11.4 121 8-152 54-184 (301)
31 TIGR00825 EIIBC-GUT PTS system 31.7 9.3 0.0002 39.3 -1.6 42 5-47 10-58 (331)
32 PF12876 Cellulase-like: Sugar 31.4 72 0.0016 26.3 4.0 53 99-152 2-64 (88)
33 PF08858 IDEAL: IDEAL domain; 29.1 2.1E+02 0.0046 20.3 5.8 33 394-426 4-37 (37)
34 TIGR03356 BGL beta-galactosida 29.0 3.4E+02 0.0073 29.3 9.6 99 19-145 92-210 (427)
35 cd03309 CmuC_like CmuC_like. P 28.4 2.9E+02 0.0063 28.7 8.6 115 5-135 177-320 (321)
36 TIGR00756 PPR pentatricopeptid 26.3 44 0.00096 21.2 1.5 19 19-37 15-33 (35)
37 COG0276 HemH Protoheme ferro-l 25.9 7.9E+02 0.017 25.8 13.8 158 9-181 69-264 (320)
38 PF14433 SUKH-3: SUKH-3 immuni 25.5 1.4E+02 0.0031 26.7 5.1 46 252-298 3-49 (142)
39 cd03201 GST_C_DHAR GST_C famil 25.3 2.2E+02 0.0048 24.8 6.2 8 445-452 91-98 (121)
40 cd06599 GH31_glycosidase_Aec37 25.2 5.1E+02 0.011 26.5 9.7 109 23-143 75-211 (317)
41 PRK10203 hypothetical protein; 25.1 64 0.0014 29.1 2.7 38 1-51 21-61 (122)
42 cd03190 GST_C_ECM4_like GST_C 24.1 2.8E+02 0.0061 24.6 6.8 37 409-446 25-61 (142)
43 PF07328 VirD1: T-DNA border e 23.5 3E+02 0.0065 25.4 6.6 53 385-439 73-128 (147)
44 cd06380 PBP1_iGluR_AMPA N-term 22.6 3.7E+02 0.008 27.5 8.2 17 21-37 194-210 (382)
45 COG4334 Uncharacterized protei 22.6 46 0.001 29.7 1.3 39 159-208 6-45 (131)
46 cd06597 GH31_transferase_CtsY 21.9 7.2E+02 0.016 25.8 10.2 85 24-119 88-190 (340)
47 cd04243 AAK_AK-HSDH-like AAK_A 21.6 58 0.0013 33.3 2.0 67 24-114 169-235 (293)
48 cd03186 GST_C_SspA GST_N famil 21.5 4.4E+02 0.0094 21.5 7.1 29 417-446 31-59 (107)
49 TIGR01558 sm_term_P27 phage te 21.2 98 0.0021 27.0 3.1 31 8-38 64-94 (116)
50 PRK13511 6-phospho-beta-galact 20.7 2.3E+02 0.005 31.0 6.5 71 18-117 89-161 (469)
51 PF13041 PPR_2: PPR repeat fam 20.5 74 0.0016 22.9 1.9 22 18-39 17-38 (50)
52 PF09350 DUF1992: Domain of un 20.2 74 0.0016 25.8 1.9 38 1-51 15-56 (71)
No 1
>KOG2233 consensus Alpha-N-acetylglucosaminidase [Intracellular trafficking, secretion, and vesicular transport]
Probab=100.00 E-value=2.8e-149 Score=1145.18 Aligned_cols=439 Identities=46% Similarity=0.870 Sum_probs=427.5
Q ss_pred CCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHcCCeeccCCCCCCCchhhHhhCCCCceeccCCCCCCCCCCcccccccc
Q 012032 1 MSNLHGWGGPLPQSWLDQQLVLQKKILVRIYELGMNPVLPAFSGNVPAALQNVFPSAKITQLGNWFSVKSDPRWCCTYLL 80 (472)
Q Consensus 1 MgNi~gwgGPLp~~wi~~q~~LQkkIl~RmrelGM~PVLPgF~G~VP~~~k~~~P~a~i~~~~~W~gf~~~~~~~~~~~L 80 (472)
||||++||||||++|+..|.-||||||+|||+||||||||+|+||||++++++||++++++++.|+.|+ ++|||.++|
T Consensus 134 MGNl~awgGpLs~aw~~~ql~LqkrIidrm~~lGmTpvLPaFaG~VP~al~rlfPesnf~rl~rWn~f~--s~~~C~l~v 211 (666)
T KOG2233|consen 134 MGNLHAWGGPLSPAWMLNQLLLQKRIIDRMLELGMTPVLPAFAGHVPDALERLFPESNFTRLPRWNNFT--SRYSCMLLV 211 (666)
T ss_pred hcCccccCCCCCHHHHHHHHHHHHHHHHHHHHcCCCccchhhccccHHHHHHhCchhceeeccccCCCC--cceeeeEEc
Confidence 999999999999999999999999999999999999999999999999999999999999999999996 699999999
Q ss_pred CCCChHHHHHHHHHHHHHHHHhCCCCcccccCCCCCCCCCCCChHHHHHHHHHHHHHHhccCCCceEEEecccCCCCCCC
Q 012032 81 DATDPLFIEIGRAFIEQQLKEYGRTSHIYNCDTFDENTPPVDSPEYISSLGAAIYSGMQSGDSDAVWLMQGWLFSYDPFW 160 (472)
Q Consensus 81 dP~DplF~~I~~~F~~eq~~~fG~~~h~Y~~D~FnE~~pp~~dp~~L~~~~~~iy~am~~~dP~AvWvmQgW~F~~~~fW 160 (472)
.|+||||.+||.+|+++|+|+||.++|+|+||||||+.||+++|+|+++.+.+||+||+++||+||||||||+|.+|+||
T Consensus 212 ~P~dplF~eIgs~Flr~~~kefG~~tniy~~DpFNE~~Pp~sepey~~staaAiyesm~kvdknaVWllQgWlF~~d~FW 291 (666)
T KOG2233|consen 212 SPFDPLFQEIGSTFLRHQIKEFGGVTNIYSADPFNEILPPESEPEYVKSTAAAIYESMKKVDKNAVWLLQGWLFTYDPFW 291 (666)
T ss_pred cCCcchHHHHHHHHHHHHHHHhCCcccccccCcccccCCCCCChHHHHHHHHHHHHHHhccCcceEEeeecceeecCCCC
Confidence 99999999999999999999999889999999999999999999999999999999999999999999999999999999
Q ss_pred CchhHHHhHhCCCCCCEEEEecCCCcccccccccCcCCCCceeeeccCCCCccccccchhhhhcChHHhhhCCCCceEEe
Q 012032 161 RPPQMKALLNSVPLGKLVVLDLFAEVKPIWSTSKQFYGVPYIWCMLHNFAGNIEMYGILDSIAFGPVEARTSENTTMVGV 240 (472)
Q Consensus 161 ~~~~~~a~L~~Vp~~~mliLDL~~E~~p~W~~t~~f~G~pwIWc~LhNFGGn~gl~G~l~~i~~~~~~a~~~~~~~m~Gi 240 (472)
+++++||||++||.||||||||++|..|+|++|.+|+|+|||||||||||||.+|+|.++.|++||.+|+..+||+|||+
T Consensus 292 ~~~~ikafL~avP~GrllVLDLyaEv~P~~~~Tasf~GqpfIWCmLHNFGGn~~lfGal~~InsG~e~Ar~~~nStlVGt 371 (666)
T KOG2233|consen 292 PPWQIKAFLSAVPRGRLLVLDLYAEVVPAWQMTASFQGQPFIWCMLHNFGGNRELFGALQKINSGPELARMKPNSTLVGT 371 (666)
T ss_pred ChHHHHHHHhcCCcCcEEEEehhhhhhhHHHhhhhhcCCceeEEEeeccCCcHhhhhhHHHhccCHHHHhcCCCCceeec
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred eeCccccccChhHHHHHHhhcCCCCCCCHHHHHHHHHhcccCCCChhHHHHHHHHHhcccCCCCCCCCCC-CcceecccC
Q 012032 241 GMSMEGIEQNPVVYDLMSEMAFQHEKVDVKAWINQYSVRRYGRSVPAIQDAWNVLYHTVYNCTDGATDKN-RDVIVAFPD 319 (472)
Q Consensus 241 G~tpEGie~NpvvYeL~~d~aW~~~~id~~~W~~~Ya~rRYG~~~~~~~~AW~iL~~tvY~~~~~~~~~~-~~~~~~~P~ 319 (472)
||+||||+||||||+||.|++|+++++|++.|+++|++||||+.++.+++||.+|.+|||||+++...++ ...+..||+
T Consensus 372 Gm~~EgI~QN~VvYsf~~e~~wsde~ldl~~Wlksys~sRY~~~~~~~eaaW~lL~~tvYn~~~~~~~~~~~~~l~rRp~ 451 (666)
T KOG2233|consen 372 GMSMEGIDQNYVVYSFMIERGWSDEPLDLNNWLKSYSESRYGVDFKVAEAAWTLLAGTVYNCPGKWATRGFSYFLYRRPS 451 (666)
T ss_pred ccCccccccchhhHHHHHHhccCCCCCCHHHHHHHHHHhhhccchHHHHHHHHHHhhhhcCCCcccccCCCceeeEeccc
Confidence 9999999999999999999999999999999999999999999999999999999999999998777666 666777787
Q ss_pred CCCccccccccccccCCCCcccchhccccCCCCCCCCccCCHHHHHHHHHHHHhccccCCCC-CcccchHHHHHHHHHHH
Q 012032 320 VDPSIISVTEGKYQNYGKPVSKEAVLKSETSSYDHPHLWYSTSEVIRALELFIASGNELSAS-NTYRYDLIDLTRQALAK 398 (472)
Q Consensus 320 l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Yd~~~l~~A~~lll~~~~~l~~~-~~y~yDLvDvtRQvL~n 398 (472)
++ .++.+||+.+++..||++||.+.+.+..+ ++|||||||||||+|+.
T Consensus 452 f~-------------------------------~k~~~Wyn~sev~~a~rllL~a~~~l~~e~~~fr~DlvDltRq~lqe 500 (666)
T KOG2233|consen 452 FQ-------------------------------RKTEYWYNVSEVFSAWRLLLTALVHLLGEHPLFRYDLVDLTRQMLQE 500 (666)
T ss_pred cc-------------------------------CCceeeecHHHHHHHHHHHHhhhhhhccCchhhHhHHHHHHHHHHHH
Confidence 65 23679999999999999999998887666 99999999999999999
Q ss_pred HHHHHHHHHHHHHHhCChHHHHHHHHHHHHHHHHHHHHhccCCCCChhHHHHHHHhhCCCHHHHHhhhCcccCC
Q 012032 399 YANELFLNIIEAYQLNDAHGVFQLSRRFLELVEDMDGLLACHDGFLLGPWLESAKQLAQNEEQEKQVRCPYVSQ 472 (472)
Q Consensus 399 ~~~~~~~~~~~Ay~~~d~~~~~~~~~~~l~li~dlD~LL~t~~~FlLg~Wl~~Ar~~a~~~~ek~~yE~NAr~q 472 (472)
.++++|.++.+||..||...+.++|.++++|++|||.+|+++.+||||+||++||+.|.+.+|++.||+|||+|
T Consensus 501 lanq~y~e~~sAflkkd~~sl~~~~~~llelf~dle~~lasd~nfLlg~WleqAk~~A~n~~er~~fe~nar~q 574 (666)
T KOG2233|consen 501 LANQAYLEARSAFLKKDKQSLGALSEKLLELFQDLESYLASDDNFLLGQWLEQAKSAAPNSEERQVFEVNARDQ 574 (666)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccCcchhHHHHHHHHHhhCCChhhhhhccccccce
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999998
No 2
>PF05089 NAGLU: Alpha-N-acetylglucosaminidase (NAGLU) tim-barrel domain; InterPro: IPR024733 Alpha-N-acetylglucosaminidase is a lysosomal enzyme that is required for the stepwise degradation of heparan sulphate []. Mutations on the alpha-N-acetylglucosaminidase gene can lead to mucopolysaccharidosis type IIIB (MPS IIIB; or Sanfilippo syndrome type B), characterised by neurological dysfunction but relatively mild somatic manifestations []. Alpha-N-acetylglucosaminidase is composed of three domains. This entry represents the central domain, which has a tim barrel fold [].; PDB: 4A4A_A 2VC9_A 2VCC_A 2VCB_A 2VCA_A.
Probab=100.00 E-value=3.3e-113 Score=862.79 Aligned_cols=258 Identities=59% Similarity=1.153 Sum_probs=188.8
Q ss_pred CCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHcCCeeccCCCCCCCchhhHhhCCCCceeccCCCCCCCCCCcccccccc
Q 012032 1 MSNLHGWGGPLPQSWLDQQLVLQKKILVRIYELGMNPVLPAFSGNVPAALQNVFPSAKITQLGNWFSVKSDPRWCCTYLL 80 (472)
Q Consensus 1 MgNi~gwgGPLp~~wi~~q~~LQkkIl~RmrelGM~PVLPgF~G~VP~~~k~~~P~a~i~~~~~W~gf~~~~~~~~~~~L 80 (472)
||||+|||||||++||++|++||||||+|||||||+||||||+||||++||+++|+|+|+++++|++| |||++|
T Consensus 75 MgNl~gwgGPLp~~w~~~q~~Lq~kIl~RmreLGm~PVLPaF~G~VP~~~~~~~P~a~i~~~~~W~~f------~~~~~L 148 (333)
T PF05089_consen 75 MGNLQGWGGPLPQSWIDQQAELQKKILDRMRELGMTPVLPAFAGHVPRAFKRKYPNANITRQGNWNGF------CRPYFL 148 (333)
T ss_dssp TTS--STT----TTHHHHHHHHHHHHHHHHHHHT-EEEEE--S-EE-TTHHHHSTT--EE---EETTE------E--EEE
T ss_pred hCCcccCCCCCCHHHHHHHHHHHHHHHHHHHHcCCcccCCCcCCCCChHHHhcCCCCEEeeCCCcCCC------CCCcee
Confidence 99999999999999999999999999999999999999999999999999999999999999999986 489999
Q ss_pred CCCChHHHHHHHHHHHHHHHHhCCCCcccccCCCCCCCCCCCChHHHHHHHHHHHHHHhccCCCceEEEecccCCCCCCC
Q 012032 81 DATDPLFIEIGRAFIEQQLKEYGRTSHIYNCDTFDENTPPVDSPEYISSLGAAIYSGMQSGDSDAVWLMQGWLFSYDPFW 160 (472)
Q Consensus 81 dP~DplF~~I~~~F~~eq~~~fG~~~h~Y~~D~FnE~~pp~~dp~~L~~~~~~iy~am~~~dP~AvWvmQgW~F~~~~fW 160 (472)
||+||+|++||++||+||+|+|| ++|||++|||||++||+++|+||+++|++||++|+++||+||||||||+|++++||
T Consensus 149 ~P~dplF~~i~~~F~~~q~~~yG-~~~~Y~~D~FnE~~p~~~~~~~l~~~s~~v~~am~~~dp~AvWvmQgWlF~~~~fW 227 (333)
T PF05089_consen 149 DPTDPLFAEIAKLFYEEQIKLYG-TDHIYAADPFNEGGPPSGDPEYLANVSKAVYKAMQAADPDAVWVMQGWLFYYDPFW 227 (333)
T ss_dssp -SS--HHHHHHHHHHHHHHHHH----SEEE--TTTTS---TTS---HHHHHHHHHHHHHHH-TT-EEEEEE--------B
T ss_pred CCCCchHHHHHHHHHHHHHHhcC-CCceeCCCccCCCCCCCCchHHHHHHHHHHHHHHHhhCCCcEEEEccccccccccc
Confidence 99999999999999999999999 78999999999999999999999999999999999999999999999999999999
Q ss_pred CchhHHHhHhCCCCCCEEEEecCCCcccccccccCcCCCCceeeeccCCCCccccccchhhhhcChHHhhhCCCCceEEe
Q 012032 161 RPPQMKALLNSVPLGKLVVLDLFAEVKPIWSTSKQFYGVPYIWCMLHNFAGNIEMYGILDSIAFGPVEARTSENTTMVGV 240 (472)
Q Consensus 161 ~~~~~~a~L~~Vp~~~mliLDL~~E~~p~W~~t~~f~G~pwIWc~LhNFGGn~gl~G~l~~i~~~~~~a~~~~~~~m~Gi 240 (472)
++++++|||++||++|||||||+||..|+|+++++|+|||||||||||||||+||+|+++.|++++.+|+++++++||||
T Consensus 228 ~~~~~~a~L~~Vp~~~mliLDL~se~~p~w~~~~~f~G~pwIwc~L~NFGG~~gl~G~~~~i~~~~~~a~~~~~~~m~G~ 307 (333)
T PF05089_consen 228 TPNPIKALLSGVPKGRMLILDLFSERFPQWKRTESFYGKPWIWCMLHNFGGNTGLYGNLENIASGPIEARASPNSNMVGI 307 (333)
T ss_dssp TTBS-HHHHTT-SGGGEEEEETTTTTS---HHHHCTT---EEEEE---STT--SS---HHHHHHHHHHHHHT--S-EEEE
T ss_pred CcchHHHHHcCCCCCCeEEEEccccccchhccccccccchhhhhcccCCCCCCCCcccHHHHHhhHHHHHHhcCCCceEE
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999989999999
Q ss_pred eeCccccccChhHHHHHHhhcCCCC
Q 012032 241 GMSMEGIEQNPVVYDLMSEMAFQHE 265 (472)
Q Consensus 241 G~tpEGie~NpvvYeL~~d~aW~~~ 265 (472)
|+|||||||||||||||+|++|+++
T Consensus 308 G~tpEgi~~NpvvYeL~~e~aW~~~ 332 (333)
T PF05089_consen 308 GLTPEGIEQNPVVYELMLEMAWRKD 332 (333)
T ss_dssp EE--S-S-S-HHHHHHHHHGGG-SS
T ss_pred EecccccccCHHHHHHHHHhcccCC
Confidence 9999999999999999999999975
No 3
>PF12972 NAGLU_C: Alpha-N-acetylglucosaminidase (NAGLU) C-terminal domain; InterPro: IPR024732 Alpha-N-acetylglucosaminidase is a lysosomal enzyme required for the stepwise degradation of heparan sulphate []. Mutations on the alpha-N-acetylglucosaminidase (NAGLU) gene can lead to Mucopolysaccharidosis type IIIB (MPS IIIB, or Sanfilippo syndrome type B) characterised by neurological dysfunction but relatively mild somatic manifestations []. The structure shows that the enzyme is composed of three domains. This C-terminal domain has an all alpha helical fold [].; PDB: 2VC9_A 2VCC_A 2VCB_A 2VCA_A 4A4A_A.
Probab=100.00 E-value=1.1e-50 Score=403.32 Aligned_cols=178 Identities=38% Similarity=0.753 Sum_probs=146.2
Q ss_pred HHHHHHHhcccCCCChhHHHHHHHHHhcccCCCCCCCCCCCcceecccCCCCccccccccccccCCCCcccchhccccCC
Q 012032 271 AWINQYSVRRYGRSVPAIQDAWNVLYHTVYNCTDGATDKNRDVIVAFPDVDPSIISVTEGKYQNYGKPVSKEAVLKSETS 350 (472)
Q Consensus 271 ~W~~~Ya~rRYG~~~~~~~~AW~iL~~tvY~~~~~~~~~~~~~~~~~P~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 350 (472)
+||++|++||||+.++++.+||++|++|||++++...+++++++|+||+++.. ..+
T Consensus 1 ~Wi~~Y~~rRYG~~~~~~~~AW~iL~~tvY~~~~~~~~~~~si~~~rPsl~~~------------------------~~~ 56 (267)
T PF12972_consen 1 EWIKDYATRRYGKYDPEAREAWQILLRTVYNNTGGQYGRGESIFCARPSLNGN------------------------SAS 56 (267)
T ss_dssp HHHHHHHHHHHT---HHHHHHHHHHHHTTTS---S---SS--GGGS-S-SS---------------------------SS
T ss_pred ChHHHHHHccCCCCCHHHHHHHHHHHhhhCCCCCCCCCCCcCceeeCCCCCcc------------------------ccc
Confidence 69999999999999999999999999999999887777789999999998743 235
Q ss_pred CCCCCCccCCHHHHHHHHHHHHhccccCCCCCcccchHHHHHHHHHHHHHHHHHHHHHHHHHhCChHHHHHHHHHHHHHH
Q 012032 351 SYDHPHLWYSTSEVIRALELFIASGNELSASNTYRYDLIDLTRQALAKYANELFLNIIEAYQLNDAHGVFQLSRRFLELV 430 (472)
Q Consensus 351 ~~~~~~~~Yd~~~l~~A~~lll~~~~~l~~~~~y~yDLvDvtRQvL~n~~~~~~~~~~~Ay~~~d~~~~~~~~~~~l~li 430 (472)
+|+++.++|||.+|++||++|++++++|+++++|||||||||||||+|+++.+|.++++||+++|.+.|++.+++||+||
T Consensus 57 ~~~~~~~~Yd~~~l~~A~~~ll~a~~~l~~~~~yryDlvDvtRQvL~n~~~~~~~~~~~ay~~~d~~~~~~~~~~~l~ll 136 (267)
T PF12972_consen 57 TWGPPGIWYDPADLEKAWRLLLKAADELKDSETYRYDLVDVTRQVLSNYADELYQQLVDAYNSKDIEAFKALSARFLELL 136 (267)
T ss_dssp TT------S-HHHHHHHHHHHHHCHHHHTT-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHH
T ss_pred CCCCCCCCCCHHHHHHHHHHHHHhHHhcCCCchHHhHHHHHHHHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHH
Confidence 67889999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHhccCCCCChhHHHHHHHhhCCCHHHHHhhhCcccCC
Q 012032 431 EDMDGLLACHDGFLLGPWLESAKQLAQNEEQEKQVRCPYVSQ 472 (472)
Q Consensus 431 ~dlD~LL~t~~~FlLg~Wl~~Ar~~a~~~~ek~~yE~NAr~q 472 (472)
+|||+||+||++|+||+||++||++|.|++||++||+|||+|
T Consensus 137 ~dlD~lL~t~~~f~Lg~Wi~~Ar~~g~~~~e~~~yE~NAR~q 178 (267)
T PF12972_consen 137 DDLDRLLATNPEFLLGKWIEDARAWGTTPEEKDLYEYNARNQ 178 (267)
T ss_dssp HHHHHHHTT-GGGBHHHHHHHHHHSSTT--HHHHHHHHHHHH
T ss_pred HHHHHHHCcCCCCCHHHHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence 999999999999999999999999999999999999999987
No 4
>PF02449 Glyco_hydro_42: Beta-galactosidase; InterPro: IPR013529 O-Glycosyl hydrolases 3.2.1. from EC are a widespread group of enzymes that hydrolyse the glycosidic bond between two or more carbohydrates, or between a carbohydrate and a non-carbohydrate moiety. A classification system for glycosyl hydrolases, based on sequence similarity, has led to the definition of 85 different families [, ]. This classification is available on the CAZy (CArbohydrate-Active EnZymes) web site. This group of beta-galactosidase enzymes (3.2.1.23 from EC) belong to the glycosyl hydrolase 42 family GH42 from CAZY. The enzyme catalyses the hydrolysis of terminal, non-reducing terminal beta-D-galactosidase residues.; GO: 0004565 beta-galactosidase activity, 0005975 carbohydrate metabolic process, 0009341 beta-galactosidase complex; PDB: 1KWK_A 1KWG_A 3U7V_A.
Probab=94.36 E-value=0.058 Score=56.38 Aligned_cols=93 Identities=18% Similarity=0.211 Sum_probs=70.5
Q ss_pred HHHHHHHHHHHHcCCeeccCCCCCCCchhhHhhCCCCceec-cCCCCCCCCCCccccccccCCCChHHHHHHHHHHHHHH
Q 012032 21 VLQKKILVRIYELGMNPVLPAFSGNVPAALQNVFPSAKITQ-LGNWFSVKSDPRWCCTYLLDATDPLFIEIGRAFIEQQL 99 (472)
Q Consensus 21 ~LQkkIl~RmrelGM~PVLPgF~G~VP~~~k~~~P~a~i~~-~~~W~gf~~~~~~~~~~~LdP~DplF~~I~~~F~~eq~ 99 (472)
..-.++|+++++.||..||--+.+..|.-+.+++|++..+. .|...++.. ....++.+|.|.+..+.|+++..
T Consensus 47 ~~lD~~l~~a~~~Gi~viL~~~~~~~P~Wl~~~~Pe~~~~~~~g~~~~~g~------~~~~~~~~p~yr~~~~~~~~~l~ 120 (374)
T PF02449_consen 47 SWLDRVLDLAAKHGIKVILGTPTAAPPAWLYDKYPEILPVDADGRRRGFGS------RQHYCPNSPAYREYARRFIRALA 120 (374)
T ss_dssp HHHHHHHHHHHCTT-EEEEEECTTTS-HHHHCCSGCCC-B-TTTSBEECCC------STT-HCCHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHhccCeEEEEecccccccchhhhcccccccCCCCCcCccCC------ccccchhHHHHHHHHHHHHHHHH
Confidence 34567899999999999998778889999999999986643 333322211 12357899999999999999999
Q ss_pred HHhCCCCcccccCCCCCCCC
Q 012032 100 KEYGRTSHIYNCDTFDENTP 119 (472)
Q Consensus 100 ~~fG~~~h~Y~~D~FnE~~p 119 (472)
+.|++..++.+.+..||..-
T Consensus 121 ~~y~~~p~vi~~~i~NE~~~ 140 (374)
T PF02449_consen 121 ERYGDHPAVIGWQIDNEPGY 140 (374)
T ss_dssp HHHTTTTTEEEEEECCSTTC
T ss_pred hhccccceEEEEEeccccCc
Confidence 99997777889999999765
No 5
>PF00150 Cellulase: Cellulase (glycosyl hydrolase family 5); InterPro: IPR001547 O-Glycosyl hydrolases 3.2.1. from EC are a widespread group of enzymes that hydrolyse the glycosidic bond between two or more carbohydrates, or between a carbohydrate and a non-carbohydrate moiety. A classification system for glycosyl hydrolases, based on sequence similarity, has led to the definition of 85 different families [, ]. This classification is available on the CAZy (CArbohydrate-Active EnZymes) web site. Glycoside hydrolase family 5 GH5 from CAZY comprises enzymes with several known activities; endoglucanase (3.2.1.4 from EC); beta-mannanase (3.2.1.78 from EC); exo-1,3-glucanase (3.2.1.58 from EC); endo-1,6-glucanase (3.2.1.75 from EC); xylanase (3.2.1.8 from EC); endoglycoceramidase (3.2.1.123 from EC). The microbial degradation of cellulose and xylans requires several types of enzymes. Fungi and bacteria produces a spectrum of cellulolytic enzymes (cellulases) and xylanases which, on the basis of sequence similarities, can be classified into families. One of these families is known as the cellulase family A [] or as the glycosyl hydrolases family 5 []. One of the conserved regions in this family contains a conserved glutamic acid residue which is potentially involved [] in the catalytic mechanism.; GO: 0004553 hydrolase activity, hydrolyzing O-glycosyl compounds, 0005975 carbohydrate metabolic process; PDB: 3NDY_A 3NDZ_B 1LF1_A 1TVP_B 1TVN_A 3AYR_A 3AYS_A 1QI0_A 1W3K_A 1OCQ_A ....
Probab=93.67 E-value=0.36 Score=47.03 Aligned_cols=133 Identities=13% Similarity=0.140 Sum_probs=81.9
Q ss_pred HHHHHHHHHHHHHHHHHcCCeeccCCCCCCCchhhHhhCCCCceeccCCCCCCCCCCccccccccCCCChHHHHHHHHHH
Q 012032 16 LDQQLVLQKKILVRIYELGMNPVLPAFSGNVPAALQNVFPSAKITQLGNWFSVKSDPRWCCTYLLDATDPLFIEIGRAFI 95 (472)
Q Consensus 16 i~~q~~LQkkIl~RmrelGM~PVLPgF~G~VP~~~k~~~P~a~i~~~~~W~gf~~~~~~~~~~~LdP~DplF~~I~~~F~ 95 (472)
-+...+-=++||+..++.||..||--... +.|..-. -..+..+...+--+.|.
T Consensus 57 ~~~~~~~ld~~v~~a~~~gi~vild~h~~------------------~~w~~~~---------~~~~~~~~~~~~~~~~~ 109 (281)
T PF00150_consen 57 DETYLARLDRIVDAAQAYGIYVILDLHNA------------------PGWANGG---------DGYGNNDTAQAWFKSFW 109 (281)
T ss_dssp THHHHHHHHHHHHHHHHTT-EEEEEEEES------------------TTCSSST---------STTTTHHHHHHHHHHHH
T ss_pred cHHHHHHHHHHHHHHHhCCCeEEEEeccC------------------ccccccc---------cccccchhhHHHHHhhh
Confidence 34555555899999999999998732222 4463211 01222222333334477
Q ss_pred HHHHHHhCCCCcccccCCCCCCCCCCC-------ChHHHHHHHHHHHHHHhccCCCceEEEec--ccCCCCCCCCchhHH
Q 012032 96 EQQLKEYGRTSHIYNCDTFDENTPPVD-------SPEYISSLGAAIYSGMQSGDSDAVWLMQG--WLFSYDPFWRPPQMK 166 (472)
Q Consensus 96 ~eq~~~fG~~~h~Y~~D~FnE~~pp~~-------dp~~L~~~~~~iy~am~~~dP~AvWvmQg--W~F~~~~fW~~~~~~ 166 (472)
+...+.|.+...+.+.|++||-..... .+..+....++++++|+++||+..=++.| |. .....
T Consensus 110 ~~la~~y~~~~~v~~~el~NEP~~~~~~~~w~~~~~~~~~~~~~~~~~~Ir~~~~~~~i~~~~~~~~--------~~~~~ 181 (281)
T PF00150_consen 110 RALAKRYKDNPPVVGWELWNEPNGGNDDANWNAQNPADWQDWYQRAIDAIRAADPNHLIIVGGGGWG--------ADPDG 181 (281)
T ss_dssp HHHHHHHTTTTTTEEEESSSSGCSTTSTTTTSHHHTHHHHHHHHHHHHHHHHTTSSSEEEEEEHHHH--------TBHHH
T ss_pred hhhccccCCCCcEEEEEecCCccccCCccccccccchhhhhHHHHHHHHHHhcCCcceeecCCCccc--------cccch
Confidence 788888943456789999999776533 23567889999999999999995444555 52 22222
Q ss_pred HhHhCCCC--CCEEEEecCC
Q 012032 167 ALLNSVPL--GKLVVLDLFA 184 (472)
Q Consensus 167 a~L~~Vp~--~~mliLDL~~ 184 (472)
+... .|. +..+|++...
T Consensus 182 ~~~~-~P~~~~~~~~~~~H~ 200 (281)
T PF00150_consen 182 AAAD-NPNDADNNDVYSFHF 200 (281)
T ss_dssp HHHH-STTTTTTSEEEEEEE
T ss_pred hhhc-CcccccCceeEEeeE
Confidence 2223 663 4667777643
No 6
>cd06593 GH31_xylosidase_YicI YicI alpha-xylosidase is a glycosyl hydrolase family 31 (GH31) enzyme that catalyzes the release of an alpha-xylosyl residue from the non-reducing end of alpha-xyloside substrates such as alpha-xylosyl fluoride and isoprimeverose. YicI forms a homohexamer (a trimer of dimers). All GH31 enzymes cleave a terminal carbohydrate moiety from a substrate that varies considerably in size, depending on the enzyme, and may be either a starch or a glycoprotein. The YicI family corresponds to subgroup 4 in the Ernst et al classification of GH31 enzymes.
Probab=81.19 E-value=21 Score=36.33 Aligned_cols=113 Identities=19% Similarity=0.290 Sum_probs=63.0
Q ss_pred HHHHHHHHHcCCeecc---CCCCCCCchhhHhh--------CCCCceeccCCCCCCCCCCccccccccCCCChHHHHHHH
Q 012032 24 KKILVRIYELGMNPVL---PAFSGNVPAALQNV--------FPSAKITQLGNWFSVKSDPRWCCTYLLDATDPLFIEIGR 92 (472)
Q Consensus 24 kkIl~RmrelGM~PVL---PgF~G~VP~~~k~~--------~P~a~i~~~~~W~gf~~~~~~~~~~~LdP~DplF~~I~~ 92 (472)
+++++++++.||+.|+ |...-- .+.+++. .++-+......|.+- ..++|.+.|.-.+-=+
T Consensus 69 ~~~i~~l~~~G~~~~~~~~P~i~~~-~~~~~e~~~~g~~v~~~~g~~~~~~~w~g~--------~~~~Dftnp~a~~w~~ 139 (308)
T cd06593 69 EGMLSRLKEKGFKVCLWINPYIAQK-SPLFKEAAEKGYLVKKPDGSVWQWDLWQPG--------MGIIDFTNPDACKWYK 139 (308)
T ss_pred HHHHHHHHHCCCeEEEEecCCCCCC-chhHHHHHHCCeEEECCCCCeeeecccCCC--------cccccCCCHHHHHHHH
Confidence 6899999999999976 543221 1123332 222223333345431 3578888887654332
Q ss_pred HHHHHHHHHhCCCCcccccCCCCCCCCCCCC-----------hHHHHHHHHHHHHHHhccCCCc-eEEE
Q 012032 93 AFIEQQLKEYGRTSHIYNCDTFDENTPPVDS-----------PEYISSLGAAIYSGMQSGDSDA-VWLM 149 (472)
Q Consensus 93 ~F~~eq~~~fG~~~h~Y~~D~FnE~~pp~~d-----------p~~L~~~~~~iy~am~~~dP~A-vWvm 149 (472)
.-+++..+ +| . ..+-+| |+|..|.... ..|--..++++|+++++..++- .+++
T Consensus 140 ~~~~~~~~-~G-i-d~~~~D-~~e~~p~~~~~~~g~~~~~~hn~y~~~~~~~~~~~~~~~~~~~r~~~~ 204 (308)
T cd06593 140 DKLKPLLD-MG-V-DCFKTD-FGERIPTDVVYYDGSDGEKMHNYYALLYNKAVYEATKEVKGEGEAVVW 204 (308)
T ss_pred HHHHHHHH-hC-C-cEEecC-CCCCCCccccccCCCCcceeeeHHHHHHHHHHHHHHHHhcCCCCeEEE
Confidence 22332222 46 3 456677 6675554321 1244567889999998887752 4443
No 7
>PF12891 Glyco_hydro_44: Glycoside hydrolase family 44; InterPro: IPR024745 This is a family of putative bacterial glycoside hydrolases.; PDB: 3IK2_A 3ZQ9_A 2YJQ_B 2YKK_A 2YIH_A 2EEX_A 2EQD_A 2E0P_A 2E4T_A 2EO7_A ....
Probab=80.66 E-value=1.7 Score=43.38 Aligned_cols=120 Identities=18% Similarity=0.236 Sum_probs=68.6
Q ss_pred HHHHHHHHHcCCeec--cCCCCCCCchhh-----HhhCCCCceeccCCCC--------CCCCCCccccccccCCCChHHH
Q 012032 24 KKILVRIYELGMNPV--LPAFSGNVPAAL-----QNVFPSAKITQLGNWF--------SVKSDPRWCCTYLLDATDPLFI 88 (472)
Q Consensus 24 kkIl~RmrelGM~PV--LPgF~G~VP~~~-----k~~~P~a~i~~~~~W~--------gf~~~~~~~~~~~LdP~DplF~ 88 (472)
.+.+++-++-|+.++ || -.|.|++.= ...||.++.-+|..|. |...... .+.-++|..+.=.
T Consensus 27 ~~f~~~~~~~ga~~m~T~p-m~G~Vakd~~~~~~~~~fp~~~y~~Q~~~d~~~~~~Gng~~~~~~--~~~~~~P~~~~~~ 103 (239)
T PF12891_consen 27 DTFIDQNLAAGAYSMMTLP-MIGYVAKDANSVSESESFPSWRYGPQQWFDPWNPDCGNGVKPDKT--ALTSNDPDTPDNP 103 (239)
T ss_dssp HHHHHHHHHTT-EEEEEE---SSEEES-BSEGBGGGTSSSTTEEEBS-EETTEEEEE-SEESTSS--S--SSSGGSSSSE
T ss_pred HHHHHHhhhcCcceeEeec-ccceEecCCCCcccccCCChhhcccccccCcCcCCCCccccCCCC--CCCCCCCCCCccH
Confidence 456677778898888 44 378888876 6789999888866553 1110000 1222344422122
Q ss_pred HHHHHHHHHHHHHhCCC-----CcccccCCCCCCC----------CCCCChHHHHHHHHHHHHHHhccCCCceEE
Q 012032 89 EIGRAFIEQQLKEYGRT-----SHIYNCDTFDENT----------PPVDSPEYISSLGAAIYSGMQSGDSDAVWL 148 (472)
Q Consensus 89 ~I~~~F~~eq~~~fG~~-----~h~Y~~D~FnE~~----------pp~~dp~~L~~~~~~iy~am~~~dP~AvWv 148 (472)
.....|+..+++.||+. -+||.+| ||.. |-.-..+.|.+-.-+.=++++++||.|.=+
T Consensus 104 ~y~~ewV~~l~~~~g~a~~~~gvk~y~lD--NEP~LW~~TH~dVHP~~~t~~El~~r~i~~AkaiK~~DP~a~v~ 176 (239)
T PF12891_consen 104 VYMDEWVNYLVNKYGNASTNGGVKYYSLD--NEPDLWHSTHRDVHPEPVTYDELRDRSIEYAKAIKAADPDAKVF 176 (239)
T ss_dssp EEHHHHHHHHHHHH--TTSTTS--EEEES--S-GGGHHHHTTTT--S---HHHHHHHHHHHHHHHHHH-TTSEEE
T ss_pred hHHHHHHHHHHHHHhccccCCCceEEEec--CchHhhcccccccCCCCCCHHHHHHHHHHHHHHHHhhCCCCeEe
Confidence 23577888899999964 2799999 8853 222233456677777778999999999754
No 8
>PF13812 PPR_3: Pentatricopeptide repeat domain
Probab=71.07 E-value=2.6 Score=27.67 Aligned_cols=20 Identities=15% Similarity=0.235 Sum_probs=17.3
Q ss_pred HHHHHHHHHHHHHHHcCCee
Q 012032 18 QQLVLQKKILVRIYELGMNP 37 (472)
Q Consensus 18 ~q~~LQkkIl~RmrelGM~P 37 (472)
.+.+...++++.|++.|++|
T Consensus 15 g~~~~a~~~~~~M~~~gv~P 34 (34)
T PF13812_consen 15 GDPDAALQLFDEMKEQGVKP 34 (34)
T ss_pred CCHHHHHHHHHHHHHhCCCC
Confidence 35677899999999999998
No 9
>PF01229 Glyco_hydro_39: Glycosyl hydrolases family 39; InterPro: IPR000514 O-Glycosyl hydrolases 3.2.1. from EC are a widespread group of enzymes that hydrolyse the glycosidic bond between two or more carbohydrates, or between a carbohydrate and a non-carbohydrate moiety. A classification system for glycosyl hydrolases, based on sequence similarity, has led to the definition of 85 different families [, ]. This classification is available on the CAZy (CArbohydrate-Active EnZymes) web site. Glycoside hydrolase family 39 GH39 from CAZY comprises enzymes with several known activities; alpha-L-iduronidase (3.2.1.76 from EC); beta-xylosidase (3.2.1.37 from EC). The most highly conserved regions in these enzymes are located in their N-terminal sections. These contain a glutamic acid residue which, on the basis of similarities with other families of glycosyl hydrolases [], probably acts as the proton donor in their catalytic mechanism.; GO: 0004553 hydrolase activity, hydrolyzing O-glycosyl compounds, 0005975 carbohydrate metabolic process; PDB: 2BS9_D 2BFG_E 1W91_B 1UHV_D 1PX8_A.
Probab=67.73 E-value=8.3 Score=42.03 Aligned_cols=103 Identities=20% Similarity=0.326 Sum_probs=63.4
Q ss_pred HHHHHHHHcCCeeccCCCCCCCchhhHhhCCCCceeccCCCCCCCCCCccccccccCCCC-hHHHHHHHHHHHHHHHHhC
Q 012032 25 KILVRIYELGMNPVLPAFSGNVPAALQNVFPSAKITQLGNWFSVKSDPRWCCTYLLDATD-PLFIEIGRAFIEQQLKEYG 103 (472)
Q Consensus 25 kIl~RmrelGM~PVLPgF~G~VP~~~k~~~P~a~i~~~~~W~gf~~~~~~~~~~~LdP~D-plF~~I~~~F~~eq~~~fG 103 (472)
+|++-+.+.||+|.+- -|+-|.++..... ..-.|.+ .+-.|.| ..+.++-+.|.++.++.||
T Consensus 88 ~i~D~l~~~g~~P~ve--l~f~p~~~~~~~~-----~~~~~~~----------~~~pp~~~~~W~~lv~~~~~h~~~RYG 150 (486)
T PF01229_consen 88 QILDFLLENGLKPFVE--LGFMPMALASGYQ-----TVFWYKG----------NISPPKDYEKWRDLVRAFARHYIDRYG 150 (486)
T ss_dssp HHHHHHHHCT-EEEEE--E-SB-GGGBSS-------EETTTTE----------E-S-BS-HHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHcCCEEEEE--EEechhhhcCCCC-----ccccccC----------CcCCcccHHHHHHHHHHHHHHHHhhcC
Confidence 6999999999999654 3778887754211 1111222 1244666 6789999999999999999
Q ss_pred CCCcc--cccCCCCCCCCC-CC---C-hHHHHHHHHHHHHHHhccCCCce
Q 012032 104 RTSHI--YNCDTFDENTPP-VD---S-PEYISSLGAAIYSGMQSGDSDAV 146 (472)
Q Consensus 104 ~~~h~--Y~~D~FnE~~pp-~~---d-p~~L~~~~~~iy~am~~~dP~Av 146 (472)
. ..+ ......||-.-. .+ . .+|+ +.-++++++++++||.+.
T Consensus 151 ~-~ev~~W~fEiWNEPd~~~f~~~~~~~ey~-~ly~~~~~~iK~~~p~~~ 198 (486)
T PF01229_consen 151 I-EEVSTWYFEIWNEPDLKDFWWDGTPEEYF-ELYDATARAIKAVDPELK 198 (486)
T ss_dssp H-HHHTTSEEEESS-TTSTTTSGGG-HHHHH-HHHHHHHHHHHHH-TTSE
T ss_pred C-ccccceeEEeCcCCCcccccCCCCHHHHH-HHHHHHHHHHHHhCCCCc
Confidence 3 222 234567884432 11 1 2455 577889999999999986
No 10
>cd06592 GH31_glucosidase_KIAA1161 KIAA1161 is an uncharacterized Homo sapiens protein with a glycosyl hydrolase family 31 (GH31) domain that is homologous to the Escherichia coli YihQ glucosidase. Orthologs of KIA1161 are found in eukaryotes and prokaryotes. In bacteria, YihQ (along with YihO) is important for bacterial O-antigen capsule assembly and translocation. Enzymes of the GH31 family possess a wide range of different hydrolytic activities including alpha-glucosidase (glucoamylase and sucrase-isomaltase), alpha-xylosidase, 6-alpha-glucosyltransferase, 3-alpha-isomaltosyltransferase and alpha-1,4-glucan lyase. All GH31 enzymes cleave a terminal carbohydrate moiety from a substrate that varies considerably in size, depending on the enzyme, and may be either a starch or a glycoprotein.
Probab=58.45 E-value=65 Score=32.85 Aligned_cols=82 Identities=18% Similarity=0.337 Sum_probs=49.4
Q ss_pred HHHHHHHHHcCCeecc---CCCCCCCchhhHhhC-CCCcee-------ccCC-CCCCCCCCccccccccCCCChHHHHHH
Q 012032 24 KKILVRIYELGMNPVL---PAFSGNVPAALQNVF-PSAKIT-------QLGN-WFSVKSDPRWCCTYLLDATDPLFIEIG 91 (472)
Q Consensus 24 kkIl~RmrelGM~PVL---PgF~G~VP~~~k~~~-P~a~i~-------~~~~-W~gf~~~~~~~~~~~LdP~DplF~~I~ 91 (472)
+++++++++.||++|+ |.++ .-.+.+++.. .+.=|. -.+. |.+ .+.++|.+.|.-.+.=
T Consensus 73 ~~mi~~l~~~G~k~~l~i~P~i~-~~s~~~~e~~~~g~~vk~~~g~~~~~~~~w~g--------~~~~~Dftnp~a~~w~ 143 (303)
T cd06592 73 KGMIDQLHDLGFRVTLWVHPFIN-TDSENFREAVEKGYLVSEPSGDIPALTRWWNG--------TAAVLDFTNPEAVDWF 143 (303)
T ss_pred HHHHHHHHHCCCeEEEEECCeeC-CCCHHHHhhhhCCeEEECCCCCCCcccceecC--------CcceEeCCCHHHHHHH
Confidence 6788999999999998 7554 2234455411 111111 1122 332 2568999999866555
Q ss_pred HHHHHHHHHHhCCCCcccccCCCCCC
Q 012032 92 RAFIEQQLKEYGRTSHIYNCDTFDEN 117 (472)
Q Consensus 92 ~~F~~eq~~~fG~~~h~Y~~D~FnE~ 117 (472)
..-+++..+..| . ..+-+| |+|.
T Consensus 144 ~~~~~~~~~~~G-v-dg~w~D-~~E~ 166 (303)
T cd06592 144 LSRLKSLQEKYG-I-DSFKFD-AGEA 166 (303)
T ss_pred HHHHHHHHHHhC-C-cEEEeC-CCCc
Confidence 555555555668 4 567778 6885
No 11
>PF02065 Melibiase: Melibiase; InterPro: IPR000111 O-Glycosyl hydrolases 3.2.1. from EC are a widespread group of enzymes that hydrolyse the glycosidic bond between two or more carbohydrates, or between a carbohydrate and a non-carbohydrate moiety. A classification system for glycosyl hydrolases, based on sequence similarity, has led to the definition of 85 different families [, ]. This classification is available on the CAZy (CArbohydrate-Active EnZymes) web site. Glycosyl hydrolase family 27, family 31 and family 36 alpha-galactosidases form the glycosyl hydrolase clan GH-D (acc_GH from CAZY), a superfamily of alpha-galactosidases, alpha-N-acetylgalactosaminidases, and isomaltodextranases which are likely to share a common catalytic mechanism and structural topology. Alpha-galactosidase (3.2.1.22 from EC) (melibiase) [] catalyzes the hydrolysis of melibiose into galactose and glucose. In man, the deficiency of this enzyme is the cause of Fabry's disease (X-linked sphingolipidosis). Alpha-galactosidase is present in a variety of organisms. There is a considerable degree of similarity in the sequence of alpha-galactosidase from various eukaryotic species. Escherichia coli alpha-galactosidase (gene melA), which requires NAD and magnesium as cofactors, is not structurally related to the eukaryotic enzymes; by contrast, an Escherichia coli plasmid encoded alpha-galactosidase (gene rafA P16551 from SWISSPROT) [] contains a region of about 50 amino acids which is similar to a domain of the eukaryotic alpha-galactosidases. Alpha-N-acetylgalactosaminidase (3.2.1.49 from EC) [] catalyzes the hydrolysis of terminal non-reducing N-acetyl-D-galactosamine residues in N-acetyl-alpha-D- galactosaminides. In man, the deficiency of this enzyme is the cause of Schindler and Kanzaki diseases. The sequence of this enzyme is highly related to that of the eukaryotic alpha-galactosidases.; GO: 0004553 hydrolase activity, hydrolyzing O-glycosyl compounds, 0005975 carbohydrate metabolic process; PDB: 1KTC_A 1KTB_A 1UAS_A 3H55_A 3H53_A 3IGU_B 3H54_A 3LRM_A 3LRL_A 3LRK_A ....
Probab=58.12 E-value=29 Score=37.11 Aligned_cols=122 Identities=18% Similarity=0.110 Sum_probs=68.6
Q ss_pred HHHHHHHHHcCCeeccCCCCCCCch--hhHhhCCCCceeccCCCCCCCCCCccccccccCCCChHHHHHHHHHHHHHHHH
Q 012032 24 KKILVRIYELGMNPVLPAFSGNVPA--ALQNVFPSAKITQLGNWFSVKSDPRWCCTYLLDATDPLFIEIGRAFIEQQLKE 101 (472)
Q Consensus 24 kkIl~RmrelGM~PVLPgF~G~VP~--~~k~~~P~a~i~~~~~W~gf~~~~~~~~~~~LdP~DplF~~I~~~F~~eq~~~ 101 (472)
+-+.++.+++||+|=|=-=..+|-+ .+.+.+|+--+. .+....... ..-++||++.|.-.+--...+....+.
T Consensus 107 ~~l~~~i~~~Gmk~GlW~ePe~v~~~S~l~~~hPdw~l~-~~~~~~~~~----r~~~vLD~~~pev~~~l~~~i~~ll~~ 181 (394)
T PF02065_consen 107 KPLADYIHSLGMKFGLWFEPEMVSPDSDLYREHPDWVLR-DPGRPPTLG----RNQYVLDLSNPEVRDYLFEVIDRLLRE 181 (394)
T ss_dssp HHHHHHHHHTT-EEEEEEETTEEESSSCHCCSSBGGBTC-CTTSE-ECB----TTBEEB-TTSHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHCCCeEEEEeccccccchhHHHHhCccceee-cCCCCCcCc----ccceEEcCCCHHHHHHHHHHHHHHHHh
Confidence 4577788999999976432233321 244556644222 111111110 124689999998776666667777778
Q ss_pred hCCCCcccccCCCCCCCCCCCCh---H---HHHHHHHHHHHHHhccCCCceEEEeccc
Q 012032 102 YGRTSHIYNCDTFDENTPPVDSP---E---YISSLGAAIYSGMQSGDSDAVWLMQGWL 153 (472)
Q Consensus 102 fG~~~h~Y~~D~FnE~~pp~~dp---~---~L~~~~~~iy~am~~~dP~AvWvmQgW~ 153 (472)
+| . .|...|--.....+.+.. . |...+ -.+++.|++..|+-++-.=+|=
T Consensus 182 ~g-i-dYiK~D~n~~~~~~~~~~~~~~~~~~~~~~-y~l~~~L~~~~P~v~iE~CssG 236 (394)
T PF02065_consen 182 WG-I-DYIKWDFNRDITEAGSPSLPEGYHRYVLGL-YRLLDRLRARFPDVLIENCSSG 236 (394)
T ss_dssp TT---SEEEEE-TS-TTS-SSTTS-GHHHHHHHHH-HHHHHHHHHHTTTSEEEE-BTT
T ss_pred cC-C-CEEEeccccCCCCCCCCCchHHHHHHHHHH-HHHHHHHHHhCCCcEEEeccCC
Confidence 99 4 788888654444332221 1 22222 3578899999999999887763
No 12
>PRK00035 hemH ferrochelatase; Reviewed
Probab=53.37 E-value=2.4e+02 Score=29.03 Aligned_cols=152 Identities=20% Similarity=0.259 Sum_probs=79.7
Q ss_pred CCCCCHHHHHHHHHHHHHH-----------------------HHHHHHcCC-----eeccCCCCCC----CchhhHhh--
Q 012032 8 GGPLPQSWLDQQLVLQKKI-----------------------LVRIYELGM-----NPVLPAFSGN----VPAALQNV-- 53 (472)
Q Consensus 8 gGPLp~~wi~~q~~LQkkI-----------------------l~RmrelGM-----~PVLPgF~G~----VP~~~k~~-- 53 (472)
|.||...+.++...||++. |++|++-|. .|..|-|+.+ ++..+++.
T Consensus 69 gSPl~~~t~~q~~~L~~~l~~~~~~~~V~~am~y~~P~i~eal~~l~~~G~~~IivlPL~p~~s~~t~gs~~~~i~~~~~ 148 (333)
T PRK00035 69 GSPLNVITRRQAEALQAELAARGPDLPVYLGMRYWNPSIEEALEALKADGVDRIVVLPLYPQYSYSTTASYFEDLARALA 148 (333)
T ss_pred CChhHHHHHHHHHHHHHHHhccCCCceEEEeecCCCCCHHHHHHHHHhcCCCEEEEEECCCccccccHHHHHHHHHHHHH
Confidence 6799888888888888764 345655554 4666766644 44444322
Q ss_pred -CC-CCceeccCCCCCCCCCCccccccccCCCChHHHHHHHHHHHHHHHHhCCC-CcccccCCCCCCCC----CCCChHH
Q 012032 54 -FP-SAKITQLGNWFSVKSDPRWCCTYLLDATDPLFIEIGRAFIEQQLKEYGRT-SHIYNCDTFDENTP----PVDSPEY 126 (472)
Q Consensus 54 -~P-~a~i~~~~~W~gf~~~~~~~~~~~LdP~DplF~~I~~~F~~eq~~~fG~~-~h~Y~~D~FnE~~p----p~~dp~~ 126 (472)
++ ..++.-. +++. .+|.|.+.-..-+++..+.++.. ...--+=.+|= .| ..+|| |
T Consensus 149 ~~~~~~~i~~i-------------~~~~---~~p~~i~~l~~~I~~~~~~~~~~~~~~~llfs~HG-~P~~~~~~gd~-Y 210 (333)
T PRK00035 149 KLRLQPEIRFI-------------RSYY---DHPGYIEALAESIREALAKHGEDPEPDRLLFSAHG-LPQRYIDKGDP-Y 210 (333)
T ss_pred hcCCCCcEEEe-------------CCcc---CCHHHHHHHHHHHHHHHHhcCcccCCcEEEEecCC-CchHHhhcCCC-h
Confidence 22 1111111 1211 46667666666666665555521 01112222331 11 12243 4
Q ss_pred ---HHHHHHHHHHHHhccCCCceEEEecccCCCCC-CCCchhHHHhHhCCCC---CCEEEE
Q 012032 127 ---ISSLGAAIYSGMQSGDSDAVWLMQGWLFSYDP-FWRPPQMKALLNSVPL---GKLVVL 180 (472)
Q Consensus 127 ---L~~~~~~iy~am~~~dP~AvWvmQgW~F~~~~-fW~~~~~~a~L~~Vp~---~~mliL 180 (472)
+...++.|.+.+.- +..- +..+|+-.-.+ =|..|.+...|..+.+ .+++|+
T Consensus 211 ~~~~~~t~~~l~~~l~~--~~~~-~~~~fqs~~g~~~Wl~P~~~~~l~~l~~~g~k~V~v~ 268 (333)
T PRK00035 211 QQQCEETARLLAEALGL--PDED-YDLTYQSRFGPEPWLEPYTDDTLEELAEKGVKKVVVV 268 (333)
T ss_pred HHHHHHHHHHHHHHhCC--CCCC-eEEEeeCCCCCCccCCCCHHHHHHHHHHcCCCeEEEE
Confidence 44456666666542 1222 34577743333 5998999999888765 356664
No 13
>PF05119 Terminase_4: Phage terminase, small subunit; InterPro: IPR006448 This entry is represented by Streptococcus phage 7201, Orf21. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This group of sequences describe the distinct family of phage (and integrated prophage) putative terminase small subunit sequnces. Members tend to be encoded by the gene adjacent to the phage terminase large subunit gene.
Probab=47.68 E-value=21 Score=29.78 Aligned_cols=31 Identities=23% Similarity=0.277 Sum_probs=28.3
Q ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHcCCeec
Q 012032 8 GGPLPQSWLDQQLVLQKKILVRIYELGMNPV 38 (472)
Q Consensus 8 gGPLp~~wi~~q~~LQkkIl~RmrelGM~PV 38 (472)
|++.+.-++..+....++|.+=.++||++|.
T Consensus 55 G~~~~nP~~~~~~~~~~~~~~l~~~lGLtP~ 85 (100)
T PF05119_consen 55 GNPKKNPAVSILNKAMKQMRSLASELGLTPA 85 (100)
T ss_pred CCcccCHHHHHHHHHHHHHHHHHHHcCCCHH
Confidence 4688888999999999999999999999994
No 14
>PRK15014 6-phospho-beta-glucosidase BglA; Provisional
Probab=44.94 E-value=47 Score=36.39 Aligned_cols=68 Identities=19% Similarity=0.457 Sum_probs=45.8
Q ss_pred HHHHHHHHHHcCCeeccCCCCCCCchhhHhhCCCCceeccCCCCCCCCCCccccccccCCCChHHHHHHHHHHHHHHHHh
Q 012032 23 QKKILVRIYELGMNPVLPAFSGNVPAALQNVFPSAKITQLGNWFSVKSDPRWCCTYLLDATDPLFIEIGRAFIEQQLKEY 102 (472)
Q Consensus 23 QkkIl~RmrelGM~PVLPgF~G~VP~~~k~~~P~a~i~~~~~W~gf~~~~~~~~~~~LdP~DplF~~I~~~F~~eq~~~f 102 (472)
=+++++.+++.||+|++==|-=-.|..|.++| |.|.+ +.+. ..|.+ |-+..-+.|
T Consensus 112 Y~~lid~l~~~GI~P~vTL~H~dlP~~L~~~y--------GGW~n---------~~~~----~~F~~----Ya~~~f~~f 166 (477)
T PRK15014 112 YDDMFDELLKYNIEPVITLSHFEMPLHLVQQY--------GSWTN---------RKVV----DFFVR----FAEVVFERY 166 (477)
T ss_pred HHHHHHHHHHcCCEEEEEeeCCCCCHHHHHhc--------CCCCC---------hHHH----HHHHH----HHHHHHHHh
Confidence 47999999999999998776667888887655 55632 1111 34544 444555778
Q ss_pred CCCCcccccCCCCCC
Q 012032 103 GRTSHIYNCDTFDEN 117 (472)
Q Consensus 103 G~~~h~Y~~D~FnE~ 117 (472)
|+--+++. +|||.
T Consensus 167 gdrVk~Wi--T~NEp 179 (477)
T PRK15014 167 KHKVKYWM--TFNEI 179 (477)
T ss_pred cCcCCEEE--EecCc
Confidence 86445554 88884
No 15
>cd03198 GST_C_CLIC GST_C family, Chloride Intracellular Channel (CLIC) subfamily; composed of CLIC1-5, p64, parchorin, and similar proteins. They are auto-inserting, self-assembling intracellular anion channels involved in a wide variety of functions including regulated secretion, cell division, and apoptosis. They can exist in both water-soluble and membrane-bound states and are found in various vesicles and membranes. Biochemical studies of the C. elegans homolog, EXC-4, show that the membrane localization domain is present in the N-terminal part of the protein. The structure of soluble human CLIC1 reveals that it is monomeric and adopts a fold similar to GSTs, containing an N-terminal domain with a thioredoxin fold and a C-terminal alpha helical domain. Upon oxidation, the N-terminal domain of CLIC1 undergoes a structural change to form a non-covalent dimer stabilized by the formation of an intramolecular disulfide bond between two cysteines that are far apart in the reduced form. T
Probab=44.12 E-value=65 Score=29.30 Aligned_cols=43 Identities=12% Similarity=0.200 Sum_probs=37.6
Q ss_pred HHHHHHHHHHHHHHHHhCChHHHHHHHHHHHHHHHHHHHHhcc
Q 012032 397 AKYANELFLNIIEAYQLNDAHGVFQLSRRFLELVEDMDGLLAC 439 (472)
Q Consensus 397 ~n~~~~~~~~~~~Ay~~~d~~~~~~~~~~~l~li~dlD~LL~t 439 (472)
...+..+|.++..-.++++.+.-+...+++++-++-||..|+.
T Consensus 5 ~~~~~~~f~~~~~~~~~~~~~~~e~~~~~l~~~L~~ld~~L~~ 47 (134)
T cd03198 5 NTAGEDIFAKFSAYIKNSNPALNENLEKGLLKALKKLDDYLNS 47 (134)
T ss_pred hhhHHHHHHHHHHHHcCCChhhhHHHHHHHHHHHHHHHHHHcc
Confidence 3467788999998888998888888889999999999999986
No 16
>cd06594 GH31_glucosidase_YihQ YihQ is a bacterial alpha-glucosidase with a conserved glycosyl hydrolase family 31 (GH31) domain that catalyzes the release of an alpha-glucosyl residue from the non-reducing end of alpha-glucoside substrates such as alpha-glucosyl fluoride. Orthologs of YihQ that have not yet been functionally characterized are present in plants and fungi. YihQ has sequence similarity to other GH31 enzymes such as CtsZ, a 6-alpha-glucosyltransferase from Bacillus globisporus, and YicI, an alpha-xylosidase from Echerichia coli. In bacteria, YihQ (along with YihO) is important for bacterial O-antigen capsule assembly and translocation.
Probab=43.50 E-value=2e+02 Score=29.64 Aligned_cols=105 Identities=15% Similarity=0.179 Sum_probs=59.2
Q ss_pred HHHHHHHHHcCCeecc---CCCCCCCchhhHhh--------CCCCceeccCCCCCCCCCCccccccccCCCChHHHHHHH
Q 012032 24 KKILVRIYELGMNPVL---PAFSGNVPAALQNV--------FPSAKITQLGNWFSVKSDPRWCCTYLLDATDPLFIEIGR 92 (472)
Q Consensus 24 kkIl~RmrelGM~PVL---PgF~G~VP~~~k~~--------~P~a~i~~~~~W~gf~~~~~~~~~~~LdP~DplF~~I~~ 92 (472)
+++++.+++.|++.|+ |++.--.+.-+++. .++-+......|.+. +.++|-+.|.- +
T Consensus 74 ~~mi~~Lh~~G~~~~~~i~P~v~~~~~~~y~~~~~~g~~vk~~~g~~~~~~~w~g~--------~~~~Dftnp~a----~ 141 (317)
T cd06594 74 DELIEELKARGIRVLTYINPYLADDGPLYYEEAKDAGYLVKDADGSPYLVDFGEFD--------CGVLDLTNPAA----R 141 (317)
T ss_pred HHHHHHHHHCCCEEEEEecCceecCCchhHHHHHHCCeEEECCCCCeeeeccCCCC--------ceeeecCCHHH----H
Confidence 6889999999999875 55442222212332 122112222334442 35788888874 4
Q ss_pred HHHHHHHH----HhCCCCcccccCCCCCCCCCCC------Ch-----HHHHHHHHHHHHHHhccCC
Q 012032 93 AFIEQQLK----EYGRTSHIYNCDTFDENTPPVD------SP-----EYISSLGAAIYSGMQSGDS 143 (472)
Q Consensus 93 ~F~~eq~~----~fG~~~h~Y~~D~FnE~~pp~~------dp-----~~L~~~~~~iy~am~~~dP 143 (472)
.++.++.+ ..| . ..+-.| |+|..|+.. +. .|--..++++|++++++.|
T Consensus 142 ~ww~~~~~~~~~~~G-v-dg~w~D-~~E~~p~d~~~~~g~~~~~~hN~y~~~~~~~~~~~~~~~~~ 204 (317)
T cd06594 142 DWFKQVIKEMLLDLG-L-SGWMAD-FGEYLPFDAVLHSGEDAATMHNRYPELWAKLNREAVEEAGK 204 (317)
T ss_pred HHHHHHHHHHhhhcC-C-cEEEec-CCCCCCCcceecCCCCHHHHhhHHHHHHHHHHHHHHHHhcc
Confidence 44444433 246 4 345666 788766522 11 2555678888888888765
No 17
>COG1422 Predicted membrane protein [Function unknown]
Probab=41.29 E-value=85 Score=30.72 Aligned_cols=63 Identities=22% Similarity=0.187 Sum_probs=49.5
Q ss_pred chHHHH-HHHHHHHHHHHHHHHHHHHHHhCChHHHHHHHHHHHHHHHHHHHHhccCCCCChhHH
Q 012032 386 YDLIDL-TRQALAKYANELFLNIIEAYQLNDAHGVFQLSRRFLELVEDMDGLLACHDGFLLGPW 448 (472)
Q Consensus 386 yDLvDv-tRQvL~n~~~~~~~~~~~Ay~~~d~~~~~~~~~~~l~li~dlD~LL~t~~~FlLg~W 448 (472)
+=+||- .-+-+.+.++++.+++.+|++++|..+++++-++=.++++|+-++..-+-.=++=.|
T Consensus 66 ~~liD~ekm~~~qk~m~efq~e~~eA~~~~d~~~lkkLq~~qmem~~~Q~elmk~qfkPM~~~~ 129 (201)
T COG1422 66 KLLIDQEKMKELQKMMKEFQKEFREAQESGDMKKLKKLQEKQMEMMDDQRELMKMQFKPMLYIS 129 (201)
T ss_pred HHhccHHHHHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHH
Confidence 344553 235688999999999999999999999999999999999999988765544444333
No 18
>cd04257 AAK_AK-HSDH AAK_AK-HSDH: Amino Acid Kinase Superfamily (AAK), AK-HSDH; this CD includes the N-terminal catalytic domain of aspartokinase (AK) of the bifunctional enzyme AK - homoserine dehydrogenase (HSDH). These aspartokinases are found in bacteria (E. coli AKI-HSDHI, ThrA and E. coli AKII-HSDHII, MetL) and higher plants (Z. mays AK-HSDH). AK and HSDH are the first and third enzymes in the biosynthetic pathway of the aspartate family of amino acids. AK catalyzes the phosphorylation of Asp to P-aspartyl phosphate. HSDH catalyzes the NADPH-dependent conversion of Asp 3-semialdehyde to homoserine. ThrA and MetL are involved in threonine and methionine biosynthesis, respectively. In E. coli, ThrA is subject to allosteric regulation by the end product L-threonine and the native enzyme is reported to be tetrameric. As with bacteria, plant AK and HSDH are feedback inhibited by pathway end products. Maize AK-HSDH is a Thr-sensitive 180-kD enzyme. Arabidopsis AK-HSDH is an alanine-act
Probab=40.70 E-value=18 Score=37.04 Aligned_cols=68 Identities=18% Similarity=0.222 Sum_probs=43.2
Q ss_pred HHHHHHHHHHcCCeeccCCCCCCCchhhHhhCCCCceeccCCCCCCCCCCccccccccCCCChHHHHHHHHHHHHHHHHh
Q 012032 23 QKKILVRIYELGMNPVLPAFSGNVPAALQNVFPSAKITQLGNWFSVKSDPRWCCTYLLDATDPLFIEIGRAFIEQQLKEY 102 (472)
Q Consensus 23 QkkIl~RmrelGM~PVLPgF~G~VP~~~k~~~P~a~i~~~~~W~gf~~~~~~~~~~~LdP~DplF~~I~~~F~~eq~~~f 102 (472)
.++|-+.+.+.|..||.|||.|-=+ +-+++.+| -+| .|-+...+|..+=-+....+
T Consensus 169 ~~~l~~~~~~~~~v~Vv~Gfig~~~--------~G~~ttlG-RGG---------------SD~~A~~lA~~l~a~~l~i~ 224 (294)
T cd04257 169 KERIKAWFSSNGKVIVVTGFIASNP--------QGETTTLG-RNG---------------SDYSAAILAALLDADQVEIW 224 (294)
T ss_pred HHHHHHHHhcCCCEEEecCcccCCC--------CCCEEECC-CCc---------------hHHHHHHHHHHhCCCEEEEE
Confidence 3445555555699999999988322 33345544 222 34455666766554555567
Q ss_pred CCCCcccccCCC
Q 012032 103 GRTSHIYNCDTF 114 (472)
Q Consensus 103 G~~~h~Y~~D~F 114 (472)
-+++.+|.+||=
T Consensus 225 tdVdGvyt~DP~ 236 (294)
T cd04257 225 TDVDGVYSADPR 236 (294)
T ss_pred eCCCccCCCCCC
Confidence 778889999994
No 19
>cd06388 PBP1_iGluR_AMPA_GluR4 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR4 subunit of the AMPA receptor. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR4 subunit of the AMPA (alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid) receptor. The AMPA receptor is a member of the glutamate-receptor ion channels (iGluRs) which are the major mediators of excitatory synaptic transmission in the central nervous system. AMPA receptors are composed of four types of subunits (GluR1, GluR2, GluR3, and GluR4) which combine to form a tetramer and play an important role in mediating the rapid excitatory synaptic current. Furthermore, this N-terminal domain of the iGluRs has homology with LIVBP, a bacterial periplasmic binding protein, as well as with the structurally related glutamate-binding domain of the G-protein-coupled metabotropic receptors (mGluRs).
Probab=40.32 E-value=89 Score=32.65 Aligned_cols=92 Identities=16% Similarity=0.292 Sum_probs=52.8
Q ss_pred HHHHHHHHHHHcCCee-----ccCCCCCCCchhhHh-hCCCCceeccCCCCCCCCCCccccccccCCCChHHHHHHHHHH
Q 012032 22 LQKKILVRIYELGMNP-----VLPAFSGNVPAALQN-VFPSAKITQLGNWFSVKSDPRWCCTYLLDATDPLFIEIGRAFI 95 (472)
Q Consensus 22 LQkkIl~RmrelGM~P-----VLPgF~G~VP~~~k~-~~P~a~i~~~~~W~gf~~~~~~~~~~~LdP~DplF~~I~~~F~ 95 (472)
.-..||+..+++||.. ||-+. |+--..+.+ ++-.++|+. | .+++|.+|...++-+.|-
T Consensus 190 ~~~~il~qa~~~gm~~~~y~~il~~~-~~~~~~l~~~~~g~~nitg------~---------~~~~~~~~~v~~~~~~~~ 253 (371)
T cd06388 190 RLQNILEQIVSVGKHVKGYHYIIANL-GFKDISLERFMHGGANVTG------F---------QLVDFNTPMVTKLMQRWK 253 (371)
T ss_pred HHHHHHHHHHhcCccccceEEEEccC-ccccccHHHHhccCCceEE------E---------EeecCCChhHHHHHHHHH
Confidence 4478999999999986 77443 443334433 244444432 2 246888888877666664
Q ss_pred HHHHHHhCCCCcccccCCCCCCCCCCCChHHHHHHHHHHHHHHhc
Q 012032 96 EQQLKEYGRTSHIYNCDTFDENTPPVDSPEYISSLGAAIYSGMQS 140 (472)
Q Consensus 96 ~eq~~~fG~~~h~Y~~D~FnE~~pp~~dp~~L~~~~~~iy~am~~ 140 (472)
+..++.| ++.+ .+|.....+.-++...+.+||++
T Consensus 254 ~~~~~~~------~~~~-----~~~~~~aAl~YDaV~l~a~A~~~ 287 (371)
T cd06388 254 KLDQREY------PGSE-----SPPKYTSALTYDGVLVMAEAFRN 287 (371)
T ss_pred hcCcccc------CCCC-----CCccchHHHHHHHHHHHHHHHHH
Confidence 4444343 1222 13444455555666666666664
No 20
>cd04247 AAK_AK-Hom3 AAK_AK-Hom3: Amino Acid Kinase Superfamily (AAK), AK-Hom3; this CD includes the N-terminal catalytic domain of the aspartokinase HOM3, a monofunctional class enzyme found in Saccharomyces cerevisiae and other related AK domains. Aspartokinase, the first enzyme in the aspartate metabolic pathway, catalyzes the conversion of aspartate and ATP to aspartylphosphate and ADP, and in fungi, is responsible for the production of threonine, isoleucine and methionine. S. cerevisiae has a single aspartokinase isoenzyme type, which is regulated by feedback, allosteric inhibition by L-threonine. Recent studies show that the allosteric transition triggered by binding of threonine to AK involves a large change in the conformation of the native hexameric enzyme that is converted to an inactive one of different shape and substantially smaller hydrodynamic size.
Probab=40.24 E-value=14 Score=38.27 Aligned_cols=70 Identities=23% Similarity=0.284 Sum_probs=45.1
Q ss_pred HHHHHHHHHHHHc-CCeeccCCCCCCCchhhHhhCCCCceeccCCCCCCCCCCccccccccCCCChHHHHHHHHHHHHHH
Q 012032 21 VLQKKILVRIYEL-GMNPVLPAFSGNVPAALQNVFPSAKITQLGNWFSVKSDPRWCCTYLLDATDPLFIEIGRAFIEQQL 99 (472)
Q Consensus 21 ~LQkkIl~Rmrel-GM~PVLPgF~G~VP~~~k~~~P~a~i~~~~~W~gf~~~~~~~~~~~LdP~DplF~~I~~~F~~eq~ 99 (472)
++++++.+++.++ |-.||.|||.|..|.. +++.+|. + -+|-....+|+..=-+..
T Consensus 176 ~~~~~~~~~~~~~~~~v~Vv~GFig~~~~G--------~~ttLGR-g---------------GsD~~A~~la~~l~a~~v 231 (306)
T cd04247 176 ELAQVLGEKITACENRVPVVTGFFGNVPGG--------LLSQIGR-G---------------YTDLCAALCAVGLNADEL 231 (306)
T ss_pred HHHHHHHHHhhccCCceEEeeccEecCCCC--------CeEEeCC-C---------------chHHHHHHHHHHcCCCEE
Confidence 4677777777765 6789999999976652 3444441 1 233344555554433445
Q ss_pred HHhCCCCcccccCCC
Q 012032 100 KEYGRTSHIYNCDTF 114 (472)
Q Consensus 100 ~~fG~~~h~Y~~D~F 114 (472)
..+.+++.+|++||=
T Consensus 232 ~i~tdVdGvyt~DP~ 246 (306)
T cd04247 232 QIWKEVDGIFTADPR 246 (306)
T ss_pred EEeecCCeeECCCCC
Confidence 567778889999994
No 21
>PF03705 CheR_N: CheR methyltransferase, all-alpha domain; InterPro: IPR022641 CheR proteins are part of the chemotaxis signaling mechanism which methylates the chemotaxis receptor at specific glutamate residues. This entry refers to the N-terminal domain of the CherR-type MCP methyltransferases, which are found in bacteria, archaea and green plants. This entry is found in association with PF01739 from PFAM. Methyl transfer from the ubiquitous S-adenosyl-L-methionine (AdoMet) to either nitrogen, oxygen or carbon atoms is frequently employed in diverse organisms ranging from bacteria to plants and mammals. The reaction is catalysed by methyltransferases (Mtases) and modifies DNA, RNA, proteins and small molecules, such as catechol for regulatory purposes. The various aspects of the role of DNA methylation in prokaryotic restriction-modification systems and in a number of cellular processes in eukaryotes including gene regulation and differentiation is well documented. Three classes of DNA Mtases transfer the methyl group from AdoMet to the target base to form either N-6-methyladenine, or N-4-methylcytosine, or C-5- methylcytosine. In C-5-cytosine Mtases, ten conserved motifs are arranged in the same order []. Motif I (a glycine-rich or closely related consensus sequence; FAGxGG in M.HhaI []), shared by other AdoMet-Mtases [], is part of the cofactor binding site and motif IV (PCQ) is part of the catalytic site. In contrast, sequence comparison among N-6-adenine and N-4-cytosine Mtases indicated two of the conserved segments [], although more conserved segments may be present. One of them corresponds to motif I in C-5-cytosine Mtases, and the other is named (D/N/S)PP(Y/F). Crystal structures are known for a number of Mtases [, , , ]. The cofactor binding sites are almost identical and the essential catalytic amino acids coincide. The comparable protein folding and the existence of equivalent amino acids in similar secondary and tertiary positions indicate that many (if not all) AdoMet-Mtases have a common catalytic domain structure. This permits tertiary structure prediction of other DNA, RNA, protein, and small-molecule AdoMet-Mtases from their amino acid sequences []. Flagellated bacteria swim towards favourable chemicals and away from deleterious ones. Sensing of chemoeffector gradients involves chemotaxis receptors, transmembrane (TM) proteins that detect stimuli through their periplasmic domains and transduce the signals via their cytoplasmic domains []. Signalling outputs from these receptors are influenced both by the binding of the chemoeffector ligand to their periplasmic domains and by methylation of specific glutamate residues on their cytoplasmic domains. Methylation is catalysed by CheR, an S-adenosylmethionine-dependent methyltransferase [], which reversibly methylates specific glutamate residues within a coiled coil region, to form gamma-glutamyl methyl ester residues [, ]. The structure of the Salmonella typhimurium chemotaxis receptor methyltransferase CheR, bound to S-adenosylhomocysteine, has been determined to a resolution of 2.0 A []. The structure reveals CheR to be a two-domain protein, with a smaller N-terminal helical domain linked via a single polypeptide connection to a larger C-terminal alpha/beta domain. The C-terminal domain has the characteristics of a nucleotide-binding fold, with an insertion of a small anti-parallel beta-sheet subdomain. The S-adenosylhomocysteine-binding site is formed mainly by the large domain, with contributions from residues within the N-terminal domain and the linker region [].; PDB: 1AF7_A 1BC5_A.
Probab=39.64 E-value=24 Score=26.51 Aligned_cols=20 Identities=20% Similarity=0.529 Sum_probs=15.4
Q ss_pred HHHHHHHHHHHHHHHcCCee
Q 012032 18 QQLVLQKKILVRIYELGMNP 37 (472)
Q Consensus 18 ~q~~LQkkIl~RmrelGM~P 37 (472)
++.-|++||..||+++|+.-
T Consensus 24 K~~~l~rRl~~rm~~~~~~~ 43 (57)
T PF03705_consen 24 KRSLLERRLARRMRALGLPS 43 (57)
T ss_dssp GHHHHHHHHHHHHHHHT---
T ss_pred hHHHHHHHHHHHHHHcCCCC
Confidence 46779999999999999864
No 22
>TIGR00676 fadh2 5,10-methylenetetrahydrofolate reductase, prokaryotic form. This protein is an FAD-containing flavoprotein.
Probab=36.54 E-value=39 Score=34.03 Aligned_cols=25 Identities=16% Similarity=0.371 Sum_probs=19.4
Q ss_pred HHHHHHHHcCCe-eccCCCCCCCchh
Q 012032 25 KILVRIYELGMN-PVLPAFSGNVPAA 49 (472)
Q Consensus 25 kIl~RmrelGM~-PVLPgF~G~VP~~ 49 (472)
+.++++|+.|++ ||+||+.+..-..
T Consensus 174 ~~~~~~~~~gi~~PIi~Gi~p~~s~k 199 (272)
T TIGR00676 174 RFVDRCRAAGIDVPIIPGIMPITNFK 199 (272)
T ss_pred HHHHHHHHcCCCCCEecccCCcCCHH
Confidence 457889999876 8898888776655
No 23
>PF10629 DUF2475: Protein of unknown function (DUF2475); InterPro: IPR018902 This entry represents both UPF0573 and UPF0605 families. Both these families of proteins have no known function.
Probab=36.29 E-value=16 Score=29.87 Aligned_cols=12 Identities=33% Similarity=0.933 Sum_probs=10.1
Q ss_pred ccCCCCCCCchh
Q 012032 38 VLPAFSGNVPAA 49 (472)
Q Consensus 38 VLPgF~G~VP~~ 49 (472)
.+|||+||||..
T Consensus 4 ~iPgY~G~vP~~ 15 (71)
T PF10629_consen 4 MIPGYTGYVPGY 15 (71)
T ss_pred CCCCccCcCCcc
Confidence 379999999984
No 24
>cd06389 PBP1_iGluR_AMPA_GluR2 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR2 subunit of the AMPA receptor. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR2 subunit of the AMPA (alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid) receptor. The AMPA receptor is a member of the glutamate-receptor ion channels (iGluRs) which are the major mediators of excitatory synaptic transmission in the central nervous system. AMPA receptors are composed of four types of subunits (GluR1, GluR2, GluR3, and GluR4) which combine to form a tetramer and play an important role in mediating the rapid excitatory synaptic current. Furthermore, this N-terminal domain of the iGluRs has homology with LIVBP, a bacterial periplasmic binding protein, as well as with the structurally related glutamate-binding domain of the G-protein-coupled metabotropic receptors (mGluRs).
Probab=35.22 E-value=1.3e+02 Score=31.31 Aligned_cols=59 Identities=19% Similarity=0.269 Sum_probs=35.7
Q ss_pred HHHHHHHHHHHHcCCeec----cCCCCCCCchhhHh-hCCCCceeccCCCCCCCCCCccccccccCCCChHHHHHHHHH
Q 012032 21 VLQKKILVRIYELGMNPV----LPAFSGNVPAALQN-VFPSAKITQLGNWFSVKSDPRWCCTYLLDATDPLFIEIGRAF 94 (472)
Q Consensus 21 ~LQkkIl~RmrelGM~PV----LPgF~G~VP~~~k~-~~P~a~i~~~~~W~gf~~~~~~~~~~~LdP~DplF~~I~~~F 94 (472)
+.-..|++.++++||++- +-+-.|+--..|.+ ++..++|+ || .+.+|.+|...++-+.|
T Consensus 187 ~~~~~il~qa~~~gm~~~~y~~il~~~~~~~~~l~~~~~~~~nit------g~---------~~~~~~~~~v~~f~~~~ 250 (370)
T cd06389 187 DKVNDIVDQVITIGKHVKGYHYIIANLGFTDGDLSKIQFGGANVS------GF---------QIVDYDDPLVSKFIQRW 250 (370)
T ss_pred HHHHHHHHHHHHhCccccceEEEEccCCccccchhhhccCCcceE------EE---------EEecCCCchHHHHHHHH
Confidence 344689999999999876 22333554445532 25555553 22 24678888766555554
No 25
>PF00232 Glyco_hydro_1: Glycosyl hydrolase family 1; InterPro: IPR001360 O-Glycosyl hydrolases 3.2.1. from EC are a widespread group of enzymes that hydrolyse the glycosidic bond between two or more carbohydrates, or between a carbohydrate and a non-carbohydrate moiety. A classification system for glycosyl hydrolases, based on sequence similarity, has led to the definition of 85 different families [, ]. This classification is available on the CAZy (CArbohydrate-Active EnZymes) web site. Glycoside hydrolase family 1 GH1 from CAZY comprises enzymes with a number of known activities; beta-glucosidase (3.2.1.21 from EC); beta-galactosidase (3.2.1.23 from EC); 6-phospho-beta-galactosidase (3.2.1.85 from EC); 6-phospho-beta-glucosidase (3.2.1.86 from EC); lactase-phlorizin hydrolase (3.2.1.62 from EC), (3.2.1.108 from EC); beta-mannosidase (3.2.1.25 from EC); myrosinase (3.2.1.147 from EC). ; GO: 0004553 hydrolase activity, hydrolyzing O-glycosyl compounds, 0005975 carbohydrate metabolic process; PDB: 1QVB_A 3AHY_D 2E9L_A 2ZOX_A 2JFE_X 2E9M_A 3FIZ_A 3FIY_A 3CMJ_A 3FJ0_A ....
Probab=34.79 E-value=1.3e+02 Score=32.61 Aligned_cols=68 Identities=19% Similarity=0.535 Sum_probs=43.6
Q ss_pred HHHHHHHHHHHHcCCeeccCCCCCCCchhhHhhCCCCceeccCCCCCCCCCCccccccccCCCChHHHHHHHHHHHHHHH
Q 012032 21 VLQKKILVRIYELGMNPVLPAFSGNVPAALQNVFPSAKITQLGNWFSVKSDPRWCCTYLLDATDPLFIEIGRAFIEQQLK 100 (472)
Q Consensus 21 ~LQkkIl~RmrelGM~PVLPgF~G~VP~~~k~~~P~a~i~~~~~W~gf~~~~~~~~~~~LdP~DplF~~I~~~F~~eq~~ 100 (472)
+-=+++++.+++-||+|++-=|---+|..|.+ + |.|.+ +.++ ..|.+ |-+..-+
T Consensus 99 ~~Y~~~i~~l~~~gi~P~vtL~H~~~P~~l~~-~--------ggw~~---------~~~~----~~F~~----Ya~~~~~ 152 (455)
T PF00232_consen 99 DFYRDLIDELLENGIEPIVTLYHFDLPLWLED-Y--------GGWLN---------RETV----DWFAR----YAEFVFE 152 (455)
T ss_dssp HHHHHHHHHHHHTT-EEEEEEESS--BHHHHH-H--------TGGGS---------THHH----HHHHH----HHHHHHH
T ss_pred hhhHHHHHHHHhhccceeeeeeecccccceee-c--------ccccC---------HHHH----HHHHH----HHHHHHH
Confidence 33478999999999999999999999999986 3 44532 1111 35544 4455556
Q ss_pred HhCCCCcccccCCCCC
Q 012032 101 EYGRTSHIYNCDTFDE 116 (472)
Q Consensus 101 ~fG~~~h~Y~~D~FnE 116 (472)
.||+--+++. +|||
T Consensus 153 ~~gd~V~~w~--T~NE 166 (455)
T PF00232_consen 153 RFGDRVKYWI--TFNE 166 (455)
T ss_dssp HHTTTBSEEE--EEET
T ss_pred HhCCCcceEE--eccc
Confidence 7886334443 6777
No 26
>COG5005 Mu-like prophage protein gpG [General function prediction only]
Probab=33.76 E-value=11 Score=34.21 Aligned_cols=42 Identities=17% Similarity=0.305 Sum_probs=29.5
Q ss_pred CCEEEE--ecCCCcccccccccCcCCCCceeeeccCCCCccccc
Q 012032 175 GKLVVL--DLFAEVKPIWSTSKQFYGVPYIWCMLHNFAGNIEMY 216 (472)
Q Consensus 175 ~~mliL--DL~~E~~p~W~~t~~f~G~pwIWc~LhNFGGn~gl~ 216 (472)
|+.|.+ +|....++.+..+..--|+.=-+..+|||||.+|+-
T Consensus 62 Gk~L~~~GrL~~sltt~y~n~~AlvGtne~YaaiHqfGG~~gr~ 105 (140)
T COG5005 62 GKILQDSGRLAGSLTTDYGNNTALVGTNEEYAAIHQFGGKTGRP 105 (140)
T ss_pred CCceeecchhhhcccccCCCceeeecccchhHHHHHhcCcCCCC
Confidence 444444 233334666667777778888899999999999963
No 27
>PF13410 GST_C_2: Glutathione S-transferase, C-terminal domain; PDB: 4DEJ_H 3IC8_A 2JL4_A 2V6K_B 3CBU_B 1JLW_B 3F6D_B 3G7I_A 3F63_A 3G7J_B ....
Probab=33.71 E-value=63 Score=24.58 Aligned_cols=28 Identities=21% Similarity=0.330 Sum_probs=23.2
Q ss_pred HHHHHHHHHHHHHHHHHHHhccCCCCChh
Q 012032 418 GVFQLSRRFLELVEDMDGLLACHDGFLLG 446 (472)
Q Consensus 418 ~~~~~~~~~l~li~dlD~LL~t~~~FlLg 446 (472)
..+..-+++.+.++.+|..|+.++ |++|
T Consensus 3 ~~~~~~~~~~~~l~~le~~L~~~~-fl~G 30 (69)
T PF13410_consen 3 AVERARAQLEAALDALEDHLADGP-FLFG 30 (69)
T ss_dssp HHHHHHHHHHHHHHHHHHHHTTSS-BTTB
T ss_pred HHHHHHHHHHHHHHHHHHHHhhCC-CCCC
Confidence 456677789999999999999998 7766
No 28
>cd06394 PBP1_iGluR_Kainate_KA1_2 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the KA1 and KA2 subunits of Kainate receptor. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the KA1 and KA2 subunits of Kainate receptor. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. There are five types of kainate receptors, GluR5, GluR6, GluR7, KA1, and KA2, which are structurally similar to AMPA and NMDA subunits of ionotropic glutamate receptors. KA1 and KA2 subunits can only form functional receptors with one of the GluR5-7 subunits. Moreover, GluR5-7 can also form functional homomeric receptor channels act
Probab=33.61 E-value=92 Score=32.29 Aligned_cols=67 Identities=16% Similarity=0.245 Sum_probs=46.1
Q ss_pred HHHHHHHHHHHHcCCeeccCCCC--CCCch--hhHh-hCCCCceeccCCCCCCCCCCccccccccCCCChHHHHHHHHHH
Q 012032 21 VLQKKILVRIYELGMNPVLPAFS--GNVPA--ALQN-VFPSAKITQLGNWFSVKSDPRWCCTYLLDATDPLFIEIGRAFI 95 (472)
Q Consensus 21 ~LQkkIl~RmrelGM~PVLPgF~--G~VP~--~~k~-~~P~a~i~~~~~W~gf~~~~~~~~~~~LdP~DplF~~I~~~F~ 95 (472)
+...+|++.++++||..-.-+|- |.-.. .|.+ .+|.++|+. |. +.+|++|...++-+.|-
T Consensus 197 ~~a~~il~qa~~lGm~~~~y~~i~T~l~~~~~~L~~~~~~~~niTg------F~---------l~d~~~~~v~~f~~~~~ 261 (333)
T cd06394 197 SMSHTILLKASELGMTSAFYKYILTTMDFPLLRLDSIVDDRSNILG------FS---------MFNQSHAFYQEFIRSLN 261 (333)
T ss_pred HHHHHHHHHHHHcCCCCCceEEEEecCCcccccHHHhhcCCcceEE------EE---------eecCCcHHHHHHHHHHH
Confidence 45678999999999987766666 66666 4433 466666543 32 58899999877777766
Q ss_pred HHHHHHh
Q 012032 96 EQQLKEY 102 (472)
Q Consensus 96 ~eq~~~f 102 (472)
+++.+.+
T Consensus 262 ~~~~~~~ 268 (333)
T cd06394 262 QSWRENC 268 (333)
T ss_pred Hhhhhhc
Confidence 6554433
No 29
>PF02836 Glyco_hydro_2_C: Glycosyl hydrolases family 2, TIM barrel domain; InterPro: IPR006103 O-Glycosyl hydrolases 3.2.1. from EC are a widespread group of enzymes that hydrolyse the glycosidic bond between two or more carbohydrates, or between a carbohydrate and a non-carbohydrate moiety. A classification system for glycosyl hydrolases, based on sequence similarity, has led to the definition of 85 different families [, ]. This classification is available on the CAZy (CArbohydrate-Active EnZymes) web site. Glycoside hydrolase family 2 GH2 from CAZY comprises enzymes with several known activities; beta-galactosidase (3.2.1.23 from EC); beta-mannosidase (3.2.1.25 from EC); beta-glucuronidase (3.2.1.31 from EC). These enzymes contain a conserved glutamic acid residue which has been shown [], in Escherichia coli lacZ (P00722 from SWISSPROT), to be the general acid/base catalyst in the active site of the enzyme. Beta-galactosidase from E. coli has a TIM-barrel-like core surrounded by four other largely beta domains [].; GO: 0004553 hydrolase activity, hydrolyzing O-glycosyl compounds, 0005975 carbohydrate metabolic process; PDB: 3CMG_A 3FN9_C 1YQ2_A 3K4D_B 3LPG_B 3LPF_A 3K4A_B 3K46_B 3GM8_A 3DEC_A ....
Probab=33.57 E-value=1.9e+02 Score=29.10 Aligned_cols=106 Identities=15% Similarity=0.185 Sum_probs=64.4
Q ss_pred HHHHHHHHHHHcCCeeccCCCCCCCch--hh---HhhCCCCceeccC-----CCCCCCCCCccccccccCCCChHHHHHH
Q 012032 22 LQKKILVRIYELGMNPVLPAFSGNVPA--AL---QNVFPSAKITQLG-----NWFSVKSDPRWCCTYLLDATDPLFIEIG 91 (472)
Q Consensus 22 LQkkIl~RmrelGM~PVLPgF~G~VP~--~~---k~~~P~a~i~~~~-----~W~gf~~~~~~~~~~~LdP~DplF~~I~ 91 (472)
..++=+..|+++|+.-|=- .|.|. .| .+++-=.-+.+.. .|..+. ..-....||.|.+..
T Consensus 37 ~~~~d~~l~k~~G~N~iR~---~h~p~~~~~~~~cD~~GilV~~e~~~~~~~~~~~~~-------~~~~~~~~~~~~~~~ 106 (298)
T PF02836_consen 37 AMERDLELMKEMGFNAIRT---HHYPPSPRFYDLCDELGILVWQEIPLEGHGSWQDFG-------NCNYDADDPEFRENA 106 (298)
T ss_dssp HHHHHHHHHHHTT-SEEEE---TTS--SHHHHHHHHHHT-EEEEE-S-BSCTSSSSTS-------CTSCTTTSGGHHHHH
T ss_pred HHHHHHHHHHhcCcceEEc---ccccCcHHHHHHHhhcCCEEEEeccccccCccccCC-------ccccCCCCHHHHHHH
Confidence 4445567899999998864 33443 23 3443211122222 233221 002456899999999
Q ss_pred HHHHHHHHHHhCCCCcccccCCCCCCCCCCCChHHHHHHHHHHHHHHhccCCCc
Q 012032 92 RAFIEQQLKEYGRTSHIYNCDTFDENTPPVDSPEYISSLGAAIYSGMQSGDSDA 145 (472)
Q Consensus 92 ~~F~~eq~~~fG~~~h~Y~~D~FnE~~pp~~dp~~L~~~~~~iy~am~~~dP~A 145 (472)
..=++++.+.+-+--.+-.=-.+||+ .-....+.+++.+++.||..
T Consensus 107 ~~~~~~~v~~~~NHPSIi~W~~gNE~--------~~~~~~~~l~~~~k~~DptR 152 (298)
T PF02836_consen 107 EQELREMVRRDRNHPSIIMWSLGNES--------DYREFLKELYDLVKKLDPTR 152 (298)
T ss_dssp HHHHHHHHHHHTT-TTEEEEEEEESS--------HHHHHHHHHHHHHHHH-TTS
T ss_pred HHHHHHHHHcCcCcCchheeecCccC--------ccccchhHHHHHHHhcCCCC
Confidence 99999999988865456555677999 23445578889999999986
No 30
>cd06565 GH20_GcnA-like Glycosyl hydrolase family 20 (GH20) catalytic domain of N-acetyl-beta-D-glucosaminidase (GcnA, also known as BhsA) and related proteins. GcnA is an exoglucosidase which cleaves N-acetyl-beta-D-galactosamine (NAG) and N-acetyl-beta-D-galactosamine residues from 4-methylumbelliferylated (4MU) substrates, as well as cleaving NAG from chito-oligosaccharides (i.e. NAG polymers). In contrast, sulfated forms of the substrate are unable to be cleaved and act instead as mild competitive inhibitors. Additionally, the enzyme is known to be poisoned by several first-row transition metals as well as by mercury. GcnA forms a homodimer with subunits comprised of three domains, an N-terminal zincin-like domain, this central catalytic GH20 domain, and a C-terminal alpha helical domain. The GH20 hexosaminidases are thought to act via a catalytic mechanism in which the catalytic nucleophile is not provided by solvent or the enzyme, but by the substrate itself.
Probab=32.90 E-value=5.2e+02 Score=26.33 Aligned_cols=121 Identities=16% Similarity=0.099 Sum_probs=73.7
Q ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHcCCeec-cCCCCCCCchhhHhhCCCCceeccCCCCCCCCCCccccccccCCCChH
Q 012032 8 GGPLPQSWLDQQLVLQKKILVRIYELGMNPV-LPAFSGNVPAALQNVFPSAKITQLGNWFSVKSDPRWCCTYLLDATDPL 86 (472)
Q Consensus 8 gGPLp~~wi~~q~~LQkkIl~RmrelGM~PV-LPgF~G~VP~~~k~~~P~a~i~~~~~W~gf~~~~~~~~~~~LdP~Dpl 86 (472)
+|+++++=+ |.|++--+++||+-| .--..||.=..++ +|. ......+.. .+..|+|.+|.
T Consensus 54 ~~~yT~~ei-------~ei~~yA~~~gI~vIPeid~pGH~~~~l~--~~~--~~~l~~~~~--------~~~~l~~~~~~ 114 (301)
T cd06565 54 RGAYTKEEI-------REIDDYAAELGIEVIPLIQTLGHLEFILK--HPE--FRHLREVDD--------PPQTLCPGEPK 114 (301)
T ss_pred CCCcCHHHH-------HHHHHHHHHcCCEEEecCCCHHHHHHHHh--Ccc--cccccccCC--------CCCccCCCChh
Confidence 566654433 568899999999866 3334688766554 342 222222221 13469999999
Q ss_pred HHHHHHHHHHHHHHHhCCCCcc-cccCCCCCCCCCC--------CChHHHHHHHHHHHHHHhccCCCceEEEecc
Q 012032 87 FIEIGRAFIEQQLKEYGRTSHI-YNCDTFDENTPPV--------DSPEYISSLGAAIYSGMQSGDSDAVWLMQGW 152 (472)
Q Consensus 87 F~~I~~~F~~eq~~~fG~~~h~-Y~~D~FnE~~pp~--------~dp~~L~~~~~~iy~am~~~dP~AvWvmQgW 152 (472)
=-++-+..++|..+.|.. ..| -++|=+++.+... +..+-....-+.|.+-+++..+ -++.|
T Consensus 115 t~~fi~~li~ev~~~f~s-~~~HIG~DE~~~~g~~~~~~~~~~~~~~~l~~~~~~~v~~~v~~~g~----~~~~W 184 (301)
T cd06565 115 TYDFIEEMIRQVLELHPS-KYIHIGMDEAYDLGRGRSLRKHGNLGRGELYLEHLKKVLKIIKKRGP----KPMMW 184 (301)
T ss_pred HHHHHHHHHHHHHHhCCC-CeEEECCCcccccCCCHHHHHhcCCCHHHHHHHHHHHHHHHHHHcCC----EEEEE
Confidence 999999999999999973 233 6788777643211 1111122333456666666666 35567
No 31
>TIGR00825 EIIBC-GUT PTS system, glucitol/sorbitol-specific, IIBC component. Bacterial PTS transporters transport and concomitantly phosphorylate their sugar substrates, and typically consist of multiple subunits or protein domains. The Gut family consists only of glucitol-specific permeases, but these occur both in Gram-negative and Gram-positive bacteria.E. coli consists of IIA protein, a IIC protein and a IIBC protein. This family is specific for the IIBC component.
Probab=31.69 E-value=9.3 Score=39.26 Aligned_cols=42 Identities=29% Similarity=0.616 Sum_probs=29.8
Q ss_pred CCCCCCCCHHHHHHHHHH------HHHHHHHHHHc-CCeeccCCCCCCCc
Q 012032 5 HGWGGPLPQSWLDQQLVL------QKKILVRIYEL-GMNPVLPAFSGNVP 47 (472)
Q Consensus 5 ~gwgGPLp~~wi~~q~~L------QkkIl~Rmrel-GM~PVLPgF~G~VP 47 (472)
.||||||--.=-+.++.+ -+-|.+|+.|| ||++| -||.-.||
T Consensus 10 gGwGGPL~i~pt~~KKivyiTGG~~p~i~~kiaeLTG~eaV-dGFk~~~p 58 (331)
T TIGR00825 10 GGWGGPLTVKPTEGKKIVYITAGTEPAIVDKLVNLTGWKAV-DGFKTGEP 58 (331)
T ss_pred CCcCCCEEEecCCCeEEEEEcCCCCCHHHHHHHHhhCCeec-ccccCCCC
Confidence 469999854322333111 45688999999 99987 79999998
No 32
>PF12876 Cellulase-like: Sugar-binding cellulase-like; InterPro: IPR024778 O-Glycosyl hydrolases 3.2.1. from EC are a widespread group of enzymes that hydrolyse the glycosidic bond between two or more carbohydrates, or between a carbohydrate and a non-carbohydrate moiety. A classification system for glycosyl hydrolases, based on sequence similarity, has led to the definition of 85 different families [, ]. This classification is available on the CAZy (CArbohydrate-Active EnZymes) web site. This entry represents a family of putative cellulase enzymes.; PDB: 3GYC_B.
Probab=31.40 E-value=72 Score=26.32 Aligned_cols=53 Identities=13% Similarity=0.232 Sum_probs=34.6
Q ss_pred HHHhCCCCcccccCCCCC-CCCC-----C--C--ChHHHHHHHHHHHHHHhccCCCceEEEecc
Q 012032 99 LKEYGRTSHIYNCDTFDE-NTPP-----V--D--SPEYISSLGAAIYSGMQSGDSDAVWLMQGW 152 (472)
Q Consensus 99 ~~~fG~~~h~Y~~D~FnE-~~pp-----~--~--dp~~L~~~~~~iy~am~~~dP~AvWvmQgW 152 (472)
.+.||..+.+=.-|.+|| -.+. . . ..+.+...-+.+.+.|+++||..- |.-|.
T Consensus 2 v~~~~~~~~Il~Wdl~NE~p~~~~~~~~~~~~~~~~~~~~~~l~~~~~~iR~~dP~~p-vt~g~ 64 (88)
T PF12876_consen 2 VTRFGYDPRILAWDLWNEPPNNWADGYPAEWGDPKAEAYAEWLKEAFRWIRAVDPSQP-VTSGF 64 (88)
T ss_dssp HHHTT-GGGEEEEESSTTTT-TT-TT-TT-TT-TTSHHHHHHHHHHHHHHHTT-TTS--EE--B
T ss_pred chhhcCCCCEEEEEeecCCCCcccccccccccchhHHHHHHHHHHHHHHHHHhCCCCc-EEeec
Confidence 356888788999999999 3311 1 1 235677778899999999999887 54453
No 33
>PF08858 IDEAL: IDEAL domain; InterPro: IPR014957 This entry represents the C-terminal domain of Bacteriophage SPP1, p90. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. his domain may also be referred to as the IDEAL domain, after the sequence of the most conserved region of the domain.; PDB: 3DO9_A.
Probab=29.10 E-value=2.1e+02 Score=20.27 Aligned_cols=33 Identities=24% Similarity=0.249 Sum_probs=25.2
Q ss_pred HHHH-HHHHHHHHHHHHHHHhCChHHHHHHHHHH
Q 012032 394 QALA-KYANELFLNIIEAYQLNDAHGVFQLSRRF 426 (472)
Q Consensus 394 QvL~-n~~~~~~~~~~~Ay~~~d~~~~~~~~~~~ 426 (472)
+++. ..-..++.+|..|-..+|.+.|..++.++
T Consensus 4 ~~~~~~~~~~L~~~ID~ALd~~D~e~F~~Ls~eL 37 (37)
T PF08858_consen 4 ESLREFRKEQLLELIDEALDNRDKEWFYELSEEL 37 (37)
T ss_dssp HHHHHHHHHHHHHHHHHHHHTT-HHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHhhC
Confidence 3444 34467899999999999999999998764
No 34
>TIGR03356 BGL beta-galactosidase.
Probab=29.03 E-value=3.4e+02 Score=29.26 Aligned_cols=99 Identities=16% Similarity=0.305 Sum_probs=60.1
Q ss_pred HHHHHHHHHHHHHHcCCeeccCCCCCCCchhhHhhCCCCceeccCCCCCCCCCCccccccccCCCChHHHHHHHHHHHHH
Q 012032 19 QLVLQKKILVRIYELGMNPVLPAFSGNVPAALQNVFPSAKITQLGNWFSVKSDPRWCCTYLLDATDPLFIEIGRAFIEQQ 98 (472)
Q Consensus 19 q~~LQkkIl~RmrelGM~PVLPgF~G~VP~~~k~~~P~a~i~~~~~W~gf~~~~~~~~~~~LdP~DplF~~I~~~F~~eq 98 (472)
..+-=+++++.+++.||+||+==+-=-+|..|.+ . |.|.+ +.+. ..|.+.++...
T Consensus 92 ~~~~y~~~i~~l~~~gi~pivtL~Hfd~P~~l~~--------~-gGw~~---------~~~~----~~f~~ya~~~~--- 146 (427)
T TIGR03356 92 GLDFYDRLVDELLEAGIEPFVTLYHWDLPQALED--------R-GGWLN---------RDTA----EWFAEYAAVVA--- 146 (427)
T ss_pred HHHHHHHHHHHHHHcCCeeEEeeccCCccHHHHh--------c-CCCCC---------hHHH----HHHHHHHHHHH---
Confidence 3445568999999999999966655456776653 1 33532 1111 46666665554
Q ss_pred HHHhCCCCcccccCCCCCCC------------CCCC-Ch--H-----HHHHHHHHHHHHHhccCCCc
Q 012032 99 LKEYGRTSHIYNCDTFDENT------------PPVD-SP--E-----YISSLGAAIYSGMQSGDSDA 145 (472)
Q Consensus 99 ~~~fG~~~h~Y~~D~FnE~~------------pp~~-dp--~-----~L~~~~~~iy~am~~~dP~A 145 (472)
+.||+--.++ =+|||.. ||.. +. . .+-.+..++++.+++.+|++
T Consensus 147 -~~~~d~v~~w--~t~NEp~~~~~~~y~~G~~~P~~~~~~~~~~~~hnll~Aha~A~~~~~~~~~~~ 210 (427)
T TIGR03356 147 -ERLGDRVKHW--ITLNEPWCSAFLGYGLGVHAPGLRDLRAALQAAHHLLLAHGLAVQALRANGPGA 210 (427)
T ss_pred -HHhCCcCCEE--EEecCcceecccchhhccCCCCCccHHHHHHHHHHHHHHHHHHHHHHHHhCCCC
Confidence 7788644555 4999953 3321 11 1 23345566778888888864
No 35
>cd03309 CmuC_like CmuC_like. Proteins similar to the putative corrinoid methyltransferase CmuC. Its function has been inferred from sequence similarity to the methyltransferases CmuA and MtaA. Mutants of Methylobacterium sp. disrupted in cmuC and purU appear deficient in some step of chloromethane metabolism.
Probab=28.35 E-value=2.9e+02 Score=28.65 Aligned_cols=115 Identities=15% Similarity=0.125 Sum_probs=58.2
Q ss_pred CCCCCC----CCHHHHHHH-HHHHHHHHHHHHHcCCeeccCCCCCCC-----------------------chhhHhhCCC
Q 012032 5 HGWGGP----LPQSWLDQQ-LVLQKKILVRIYELGMNPVLPAFSGNV-----------------------PAALQNVFPS 56 (472)
Q Consensus 5 ~gwgGP----Lp~~wi~~q-~~LQkkIl~RmrelGM~PVLPgF~G~V-----------------------P~~~k~~~P~ 56 (472)
+.|+|= ||.+.+++= .---|||++..++.|-.||.-=.+|.. +..+++++++
T Consensus 177 Ddwa~~~~~~LSpe~f~efv~P~~krIi~~ik~~~g~piilH~cG~~~~~l~~~~e~g~dvl~~d~~~~dl~eak~~~g~ 256 (321)
T cd03309 177 DDLGSQKGSFISPATFREFILPRMQRIFDFLRSNTSALIVHHSCGAAASLVPSMAEMGVDSWNVVMTANNTAELRRLLGD 256 (321)
T ss_pred CCCccccCCccCHHHHHHHHHHHHHHHHHHHHhccCCceEEEeCCCcHHHHHHHHHcCCCEEEecCCCCCHHHHHHHhCC
Confidence 457665 777777543 234577777777774345444445543 1223334432
Q ss_pred CceeccCCCCCCCCCCccccccccCCCChHHHHHHHHHHHHHHHHhCC-CCcccccCCCCCCCCCCCChHHHHHHHHHHH
Q 012032 57 AKITQLGNWFSVKSDPRWCCTYLLDATDPLFIEIGRAFIEQQLKEYGR-TSHIYNCDTFDENTPPVDSPEYISSLGAAIY 135 (472)
Q Consensus 57 a~i~~~~~W~gf~~~~~~~~~~~LdP~DplF~~I~~~F~~eq~~~fG~-~~h~Y~~D~FnE~~pp~~dp~~L~~~~~~iy 135 (472)
+++=+| +++ |.+|..... .+.-+...++..+.+|. ..|++.-+ .+. |.+..|+.+..+++.++
T Consensus 257 -k~~l~G---NlD-------p~~L~~~~t--~E~i~~~v~~~l~~~g~~~~fIf~~~--~~~-~~~~~~~~~~~~~~~~~ 320 (321)
T cd03309 257 -KVVLAG---AID-------DVALDTATW--PEEDARGVAKAAAECAPIHPFISAPT--AGL-PFSIFPEVLRRVSAFLD 320 (321)
T ss_pred -CeEEEc---CCC-------hHHhcCCCC--HHHHHHHHHHHHHHhCCCCCEEeCcc--CCC-CcccCHHHHHHHHHhhc
Confidence 122222 222 223332221 35556777777788874 33444433 443 22334667777777654
No 36
>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif). This family has a similar consensus to the TPR domain (tetratricopeptide), pfam pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR.
Probab=26.32 E-value=44 Score=21.20 Aligned_cols=19 Identities=16% Similarity=0.396 Sum_probs=15.8
Q ss_pred HHHHHHHHHHHHHHcCCee
Q 012032 19 QLVLQKKILVRIYELGMNP 37 (472)
Q Consensus 19 q~~LQkkIl~RmrelGM~P 37 (472)
+.+-..+++++|++.|+.|
T Consensus 15 ~~~~a~~~~~~M~~~g~~p 33 (35)
T TIGR00756 15 RVEEALELFKEMLERGIEP 33 (35)
T ss_pred CHHHHHHHHHHHHHcCCCC
Confidence 3456789999999999887
No 37
>COG0276 HemH Protoheme ferro-lyase (ferrochelatase) [Coenzyme metabolism]
Probab=25.93 E-value=7.9e+02 Score=25.81 Aligned_cols=158 Identities=17% Similarity=0.226 Sum_probs=91.1
Q ss_pred CCCCHHHHHHHHHHHHH---------------------HHHHHHHcCC-----eeccCCCCCCCchh-hHhhCCCCceec
Q 012032 9 GPLPQSWLDQQLVLQKK---------------------ILVRIYELGM-----NPVLPAFSGNVPAA-LQNVFPSAKITQ 61 (472)
Q Consensus 9 GPLp~~wi~~q~~LQkk---------------------Il~RmrelGM-----~PVLPgF~G~VP~~-~k~~~P~a~i~~ 61 (472)
.||-.---.++.+|+++ .++.|++-|. -|..|=|+-.+=.+ +++.. .| +.+
T Consensus 69 sPL~~~T~~q~~~L~~~L~~~~~~V~~amry~~P~i~~~v~~l~~~gv~~iv~~pLyPqyS~sTt~s~~~~~~-~a-l~~ 146 (320)
T COG0276 69 SPLNVITRAQAAALEERLDLPDFKVYLAMRYGPPFIEEAVEELKKDGVERIVVLPLYPQYSSSTTGSYVDELA-RA-LKE 146 (320)
T ss_pred CccHHHHHHHHHHHHHHhCCCCccEEEeecCCCCcHHHHHHHHHHcCCCeEEEEECCcccccccHHHHHHHHH-HH-HHh
Confidence 48866556666777776 5788999998 46678887777644 22111 11 111
Q ss_pred cCCCCCCCCCCccccccccC--CCChHHHHHHHHHHHHHHHHhCCCCcccccCCCCCCC---CCCCChHHHHHHHHH---
Q 012032 62 LGNWFSVKSDPRWCCTYLLD--ATDPLFIEIGRAFIEQQLKEYGRTSHIYNCDTFDENT---PPVDSPEYISSLGAA--- 133 (472)
Q Consensus 62 ~~~W~gf~~~~~~~~~~~Ld--P~DplF~~I~~~F~~eq~~~fG~~~h~Y~~D~FnE~~---pp~~dp~~L~~~~~~--- 133 (472)
.+.+-.+ .+++ +++|.|-+.=..=+++-.+.+| -++..-+=.||=.- ---+|| |...+-++
T Consensus 147 ~~~~~~i---------~~I~~~~~~p~yI~a~a~~I~~~~~~~~-~~~~~llfSaHglP~~~~~~GDp-Y~~q~~~t~~l 215 (320)
T COG0276 147 LRGQPKI---------STIPDYYDEPLYIEALADSIREKLAKHP-RDDDVLLFSAHGLPKRYIDEGDP-YPQQCQETTRL 215 (320)
T ss_pred cCCCCce---------EEecCccCChHHHHHHHHHHHHHHHhcC-CCCeEEEEecCCCchhhhhcCCc-hHHHHHHHHHH
Confidence 1111111 1222 4788998888888888888888 34555555566221 011343 55555444
Q ss_pred HHHHHhccCCCceEEEecccCCCCCCCCchhHHHhHhCCCCC---CEEEEe
Q 012032 134 IYSGMQSGDSDAVWLMQGWLFSYDPFWRPPQMKALLNSVPLG---KLVVLD 181 (472)
Q Consensus 134 iy~am~~~dP~AvWvmQgW~F~~~~fW~~~~~~a~L~~Vp~~---~mliLD 181 (472)
|-+.+.--..+-+..-|+ -|..- =|-.|.+...|..+++. +++|.=
T Consensus 216 i~e~lg~~~~~~~~~~QS-~~G~~-~WL~P~t~~~l~~L~~~g~k~iiv~p 264 (320)
T COG0276 216 IAEALGLPEEEYDLTFQS-RFGPE-PWLQPYTDDLLEELGEKGVKKIIVVP 264 (320)
T ss_pred HHHHcCCCchheeEEeec-CCCCC-CCCCCCHHHHHHHHHhcCCCeEEEEC
Confidence 444444333444444566 44433 38888888888887763 777764
No 38
>PF14433 SUKH-3: SUKH-3 immunity protein
Probab=25.50 E-value=1.4e+02 Score=26.74 Aligned_cols=46 Identities=17% Similarity=0.282 Sum_probs=37.6
Q ss_pred hHHHHHHhhcCCC-CCCCHHHHHHHHHhcccCCCChhHHHHHHHHHhc
Q 012032 252 VVYDLMSEMAFQH-EKVDVKAWINQYSVRRYGRSVPAIQDAWNVLYHT 298 (472)
Q Consensus 252 vvYeL~~d~aW~~-~~id~~~W~~~Ya~rRYG~~~~~~~~AW~iL~~t 298 (472)
.|-+++...+|+. ..||++.|.+.|...+|-. .|.+.++|+-+..=
T Consensus 3 ~v~~~L~~aGW~~~R~idi~~~~~~~~~~g~~~-~paa~~fL~efGgL 49 (142)
T PF14433_consen 3 KVIELLRAAGWYEGRKIDISLWEKILEEEGYPV-FPAAVEFLAEFGGL 49 (142)
T ss_pred HHHHHHHHcCCCCCcccCHHHHHHHHHhcCCCC-CHHHHHHHHHcCCe
Confidence 5778999999985 4679999999999997766 67888899865444
No 39
>cd03201 GST_C_DHAR GST_C family, Dehydroascorbate Reductase (DHAR) subfamily; composed of plant-specific DHARs, monomeric enzymes catalyzing the reduction of DHA into ascorbic acid (AsA) using glutathione as the reductant. DHAR allows plants to recycle oxidized AsA before it is lost. AsA serves as a cofactor of violaxanthin de-epoxidase in the xanthophyll cycle and as an antioxidant in the detoxification of reactive oxygen species. Because AsA is the major reductant in plants, DHAR serves to regulate their redox state. It has been suggested that a significant portion of DHAR activity is plastidic, acting to reduce the large amounts of ascorbate oxidized during hydrogen peroxide scavenging by ascorbate peroxidase. DHAR contains a conserved cysteine in its active site and in addition to its reductase activity, shows thiol transferase activity similar to glutaredoxins.
Probab=25.30 E-value=2.2e+02 Score=24.78 Aligned_cols=8 Identities=0% Similarity=0.380 Sum_probs=3.8
Q ss_pred hhHHHHHH
Q 012032 445 LGPWLESA 452 (472)
Q Consensus 445 Lg~Wl~~A 452 (472)
|..|++..
T Consensus 91 l~~w~~rl 98 (121)
T cd03201 91 VKSYMKAL 98 (121)
T ss_pred HHHHHHHH
Confidence 44444444
No 40
>cd06599 GH31_glycosidase_Aec37 Glycosyl hydrolase family 31 (GH31) domain of a bacterial protein family represented by Escherichia coli protein Aec37. The gene encoding Aec37 (aec-37) is located within a genomic island (AGI-3) isolated from the extraintestinal avian pathogenic Escherichia coli strain BEN2908. The function of Aec37 and its orthologs is unknown; however, deletion of a region of the genome that includes aec-37 affects the assimilation of seven carbohydrates, decreases growth rate of the strain in minimal medium containing galacturonate or trehalose, and attenuates the virulence of E. coli BEN2908 in chickens. All GH31 enzymes cleave a terminal carbohydrate moiety from a substrate that varies considerably in size, depending on the enzyme, and may be either a starch or a glycoprotein.
Probab=25.16 E-value=5.1e+02 Score=26.53 Aligned_cols=109 Identities=17% Similarity=0.159 Sum_probs=55.7
Q ss_pred HHHHHHHHHHcCCeecc---CCCCCCCchhhHhhCCC--------CceeccC-CCCCCCCCCccccccccCCCChHHHHH
Q 012032 23 QKKILVRIYELGMNPVL---PAFSGNVPAALQNVFPS--------AKITQLG-NWFSVKSDPRWCCTYLLDATDPLFIEI 90 (472)
Q Consensus 23 QkkIl~RmrelGM~PVL---PgF~G~VP~~~k~~~P~--------a~i~~~~-~W~gf~~~~~~~~~~~LdP~DplF~~I 90 (472)
=+++++++++.|++-|+ |.....-| .+++.-.. -+....+ -|.|. ..++|-+.|...+.
T Consensus 75 p~~mi~~L~~~g~k~~~~i~P~i~~~~~-~y~e~~~~g~~v~~~~g~~~~~~~~w~g~--------~~~~Dftnp~a~~w 145 (317)
T cd06599 75 PAAFVAKFHERGIRLAPNIKPGLLQDHP-RYKELKEAGAFIKPPDGREPSIGQFWGGV--------GSFVDFTNPEGREW 145 (317)
T ss_pred HHHHHHHHHHCCCEEEEEeCCcccCCCH-HHHHHHHCCcEEEcCCCCCcceecccCCC--------eEeecCCChHHHHH
Confidence 45889999999998876 55443222 24332211 1111112 23332 34788888876543
Q ss_pred HHHHHHHHHHHhCCCCcccccCCCCCCCCCCCC----------------hHHHHHHHHHHHHHHhccCC
Q 012032 91 GRAFIEQQLKEYGRTSHIYNCDTFDENTPPVDS----------------PEYISSLGAAIYSGMQSGDS 143 (472)
Q Consensus 91 ~~~F~~eq~~~fG~~~h~Y~~D~FnE~~pp~~d----------------p~~L~~~~~~iy~am~~~dP 143 (472)
=+.-++++....| . ..+-+| ++|......+ +.|--..++++|+++++..|
T Consensus 146 w~~~~~~~~~~~G-v-dg~w~D-~~E~~~~~~~~~~~~~g~~~~~~~~~n~y~~l~~~a~~~~~~~~~~ 211 (317)
T cd06599 146 WKEGVKEALLDLG-I-DSTWND-NNEYEIWDDDAVCDGFGKPGTIGELRPVQPNLMARASHEAQAEHYP 211 (317)
T ss_pred HHHHHHHHHhcCC-C-cEEEec-CCCCccCCCcceecCCCCccchhhcccchHHHHHHHHHHHHHHhCC
Confidence 3333333333346 3 456666 5664211000 12333467788888776655
No 41
>PRK10203 hypothetical protein; Provisional
Probab=25.08 E-value=64 Score=29.14 Aligned_cols=38 Identities=32% Similarity=0.496 Sum_probs=27.2
Q ss_pred CCCCCCCCCCCCH---HHHHHHHHHHHHHHHHHHHcCCeeccCCCCCCCchhhH
Q 012032 1 MSNLHGWGGPLPQ---SWLDQQLVLQKKILVRIYELGMNPVLPAFSGNVPAALQ 51 (472)
Q Consensus 1 MgNi~gwgGPLp~---~wi~~q~~LQkkIl~RmrelGM~PVLPgF~G~VP~~~k 51 (472)
+-||.|.|=|||. +.+..-..+..||++- +|+||+.+.
T Consensus 21 fdnLpG~GKPL~~~d~~~~p~e~r~~~rilkn-------------ag~lP~el~ 61 (122)
T PRK10203 21 FDNLPGSGEPLILDDDSHVPPELRAGYRLLKN-------------AGCLPPELE 61 (122)
T ss_pred ccCCCCCCCCCCCccCCCCCHHHHHHHHHHhh-------------CCCCCHHHH
Confidence 3599999999973 3344556677777754 589999874
No 42
>cd03190 GST_C_ECM4_like GST_C family, ECM4-like subfamily; composed of predominantly uncharacterized and taxonomically diverse proteins with similarity to the translation product of the Saccharomyces cerevisiae gene ECM4. ECM4, a gene of unknown function, is involved in cell surface biosynthesis and architecture. S. cerevisiae ECM4 mutants show increased amounts of the cell wall hexose, N-acetylglucosamine. More recently, global gene expression analysis shows that ECM4 is upregulated during genotoxic conditions and together with the expression profiles of 18 other genes could potentially differentiate between genotoxic and cytotoxic insults in yeast.
Probab=24.10 E-value=2.8e+02 Score=24.62 Aligned_cols=37 Identities=19% Similarity=0.285 Sum_probs=26.9
Q ss_pred HHHHhCChHHHHHHHHHHHHHHHHHHHHhccCCCCChh
Q 012032 409 EAYQLNDAHGVFQLSRRFLELVEDMDGLLACHDGFLLG 446 (472)
Q Consensus 409 ~Ay~~~d~~~~~~~~~~~l~li~dlD~LL~t~~~FlLg 446 (472)
..+..++.+.++....++.+.++.+|..|+.+ .|+.|
T Consensus 25 ~~~~~~~~~~~~~~~~~l~~~l~~LE~~L~~~-~yl~G 61 (142)
T cd03190 25 KAGFATTQEAYDEAVDELFEALDRLEELLSDR-RYLLG 61 (142)
T ss_pred HHhhccCHHHHHHHHHHHHHHHHHHHHHHccC-CeeeC
Confidence 34445667777888888888999999988765 45555
No 43
>PF07328 VirD1: T-DNA border endonuclease VirD1; InterPro: IPR009933 This family consists of several T-DNA border endonuclease VirD1 proteins, which appear to be found exclusively in Agrobacterium species. Agrobacterium, a plant pathogen, is capable to stably transform the plant cell with a segment of its own DNA called T-DNA (transferred DNA). This process depends, among others, on the specialised bacterial virulence proteins VirD1 and VirD2 that excise the T-DNA from its adjacent sequences. VirD1 is thought to interact with VirD2 in this process [].; GO: 0004519 endonuclease activity
Probab=23.50 E-value=3e+02 Score=25.40 Aligned_cols=53 Identities=25% Similarity=0.239 Sum_probs=38.6
Q ss_pred cchHHHHHHHHHHHHHHHHHHHHHHHHHhC---ChHHHHHHHHHHHHHHHHHHHHhcc
Q 012032 385 RYDLIDLTRQALAKYANELFLNIIEAYQLN---DAHGVFQLSRRFLELVEDMDGLLAC 439 (472)
Q Consensus 385 ~yDLvDvtRQvL~n~~~~~~~~~~~Ay~~~---d~~~~~~~~~~~l~li~dlD~LL~t 439 (472)
|-+|-|+.|++=+-..+ ..++..||+.. |.+.|...-..|=+.+.++|.||.+
T Consensus 73 r~~l~~il~sIg~la~N--in~i~~Aa~~~~~pd~e~f~aER~~fGk~fA~ld~lLr~ 128 (147)
T PF07328_consen 73 RQKLEDILRSIGGLATN--INQILKAANRTPRPDYEAFRAERKAFGKEFADLDALLRS 128 (147)
T ss_pred HHHHHHHHHHHHHHHHH--HHHHHHHHhcCCCccHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 56677777766443322 34577788744 6788999999999999999998864
No 44
>cd06380 PBP1_iGluR_AMPA N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the AMPA receptor. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the AMPA (alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid) receptor, a member of the glutamate-receptor ion channels (iGluRs). AMPA receptors are the major mediators of excitatory synaptic transmission in the central nervous system. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. AMPA receptors consist of four types of subunits (GluR1, GluR2, GluR3, and GluR4) which combine to form a tetramer and play an important roles in mediating the rapid excita
Probab=22.63 E-value=3.7e+02 Score=27.51 Aligned_cols=17 Identities=35% Similarity=0.421 Sum_probs=14.1
Q ss_pred HHHHHHHHHHHHcCCee
Q 012032 21 VLQKKILVRIYELGMNP 37 (472)
Q Consensus 21 ~LQkkIl~RmrelGM~P 37 (472)
+-..+|++.++++||.+
T Consensus 194 ~~~~~i~~qa~~~gm~~ 210 (382)
T cd06380 194 ERLNKILEQIVDVGKNR 210 (382)
T ss_pred HHHHHHHHHHHHhhhcc
Confidence 44578999999999995
No 45
>COG4334 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=22.58 E-value=46 Score=29.65 Aligned_cols=39 Identities=23% Similarity=0.596 Sum_probs=21.0
Q ss_pred CCCchhHHHhHhCCCCCCEEEEecCCCcccccccccCcCCCC-ceeeeccC
Q 012032 159 FWRPPQMKALLNSVPLGKLVVLDLFAEVKPIWSTSKQFYGVP-YIWCMLHN 208 (472)
Q Consensus 159 fW~~~~~~a~L~~Vp~~~mliLDL~~E~~p~W~~t~~f~G~p-wIWc~LhN 208 (472)
.|+-++++.+.. +-||+-.-.|+=.|| ||+| ||||..-+
T Consensus 6 ~w~~D~l~ki~~--------~dDl~IsPfre~grt---ygtptWIW~v~vD 45 (131)
T COG4334 6 IWKIDELKKISK--------IDDLYISPFREEGRT---YGTPTWIWFVYVD 45 (131)
T ss_pred ccchHHHHhhhh--------ccceEecCccccCcc---cCCccEEEEEEEC
Confidence 355555554332 234544444443443 5665 99998654
No 46
>cd06597 GH31_transferase_CtsY CtsY (cyclic tetrasaccharide-synthesizing enzyme Y) is a bacterial 3-alpha-isomaltosyltransferase, first identified in Arthrobacter globiformis, that produces cyclic tetrasaccharides together with a closely related enzyme CtsZ. CtsY and CtsZ both have a glycosyl hydrolase family 31 (GH31) catalytic domain. All GH31 enzymes cleave a terminal carbohydrate moiety from a substrate that varies considerably in size, depending on the enzyme, and may be either a starch or a glycoprotein.
Probab=21.91 E-value=7.2e+02 Score=25.83 Aligned_cols=85 Identities=22% Similarity=0.282 Sum_probs=44.3
Q ss_pred HHHHHHHHHcCCeecc---CCCC-CCCc---------hhhHhh----CCCCceecc-CCCCCCCCCCccccccccCCCCh
Q 012032 24 KKILVRIYELGMNPVL---PAFS-GNVP---------AALQNV----FPSAKITQL-GNWFSVKSDPRWCCTYLLDATDP 85 (472)
Q Consensus 24 kkIl~RmrelGM~PVL---PgF~-G~VP---------~~~k~~----~P~a~i~~~-~~W~gf~~~~~~~~~~~LdP~Dp 85 (472)
++.++++.+.|++-+| |... +..| ++.++- .++-+.... +.|.|- +.++|-+.|
T Consensus 88 ~~mi~~Lh~~G~kv~l~v~P~i~~~~~~~~~~~~~~~~~~~~g~~vk~~~G~~~~~~~~W~g~--------~~~~Dftnp 159 (340)
T cd06597 88 KGMIDELHEQGVKVLLWQIPIIKLRPHPHGQADNDEDYAVAQNYLVQRGVGKPYRIPGQWFPD--------SLMLDFTNP 159 (340)
T ss_pred HHHHHHHHHCCCEEEEEecCccccccccccccchhHHHHHHCCEEEEcCCCCccccccccCCC--------ceeecCCCH
Confidence 6888999999999875 6554 2111 111111 111111111 245442 468999998
Q ss_pred HHHHHHHHHHHHHHHHhCCCCcccccCCCCCCCC
Q 012032 86 LFIEIGRAFIEQQLKEYGRTSHIYNCDTFDENTP 119 (472)
Q Consensus 86 lF~~I~~~F~~eq~~~fG~~~h~Y~~D~FnE~~p 119 (472)
.-.+-=+.-+++..+.+| . .-+-+| ++|..+
T Consensus 160 ~a~~Ww~~~~~~~~~~~G-i-dg~w~D-~~E~~~ 190 (340)
T cd06597 160 EAAQWWMEKRRYLVDELG-I-DGFKTD-GGEHVW 190 (340)
T ss_pred HHHHHHHHHHHHHHHhcC-C-cEEEec-CCCccC
Confidence 865532222333333467 4 456677 778543
No 47
>cd04243 AAK_AK-HSDH-like AAK_AK-HSDH-like: Amino Acid Kinase Superfamily (AAK), AK-HSDH-like; this family includes the N-terminal catalytic domain of aspartokinase (AK) of the bifunctional enzyme AK- homoserine dehydrogenase (HSDH). These aspartokinases are found in such bacteria as E. coli (AKI-HSDHI, ThrA and AKII-HSDHII, MetL) and in higher plants (Z. mays AK-HSDH). AK and HSDH are the first and third enzymes in the biosynthetic pathway of the aspartate family of amino acids. AK catalyzes the phosphorylation of Asp to P-aspartyl phosphate. HSDH catalyzes the NADPH-dependent conversion of Asp 3-semialdehyde to homoserine. ThrA and MetL are involved in threonine and methionine biosynthesis, respectively. In E. coli, ThrA is subject to allosteric regulation by the end product L-threonine and the native enzyme is reported to be tetrameric. As with bacteria, plant AK and HSDH are feedback inhibited by pathway end products. Maize AK-HSDH is a Thr-sensitive 180-kD enzyme. Arabidopsis AK-
Probab=21.64 E-value=58 Score=33.34 Aligned_cols=67 Identities=15% Similarity=0.170 Sum_probs=40.2
Q ss_pred HHHHHHHHHcCCeeccCCCCCCCchhhHhhCCCCceeccCCCCCCCCCCccccccccCCCChHHHHHHHHHHHHHHHHhC
Q 012032 24 KKILVRIYELGMNPVLPAFSGNVPAALQNVFPSAKITQLGNWFSVKSDPRWCCTYLLDATDPLFIEIGRAFIEQQLKEYG 103 (472)
Q Consensus 24 kkIl~RmrelGM~PVLPgF~G~VP~~~k~~~P~a~i~~~~~W~gf~~~~~~~~~~~LdP~DplF~~I~~~F~~eq~~~fG 103 (472)
++|.+.+.+.|..||.|||-|.=+ .-+++.+| -+| +|-.-..||+.+=-+....+-
T Consensus 169 ~~~~~~~~~~~~v~Vv~Gfig~~~--------~G~~ttLG-Rgg---------------sD~~A~~~a~~l~a~~~~i~t 224 (293)
T cd04243 169 ERLAQLLAEHGKVVVTQGFIASNE--------DGETTTLG-RGG---------------SDYSAALLAALLDAEEVEIWT 224 (293)
T ss_pred HHHHHHHhcCCCEEEecCccccCC--------CCCEEEeC-CCC---------------cHHHHHHHHHHcCCCEEEEEe
Confidence 344444444499999999998422 22344444 111 244455566555444445667
Q ss_pred CCCcccccCCC
Q 012032 104 RTSHIYNCDTF 114 (472)
Q Consensus 104 ~~~h~Y~~D~F 114 (472)
+++.+|.+||-
T Consensus 225 dvdGiyt~dP~ 235 (293)
T cd04243 225 DVDGVYTADPR 235 (293)
T ss_pred CCCccCCCCCC
Confidence 77889999993
No 48
>cd03186 GST_C_SspA GST_N family, Stringent starvation protein A (SspA) subfamily; SspA is a RNA polymerase (RNAP)-associated protein required for the lytic development of phage P1 and for stationary phase-induced acid tolerance of E. coli. It is implicated in survival during nutrient starvation. SspA adopts the GST fold with an N-terminal thioredoxin-fold domain and a C-terminal alpha helical domain, but it does not bind glutathione (GSH) and lacks GST activity. SspA is highly conserved among gram-negative bacteria. Related proteins found in Neisseria (called RegF), Francisella and Vibrio regulate the expression of virulence factors necessary for pathogenesis.
Probab=21.53 E-value=4.4e+02 Score=21.54 Aligned_cols=29 Identities=7% Similarity=0.177 Sum_probs=19.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHhccCCCCChh
Q 012032 417 HGVFQLSRRFLELVEDMDGLLACHDGFLLG 446 (472)
Q Consensus 417 ~~~~~~~~~~l~li~dlD~LL~t~~~FlLg 446 (472)
+.....-.++.+.+..+|..|+.++ |++|
T Consensus 31 ~~~~~~~~~~~~~l~~le~~L~~~~-~l~G 59 (107)
T cd03186 31 KEAEKARKELRESLLALAPVFAHKP-YFMS 59 (107)
T ss_pred HHHHHHHHHHHHHHHHHHHHHcCCC-cccC
Confidence 3344555668888888999887543 5554
No 49
>TIGR01558 sm_term_P27 phage terminase, small subunit, putative, P27 family. Members tend to be adjacent to the phage terminase large subunit gene.
Probab=21.18 E-value=98 Score=27.00 Aligned_cols=31 Identities=23% Similarity=0.193 Sum_probs=25.1
Q ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHcCCeec
Q 012032 8 GGPLPQSWLDQQLVLQKKILVRIYELGMNPV 38 (472)
Q Consensus 8 gGPLp~~wi~~q~~LQkkIl~RmrelGM~PV 38 (472)
|++.+.-.+.-+.+..++|.+=..+|||+|.
T Consensus 64 g~~k~nPa~~i~~~a~~~~~~l~~elGLtP~ 94 (116)
T TIGR01558 64 GSPKANPALTVVEDAFKQLRSIGSALGLTPS 94 (116)
T ss_pred CCeecChHHHHHHHHHHHHHHHHHHcCCCHH
Confidence 4455556777788889999999999999986
No 50
>PRK13511 6-phospho-beta-galactosidase; Provisional
Probab=20.68 E-value=2.3e+02 Score=30.96 Aligned_cols=71 Identities=15% Similarity=0.361 Sum_probs=47.4
Q ss_pred HHHHHH--HHHHHHHHHcCCeeccCCCCCCCchhhHhhCCCCceeccCCCCCCCCCCccccccccCCCChHHHHHHHHHH
Q 012032 18 QQLVLQ--KKILVRIYELGMNPVLPAFSGNVPAALQNVFPSAKITQLGNWFSVKSDPRWCCTYLLDATDPLFIEIGRAFI 95 (472)
Q Consensus 18 ~q~~LQ--kkIl~RmrelGM~PVLPgF~G~VP~~~k~~~P~a~i~~~~~W~gf~~~~~~~~~~~LdP~DplF~~I~~~F~ 95 (472)
.++.|+ +++++.|++.||+||+==|-=-+|..|.+ .|.|.+ +.++ ..|.+.|+.-
T Consensus 89 N~~gl~~Y~~lid~l~~~GI~P~VTL~H~dlP~~L~~---------~GGW~n---------~~~v----~~F~~YA~~~- 145 (469)
T PRK13511 89 NPKGVEYYHRLFAECHKRHVEPFVTLHHFDTPEALHS---------NGDWLN---------RENI----DHFVRYAEFC- 145 (469)
T ss_pred CHHHHHHHHHHHHHHHHcCCEEEEEecCCCCcHHHHH---------cCCCCC---------HHHH----HHHHHHHHHH-
Confidence 344554 69999999999999987776678999875 245643 1111 4666655554
Q ss_pred HHHHHHhCCCCcccccCCCCCC
Q 012032 96 EQQLKEYGRTSHIYNCDTFDEN 117 (472)
Q Consensus 96 ~eq~~~fG~~~h~Y~~D~FnE~ 117 (472)
-+.||+ -.++. +|||-
T Consensus 146 ---~~~fgd-Vk~W~--T~NEP 161 (469)
T PRK13511 146 ---FEEFPE-VKYWT--TFNEI 161 (469)
T ss_pred ---HHHhCC-CCEEE--Eccch
Confidence 567896 45443 78883
No 51
>PF13041 PPR_2: PPR repeat family
Probab=20.50 E-value=74 Score=22.93 Aligned_cols=22 Identities=14% Similarity=0.215 Sum_probs=18.3
Q ss_pred HHHHHHHHHHHHHHHcCCeecc
Q 012032 18 QQLVLQKKILVRIYELGMNPVL 39 (472)
Q Consensus 18 ~q~~LQkkIl~RmrelGM~PVL 39 (472)
++.+-..+++++|++.|+.|=.
T Consensus 17 ~~~~~a~~l~~~M~~~g~~P~~ 38 (50)
T PF13041_consen 17 GKFEEALKLFKEMKKRGIKPDS 38 (50)
T ss_pred cCHHHHHHHHHHHHHcCCCCCH
Confidence 4567788999999999999844
No 52
>PF09350 DUF1992: Domain of unknown function (DUF1992); InterPro: IPR018961 This entry represents a family of proteins that may have a role in protein folding or as a chaperone. DnaJ is a member of the J-protein family, which are defined by the presence of a J domain that can regulate the activity of 70kDa heat-shock proteins []. Some of the proteins in this entry contain a J domain.
Probab=20.18 E-value=74 Score=25.84 Aligned_cols=38 Identities=29% Similarity=0.565 Sum_probs=25.2
Q ss_pred CCCCCCCCCCCCH----HHHHHHHHHHHHHHHHHHHcCCeeccCCCCCCCchhhH
Q 012032 1 MSNLHGWGGPLPQ----SWLDQQLVLQKKILVRIYELGMNPVLPAFSGNVPAALQ 51 (472)
Q Consensus 1 MgNi~gwgGPLp~----~wi~~q~~LQkkIl~RmrelGM~PVLPgF~G~VP~~~k 51 (472)
+-||.|.|=||+. ..+..-..+..|||++ +|++|+.+.
T Consensus 15 FdnLpG~GKPL~~~~~~~~~~~~~~~~~~iLk~-------------~g~lPp~i~ 56 (71)
T PF09350_consen 15 FDNLPGAGKPLPLDDDNPYWPAEERMANRILKN-------------AGYLPPWIE 56 (71)
T ss_pred ccCCCCCCCCCCCCCCCcCCCHHHHHHHHhhcc-------------cCCCCHHHH
Confidence 3589999999884 2233445566777665 677887763
Done!