Query psy3963
Match_columns 128
No_of_seqs 160 out of 276
Neff 5.6
Searched_HMMs 46136
Date Fri Aug 16 21:48:47 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy3963.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/3963hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 cd06906 M14_Nna1 Peptidase M14 99.9 5E-26 1.1E-30 185.2 4.6 77 1-77 198-277 (278)
2 cd06907 M14_AGBL2-3_like Pepti 99.9 7.6E-24 1.7E-28 171.2 5.4 78 1-79 179-260 (261)
3 cd06236 M14_AGBL5_like Peptida 99.8 5.3E-21 1.2E-25 157.5 3.9 77 1-77 200-303 (304)
4 cd06235 M14_Nna1_like_2 Subgro 99.8 6.4E-20 1.4E-24 147.3 2.5 77 1-77 178-257 (258)
5 cd06908 M14_AGBL4_like Peptida 99.8 1.5E-19 3.3E-24 146.0 2.9 79 1-79 177-260 (261)
6 KOG3641|consensus 99.5 3E-15 6.5E-20 131.2 4.5 84 25-109 468-555 (650)
7 KOG3641|consensus 99.5 4.2E-15 9.1E-20 130.3 4.5 77 1-78 566-646 (650)
8 cd06906 M14_Nna1 Peptidase M14 99.5 1.4E-14 3.1E-19 118.2 6.6 78 32-111 98-179 (278)
9 cd06907 M14_AGBL2-3_like Pepti 99.5 3E-14 6.5E-19 115.4 6.0 79 31-110 91-171 (261)
10 cd06236 M14_AGBL5_like Peptida 99.5 1E-13 2.2E-18 114.4 6.2 76 32-108 114-191 (304)
11 cd03856 M14_Nna1_like Peptidas 99.4 1.4E-13 3E-18 111.4 1.8 75 1-75 186-268 (269)
12 cd06235 M14_Nna1_like_2 Subgro 99.3 2E-12 4.3E-17 104.0 6.0 79 32-111 91-171 (258)
13 cd06908 M14_AGBL4_like Peptida 99.3 5.2E-12 1.1E-16 102.2 5.9 76 32-108 89-168 (261)
14 cd03856 M14_Nna1_like Peptidas 99.0 3.2E-10 7E-15 91.8 5.6 76 32-108 99-177 (269)
15 cd06234 M14_Nna1_like_1 A bact 98.3 1.7E-06 3.7E-11 70.2 6.0 75 32-110 102-177 (263)
16 cd06239 Peptidase_M14-like_1_2 94.4 0.1 2.2E-06 41.7 5.5 67 32-110 80-146 (231)
17 cd00596 Peptidase_M14_like The 92.8 0.39 8.4E-06 36.1 6.0 67 35-109 47-118 (196)
18 cd06234 M14_Nna1_like_1 A bact 92.5 0.09 2E-06 42.8 2.3 66 2-71 188-261 (263)
19 PF00246 Peptidase_M14: Zinc c 89.5 0.34 7.4E-06 38.5 2.9 38 65-106 153-190 (279)
20 cd06237 M14_Nna1_like_3 A bact 89.2 1.4 3E-05 35.3 6.3 68 32-105 97-166 (244)
21 cd06248 M14_CPA_CPB_like Pepti 88.9 1.2 2.6E-05 36.6 5.8 40 64-106 166-206 (304)
22 smart00631 Zn_pept Zn_pept. 88.2 1.2 2.5E-05 35.9 5.2 53 49-106 125-193 (277)
23 cd03860 M14_CP_A-B_like The Pe 83.9 2.1 4.6E-05 34.8 4.7 36 65-104 160-195 (294)
24 cd06247 M14_CPO Peptidase M14 82.6 5.4 0.00012 33.0 6.7 39 65-107 165-203 (298)
25 cd03858 M14_CP_N-E_like Carbox 81.8 1.6 3.4E-05 36.7 3.3 51 47-103 124-184 (374)
26 cd06244 Peptidase_M14-like_1_7 81.2 5.8 0.00013 32.6 6.3 66 32-106 115-180 (268)
27 cd06231 Peptidase_M14-like_4 A 80.4 3.3 7.2E-05 33.1 4.6 53 48-102 96-148 (236)
28 cd03868 M14_CPD_I The first ca 79.9 2.1 4.6E-05 36.1 3.4 44 49-95 127-178 (372)
29 cd03859 M14_CPT Peptidase M14- 73.4 6.9 0.00015 31.9 4.7 35 65-104 173-207 (295)
30 cd06229 M14_Endopeptidase_I Pe 70.7 13 0.00029 29.5 5.7 54 47-106 109-182 (255)
31 cd06245 M14_CPD_III The third 68.2 6.5 0.00014 33.3 3.6 46 48-96 125-175 (363)
32 cd06226 M14_CPT_like Peptidase 63.9 9.8 0.00021 31.4 3.7 38 65-105 159-209 (293)
33 cd06241 Peptidase_M14-like_1_4 63.2 9.7 0.00021 30.9 3.5 44 46-94 119-162 (266)
34 KOG1679|consensus 63.0 16 0.00035 30.0 4.7 49 26-80 72-121 (291)
35 cd03866 M14_CPM Peptidase M14 62.4 11 0.00023 32.2 3.8 47 48-97 127-178 (376)
36 cd06227 Peptidase_M14-like_2 A 62.2 26 0.00057 28.5 5.9 27 65-94 159-185 (272)
37 cd03870 M14_CPA Peptidase M14 62.0 19 0.00042 29.7 5.2 38 65-107 166-203 (301)
38 cd06904 M14_MpaA_like Peptidas 61.4 12 0.00025 28.3 3.5 56 32-93 38-110 (178)
39 PF00246 Peptidase_M14: Zinc c 61.1 3.9 8.5E-05 32.4 0.9 43 28-74 236-278 (279)
40 cd03857 Peptidase_M14-like_1 P 60.8 15 0.00033 28.7 4.2 56 32-94 77-132 (226)
41 cd03867 M14_CPZ Peptidase M14- 58.1 16 0.00034 31.3 4.1 35 65-105 171-205 (395)
42 cd03872 M14_CPA6 Carboxypeptid 58.0 13 0.00029 30.7 3.6 36 65-104 163-198 (300)
43 cd06238 Peptidase_M14-like_1_1 57.1 23 0.0005 28.9 4.8 50 48-102 136-185 (271)
44 PTZ00436 60S ribosomal protein 56.1 14 0.00031 31.4 3.4 49 47-95 11-60 (357)
45 cd03863 M14_CPD_II The second 54.4 26 0.00057 29.9 4.8 51 49-105 130-185 (375)
46 cd06242 Peptidase_M14-like_1_5 52.4 26 0.00056 28.4 4.3 58 32-96 99-156 (268)
47 PF08608 Wyosine_form: Wyosine 51.8 23 0.0005 22.8 3.2 43 50-95 14-56 (62)
48 cd06246 M14_CPB2 Peptidase M14 51.8 20 0.00044 29.5 3.7 34 65-102 166-199 (300)
49 PTZ00097 60S ribosomal protein 46.5 27 0.00059 27.2 3.4 48 48-95 10-58 (175)
50 cd06243 Peptidase_M14-like_1_6 46.3 32 0.00068 27.5 3.9 52 35-93 79-130 (236)
51 cd00481 Ribosomal_L19e Ribosom 44.5 31 0.00068 26.1 3.4 48 48-95 9-57 (145)
52 PRK08570 rpl19e 50S ribosomal 44.3 30 0.00066 26.3 3.3 48 48-95 12-60 (150)
53 cd03864 M14_CPN Peptidase M14 44.1 33 0.00071 29.5 3.9 37 65-105 169-205 (392)
54 cd01418 Ribosomal_L19e_A Ribos 43.9 31 0.00068 26.1 3.3 48 48-95 9-57 (145)
55 cd03862 Peptidase_M14-like_7 A 43.1 57 0.0012 26.6 5.0 41 64-104 129-170 (273)
56 cd01417 Ribosomal_L19e_E Ribos 39.6 39 0.00084 26.1 3.3 48 48-95 9-57 (164)
57 KOG2719|consensus 35.3 54 0.0012 28.9 3.9 27 82-108 234-260 (428)
58 TIGR02364 dha_pts dihydroxyace 33.5 47 0.001 24.0 2.8 28 69-97 45-74 (125)
59 cd00524 SORL Superoxide reduct 33.2 17 0.00037 24.3 0.4 10 83-92 74-83 (86)
60 PRK14484 phosphotransferase ma 32.5 45 0.00099 24.2 2.6 24 70-94 46-69 (124)
61 cd03171 SORL_Dfx_classI Supero 30.3 24 0.00053 23.6 0.8 10 83-92 66-75 (78)
62 PHA03082 DNA-dependent RNA pol 30.2 16 0.00035 23.8 -0.1 37 43-79 2-42 (63)
63 KOG2650|consensus 29.2 56 0.0012 28.6 3.0 59 34-95 235-313 (418)
64 PF01280 Ribosomal_L19e: Ribos 28.9 51 0.0011 25.0 2.4 48 48-95 11-59 (148)
65 PF01880 Desulfoferrodox: Desu 28.1 21 0.00046 24.7 0.2 10 83-92 82-91 (96)
66 PRK10602 murein peptide amidas 27.8 97 0.0021 24.8 3.9 55 32-92 76-158 (237)
67 cd06227 Peptidase_M14-like_2 A 27.5 27 0.00059 28.4 0.8 45 9-55 217-261 (272)
68 PF01242 PTPS: 6-pyruvoyl tetr 26.7 1E+02 0.0022 21.4 3.5 36 41-76 26-63 (123)
69 TIGR00332 neela_ferrous desulf 25.4 34 0.00074 24.2 0.9 11 83-93 87-97 (107)
70 COG4057 McrG Methyl coenzyme M 25.2 32 0.0007 27.8 0.8 60 42-103 104-173 (257)
71 PF12268 DUF3612: Protein of u 25.2 1.6E+02 0.0034 22.8 4.4 55 23-77 54-121 (178)
72 PF05864 Chordopox_RPO7: Chord 23.7 24 0.00052 22.9 -0.2 37 43-79 2-42 (63)
73 PF14399 Transpep_BrtH: NlpC/p 23.5 1.6E+02 0.0034 23.4 4.4 51 63-115 72-133 (317)
74 cd03172 SORL_classII Superoxid 23.4 34 0.00074 23.9 0.5 8 85-92 91-98 (104)
75 PF04952 AstE_AspA: Succinylgl 22.8 1.1E+02 0.0024 24.2 3.4 47 50-97 58-113 (292)
76 PF05677 DUF818: Chlamydia CHL 22.4 1.4E+02 0.0031 25.8 4.2 42 25-79 167-208 (365)
77 cd03860 M14_CP_A-B_like The Pe 21.4 1.4E+02 0.003 24.2 3.7 42 34-77 247-288 (294)
78 KOG2650|consensus 20.6 1.3E+02 0.0028 26.4 3.6 40 35-78 372-413 (418)
No 1
>cd06906 M14_Nna1 Peptidase M14-like domain of Nna-1 (Nervous system Nuclear protein induced by Axotomy), also known as ATP/GTP binding protein (AGTPBP-1) and cytosolic carboxypeptidase (CCP), and related proteins. The Peptidase M14 family of metallocarboxypeptidases are zinc-binding carboxypeptidases (CPs) which hydrolyze single, C-terminal amino acids from polypeptide chains, and have a recognition site for the free C-terminal carboxyl group, which is a key determinant of specificity. This eukaryotic subgroup includes the mouse Nna1/CCP-1, and -4 proteins, and the human Nna1/AGTPBP-1 protein. Nna1-like proteins are active metallopeptidases that are thought to act on cytosolic proteins such as alpha-tubulin, to remove a C-terminal tyrosine. Nna1 is widely expressed in the developing and adult nervous systems, including cerebellar Purkinje and granule neurons, miral cells of the olfactory bulb and retinal photoreceptors. Nna1 is also induced in axotomized motor neurons. Mutations in Nna
Probab=99.92 E-value=5e-26 Score=185.23 Aligned_cols=77 Identities=47% Similarity=0.717 Sum_probs=73.6
Q ss_pred ChhhHHhHcCCCccCCCCeecccccccccceEEEeeeecceeeeeeeccccccccCCc---cccchhHHHHHHHHHHHHH
Q psy3963 1 MLSRLLEQCALSFDPKSSHYKIERSKESTARITIWREYGVVRSYTMESTYCGFDQGSF---KIGTKESMKIVRGLIEFCT 77 (128)
Q Consensus 1 ~~P~lls~~~p~Fs~~~C~F~v~k~Ke~TaRV~~~~~~gi~~syTlE~Sf~G~dlg~~---kf~~kdL~pigk~L~e~l~ 77 (128)
+||+||++++|.|+|++|+|.++|+||+||||++|+++||++|||||+||+|+++|.+ +|+++||++||+.+|+.|.
T Consensus 198 ~fP~ll~~~~~~Fs~~~C~F~~~k~K~gTaRv~~~~~~~i~~syTlE~Sf~G~~~g~~~g~~f~~~~~~~~G~~~c~~l~ 277 (278)
T cd06906 198 TLPKILSHIAPAFSMSSCSFVVEKSKESTARVVVWREIGVQRSYTMESTLCGCDQGKYKGLQIGTKELEEMGAKFCVGLL 277 (278)
T ss_pred HHHHHHHhcCCccchhhCCccCCCCCCCCeeEehhhhcCCceEEEEEEEeccccccCcCceecCHHHHHHHHHHHHHHHh
Confidence 5899999999999999999999999999999999999999999999999999999875 4999999999999999874
No 2
>cd06907 M14_AGBL2-3_like Peptidase M14-like domain of ATP/GTP binding protein_like (AGBL)-2, and related proteins. The Peptidase M14 family of metallocarboxypeptidases are zinc-binding carboxypeptidases (CPs) which hydrolyze single, C-terminal amino acids from polypeptide chains, and have a recognition site for the free C-terminal carboxyl group, which is a key determinant of specificity. This subgroup includes the human AGBL-2, and -3, and the mouse cytosolic carboxypeptidase (CCPs)-2, and -3. ATP/GTP binding protein (AGTPBP-1/Nna1)-like proteins are active metallopeptidases that are thought to act on cytosolic proteins such as alpha-tubulin, to remove a C-terminal tyrosine. Mutations in AGTPBP-1/Nna1 cause Purkinje cell degeneration (pcd). AGTPBP-1/Nna1 however does not belong to this subgroup. AGTPBP-1/Nna1-like proteins from the different phyla are highly diverse, but they all contain a unique N-terminal conserved domain right before the CP domain. It has been suggested that this N
Probab=99.89 E-value=7.6e-24 Score=171.19 Aligned_cols=78 Identities=26% Similarity=0.442 Sum_probs=73.0
Q ss_pred ChhhHHhHcCC-CccCCCCeecccccccccceEEEeeeecceeeeeeeccccccccCCc---cccchhHHHHHHHHHHHH
Q psy3963 1 MLSRLLEQCAL-SFDPKSSHYKIERSKESTARITIWREYGVVRSYTMESTYCGFDQGSF---KIGTKESMKIVRGLIEFC 76 (128)
Q Consensus 1 ~~P~lls~~~p-~Fs~~~C~F~v~k~Ke~TaRV~~~~~~gi~~syTlE~Sf~G~dlg~~---kf~~kdL~pigk~L~e~l 76 (128)
+||+||++++| .|+|++|+|.++|+||+||||++|+++++ +||||||||+|+++|++ +|+++|++++|+++++.|
T Consensus 179 ~fp~l~~~~~~~~F~~~~c~F~~~~~k~~t~Rv~~~~~~~~-~syTlE~s~~G~~~~~~~~~~f~~~~~~~~G~~~~~~l 257 (261)
T cd06907 179 VFPLMMSKNAPDKFSFRSCKFKVQKSKEGTGRVVMWRLGIL-NSFTMEATFCGSTLGRRKGTHFTTSDLESMGYHFCDTL 257 (261)
T ss_pred HHHHHHHhcCccceecccCCccCCCCCCCCceEEhhhhcCc-eEEEEeeEccccccCCcCCcccCHHHHHHHHHHHHHHH
Confidence 59999999999 89999999999999999999999999888 99999999999998863 599999999999999998
Q ss_pred HHH
Q psy3963 77 TRV 79 (128)
Q Consensus 77 ~~l 79 (128)
.++
T Consensus 258 ldy 260 (261)
T cd06907 258 LDY 260 (261)
T ss_pred Hhh
Confidence 763
No 3
>cd06236 M14_AGBL5_like Peptidase M14-like domain of ATP/GTP binding protein_like (AGBL)-5, and related proteins. The Peptidase M14 family of metallocarboxypeptidases are zinc-binding carboxypeptidases (CPs) which hydrolyze single, C-terminal amino acids from polypeptide chains, and have a recognition site for the free C-terminal carboxyl group, which is a key determinant of specificity. This eukaryotic subgroup includes the human AGBL5 and the mouse cytosolic carboxypeptidase (CCP)-5. ATP/GTP binding protein (AGTPBP-1/Nna1)-like proteins are active metallopeptidases that are thought to act on cytosolic proteins such as alpha-tubulin, to remove a C-terminal tyrosine. Mutations in AGTPBP-1/Nna1 cause Purkinje cell degeneration (pcd). AGTPBP-1/Nna1 however does not belong to this subgroup. AGTPBP-1/Nna1-like proteins from the different phyla are highly diverse, but they all contain a unique N-terminal conserved domain right before the CP domain. It has been suggested that this N-terminal
Probab=99.82 E-value=5.3e-21 Score=157.49 Aligned_cols=77 Identities=19% Similarity=0.328 Sum_probs=70.1
Q ss_pred ChhhHHhHcCCCccCCCCeeccc----------ccccccceEEEeeeecceeeeeeeccccccccC--------------
Q psy3963 1 MLSRLLEQCALSFDPKSSHYKIE----------RSKESTARITIWREYGVVRSYTMESTYCGFDQG-------------- 56 (128)
Q Consensus 1 ~~P~lls~~~p~Fs~~~C~F~v~----------k~Ke~TaRV~~~~~~gi~~syTlE~Sf~G~dlg-------------- 56 (128)
+||+||++++|.|+|.+|+|.++ ++||+||||++|+++||++||||||||+|..+.
T Consensus 200 ~fp~l~~~~~~~F~~~~c~F~~~~m~~~d~~~~~~k~gt~Rv~~~~~~~i~~syTlE~s~~~~~~~~~~~~~~~~~~~~~ 279 (304)
T cd06236 200 LFPKLISLNSPHFDFDGCNFSEKNMYAKDKRDGLSKEGSGRVAVYKATGIIHSYTLECNYNTGRIVNTVPAASGDTPPPP 279 (304)
T ss_pred HHHHHHHhcCcccccccceeccccccccccccccCcCCcchhhHhhhhCCceEEEEEEecccccccccccccccCCcccc
Confidence 59999999999999999999985 789999999999999999999999999999763
Q ss_pred ---CccccchhHHHHHHHHHHHHH
Q psy3963 57 ---SFKIGTKESMKIVRGLIEFCT 77 (128)
Q Consensus 57 ---~~kf~~kdL~pigk~L~e~l~ 77 (128)
.++|++++++.+|++++..+.
T Consensus 280 ~~~~~~~t~~~~~~~G~~~~~~~l 303 (304)
T cd06236 280 NGFPPKYTITDFEQVGRAIAVAAL 303 (304)
T ss_pred cCCCCCCCHHHHHHHHHHHHHHhc
Confidence 245999999999999988753
No 4
>cd06235 M14_Nna1_like_2 Subgroup of the Peptidase M14-like domain of Nna-1 (Nervous system Nuclear protein induced by Axotomy), also known as ATP/GTP binding protein (AGTPBP-1) and cytosolic carboxypeptidase (CCP), and related proteins. The Peptidase M14 family of metallocarboxypeptidases are zinc-binding carboxypeptidases (CPs) which hydrolyze single, C-terminal amino acids from polypeptide chains, and have a recognition site for the free C-terminal carboxyl group, which is a key determinant of specificity. This eukaryotic subgroup includes the human Nna1/AGTPBP-1 and AGBL -2, -3, -4, and -5, and the mouse Nna1/CCP-1 and CCP -2 through -6. Nna1-like proteins are active metallopeptidases that are thought to act on cytosolic proteins such as alpha-tubulin, to remove a C-terminal tyrosine. Nna1 is widely expressed in the developing and adult nervous systems, including cerebellar Purkinje and granule neurons, miral cells of the olfactory bulb and retinal photoreceptors. Nna1 is also induc
Probab=99.78 E-value=6.4e-20 Score=147.35 Aligned_cols=77 Identities=29% Similarity=0.595 Sum_probs=73.0
Q ss_pred ChhhHHhHcCCCccCCCCeecccccccccceEEEeeeecceeeeeeeccccccccCCc---cccchhHHHHHHHHHHHHH
Q psy3963 1 MLSRLLEQCALSFDPKSSHYKIERSKESTARITIWREYGVVRSYTMESTYCGFDQGSF---KIGTKESMKIVRGLIEFCT 77 (128)
Q Consensus 1 ~~P~lls~~~p~Fs~~~C~F~v~k~Ke~TaRV~~~~~~gi~~syTlE~Sf~G~dlg~~---kf~~kdL~pigk~L~e~l~ 77 (128)
+||++|++.+|.|++.+|+|+++++|++||||++|++++|++|||||+||+|++.++. +|+++|+.++|+++++.|.
T Consensus 178 ~~p~~~~~~~~~f~~~~c~f~~~~~k~~tar~~~~~~~~~~~syTlE~sf~g~~~~~~~~~~~~~~~~~~~G~~~~~al~ 257 (258)
T cd06235 178 LFPKLLSKLCPYFSFSSCSFKVQKDKEGTARVALWRELGIPNSYTLETSFGGYDKGNRAGTHFTIEDLKEIGQDICKALL 257 (258)
T ss_pred HHHHHHHhhCcccCccccccCCCCCCCCcHHHHHHHHcCCceEEEEeeeccccccCCCcCCCCCHHHHHHHHHHHHHHHh
Confidence 4899999999999999999999999999999999999999999999999999998853 5999999999999998874
No 5
>cd06908 M14_AGBL4_like Peptidase M14-like domain of ATP/GTP binding protein_like (AGBL)-4, and related proteins. The Peptidase M14 family of metallocarboxypeptidases are zinc-binding carboxypeptidases (CPs) which hydrolyze single, C-terminal amino acids from polypeptide chains, and have a recognition site for the free C-terminal carboxyl group, which is a key determinant of specificity. This eukaryotic subgroup includes the human AGBL4 and the mouse cytosolic carboxypeptidase (CCP)-6. ATP/GTP binding protein (AGTPBP-1/Nna1)-like proteins are active metallopeptidases that are thought to act on cytosolic proteins such as alpha-tubulin, to remove a C-terminal tyrosine. Mutations in AGTPBP-1/Nna1 cause Purkinje cell degeneration (pcd). AGTPBP-1/Nna1 however does not belong to this subgroup. AGTPBP-1/Nna1-like proteins from the different phyla are highly diverse, but they all contain a unique N-terminal conserved domain right before the CP domain. It has been suggested that this N-terminal
Probab=99.76 E-value=1.5e-19 Score=146.04 Aligned_cols=79 Identities=20% Similarity=0.285 Sum_probs=73.7
Q ss_pred ChhhHHhHcCCCccCCCCeecccccccccceEEEeeeecc-eeeeeeeccccccccCC----ccccchhHHHHHHHHHHH
Q psy3963 1 MLSRLLEQCALSFDPKSSHYKIERSKESTARITIWREYGV-VRSYTMESTYCGFDQGS----FKIGTKESMKIVRGLIEF 75 (128)
Q Consensus 1 ~~P~lls~~~p~Fs~~~C~F~v~k~Ke~TaRV~~~~~~gi-~~syTlE~Sf~G~dlg~----~kf~~kdL~pigk~L~e~ 75 (128)
.||.+|++.+|.|++.+|.|.++++|++||||++|+++|+ ++|||||+||+|++.+. .+|+++|++++|+++++.
T Consensus 177 ~fp~~l~~~~~~F~~~~~~f~~~~~k~gtar~~~~~~~~~~~~s~TlE~sf~g~~~~~~~~~~~f~~~~~~~~G~~~~~~ 256 (261)
T cd06908 177 VFPKLLAQNAEDFSMEHTMFNRDAVKAGTGRRFLGSLLSDNVNCYTLEVSFYGYNLKGTTGITPYTEEGYMRLGRNLART 256 (261)
T ss_pred HHHHHHHHhCHHhcccCCcccCCCCCCChHHHHHHHHhCCCceEEEEeecCCcccCCCCCCccccCHHHHHHHHHHHHHH
Confidence 4899999999999999999999999999999999999995 89999999999999885 359999999999999999
Q ss_pred HHHH
Q psy3963 76 CTRV 79 (128)
Q Consensus 76 l~~l 79 (128)
+.++
T Consensus 257 ~~~~ 260 (261)
T cd06908 257 FLDY 260 (261)
T ss_pred HHhh
Confidence 8753
No 6
>KOG3641|consensus
Probab=99.55 E-value=3e-15 Score=131.21 Aligned_cols=84 Identities=21% Similarity=0.362 Sum_probs=73.2
Q ss_pred cccccceEEEeeeecceeeeeeeccccccccCC-ccccchhHHHHHHHHHHHHHHHhc---CCCeEEEecCCCCCcccee
Q psy3963 25 SKESTARITIWREYGVVRSYTMESTYCGFDQGS-FKIGTKESMKIVRGLIEFCTRVLK---KTPYFYCDFHGHSLKKNIF 100 (128)
Q Consensus 25 ~Ke~TaRV~~~~~~gi~~syTlE~Sf~G~dlg~-~kf~~kdL~pigk~L~e~l~~ll~---~~~~~y~D~HGHSrk~N~F 100 (128)
.+....-|.|.+..||+++ ..+||++|.|+|+ |..+.++++|..++.+++|.++.. ..+++|||+||||+|.|+|
T Consensus 468 e~~vFKI~PMLNPDGV~~G-nyRCSL~G~DLNR~w~tps~~shPsi~~~k~li~~l~~~~~~~p~~Y~DlHgHSqK~n~F 546 (650)
T KOG3641|consen 468 ESYVFKIVPMLNPDGVIVG-NYRCSLMGLDLNRMWSTPSPASHPSIYAVKQLIQQLSNVPHSRPLGYVDLHGHSQKVNHF 546 (650)
T ss_pred hheeEecccccCCCceecc-cceeccccchhhhhcCCCCcccchhHHhHHHHHhhhhcccccCceEeecccccccccceE
Confidence 3444555899999999999 8899999999997 779999999998888888877654 4699999999999999999
Q ss_pred EeccCCCCC
Q psy3963 101 LYGCSSQES 109 (128)
Q Consensus 101 ~yGc~~~~~ 109 (128)
||||...+.
T Consensus 547 vYGnv~~~~ 555 (650)
T KOG3641|consen 547 VYGNVNEER 555 (650)
T ss_pred EecCcCCch
Confidence 999998776
No 7
>KOG3641|consensus
Probab=99.54 E-value=4.2e-15 Score=130.29 Aligned_cols=77 Identities=31% Similarity=0.525 Sum_probs=72.3
Q ss_pred ChhhHHhHcCCC-ccCCCCeecccccccccceEEEeeeecceeeeeeeccccccccCCc---cccchhHHHHHHHHHHHH
Q psy3963 1 MLSRLLEQCALS-FDPKSSHYKIERSKESTARITIWREYGVVRSYTMESTYCGFDQGSF---KIGTKESMKIVRGLIEFC 76 (128)
Q Consensus 1 ~~P~lls~~~p~-Fs~~~C~F~v~k~Ke~TaRV~~~~~~gi~~syTlE~Sf~G~dlg~~---kf~~kdL~pigk~L~e~l 76 (128)
+||++|.+++|. |+|++|.|.++|.||+|+||++| ++|+..+||||++++|.+.+.+ ++++++++++|+..++.|
T Consensus 566 lfpk~L~~~apskF~~SSc~Fs~~k~Ke~t~rv~~w-~ig~~tsytlest~~g~s~g~~~~~~l~t~~le~~~~~~~~tl 644 (650)
T KOG3641|consen 566 LFPKPLCSNAPSKFSFSSCPFSVHKSKEGTLRVSVW-RIGVSTSYTLESTFSGESVGVIGKTLLGTEDLEPCIKTRLQTL 644 (650)
T ss_pred cchhhhhhcCCCccccccCcchhhhhcccccceeee-cccceeeeeEeeccCcceeeeecceeechhHHHHHhHHHhhhh
Confidence 689999999996 99999999999999999999999 6999999999999999998854 499999999999999988
Q ss_pred HH
Q psy3963 77 TR 78 (128)
Q Consensus 77 ~~ 78 (128)
.+
T Consensus 645 l~ 646 (650)
T KOG3641|consen 645 LR 646 (650)
T ss_pred hc
Confidence 65
No 8
>cd06906 M14_Nna1 Peptidase M14-like domain of Nna-1 (Nervous system Nuclear protein induced by Axotomy), also known as ATP/GTP binding protein (AGTPBP-1) and cytosolic carboxypeptidase (CCP), and related proteins. The Peptidase M14 family of metallocarboxypeptidases are zinc-binding carboxypeptidases (CPs) which hydrolyze single, C-terminal amino acids from polypeptide chains, and have a recognition site for the free C-terminal carboxyl group, which is a key determinant of specificity. This eukaryotic subgroup includes the mouse Nna1/CCP-1, and -4 proteins, and the human Nna1/AGTPBP-1 protein. Nna1-like proteins are active metallopeptidases that are thought to act on cytosolic proteins such as alpha-tubulin, to remove a C-terminal tyrosine. Nna1 is widely expressed in the developing and adult nervous systems, including cerebellar Purkinje and granule neurons, miral cells of the olfactory bulb and retinal photoreceptors. Nna1 is also induced in axotomized motor neurons. Mutations in Nna
Probab=99.53 E-value=1.4e-14 Score=118.22 Aligned_cols=78 Identities=29% Similarity=0.628 Sum_probs=63.2
Q ss_pred EEEeeeecceeeeeeeccccccccCC-ccccchhHHHHHHHH---HHHHHHHhcCCCeEEEecCCCCCccceeEeccCCC
Q psy3963 32 ITIWREYGVVRSYTMESTYCGFDQGS-FKIGTKESMKIVRGL---IEFCTRVLKKTPYFYCDFHGHSLKKNIFLYGCSSQ 107 (128)
Q Consensus 32 V~~~~~~gi~~syTlE~Sf~G~dlg~-~kf~~kdL~pigk~L---~e~l~~ll~~~~~~y~D~HGHSrk~N~F~yGc~~~ 107 (128)
|.|-+..|+.++. ..|+..|.|+|+ |..+....+|.+.++ ++++.+ .++++.+|+|+||||+|+|+|+|||...
T Consensus 98 vPmlNPDGvv~Gn-~Rc~~~G~DLNR~w~~p~~~~~P~i~~~k~l~~~l~~-~~~~~~~yiDlHghs~~~~~F~yG~~~~ 175 (278)
T cd06906 98 VPMLNPDGVINGN-HRCSLSGEDLNRQWQSPNPELHPTIYHTKGLLQYLAA-IKRSPLVYCDYHGHSRKKNVFMYGCSIK 175 (278)
T ss_pred EeeecCccceecc-cccCCCCCCCCCCCCCCCcccChHHHHHHHHHHHHHH-hCCCceEEEeecccccccceEEeccCCC
Confidence 9999999999985 689999999997 556666777755544 455443 2567999999999999999999999987
Q ss_pred CCcc
Q psy3963 108 ESWL 111 (128)
Q Consensus 108 ~~~~ 111 (128)
+++.
T Consensus 176 ~~~~ 179 (278)
T cd06906 176 ETVW 179 (278)
T ss_pred cchh
Confidence 7653
No 9
>cd06907 M14_AGBL2-3_like Peptidase M14-like domain of ATP/GTP binding protein_like (AGBL)-2, and related proteins. The Peptidase M14 family of metallocarboxypeptidases are zinc-binding carboxypeptidases (CPs) which hydrolyze single, C-terminal amino acids from polypeptide chains, and have a recognition site for the free C-terminal carboxyl group, which is a key determinant of specificity. This subgroup includes the human AGBL-2, and -3, and the mouse cytosolic carboxypeptidase (CCPs)-2, and -3. ATP/GTP binding protein (AGTPBP-1/Nna1)-like proteins are active metallopeptidases that are thought to act on cytosolic proteins such as alpha-tubulin, to remove a C-terminal tyrosine. Mutations in AGTPBP-1/Nna1 cause Purkinje cell degeneration (pcd). AGTPBP-1/Nna1 however does not belong to this subgroup. AGTPBP-1/Nna1-like proteins from the different phyla are highly diverse, but they all contain a unique N-terminal conserved domain right before the CP domain. It has been suggested that this N
Probab=99.50 E-value=3e-14 Score=115.45 Aligned_cols=79 Identities=28% Similarity=0.539 Sum_probs=68.1
Q ss_pred eEEEeeeecceeeeeeeccccccccCC-ccccchhHHHHHHHHHHHHHHHhc-CCCeEEEecCCCCCccceeEeccCCCC
Q psy3963 31 RITIWREYGVVRSYTMESTYCGFDQGS-FKIGTKESMKIVRGLIEFCTRVLK-KTPYFYCDFHGHSLKKNIFLYGCSSQE 108 (128)
Q Consensus 31 RV~~~~~~gi~~syTlE~Sf~G~dlg~-~kf~~kdL~pigk~L~e~l~~ll~-~~~~~y~D~HGHSrk~N~F~yGc~~~~ 108 (128)
-|.|-+..|+..+.+ .++..|.|+|| |..+.+..+|.++++++.+..+.+ +++.+|+||||||++.|+|+|||....
T Consensus 91 IvPmlNPDGv~~G~~-R~~~~G~DLNR~w~~p~~~~~P~i~~~k~li~~l~~~~~i~~ylDlHghs~~~~~F~yG~~~~~ 169 (261)
T cd06907 91 IVPMLNPDGVIVGNY-RCSLAGRDLNRNYKTPLKDSFPTIWYTKNMVKRLLEEREVILYCDLHGHSRKNNVFMYGCENKL 169 (261)
T ss_pred EEEeecCccccccCC-cCCCcCCCCCcCCCCCCcccCchHHHHHHHHHHHHhcCCeEEEEEeccchhccceEeecCCCCC
Confidence 389999999999955 99999999997 667778899998888888776553 689999999999999999999998766
Q ss_pred Cc
Q psy3963 109 SW 110 (128)
Q Consensus 109 ~~ 110 (128)
.+
T Consensus 170 ~~ 171 (261)
T cd06907 170 NP 171 (261)
T ss_pred CH
Confidence 54
No 10
>cd06236 M14_AGBL5_like Peptidase M14-like domain of ATP/GTP binding protein_like (AGBL)-5, and related proteins. The Peptidase M14 family of metallocarboxypeptidases are zinc-binding carboxypeptidases (CPs) which hydrolyze single, C-terminal amino acids from polypeptide chains, and have a recognition site for the free C-terminal carboxyl group, which is a key determinant of specificity. This eukaryotic subgroup includes the human AGBL5 and the mouse cytosolic carboxypeptidase (CCP)-5. ATP/GTP binding protein (AGTPBP-1/Nna1)-like proteins are active metallopeptidases that are thought to act on cytosolic proteins such as alpha-tubulin, to remove a C-terminal tyrosine. Mutations in AGTPBP-1/Nna1 cause Purkinje cell degeneration (pcd). AGTPBP-1/Nna1 however does not belong to this subgroup. AGTPBP-1/Nna1-like proteins from the different phyla are highly diverse, but they all contain a unique N-terminal conserved domain right before the CP domain. It has been suggested that this N-terminal
Probab=99.45 E-value=1e-13 Score=114.43 Aligned_cols=76 Identities=20% Similarity=0.329 Sum_probs=67.2
Q ss_pred EEEeeeecceeeeeeeccccccccCC-ccccchhHHHHHHHHHHHHHHHh-cCCCeEEEecCCCCCccceeEeccCCCC
Q psy3963 32 ITIWREYGVVRSYTMESTYCGFDQGS-FKIGTKESMKIVRGLIEFCTRVL-KKTPYFYCDFHGHSLKKNIFLYGCSSQE 108 (128)
Q Consensus 32 V~~~~~~gi~~syTlE~Sf~G~dlg~-~kf~~kdL~pigk~L~e~l~~ll-~~~~~~y~D~HGHSrk~N~F~yGc~~~~ 108 (128)
|.|.+..|+..+.+ +++..|.|+|+ |.-+....+|.++++.+++..+. ++++.+|+|+||||+|+|+|+|||...+
T Consensus 114 vPmlNPDGv~~g~~-R~~~~G~DLNR~y~~p~~~~~Pei~aik~~i~~~~~~~~i~~yiDlH~hs~~~~~F~Yg~~~~~ 191 (304)
T cd06236 114 IPMLNPDGVYRGHY-RTDTRGVNLNRVYLNPDPELHPSIYAIKKLILYLHEESRLAFYIDLHAHASKRGCFIYGNALED 191 (304)
T ss_pred EEeEcccccccCcc-ccCCcCCCcCcCCCCCCcccCHHHHHHHHHHHHhhccCCceEEEEecccccccceEeeecCCCh
Confidence 89999999998876 89999999997 56677889999999999998765 4689999999999999999999998643
No 11
>cd03856 M14_Nna1_like Peptidase M14-like domain of Nna-1 (Nervous system Nuclear protein induced by Axotomy), also known as ATP/GTP binding protein (AGTPBP-1) and cytosolic carboxypeptidase (CCP), and related proteins. The Peptidase M14 family of metallocarboxypeptidases are zinc-binding carboxypeptidases (CPs) which hydrolyze single, C-terminal amino acids from polypeptide chains, and have a recognition site for the free C-terminal carboxyl group, which is a key determinant of specificity. This subfamily includes the human AGTPBP-1 and AGBL -2, -3, -4, and -5, and the mouse Nna1/CCP-1 and CCP -2 through -6. Nna1-like proteins are active metallopeptidases that are thought to act on cytosolic proteins such as alpha-tubulin, to remove a C-terminal tyrosine. Nna1 is widely expressed in the developing and adult nervous systems, including cerebellar Purkinje and granule neurons, miral cells of the olfactory bulb and retinal photoreceptors. Nna1 is also induced in axotomized motor neurons. M
Probab=99.37 E-value=1.4e-13 Score=111.42 Aligned_cols=75 Identities=31% Similarity=0.436 Sum_probs=70.3
Q ss_pred ChhhHHhHcCCCccCCCCeeccccccc-----ccceEEEeeeecceeeeeeeccccccccCCc---cccchhHHHHHHHH
Q psy3963 1 MLSRLLEQCALSFDPKSSHYKIERSKE-----STARITIWREYGVVRSYTMESTYCGFDQGSF---KIGTKESMKIVRGL 72 (128)
Q Consensus 1 ~~P~lls~~~p~Fs~~~C~F~v~k~Ke-----~TaRV~~~~~~gi~~syTlE~Sf~G~dlg~~---kf~~kdL~pigk~L 72 (128)
++|.+++..++.|++.+|.|.++++++ +|||+.+|+++||++|||+|+|++|.++++. +|+.+++.++|+.+
T Consensus 186 ~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~gtsr~~~~~~~~i~~syTlE~~~~g~~~~~~~~~~~~~~~~~~~g~~~ 265 (269)
T cd03856 186 IIPKMLSQNAPLFCMFGCSFKVEKSKASDPDRGTGRVVVAKQIKVQHSYTMEVTFNGNDQGNYKGLQYTTQLLPEMGRQF 265 (269)
T ss_pred HHHHHHHhhChhhhhcCCCcCCCcCCcccCCCChHHHHHHHhcCCcEEEEEecCCCCcccCCcCCCCCChhhHHHHHHHH
Confidence 479999999999999999999999999 9999999999999999999999999998864 59999999999998
Q ss_pred HHH
Q psy3963 73 IEF 75 (128)
Q Consensus 73 ~e~ 75 (128)
++.
T Consensus 266 ~~~ 268 (269)
T cd03856 266 AVA 268 (269)
T ss_pred Hhh
Confidence 875
No 12
>cd06235 M14_Nna1_like_2 Subgroup of the Peptidase M14-like domain of Nna-1 (Nervous system Nuclear protein induced by Axotomy), also known as ATP/GTP binding protein (AGTPBP-1) and cytosolic carboxypeptidase (CCP), and related proteins. The Peptidase M14 family of metallocarboxypeptidases are zinc-binding carboxypeptidases (CPs) which hydrolyze single, C-terminal amino acids from polypeptide chains, and have a recognition site for the free C-terminal carboxyl group, which is a key determinant of specificity. This eukaryotic subgroup includes the human Nna1/AGTPBP-1 and AGBL -2, -3, -4, and -5, and the mouse Nna1/CCP-1 and CCP -2 through -6. Nna1-like proteins are active metallopeptidases that are thought to act on cytosolic proteins such as alpha-tubulin, to remove a C-terminal tyrosine. Nna1 is widely expressed in the developing and adult nervous systems, including cerebellar Purkinje and granule neurons, miral cells of the olfactory bulb and retinal photoreceptors. Nna1 is also induc
Probab=99.33 E-value=2e-12 Score=104.04 Aligned_cols=79 Identities=27% Similarity=0.475 Sum_probs=68.5
Q ss_pred EEEeeeecceeeeeeeccccccccCC-ccccchhHHHHHHHHHHHHHHHhc-CCCeEEEecCCCCCccceeEeccCCCCC
Q psy3963 32 ITIWREYGVVRSYTMESTYCGFDQGS-FKIGTKESMKIVRGLIEFCTRVLK-KTPYFYCDFHGHSLKKNIFLYGCSSQES 109 (128)
Q Consensus 32 V~~~~~~gi~~syTlE~Sf~G~dlg~-~kf~~kdL~pigk~L~e~l~~ll~-~~~~~y~D~HGHSrk~N~F~yGc~~~~~ 109 (128)
|.|.+..|+..+++ +++..|.|+|+ |..+....+|.++++++.+.++.+ +++.+|+|+||||++.|+|+|||....+
T Consensus 91 iPm~NPDG~~~g~~-R~n~~GvDLNR~w~~p~~~~~PE~~~~~~~i~~~~~~~~~~~~iDlH~~s~~~~~F~yg~~~~~~ 169 (258)
T cd06235 91 IPMLNPDGVIHGNY-RCSLSGIDLNRQWKNPDKKLHPEIYHVKQLIKKLSQERNIALFIDLHGHSRKKNSFMYGCSNSDD 169 (258)
T ss_pred EccccccceeecCC-cCCCCCCCcCCCCCCCCcccCcHHHHHHHHHHHHhccCCceEEEecccccccCCeeeecCCCCCc
Confidence 88999999987654 88999999997 556666889999999999888743 6899999999999999999999998877
Q ss_pred cc
Q psy3963 110 WL 111 (128)
Q Consensus 110 ~~ 111 (128)
|.
T Consensus 170 ~~ 171 (258)
T cd06235 170 PL 171 (258)
T ss_pred HH
Confidence 74
No 13
>cd06908 M14_AGBL4_like Peptidase M14-like domain of ATP/GTP binding protein_like (AGBL)-4, and related proteins. The Peptidase M14 family of metallocarboxypeptidases are zinc-binding carboxypeptidases (CPs) which hydrolyze single, C-terminal amino acids from polypeptide chains, and have a recognition site for the free C-terminal carboxyl group, which is a key determinant of specificity. This eukaryotic subgroup includes the human AGBL4 and the mouse cytosolic carboxypeptidase (CCP)-6. ATP/GTP binding protein (AGTPBP-1/Nna1)-like proteins are active metallopeptidases that are thought to act on cytosolic proteins such as alpha-tubulin, to remove a C-terminal tyrosine. Mutations in AGTPBP-1/Nna1 cause Purkinje cell degeneration (pcd). AGTPBP-1/Nna1 however does not belong to this subgroup. AGTPBP-1/Nna1-like proteins from the different phyla are highly diverse, but they all contain a unique N-terminal conserved domain right before the CP domain. It has been suggested that this N-terminal
Probab=99.28 E-value=5.2e-12 Score=102.25 Aligned_cols=76 Identities=18% Similarity=0.315 Sum_probs=66.8
Q ss_pred EEEeeeecceeeeeeeccccccccCC-ccccchhHHHHHHHHHHHHHHHhc---CCCeEEEecCCCCCccceeEeccCCC
Q psy3963 32 ITIWREYGVVRSYTMESTYCGFDQGS-FKIGTKESMKIVRGLIEFCTRVLK---KTPYFYCDFHGHSLKKNIFLYGCSSQ 107 (128)
Q Consensus 32 V~~~~~~gi~~syTlE~Sf~G~dlg~-~kf~~kdL~pigk~L~e~l~~ll~---~~~~~y~D~HGHSrk~N~F~yGc~~~ 107 (128)
|.|.+..|+..+ ..+++..|.|+|| |..+....+|.++++.+++.++.+ +++.+|+|+||||++.|+|+|||..+
T Consensus 89 vP~~NPDGv~~g-n~R~~~~G~DLNR~w~~p~~~~~PEv~av~~~i~~~~~~~~~~i~~~lD~H~hs~~~~~F~yG~~~~ 167 (261)
T cd06908 89 VPMLNPDGVFLG-NYRCSLMGHDLNRHWHDPSPWAHPTLHAVKNLLKELDNDSTTQLDFYIDLHAHSSLMNCFIYGNTYD 167 (261)
T ss_pred EeeecCcceeec-CCcCcCcCcCCCCCCCCCCcccChHHHHHHHHHHHhhhccccCeeEEEEeeccccccceeeccccCC
Confidence 999999999988 4589999999997 557777889999999999988653 58999999999999999999999865
Q ss_pred C
Q psy3963 108 E 108 (128)
Q Consensus 108 ~ 108 (128)
.
T Consensus 168 ~ 168 (261)
T cd06908 168 D 168 (261)
T ss_pred c
Confidence 4
No 14
>cd03856 M14_Nna1_like Peptidase M14-like domain of Nna-1 (Nervous system Nuclear protein induced by Axotomy), also known as ATP/GTP binding protein (AGTPBP-1) and cytosolic carboxypeptidase (CCP), and related proteins. The Peptidase M14 family of metallocarboxypeptidases are zinc-binding carboxypeptidases (CPs) which hydrolyze single, C-terminal amino acids from polypeptide chains, and have a recognition site for the free C-terminal carboxyl group, which is a key determinant of specificity. This subfamily includes the human AGTPBP-1 and AGBL -2, -3, -4, and -5, and the mouse Nna1/CCP-1 and CCP -2 through -6. Nna1-like proteins are active metallopeptidases that are thought to act on cytosolic proteins such as alpha-tubulin, to remove a C-terminal tyrosine. Nna1 is widely expressed in the developing and adult nervous systems, including cerebellar Purkinje and granule neurons, miral cells of the olfactory bulb and retinal photoreceptors. Nna1 is also induced in axotomized motor neurons. M
Probab=99.04 E-value=3.2e-10 Score=91.85 Aligned_cols=76 Identities=30% Similarity=0.592 Sum_probs=64.3
Q ss_pred EEEeeeecceeeeeeeccccccccCC-ccccchhHHHHHHHHHHHHHHHh--cCCCeEEEecCCCCCccceeEeccCCCC
Q psy3963 32 ITIWREYGVVRSYTMESTYCGFDQGS-FKIGTKESMKIVRGLIEFCTRVL--KKTPYFYCDFHGHSLKKNIFLYGCSSQE 108 (128)
Q Consensus 32 V~~~~~~gi~~syTlE~Sf~G~dlg~-~kf~~kdL~pigk~L~e~l~~ll--~~~~~~y~D~HGHSrk~N~F~yGc~~~~ 108 (128)
|.+.+..|+..+. .+++..|.|+|+ |.-+....+|.++++.+.+.++. +++|.+|+|+||||+|.|+|+|||...+
T Consensus 99 vP~~NPDG~~~g~-~R~n~~G~DLNR~~~~p~~~~~pE~~~~~~~~~~~~~~~~~~~~~idlH~~~~~~~~f~yG~~~~~ 177 (269)
T cd03856 99 VPMLNPDGVIRGN-YRCSLSGVDLNRQWQNPSPDLHPEIYLVKGLMLYLAAGKRGVLFYCDFHGHSRKKNVFMYGCSFKD 177 (269)
T ss_pred EeeeCCccccccC-CcCCCCCCCcCCCCCCCCCCCCCCHHHHHHHHHHHHhccCCceEEEEecCCCccCceEeecCCCch
Confidence 8899999998763 488899999997 55666678899999999988764 4589999999999999999999998644
No 15
>cd06234 M14_Nna1_like_1 A bacterial subgroup of the Peptidase M14-like domain of Nna-1 (Nervous system Nuclear protein induced by Axotomy), also known as ATP/GTP binding protein (AGTPBP-1) and cytosolic carboxypeptidase (CCP)-like proteins. The Peptidase M14 family of metallocarboxypeptidases are zinc-binding carboxypeptidases (CPs) which hydrolyze single, C-terminal amino acids from polypeptide chains, and have a recognition site for the free C-terminal carboxyl group, which is a key determinant of specificity. Nna1-like proteins are active metallopeptidases that are thought to act on cytosolic proteins (such as alpha-tubulin in eukaryotes) to remove a C-terminal tyrosine. Nna1-like proteins from the different phyla are highly diverse, but they all contain a unique N-terminal conserved domain right before the CP domain. It has been suggested that this N-terminal domain might act as a folding domain.
Probab=98.27 E-value=1.7e-06 Score=70.23 Aligned_cols=75 Identities=16% Similarity=0.218 Sum_probs=61.9
Q ss_pred EEEeeeecceeeeeeeccccccccCC-ccccchhHHHHHHHHHHHHHHHhcCCCeEEEecCCCCCccceeEeccCCCCCc
Q psy3963 32 ITIWREYGVVRSYTMESTYCGFDQGS-FKIGTKESMKIVRGLIEFCTRVLKKTPYFYCDFHGHSLKKNIFLYGCSSQESW 110 (128)
Q Consensus 32 V~~~~~~gi~~syTlE~Sf~G~dlg~-~kf~~kdL~pigk~L~e~l~~ll~~~~~~y~D~HGHSrk~N~F~yGc~~~~~~ 110 (128)
|.+-+..|...+.| +++..|.|+|| |..+.....|.++++.+.+.+ .+|.+|+|+|||+...++|.|||.....|
T Consensus 102 vP~~NPDG~~~g~~-R~n~~GvDLNRnw~~p~~~s~PEt~av~~~~~~---~~~~~~ld~Hs~~~~py~f~~g~~~~p~~ 177 (263)
T cd06234 102 VPNMNPDGSARGHL-RTNAAGANLNREWAEPSAERSPEVFAVRQRMEE---TGVDFFLDVHGDEALPYNFIAGSEGVPGW 177 (263)
T ss_pred EeeecchhhhhcCC-ccCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHh---cCCeEEEEeCCCCCCCccEeccCCCCCCc
Confidence 77888888887754 67889999997 445556678999999988764 57999999999999999999999865545
No 16
>cd06239 Peptidase_M14-like_1_2 Peptidase M14-like domain of a functionally uncharacterized subgroup of the M14 family of metallocarboxypeptidases (MCPs). The M14 family are zinc-binding carboxypeptidases (CPs) which hydrolyze single, C-terminal amino acids from polypeptide chains, and have a recognition site for the free C-terminal carboxyl group, which is a key determinant of specificity. Two major subfamilies of the M14 family, defined based on sequence and structural homology, are the A/B and N/E subfamilies. Enzymes belonging to the A/B subfamily are normally synthesized as inactive precursors containing preceding signal peptide, followed by an N-terminal pro-region linked to the enzyme; these proenzymes are called procarboxypeptidases. The A/B enzymes can be further divided based on their substrate specificity; Carboxypeptidase A-like (CPA-like) enzymes favor hydrophobic residues while carboxypeptidase B-like (CPB-like) enzymes only cleave the basic residues lysine or arginine. Th
Probab=94.40 E-value=0.1 Score=41.72 Aligned_cols=67 Identities=21% Similarity=0.218 Sum_probs=46.7
Q ss_pred EEEeeeecceeeeeeeccccccccCCccccchhHHHHHHHHHHHHHHHhcCCCeEEEecCCCCCccceeEeccCCCCCc
Q psy3963 32 ITIWREYGVVRSYTMESTYCGFDQGSFKIGTKESMKIVRGLIEFCTRVLKKTPYFYCDFHGHSLKKNIFLYGCSSQESW 110 (128)
Q Consensus 32 V~~~~~~gi~~syTlE~Sf~G~dlg~~kf~~kdL~pigk~L~e~l~~ll~~~~~~y~D~HGHSrk~N~F~yGc~~~~~~ 110 (128)
|.+.+..|... +| +.+-.|.|+|+-. + ....|.++.+.+.+.+. ++-++.|+|+++.- |||..+++.
T Consensus 80 iP~lNPDG~~~-~~-R~N~~GvDLNRdf-~-~~s~PEtr~l~~~~~~~---~pd~~iDlH~~~~~-----y~~~~~~~~ 146 (231)
T cd06239 80 IPMLNPDGAEA-YT-RVNANGVDLNRDA-Q-DLSQPESRLLRDVYDGF---QPDFCFNLHDQRTI-----YGVENTGKP 146 (231)
T ss_pred EeccCccHHHH-cc-cCCCcCCcCCCCC-C-CCChHHHHHHHHHHHhc---CCEEEEEECCCCCc-----cCCCCCCCc
Confidence 55677777754 23 5667899999622 2 12367777777766543 69999999999975 999876654
No 17
>cd00596 Peptidase_M14_like The M14 family of metallocarboxypeptidases (MCPs) are zinc-binding carboxypeptidases (CPs) which hydrolyze single, C-terminal amino acids from polypeptide chains, and have a recognition site for the free C-terminal carboxyl group, which is a key determinant of specificity. Two major subfamilies of the M14 family, defined based on sequence and structural homology, are the A/B and N/E subfamilies. Enzymes belonging to the A/B subfamily are normally synthesized as inactive precursors containing preceding signal peptide, followed by an N-terminal pro-region linked to the enzyme; these proenzymes are called procarboxypeptidases. The A/B enzymes can be further divided based on their substrate specificity; Carboxypeptidase A-like (CPA-like) enzymes favor hydrophobic residues while carboxypeptidase B-like (CPB-like) enzymes only cleave the basic residues lysine or arginine. The A forms have slightly different specificities, with Carboxypeptidase A1 (CPA1) preferring
Probab=92.79 E-value=0.39 Score=36.08 Aligned_cols=67 Identities=21% Similarity=0.200 Sum_probs=45.0
Q ss_pred eeeecceeeeeeeccccccccCCccccch-----hHHHHHHHHHHHHHHHhcCCCeEEEecCCCCCccceeEeccCCCCC
Q psy3963 35 WREYGVVRSYTMESTYCGFDQGSFKIGTK-----ESMKIVRGLIEFCTRVLKKTPYFYCDFHGHSLKKNIFLYGCSSQES 109 (128)
Q Consensus 35 ~~~~gi~~syTlE~Sf~G~dlg~~kf~~k-----dL~pigk~L~e~l~~ll~~~~~~y~D~HGHSrk~N~F~yGc~~~~~ 109 (128)
-+..|...+ .-..+-.|.|+|+ .|+.. ...+.++++.+.+.+ .++.+++|+|+.+ +.++|.+.....
T Consensus 47 ~NPdG~~~~-~~R~n~~g~DlNR-~f~~~~~~~~~~~~e~~~~~~~~~~---~~~~~~idlH~~~---~~~~~p~~~~~~ 118 (196)
T cd00596 47 LNPDGYEAV-NWRKNANGVDLNR-NFPGLWGKGPLSEPETRALAELIQQ---RKVDLYIDLHSGS---LGVLYPYSHSDT 118 (196)
T ss_pred cccccceee-eEEeCCCCcCccC-CCCCcccCCCCCcHHHHHHHHHHHh---CCceEEEEEecCC---ceEEecCCCCCC
Confidence 444555442 1233445999985 33332 357888888887654 3799999999998 788888876543
No 18
>cd06234 M14_Nna1_like_1 A bacterial subgroup of the Peptidase M14-like domain of Nna-1 (Nervous system Nuclear protein induced by Axotomy), also known as ATP/GTP binding protein (AGTPBP-1) and cytosolic carboxypeptidase (CCP)-like proteins. The Peptidase M14 family of metallocarboxypeptidases are zinc-binding carboxypeptidases (CPs) which hydrolyze single, C-terminal amino acids from polypeptide chains, and have a recognition site for the free C-terminal carboxyl group, which is a key determinant of specificity. Nna1-like proteins are active metallopeptidases that are thought to act on cytosolic proteins (such as alpha-tubulin in eukaryotes) to remove a C-terminal tyrosine. Nna1-like proteins from the different phyla are highly diverse, but they all contain a unique N-terminal conserved domain right before the CP domain. It has been suggested that this N-terminal domain might act as a folding domain.
Probab=92.47 E-value=0.09 Score=42.79 Aligned_cols=66 Identities=14% Similarity=0.120 Sum_probs=47.5
Q ss_pred hhhHHhHcCCCccCCCCeecccccccccceEEEe-----eeecceeeeeeeccccccccCCcc---ccchhHHHHHHH
Q psy3963 2 LSRLLEQCALSFDPKSSHYKIERSKESTARITIW-----REYGVVRSYTMESTYCGFDQGSFK---IGTKESMKIVRG 71 (128)
Q Consensus 2 ~P~lls~~~p~Fs~~~C~F~v~k~Ke~TaRV~~~-----~~~gi~~syTlE~Sf~G~dlg~~k---f~~kdL~pigk~ 71 (128)
|+..|.+.+|.|. ..|..++.+.+.|+..+- .+++ ..|||||.+|-|.+.++-. .+.+-....|..
T Consensus 188 ~~~al~~~~~~f~---~~~~y~~~~~g~~~~~~a~~~~~~~~~-~~s~TlEmpf~~~~~~p~~~~gw~~~r~~~lg~~ 261 (263)
T cd06234 188 FKAALLRASPDFQ---TEHGYPKDAPGQANLTIATNWVAHRFD-CLSMTLEMPFKDNADLPDPEVGWSPERSKALGAD 261 (263)
T ss_pred HHHHHHHhCcccc---cccccCCCCCCchhHHHHHHHHHhhcC-ceEEEEEeecCCccCCCCcccCcCHHHHHHHHHh
Confidence 5778999999985 457777888777665443 4788 5999999999998776522 445555555543
No 19
>PF00246 Peptidase_M14: Zinc carboxypeptidase This is family M14 in the peptidase classification. ; InterPro: IPR000834 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Metalloproteases are the most diverse of the four main types of protease, with more than 50 families identified to date. In these enzymes, a divalent cation, usually zinc, activates the water molecule. The metal ion is held in place by amino acid ligands, usually three in number. The known metal ligands are His, Glu, Asp or Lys and at least one other residue is required for catalysis, which may play an electrophillic role. Of the known metalloproteases, around half contain an HEXXH motif, which has been shown in crystallographic studies to form part of the metal-binding site []. The HEXXH motif is relatively common, but can be more stringently defined for metalloproteases as 'abXHEbbHbc', where 'a' is most often valine or threonine and forms part of the S1' subsite in thermolysin and neprilysin, 'b' is an uncharged residue, and 'c' a hydrophobic residue. Proline is never found in this site, possibly because it would break the helical structure adopted by this motif in metalloproteases []. This group of sequences contain a diverse range of gene families, which include metallopeptidases belonging to MEROPS peptidase family M14 (carboxypeptidase A, clan MC), subfamilies M14A and M14B. The carboxypeptidase A family can be divided into two subfamilies: carboxypeptidase H (regulatory) and carboxypeptidase A (digestive) []. Members of the H family have longer C-termini than those of family A [], and carboxypeptidase M (a member of the H family) is bound to the membrane by a glycosylphosphatidylinositol anchor, unlike the majority of the M14 family, which are soluble []. The zinc ligands have been determined as two histidines and a glutamate, and the catalytic residue has been identified as a C-terminal glutamate, but these do not form the characteristic metalloprotease HEXXH motif [, ]. Members of the carboxypeptidase A family are synthesised as inactive molecules with propeptides that must be cleaved to activate the enzyme. Structural studies of carboxypeptidases A and B reveal the propeptide to exist as a globular domain, followed by an extended alpha-helix; this shields the catalytic site, without specifically binding to it, while the substrate-binding site is blocked by making specific contacts [, ]. Other examples of protein families in this entry include: Intron maturase Putative mitochondrial processing peptidase alpha subunit Superoxide dismutase [Mn] (1.15.1.1 from EC) Asparagine synthetase [glutamine-hydrolysing] 3 (6.3.5.4 from EC) Glucose-6-phosphate isomerase (5.3.1.9 from EC) ; GO: 0004181 metallocarboxypeptidase activity, 0008270 zinc ion binding, 0006508 proteolysis; PDB: 3DGV_A 3OSL_C 3D4U_A 2NSM_A 1QMU_A 1H8L_A 2PJ2_A 2PJ9_A 1ZG8_A 1Z5R_A ....
Probab=89.50 E-value=0.34 Score=38.50 Aligned_cols=38 Identities=29% Similarity=0.384 Sum_probs=30.9
Q ss_pred HHHHHHHHHHHHHHHhcCCCeEEEecCCCCCccceeEeccCC
Q psy3963 65 SMKIVRGLIEFCTRVLKKTPYFYCDFHGHSLKKNIFLYGCSS 106 (128)
Q Consensus 65 L~pigk~L~e~l~~ll~~~~~~y~D~HGHSrk~N~F~yGc~~ 106 (128)
..|.++++.+.+.+ .++.+++|+|+++...+ +-||...
T Consensus 153 sepEt~al~~~~~~---~~~~~~id~H~~~~~~~-~p~~~~~ 190 (279)
T PF00246_consen 153 SEPETRALRNLIQD---WNPDFFIDFHSGGNAIL-YPYGYSY 190 (279)
T ss_dssp TSHHHHHHHHHHHH---TTEEEEEEEEESSSEEE-ESESSSS
T ss_pred hhhHHHHHHHHHhh---cceeEEEecccccccee-eeccccc
Confidence 47899998887654 79999999999998777 7787644
No 20
>cd06237 M14_Nna1_like_3 A bacterial subgroup of the Peptidase M14-like domain of Nna-1 (Nervous system Nuclear protein induced by Axotomy), also known as ATP/GTP binding protein (AGTPBP-1) and cytosolic carboxypeptidase (CCP),-like proteins. The Peptidase M14 family of metallocarboxypeptidases are zinc-binding carboxypeptidases (CPs) which hydrolyze single, C-terminal amino acids from polypeptide chains, and have a recognition site for the free C-terminal carboxyl group, which is a key determinant of specificity. Nna1-like proteins are active metallopeptidases that are thought to act on cytosolic proteins (such as alpha-tubulin in eukaryotes) to remove a C-terminal tyrosine. Nna1-like proteins from the different phyla are highly diverse, but they all contain a unique N-terminal conserved domain right before the CP domain. It has been suggested that this N-terminal domain might act as a folding domain.
Probab=89.18 E-value=1.4 Score=35.33 Aligned_cols=68 Identities=18% Similarity=0.173 Sum_probs=47.5
Q ss_pred EEEeeeecceeeeeeeccccccccCCccccchhHHHHHHHHHHHHHHHhc--CCCeEEEecCCCCCccceeEeccC
Q psy3963 32 ITIWREYGVVRSYTMESTYCGFDQGSFKIGTKESMKIVRGLIEFCTRVLK--KTPYFYCDFHGHSLKKNIFLYGCS 105 (128)
Q Consensus 32 V~~~~~~gi~~syTlE~Sf~G~dlg~~kf~~kdL~pigk~L~e~l~~ll~--~~~~~y~D~HGHSrk~N~F~yGc~ 105 (128)
|.+.+..|+..+. -..+-.|.|+|+-.. ....|.++++.+++.++.. .++.++.|+|..+. . ++|+..
T Consensus 97 vP~~NPDG~~~~~-wR~N~~GvDLNRnw~--~~sepEt~a~~~~~~~~~~~~~~~~~~id~Hs~~~--~-i~~~~~ 166 (244)
T cd06237 97 VPNMNPDGVDLGH-WRHNANGIDLNRDWS--NFNQPETRAIRDYLVRLVKEGGKIVFALDFHSTWH--D-VFYTMP 166 (244)
T ss_pred EEeeCcchhhcCC-ccCCCCCcCCCCCCC--CCCCHHHHHHHHHHHHHhccCCCEEEEEEeccCCc--c-eEecCC
Confidence 6778888887652 367779999996321 1235778888888876543 48999999986543 3 667763
No 21
>cd06248 M14_CPA_CPB_like Peptidase M14 Carboxypeptidase A/B-like subfamily: This is one of two main M14 carboxypeptidase subfamilies, defined by sequence and structural homology, the other being N/E. Carboxypeptidases (CPs) hydrolyze single, C-terminal amino acids from polypeptide chains. They have a recognition site for the free C-terminal carboxyl group, which is a key determinant of specificity. Majority of the proteins in this subfamily have not been characterized as yet. The A/B enzymes are normally synthesized as inactive precursors containing preceding signal peptide, followed by a globular N-terminal pro-region linked to the enzyme; the proenzymes are called procarboxypeptidases. These enzymes exhibit distinct substrate specificity pattern; Carboxypeptidase A-like (CPA-like) enzymes favor hydrophobic residues while carboxypeptidase B-like (CPB-like) enzymes only cleave the basic residues lysine or arginine. There are nine members in the A/B family: CPA1, CPA2, CPA3, CPA4, CPA5,
Probab=88.85 E-value=1.2 Score=36.64 Aligned_cols=40 Identities=20% Similarity=0.321 Sum_probs=30.6
Q ss_pred hHHHHHHHHHHHHHHHhc-CCCeEEEecCCCCCccceeEeccCC
Q psy3963 64 ESMKIVRGLIEFCTRVLK-KTPYFYCDFHGHSLKKNIFLYGCSS 106 (128)
Q Consensus 64 dL~pigk~L~e~l~~ll~-~~~~~y~D~HGHSrk~N~F~yGc~~ 106 (128)
-.+|.++++.+++.++.. +++.+|.|+|+++ ++++|-...
T Consensus 166 ~sEpEt~av~~~~~~~~~~~~~~~~l~~Hs~~---~~i~~P~~~ 206 (304)
T cd06248 166 GDAPEAKALAAFLNKLAEGQGIVGYIDWHSYS---QLILYPYGY 206 (304)
T ss_pred CccHHHHHHHHHHHhccccCceEEEEEeccCc---ceEEecCcC
Confidence 457899999999887543 5799999999988 466665543
No 22
>smart00631 Zn_pept Zn_pept.
Probab=88.23 E-value=1.2 Score=35.88 Aligned_cols=53 Identities=23% Similarity=0.347 Sum_probs=36.0
Q ss_pred cccccccCC-ccc--cc-------------hhHHHHHHHHHHHHHHHhcCCCeEEEecCCCCCccceeEeccCC
Q psy3963 49 TYCGFDQGS-FKI--GT-------------KESMKIVRGLIEFCTRVLKKTPYFYCDFHGHSLKKNIFLYGCSS 106 (128)
Q Consensus 49 Sf~G~dlg~-~kf--~~-------------kdL~pigk~L~e~l~~ll~~~~~~y~D~HGHSrk~N~F~yGc~~ 106 (128)
.-.|.|+|+ +.. .. .-.+|.++++.+.+.+. .++.+++|+|+++ +.++|+...
T Consensus 125 ~~~GvDLNRnf~~~w~~~~~p~~~~y~G~~~~sepEt~ai~~~~~~~--~~~~~~id~Hs~~---~~i~~p~~~ 193 (277)
T smart00631 125 NCRGVDLNRNFPFHWGKTGNPCSETYAGPSPFSEPETKAVRDFIRSN--RRFVLYIDLHSYS---QLILYPYGY 193 (277)
T ss_pred CCcCcccCCCCCCCCCCCCCCCCCCcCCCCCCCcHHHHHHHHHHHhc--CCeeEEEEeccCC---cEEEecCcC
Confidence 568999995 221 00 13467889988887653 2899999999996 455666443
No 23
>cd03860 M14_CP_A-B_like The Peptidase M14 Carboxypeptidase (CP) A/B subfamily is one of two main M14 CP subfamilies defined by sequence and structural homology, the other being the N/E subfamily. CPs hydrolyze single, C-terminal amino acids from polypeptide chains. They have a recognition site for the free C-terminal carboxyl group, which is a key determinant of specificity. Enzymes belonging to the A/B subfamily are normally synthesized as inactive precursors containing preceding signal peptide, followed by a globular N-terminal pro-region linked to the enzyme; these proenzymes are called procarboxypeptidases. The A/B enzymes can be further divided based on their substrate specificity; Carboxypeptidase A-like (CPA-like) enzymes favor hydrophobic residues while carboxypeptidase B-like (CPB-like) enzymes only cleave the basic residues lysine or arginine. There are nine members in the A/B family: CPA1, CPA2, CPA3, CPA4, CPA5, CPA6, CPB, CPO and CPU. CPA1, CPA2 and CPB are produced by the
Probab=83.87 E-value=2.1 Score=34.76 Aligned_cols=36 Identities=19% Similarity=0.293 Sum_probs=27.2
Q ss_pred HHHHHHHHHHHHHHHhcCCCeEEEecCCCCCccceeEecc
Q psy3963 65 SMKIVRGLIEFCTRVLKKTPYFYCDFHGHSLKKNIFLYGC 104 (128)
Q Consensus 65 L~pigk~L~e~l~~ll~~~~~~y~D~HGHSrk~N~F~yGc 104 (128)
.+|.++++.+.+.+. ..++.+++|+|+++ ++++|..
T Consensus 160 sepEt~al~~~~~~~-~~~~~~~ld~Hs~~---~~i~~P~ 195 (294)
T cd03860 160 SEPETRAVRDFLLSL-RGRIKAYLSLHSYG---QLILYPW 195 (294)
T ss_pred chHHHHHHHHHHHhc-cccEEEEEEeccCC---ceEEcCC
Confidence 468899988887653 24799999999998 4666554
No 24
>cd06247 M14_CPO Peptidase M14 carboxypeptidase (CP) O (CPO, also known as metallocarboxypeptidase C; EC 3.4.17.) belongs to the carboxypeptidase A/B subfamily of the M14 family of metallocarboxypeptidases (MCPs). The M14 family are zinc-binding CPs which hydrolyze single, C-terminal amino acids from polypeptide chains, and have a recognition site for the free C-terminal carboxyl group, which is a key determinant of specificity. CPO has not been well characterized as yet, and little is known about it. Based on modeling studies, CPO has been suggested to have specificity for acidic residues rather than aliphatic/aromatic residues as in A-like enzymes or basic residues as in B-like enzymes. It remains to be demonstrated that CPO is functional as an MCP.
Probab=82.58 E-value=5.4 Score=32.99 Aligned_cols=39 Identities=13% Similarity=0.148 Sum_probs=29.6
Q ss_pred HHHHHHHHHHHHHHHhcCCCeEEEecCCCCCccceeEeccCCC
Q psy3963 65 SMKIVRGLIEFCTRVLKKTPYFYCDFHGHSLKKNIFLYGCSSQ 107 (128)
Q Consensus 65 L~pigk~L~e~l~~ll~~~~~~y~D~HGHSrk~N~F~yGc~~~ 107 (128)
.+|.++++.+++.+. +..+.+|.|+|+.+ +.++|....+
T Consensus 165 SEpEt~ai~~~~~~~-~~~i~~~l~~Hsyg---~~i~~P~g~~ 203 (298)
T cd06247 165 SEPETKAVARLIESK-KSDILCYLTIHSYG---QLILLPYGYT 203 (298)
T ss_pred CcHHHHHHHHHHHhc-CcceEEEEEeccCC---CeEEeCCcCC
Confidence 468999999988763 44688999999877 6777766544
No 25
>cd03858 M14_CP_N-E_like Carboxypeptidase (CP) N/E-like subfamily of the M14 family of metallocarboxypeptidases (MCPs). The M14 family are zinc-binding CPs which hydrolyze single, C-terminal amino acids from polypeptide chains, and have a recognition site for the free C-terminal carboxyl group, which is a key determinant of specificity. The N/E subfamily includes eight members, of which five (CPN, CPE, CPM, CPD, CPZ) are considered enzymatically active, while the other three are non-active (CPX1, PCX2, ACLP/AEBP1) and lack the critical active site and substrate-binding residues considered necessary for CP activity. These non-active members may function as binding proteins or display catalytic activity towards other substrates. Unlike the A/B CP subfamily, enzymes belonging to the N/E subfamily are not produced as inactive precursors that require proteolysis to produce the active form; rather, they rely on their substrate specificity and subcellular compartmentalization to prevent inappr
Probab=81.81 E-value=1.6 Score=36.67 Aligned_cols=51 Identities=14% Similarity=0.202 Sum_probs=34.5
Q ss_pred eccccccccCC-cc--cc-------chhHHHHHHHHHHHHHHHhcCCCeEEEecCCCCCccceeEec
Q psy3963 47 ESTYCGFDQGS-FK--IG-------TKESMKIVRGLIEFCTRVLKKTPYFYCDFHGHSLKKNIFLYG 103 (128)
Q Consensus 47 E~Sf~G~dlg~-~k--f~-------~kdL~pigk~L~e~l~~ll~~~~~~y~D~HGHSrk~N~F~yG 103 (128)
++.-.|.|+|+ +. .. ..-.+|.++++.+++.+ .++.++.|+|+.+. .++|.
T Consensus 124 R~n~~GvDLNRnf~~~~~~~~~~G~~~~sepEt~al~~~~~~---~~~~~~i~~Hs~~~---~~~yp 184 (374)
T cd03858 124 RYNANGVDLNRNFPDLFFTNYRSSDNGPRQPETKAVMNWIKS---IPFVLSANLHGGAL---VANYP 184 (374)
T ss_pred CCCCcceecccCCCcccccccccCCCcccCHHHHHHHHHHhh---CCceEEEEccCCce---EEEcc
Confidence 34458999995 22 21 11257888988887764 48999999999873 44543
No 26
>cd06244 Peptidase_M14-like_1_7 Peptidase M14-like domain of a functionally uncharacterized subgroup of the M14 family of metallocarboxypeptidases (MCPs). The M14 family are zinc-binding carboxypeptidases (CPs) which hydrolyze single, C-terminal amino acids from polypeptide chains, and have a recognition site for the free C-terminal carboxyl group, which is a key determinant of specificity. Two major subfamilies of the M14 family, defined based on sequence and structural homology, are the A/B and N/E subfamilies. Enzymes belonging to the A/B subfamily are normally synthesized as inactive precursors containing preceding signal peptide, followed by an N-terminal pro-region linked to the enzyme; these proenzymes are called procarboxypeptidases. The A/B enzymes can be further divided based on their substrate specificity; Carboxypeptidase A-like (CPA-like) enzymes favor hydrophobic residues while carboxypeptidase B-like (CPB-like) enzymes only cleave the basic residues lysine or arginine. Th
Probab=81.17 E-value=5.8 Score=32.61 Aligned_cols=66 Identities=15% Similarity=0.239 Sum_probs=41.8
Q ss_pred EEEeeeecceeeeeeeccccccccCCccccchhHHHHHHHHHHHHHHHhcCCCeEEEecCCCCCccceeEeccCC
Q psy3963 32 ITIWREYGVVRSYTMESTYCGFDQGSFKIGTKESMKIVRGLIEFCTRVLKKTPYFYCDFHGHSLKKNIFLYGCSS 106 (128)
Q Consensus 32 V~~~~~~gi~~syTlE~Sf~G~dlg~~kf~~kdL~pigk~L~e~l~~ll~~~~~~y~D~HGHSrk~N~F~yGc~~ 106 (128)
+.+-+..|... .-+.+-.|.|+||-. . ..-+|.++++.+.+.+ -.+.++.|+||+. ...|++-|..
T Consensus 115 ~P~~NPDG~~~--~~R~Na~G~DLNRD~-~-~~sqpEt~av~~~~~~---w~P~~~~dlHg~~--~~~~~~P~~~ 180 (268)
T cd06244 115 NVTENPDGRVA--GTRENANGFDLNRDN-S-FQTQPETQAIVALIAE---WNPASFLDLHGYV--EGFLIEPCTP 180 (268)
T ss_pred EecccCCccee--eeecCCCccccCCCC-C-cccCHHHHHHHHHHHH---hCCeEEEEeCCCC--CceEEcCCCC
Confidence 34455555533 247778999999722 1 1245677777776554 4789999999887 3344445643
No 27
>cd06231 Peptidase_M14-like_4 A functionally uncharacterized subgroup of the M14 family of metallocarboxypeptidases (MCPs). The M14 family are zinc-binding carboxypeptidases (CPs) which hydrolyze single, C-terminal amino acids from polypeptide chains, and have a recognition site for the free C-terminal carboxyl group, which is a key determinant of specificity. Two major subfamilies of the M14 family, defined based on sequence and structural homology, are the A/B and N/E subfamilies. Enzymes belonging to the A/B subfamily are normally synthesized as inactive precursors containing preceding signal peptide, followed by an N-terminal pro-region linked to the enzyme; these proenzymes are called procarboxypeptidases. The A/B enzymes can be further divided based on their substrate specificity; Carboxypeptidase A-like (CPA-like) enzymes favor hydrophobic residues while carboxypeptidase B-like (CPB-like) enzymes only cleave the basic residues lysine or arginine. The A forms have slightly differe
Probab=80.43 E-value=3.3 Score=33.06 Aligned_cols=53 Identities=19% Similarity=0.258 Sum_probs=36.6
Q ss_pred ccccccccCCccccchhHHHHHHHHHHHHHHHhcCCCeEEEecCCCCCccceeEe
Q psy3963 48 STYCGFDQGSFKIGTKESMKIVRGLIEFCTRVLKKTPYFYCDFHGHSLKKNIFLY 102 (128)
Q Consensus 48 ~Sf~G~dlg~~kf~~kdL~pigk~L~e~l~~ll~~~~~~y~D~HGHSrk~N~F~y 102 (128)
.+..|.|+|+ .|+...-.+.++++.+.+.+. ..++.++.|||..+.....+.|
T Consensus 96 ~n~~g~DLNR-~F~~~~~~~E~~al~~~~~~~-~~~~~~~IDLH~~~~~~~~~~~ 148 (236)
T cd06231 96 WNRNGIDPNR-SFRSESPSPEVRLLMEWLRRL-GAAFDLHIDLHEDTESTDTYNY 148 (236)
T ss_pred CCCCCccccC-CCCCCCCCHHHHHHHHHHHHh-CCCcEEEEEeCCCCCCCCccee
Confidence 3457899985 344333457778888877653 3479999999998866665444
No 28
>cd03868 M14_CPD_I The first carboxypeptidase (CP)-like domain of Carboxypeptidase D (CPD; EC 3.4.17.22), domain I. CPD differs from all other metallocarboxypeptidases in that it contains multiple CP-like domains. CPD belongs to the N/E-like subfamily of the M14 family of metallocarboxypeptidases (MCPs).The M14 family are zinc-binding CPs which hydrolyze single, C-terminal amino acids from polypeptide chains, and have a recognition site for the free C-terminal carboxyl group, which is a key determinant of specificity. CPD is a single-chain protein containing a signal peptide, three tandem repeats of CP-like domains separated by short bridge regions, followed by a transmembrane domain, and a C-terminal cytosolic tail. The first two CP-like domains of CPD contain all of the essential active site and substrate-binding residues, the third CP-like domain lacks critical residues necessary for enzymatic activity and is inactive towards standard CP substrates. Domain I is optimally active at p
Probab=79.89 E-value=2.1 Score=36.09 Aligned_cols=44 Identities=14% Similarity=0.210 Sum_probs=32.7
Q ss_pred cccccccCC-c--ccc-----chhHHHHHHHHHHHHHHHhcCCCeEEEecCCCCC
Q psy3963 49 TYCGFDQGS-F--KIG-----TKESMKIVRGLIEFCTRVLKKTPYFYCDFHGHSL 95 (128)
Q Consensus 49 Sf~G~dlg~-~--kf~-----~kdL~pigk~L~e~l~~ll~~~~~~y~D~HGHSr 95 (128)
.-.|.|+|| + ++. ....+|.++++.+++.+ .++.++.|+||.+.
T Consensus 127 n~~GvDLNRnf~~~~~~~~~~~~~sepEt~av~~~~~~---~~~~l~~~lH~~~~ 178 (372)
T cd03868 127 NANNVDLNRNFPDQFEGKLQRLSERQPETVAMMKWIRS---NPFVLSGNLHGGSV 178 (372)
T ss_pred CCCCccCCCCCCcccCCcCCCCCCCCHHHHHHHHHHhh---CCcEEEEEccCccE
Confidence 347999995 2 121 34567899999988764 47999999999874
No 29
>cd03859 M14_CPT Peptidase M14-like domain of carboxypeptidase (CP) T (CPT), CPT belongs to the M14 family of metallocarboxypeptidases (MCPs). The M14 family are zinc-binding CPs which hydrolyze single, C-terminal amino acids from polypeptide chains, and have a recognition site for the free C-terminal carboxyl group, which is a key determinant of specificity. CPT has moderate similarity to CPA and CPB, and exhibits dual-substrate specificity by cleaving C-terminal hydrophobic amino acid residues like CPA and C-terminal positively charged residues like CPB. CPA and CPB are M14 family peptidases but do not belong to this CPT group. The substrate specificity difference between CPT and CPA and CPB is ascribed to a few amino acid substitutions at the substrate-binding pocket while the spatial organization of the binding site remains the same as in all Zn-CPs. CPT has increased thermal stability in presence of Ca2+ ions, and two disulfide bridges which give an additional stabilization factor.
Probab=73.45 E-value=6.9 Score=31.88 Aligned_cols=35 Identities=20% Similarity=0.241 Sum_probs=25.9
Q ss_pred HHHHHHHHHHHHHHHhcCCCeEEEecCCCCCccceeEecc
Q psy3963 65 SMKIVRGLIEFCTRVLKKTPYFYCDFHGHSLKKNIFLYGC 104 (128)
Q Consensus 65 L~pigk~L~e~l~~ll~~~~~~y~D~HGHSrk~N~F~yGc 104 (128)
.+|.++++.+++.+. .++.++.|+|+.+. +++|..
T Consensus 173 sepEt~av~~~~~~~--~~~~~~l~~Hs~g~---~i~~P~ 207 (295)
T cd03859 173 SEPETQAIRDFVESH--KNIKTALNYHTYSN---LWLYPY 207 (295)
T ss_pred chHHHHHHHHHHHhC--CCeEEEEEeecCCc---eEEeCC
Confidence 468999998888652 38999999999853 444444
No 30
>cd06229 M14_Endopeptidase_I Peptidase M14-like domain of Gamma-D-glutamyl-L-diamino acid endopeptidase 1 (also known as Gamma-D-glutamyl-meso-diaminopimelate peptidase I, and Endopeptidase I (ENP1); EC 3.4.19.11). ENP1 is a member of the M14 family of metallocarboxypeptidases (MCPs). However it has an exceptional type of activity of hydrolyzing the gamma-D-Glu-(L)meso-diaminopimelic acid (gamma-D-Glu-Dap) bond of L-Ala-gamma-D-Glu-(L)meso-diaminopimelic acid and L-Ala-gamma-D-Glu-(L)meso-diaminopimelic acid(L)-D-Ala peptides. ENP1has a different substrate specificity and cellular role than MpaA (MpaA does not belong to this group). ENP1 hydrolyzes the gamma-D-Glu-Dap bond of MurNAc-tripeptide and MurNAc-tetrapeptide, as well as the amide bond of free tripeptide and tetrapeptide . ENP1 is active on spore cortex peptidoglycan, and is produced at stage IV of sporulation in forespore and spore integuments.
Probab=70.73 E-value=13 Score=29.54 Aligned_cols=54 Identities=15% Similarity=0.156 Sum_probs=37.3
Q ss_pred eccccccccCC-c--ccc-----------------chhHHHHHHHHHHHHHHHhcCCCeEEEecCCCCCccceeEeccCC
Q psy3963 47 ESTYCGFDQGS-F--KIG-----------------TKESMKIVRGLIEFCTRVLKKTPYFYCDFHGHSLKKNIFLYGCSS 106 (128)
Q Consensus 47 E~Sf~G~dlg~-~--kf~-----------------~kdL~pigk~L~e~l~~ll~~~~~~y~D~HGHSrk~N~F~yGc~~ 106 (128)
.++-.|.|+|+ + .+. ....+|.++++.+++.+ .++.+++|+|.-+ ++++|+...
T Consensus 109 ~~n~~GVDLNRNf~~~w~~~~~~s~~p~~~~y~G~~p~SEpEtral~~~~~~---~~~~~~i~~Hs~g---~~i~~~~~~ 182 (255)
T cd06229 109 KANARGVDLNRNFPAGWEKEKAGPKAPAPRNYKGEQPLSEPETIALAELTRE---NRFRAVLAYHSQG---EEIYWGYGG 182 (255)
T ss_pred ccCCcccccCCCCCCCCCcCCCCCCCCCccCcCCCCCCCchhHHHHHHHHHh---CCCeEEEEecCCC---CeEEecCCC
Confidence 35568999996 2 121 12356899999888764 4789999999876 356677653
No 31
>cd06245 M14_CPD_III The third carboxypeptidase (CP)-like domain of Carboxypeptidase D (CPD; EC 3.4.17.22), domain III. CPD differs from all other metallocarboxypeptidases in that it contains multiple CP-like domains. CPD belongs to the N/E-like subfamily of the M14 family of metallocarboxypeptidases (MCPs).The M14 family are zinc-binding CPs which hydrolyze single, C-terminal amino acids from polypeptide chains, and have a recognition site for the free C-terminal carboxyl group, which is a key determinant of specificity. CPD is a single-chain protein containing a signal peptide, three tandem repeats of CP-like domains separated by short bridge regions, followed by a transmembrane domain, and a C-terminal cytosolic tail. The first two CP-like domains of CPD contain all of the essential active site and substrate-binding residues, the third CP-like domain lacks critical residues necessary for enzymatic activity and is inactive towards standard CP substrates. Domain I is optimally active a
Probab=68.18 E-value=6.5 Score=33.34 Aligned_cols=46 Identities=15% Similarity=0.149 Sum_probs=33.7
Q ss_pred ccccccccCC-cc----ccchhHHHHHHHHHHHHHHHhcCCCeEEEecCCCCCc
Q psy3963 48 STYCGFDQGS-FK----IGTKESMKIVRGLIEFCTRVLKKTPYFYCDFHGHSLK 96 (128)
Q Consensus 48 ~Sf~G~dlg~-~k----f~~kdL~pigk~L~e~l~~ll~~~~~~y~D~HGHSrk 96 (128)
..-.|.|+|| +. -.....+|.++++.+++.+ .++.++.+|||.|.-
T Consensus 125 ~na~GvDLNRNf~~~~~g~~~~sepEt~Av~~~~~~---~~f~l~~~lH~~~~~ 175 (363)
T cd06245 125 TNAHGKDLDTDFTSNASNMSADVQPETKAIIDNLIS---KDFTLSVALDGGSVV 175 (363)
T ss_pred CCcccccCCCCCCcccCCCCCCCcHHHHHHHHHHHh---CCceEEEEEcCCcEE
Confidence 4457999995 21 1223457899999998875 389999999998853
No 32
>cd06226 M14_CPT_like Peptidase M14-like domain of an uncharacterized group of Peptidase M14 Carboxypeptidase (CP) T (CPT)-like proteins. This group belongs to the M14 family of metallocarboxypeptidases (MCPs). The M14 family are zinc-binding CPs which hydrolyze single, C-terminal amino acids from polypeptide chains, and have a recognition site for the free C-terminal carboxyl group, which is a key determinant of specificity. CPT exhibits dual-substrate specificity by cleaving C-terminal hydrophobic amino acid residues and C-terminal positively charged residues. However, CPT does not belong to this CPT-like group.
Probab=63.91 E-value=9.8 Score=31.37 Aligned_cols=38 Identities=26% Similarity=0.358 Sum_probs=27.7
Q ss_pred HHHHHHHHHHHHHHHhcC-------------CCeEEEecCCCCCccceeEeccC
Q psy3963 65 SMKIVRGLIEFCTRVLKK-------------TPYFYCDFHGHSLKKNIFLYGCS 105 (128)
Q Consensus 65 L~pigk~L~e~l~~ll~~-------------~~~~y~D~HGHSrk~N~F~yGc~ 105 (128)
.+|.++++.+++.+.... .+.+|.|+|+.+ ++++|-..
T Consensus 159 SEpEt~Av~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~HS~g---~~i~~P~g 209 (293)
T cd06226 159 SEPETAALEDYIRGLFPDQRGPGDTDPAPDDTTGVYLDIHSYS---NLVLYPWG 209 (293)
T ss_pred CcHHHHHHHHHHHhccccccccccccccccccceEEEEeccCC---CeEeecCc
Confidence 457999999998875421 288999999986 45665443
No 33
>cd06241 Peptidase_M14-like_1_4 Peptidase M14-like domain of a functionally uncharacterized subgroup of the M14 family of metallocarboxypeptidases (MCPs). The M14 family are zinc-binding carboxypeptidases (CPs) which hydrolyze single, C-terminal amino acids from polypeptide chains, and have a recognition site for the free C-terminal carboxyl group, which is a key determinant of specificity. Two major subfamilies of the M14 family, defined based on sequence and structural homology, are the A/B and N/E subfamilies. Enzymes belonging to the A/B subfamily are normally synthesized as inactive precursors containing preceding signal peptide, followed by an N-terminal pro-region linked to the enzyme; these proenzymes are called procarboxypeptidases. The A/B enzymes can be further divided based on their substrate specificity; Carboxypeptidase A-like (CPA-like) enzymes favor hydrophobic residues while carboxypeptidase B-like (CPB-like) enzymes only cleave the basic residues lysine or arginine. Th
Probab=63.20 E-value=9.7 Score=30.87 Aligned_cols=44 Identities=9% Similarity=0.057 Sum_probs=30.8
Q ss_pred eeccccccccCCccccchhHHHHHHHHHHHHHHHhcCCCeEEEecCCCC
Q psy3963 46 MESTYCGFDQGSFKIGTKESMKIVRGLIEFCTRVLKKTPYFYCDFHGHS 94 (128)
Q Consensus 46 lE~Sf~G~dlg~~kf~~kdL~pigk~L~e~l~~ll~~~~~~y~D~HGHS 94 (128)
....-.|.|+|+-. ... -.|.++++.+.+.+ .++.++.|+|...
T Consensus 119 ~R~na~g~DLNRdf-~~~-~~pEtra~~~~~~~---~~p~~~iD~H~~~ 162 (266)
T cd06241 119 WRGNARNLNLNRDF-IKL-DAPEMRAFAKLFNK---WNPDLFIDNHVTD 162 (266)
T ss_pred ceecccceecCCCC-ccc-CCHHHHHHHHHHHH---hCCCEEEEeccCC
Confidence 56778899999632 222 24667887776553 4799999999663
No 34
>KOG1679|consensus
Probab=62.97 E-value=16 Score=30.00 Aligned_cols=49 Identities=22% Similarity=0.301 Sum_probs=39.2
Q ss_pred ccccceEEEeeeecceeeeeeeccccccccCCcc-ccchhHHHHHHHHHHHHHHHh
Q psy3963 26 KESTARITIWREYGVVRSYTMESTYCGFDQGSFK-IGTKESMKIVRGLIEFCTRVL 80 (128)
Q Consensus 26 Ke~TaRV~~~~~~gi~~syTlE~Sf~G~dlg~~k-f~~kdL~pigk~L~e~l~~ll 80 (128)
+....||++.| -.+++.|+ +|.|+..++ ++..+..+.+..|.-.+.++.
T Consensus 72 ~D~~~Rvvilr-S~vpgvFC-----aGADLKER~~Ms~~Ev~~fV~~lR~~~~dIe 121 (291)
T KOG1679|consen 72 YDNKVRVVILR-SLVPGVFC-----AGADLKERKTMSPSEVTRFVNGLRGLFNDIE 121 (291)
T ss_pred hCCceeEEEEe-cCCCceee-----cCcchHhhhcCCHHHHHHHHHHHHHHHHHHH
Confidence 56779999999 57777765 799999765 888999999888877776654
No 35
>cd03866 M14_CPM Peptidase M14 Carboxypeptidase (CP) M (CPM) belongs to the N/E subfamily of the M14 family of metallocarboxypeptidases (MCPs).The M14 family are zinc-binding CPs which hydrolyze single, C-terminal amino acids from polypeptide chains, and have a recognition site for the free C-terminal carboxyl group, which is a key determinant of specificity. CPM is an extracellular glycoprotein, bound to cell membranes via a glycosyl-phosphatidylinositol on the C-terminus of the protein. It specifically removes C-terminal basic residues such as lysine and arginine from peptides and proteins. The highest levels of CPM have been found in human lung and placenta, but significant amounts are present in kidney, blood vessels, intestine, brain, and peripheral nerves. CPM has also been found in soluble form in various body fluids, including amniotic fluid, seminal plasma and urine. Due to its wide distribution in a variety of tissues, it is believed that it plays an important role in the cont
Probab=62.42 E-value=11 Score=32.19 Aligned_cols=47 Identities=19% Similarity=0.351 Sum_probs=33.6
Q ss_pred ccccccccCC-cc--c--cchhHHHHHHHHHHHHHHHhcCCCeEEEecCCCCCcc
Q psy3963 48 STYCGFDQGS-FK--I--GTKESMKIVRGLIEFCTRVLKKTPYFYCDFHGHSLKK 97 (128)
Q Consensus 48 ~Sf~G~dlg~-~k--f--~~kdL~pigk~L~e~l~~ll~~~~~~y~D~HGHSrk~ 97 (128)
..-.|.|+|| +. + ...-.+|.++++.+.+.+ .++.++.|+||-+.--
T Consensus 127 ~N~~GvDLNRnf~~~w~~~~~~sepEt~al~~~~~~---~~~~l~~~~H~~~~~~ 178 (376)
T cd03866 127 YNKNGYDLNRNFPDAFEENNEQRQPETRAVMEWLKS---ETFVLSANLHGGALVA 178 (376)
T ss_pred ccCCCcccCcCchhhhccCCCCCcHHHHHHHHHHHh---cCcEEEEEccCCceEE
Confidence 3357999996 22 1 123367899999888754 5799999999887643
No 36
>cd06227 Peptidase_M14-like_2 A functionally uncharacterized subgroup of the M14 family of metallocarboxypeptidases (MCPs). The M14 family are zinc-binding carboxypeptidases (CPs) which hydrolyze single, C-terminal amino acids from polypeptide chains, and have a recognition site for the free C-terminal carboxyl group, which is a key determinant of specificity. Two major subfamilies of the M14 family, defined based on sequence and structural homology, are the A/B and N/E subfamilies. Enzymes belonging to the A/B subfamily are normally synthesized as inactive precursors containing preceding signal peptide, followed by an N-terminal pro-region linked to the enzyme; these proenzymes are called procarboxypeptidases. The A/B enzymes can be further divided based on their substrate specificity; Carboxypeptidase A-like (CPA-like) enzymes favor hydrophobic residues while carboxypeptidase B-like (CPB-like) enzymes only cleave the basic residues lysine or arginine. The A forms have slightly differe
Probab=62.19 E-value=26 Score=28.53 Aligned_cols=27 Identities=22% Similarity=0.239 Sum_probs=22.1
Q ss_pred HHHHHHHHHHHHHHHhcCCCeEEEecCCCC
Q psy3963 65 SMKIVRGLIEFCTRVLKKTPYFYCDFHGHS 94 (128)
Q Consensus 65 L~pigk~L~e~l~~ll~~~~~~y~D~HGHS 94 (128)
.+|.++++.+.+.+ .++.+|+|+|+.+
T Consensus 159 sEpEt~av~~~~~~---~~~~~~i~~Hs~~ 185 (272)
T cd06227 159 SEPETRVLRDLLTS---FSPDVFLSVHSGT 185 (272)
T ss_pred CcHHHHHHHHHHHh---CCCeEEEEeccCC
Confidence 36899999888764 4699999999887
No 37
>cd03870 M14_CPA Peptidase M14 Carboxypeptidase (CP) A (CPA) belongs to the A/B subfamily of the M14 family of metallocarboxypeptidases (MCPs). The M14 family are zinc-binding CPs which hydrolyze single, C-terminal amino acids from polypeptide chains, and have a recognition site for the free C-terminal carboxyl group, which is a key determinant of specificity. CPA enzymes generally favor hydrophobic residues. A/B subfamily enzymes are normally synthesized as inactive precursors containing preceding signal peptide, followed by a globular N-terminal pro-region linked to the enzyme; these proenzymes are called procarboxypeptidases. The procarboxypeptidase A (PCPA) is produced by the exocrine pancreas and stored as a stable zymogen in the pancreatic granules until secretion into the digestive tract occurs. This subfamily includes CPA1, CPA2 and CPA4 forms. Within these A forms, there are slightly different specificities, with CPA1 preferring aliphatic and small aromatic residues, and CPA2 p
Probab=61.96 E-value=19 Score=29.68 Aligned_cols=38 Identities=18% Similarity=0.310 Sum_probs=28.1
Q ss_pred HHHHHHHHHHHHHHHhcCCCeEEEecCCCCCccceeEeccCCC
Q psy3963 65 SMKIVRGLIEFCTRVLKKTPYFYCDFHGHSLKKNIFLYGCSSQ 107 (128)
Q Consensus 65 L~pigk~L~e~l~~ll~~~~~~y~D~HGHSrk~N~F~yGc~~~ 107 (128)
.+|.++++.+++.+ ..++.+|.|+|+.+ ++++|-...+
T Consensus 166 SEpEt~av~~~~~~--~~~~~~~l~lHS~g---~~i~yP~~~~ 203 (301)
T cd03870 166 SEVEVKSIVDFVKS--HGNFKAFISIHSYS---QLLLYPYGYT 203 (301)
T ss_pred ccHHHHHHHHHHhh--CCCeEEEEEeccCC---ceEEecCcCC
Confidence 37899998888764 34689999999887 4666655443
No 38
>cd06904 M14_MpaA_like Peptidase M14-like domain of Escherichia coli Murein Peptide Amidase A (MpaA) and related proteins. MpaA is a member of the M14 family of metallocarboxypeptidases (MCPs), however it has an exceptional type of activity, it hydrolyzes the gamma-D-glutamyl-meso-diaminopimelic acid (gamma-D-Glu-Dap) bond in murein peptides. MpaA is specific for cleavage of the gamma-D-Glu-Dap bond of free murein tripeptide; it may also cleave murein tetrapeptide. MpaA has a different substrate specificity and cellular role than endopeptidase I, ENP1 (ENP1 does not belong to this group). MpaA works on free murein peptide in the recycling pathway.
Probab=61.37 E-value=12 Score=28.28 Aligned_cols=56 Identities=23% Similarity=0.338 Sum_probs=35.5
Q ss_pred EEEeeeecceeeeeeeccccccccCCccccc-----------------hhHHHHHHHHHHHHHHHhcCCCeEEEecCCC
Q psy3963 32 ITIWREYGVVRSYTMESTYCGFDQGSFKIGT-----------------KESMKIVRGLIEFCTRVLKKTPYFYCDFHGH 93 (128)
Q Consensus 32 V~~~~~~gi~~syTlE~Sf~G~dlg~~kf~~-----------------kdL~pigk~L~e~l~~ll~~~~~~y~D~HGH 93 (128)
|.+.+..|+... -+++-.|.|+|+ .|+. ....|.++.+.+++.+ .++.+++|+|+-
T Consensus 38 vP~~NPdG~~~~--~R~n~~gvDLNR-nFp~~~~~~~~~~~~~~~G~~~~sepEt~al~~~~~~---~~~~~~idlHs~ 110 (178)
T cd06904 38 IPVLNPDGLLRA--TRCNANGVDLNR-NFPTKDWPPGASRYRRYPGPKPGSEPESRALMDLIER---FKPDVVVSFHAP 110 (178)
T ss_pred EeCcCccHHhhC--cccCCCCcChhh-cCCccccccCCCcccccCCCCCCCCHHHHHHHHHHHh---cCCeEEEEeCCC
Confidence 446666676543 344556999995 2221 1134567777776654 578999999985
No 39
>PF00246 Peptidase_M14: Zinc carboxypeptidase This is family M14 in the peptidase classification. ; InterPro: IPR000834 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Metalloproteases are the most diverse of the four main types of protease, with more than 50 families identified to date. In these enzymes, a divalent cation, usually zinc, activates the water molecule. The metal ion is held in place by amino acid ligands, usually three in number. The known metal ligands are His, Glu, Asp or Lys and at least one other residue is required for catalysis, which may play an electrophillic role. Of the known metalloproteases, around half contain an HEXXH motif, which has been shown in crystallographic studies to form part of the metal-binding site []. The HEXXH motif is relatively common, but can be more stringently defined for metalloproteases as 'abXHEbbHbc', where 'a' is most often valine or threonine and forms part of the S1' subsite in thermolysin and neprilysin, 'b' is an uncharged residue, and 'c' a hydrophobic residue. Proline is never found in this site, possibly because it would break the helical structure adopted by this motif in metalloproteases []. This group of sequences contain a diverse range of gene families, which include metallopeptidases belonging to MEROPS peptidase family M14 (carboxypeptidase A, clan MC), subfamilies M14A and M14B. The carboxypeptidase A family can be divided into two subfamilies: carboxypeptidase H (regulatory) and carboxypeptidase A (digestive) []. Members of the H family have longer C-termini than those of family A [], and carboxypeptidase M (a member of the H family) is bound to the membrane by a glycosylphosphatidylinositol anchor, unlike the majority of the M14 family, which are soluble []. The zinc ligands have been determined as two histidines and a glutamate, and the catalytic residue has been identified as a C-terminal glutamate, but these do not form the characteristic metalloprotease HEXXH motif [, ]. Members of the carboxypeptidase A family are synthesised as inactive molecules with propeptides that must be cleaved to activate the enzyme. Structural studies of carboxypeptidases A and B reveal the propeptide to exist as a globular domain, followed by an extended alpha-helix; this shields the catalytic site, without specifically binding to it, while the substrate-binding site is blocked by making specific contacts [, ]. Other examples of protein families in this entry include: Intron maturase Putative mitochondrial processing peptidase alpha subunit Superoxide dismutase [Mn] (1.15.1.1 from EC) Asparagine synthetase [glutamine-hydrolysing] 3 (6.3.5.4 from EC) Glucose-6-phosphate isomerase (5.3.1.9 from EC) ; GO: 0004181 metallocarboxypeptidase activity, 0008270 zinc ion binding, 0006508 proteolysis; PDB: 3DGV_A 3OSL_C 3D4U_A 2NSM_A 1QMU_A 1H8L_A 2PJ2_A 2PJ9_A 1ZG8_A 1Z5R_A ....
Probab=61.06 E-value=3.9 Score=32.40 Aligned_cols=43 Identities=23% Similarity=0.229 Sum_probs=36.0
Q ss_pred ccceEEEeeeecceeeeeeeccccccccCCccccchhHHHHHHHHHH
Q psy3963 28 STARITIWREYGVVRSYTMESTYCGFDQGSFKIGTKESMKIVRGLIE 74 (128)
Q Consensus 28 ~TaRV~~~~~~gi~~syTlE~Sf~G~dlg~~kf~~kdL~pigk~L~e 74 (128)
++++-.++..+|++.+||+|.+.+|. +..+.+++.++++..++
T Consensus 236 G~~~D~~~~~~g~~~~~t~E~~~~~~----f~p~~~~i~~~~~~~~~ 278 (279)
T PF00246_consen 236 GSSDDYAYYHHGIPFSFTLELGCCGN----FYPPASEIEPIWEENWE 278 (279)
T ss_dssp SSHHHHHHHHTTSSEEEEEEESSSSS----TSS-GGGHHHHHHHHHH
T ss_pred cccceeehhhcCCcEEEEEEeCCCCC----ccCCHHHHHHHHHHHhh
Confidence 78888899889999999999999887 56788899998886543
No 40
>cd03857 Peptidase_M14-like_1 Peptidase M14-like domain of a functionally uncharacterized subgroup of the M14 family of metallocarboxypeptidases (MCPs). The M14 family are zinc-binding carboxypeptidases (CPs) which hydrolyze single, C-terminal amino acids from polypeptide chains, and have a recognition site for the free C-terminal carboxyl group, which is a key determinant of specificity. Two major subfamilies of the M14 family, defined based on sequence and structural homology, are the A/B and N/E subfamilies. Enzymes belonging to the A/B subfamily are normally synthesized as inactive precursors containing preceding signal peptide, followed by an N-terminal pro-region linked to the enzyme; these proenzymes are called procarboxypeptidases. The A/B enzymes can be further divided based on their substrate specificity; Carboxypeptidase A-like (CPA-like) enzymes favor hydrophobic residues while carboxypeptidase B-like (CPB-like) enzymes only cleave the basic residues lysine or arginine. The
Probab=60.83 E-value=15 Score=28.72 Aligned_cols=56 Identities=18% Similarity=0.116 Sum_probs=36.7
Q ss_pred EEEeeeecceeeeeeeccccccccCCccccchhHHHHHHHHHHHHHHHhcCCCeEEEecCCCC
Q psy3963 32 ITIWREYGVVRSYTMESTYCGFDQGSFKIGTKESMKIVRGLIEFCTRVLKKTPYFYCDFHGHS 94 (128)
Q Consensus 32 V~~~~~~gi~~syTlE~Sf~G~dlg~~kf~~kdL~pigk~L~e~l~~ll~~~~~~y~D~HGHS 94 (128)
|.+.+..|.... -..+-.|.|+|+-. ... -.|.++.+.+.+.+ -+|.+++|+|+.+
T Consensus 77 vP~~NPDG~~~~--~R~n~~g~DLNRd~-~~~-~~pEt~~~~~~~~~---~~p~~~iDlH~~~ 132 (226)
T cd03857 77 IPRANPDGAALF--TRENANGLDLNRDF-LKL-TQPETRAVREVFIE---WKPQFFIDLHEYG 132 (226)
T ss_pred EeccCCChHHhc--cccCCCcccCCCCC-CCc-CCHHHHHHHHHHHH---cCCeEEEEcCCCC
Confidence 555666676543 35666899999622 221 25566766665543 3689999999997
No 41
>cd03867 M14_CPZ Peptidase M14-like domain of carboxypeptidase (CP) Z (CPZ), CPZ belongs to the N/E subfamily of the M14 family of metallocarboxypeptidases (MCPs). The M14 family are zinc-binding CPs which hydrolyze single, C-terminal amino acids from polypeptide chains, and have a recognition site for the free C-terminal carboxyl group, which is a key determinant of specificity. CPZ is a secreted Zn-dependent enzyme whose biological function is largely unknown. Unlike other members of the N/E subfamily, CPZ has a bipartite structure, which consists of an N-terminal cysteine-rich domain (CRD) whose sequence is similar to Wnt-binding proteins, and a C-terminal CP catalytic domain that removes C-terminal Arg residues from substrates. CPZ is enriched in the extracellular matrix and is widely distributed during early embryogenesis. That the CRD of CPZ can bind to Wnt4 suggests that CPZ plays a role in Wnt signaling.
Probab=58.13 E-value=16 Score=31.31 Aligned_cols=35 Identities=9% Similarity=0.175 Sum_probs=26.1
Q ss_pred HHHHHHHHHHHHHHHhcCCCeEEEecCCCCCccceeEeccC
Q psy3963 65 SMKIVRGLIEFCTRVLKKTPYFYCDFHGHSLKKNIFLYGCS 105 (128)
Q Consensus 65 L~pigk~L~e~l~~ll~~~~~~y~D~HGHSrk~N~F~yGc~ 105 (128)
.+|.++++.+++.+ .++.++.++||.+ .+++|--.
T Consensus 171 sepEt~Av~~~~~~---~~~~l~~s~Hs~~---~~~~yP~~ 205 (395)
T cd03867 171 VAPETKAVMKWMRS---IPFVLSASLHGGD---LVVSYPYD 205 (395)
T ss_pred cCHHHHHHHHHHhh---CCceEEEEccCcc---eeEEcccc
Confidence 47889988888764 3599999999987 45555443
No 42
>cd03872 M14_CPA6 Carboxypeptidase (CP) A6 (CPA6, also known as CPAH; EC 3.4.17.1), belongs to the carboxypeptidase A/B subfamily of the M14 family of metallocarboxypeptidases (MCPs). The M14 family are zinc-binding CPs which hydrolyze single, C-terminal amino acids from polypeptide chains, and have a recognition site for the free C-terminal carboxyl group, which is a key determinant of specificity. CPA6 prefers large hydrophobic C-terminal amino acids as well as histidine, while peptides with a penultimate glycine or proline are very poorly cleaved. Several neuropeptides are processed by CPA6, including Met- and Leu-enkephalin, angiotensin I, and neurotensin. CPA6 converts enkephalin and neurotensin into forms known to be inactive toward their receptors, but converts inactive angiotensin I into the biologically active angiotensin II. Thus, CPA6 plays a possible role in the regulation of neuropeptides in the extracellular environment within the olfactory bulb where it is highly expresse
Probab=58.00 E-value=13 Score=30.71 Aligned_cols=36 Identities=25% Similarity=0.427 Sum_probs=25.9
Q ss_pred HHHHHHHHHHHHHHHhcCCCeEEEecCCCCCccceeEecc
Q psy3963 65 SMKIVRGLIEFCTRVLKKTPYFYCDFHGHSLKKNIFLYGC 104 (128)
Q Consensus 65 L~pigk~L~e~l~~ll~~~~~~y~D~HGHSrk~N~F~yGc 104 (128)
.+|.++++.+++.+. ...+.+|.|+|+-+ +.++|-.
T Consensus 163 SEpEt~al~~~~~~~-~~~i~~~ls~Hsyg---~~i~~P~ 198 (300)
T cd03872 163 SEPEVKAVAQFLRKH-RKHVRAYLSFHAYA---QMLLYPY 198 (300)
T ss_pred CcHHHHHHHHHHHhC-CccceEEEEEccCC---cEEEecC
Confidence 568999999988763 35789999999554 2444444
No 43
>cd06238 Peptidase_M14-like_1_1 Peptidase M14-like domain of a functionally uncharacterized subgroup of the M14 family of metallocarboxypeptidases (MCPs). The M14 family are zinc-binding carboxypeptidases (CPs) which hydrolyze single, C-terminal amino acids from polypeptide chains, and have a recognition site for the free C-terminal carboxyl group, which is a key determinant of specificity. Two major subfamilies of the M14 family, defined based on sequence and structural homology, are the A/B and N/E subfamilies. Enzymes belonging to the A/B subfamily are normally synthesized as inactive precursors containing preceding signal peptide, followed by an N-terminal pro-region linked to the enzyme; these proenzymes are called procarboxypeptidases. The A/B enzymes can be further divided based on their substrate specificity; Carboxypeptidase A-like (CPA-like) enzymes favor hydrophobic residues while carboxypeptidase B-like (CPB-like) enzymes only cleave the basic residues lysine or arginine. T
Probab=57.14 E-value=23 Score=28.88 Aligned_cols=50 Identities=18% Similarity=0.169 Sum_probs=32.0
Q ss_pred ccccccccCCccccchhHHHHHHHHHHHHHHHhcCCCeEEEecCCCCCccceeEe
Q psy3963 48 STYCGFDQGSFKIGTKESMKIVRGLIEFCTRVLKKTPYFYCDFHGHSLKKNIFLY 102 (128)
Q Consensus 48 ~Sf~G~dlg~~kf~~kdL~pigk~L~e~l~~ll~~~~~~y~D~HGHSrk~N~F~y 102 (128)
....|.|+|+-... --+|.++++.+.+.+ -.+.++.|+|+-+.....+++
T Consensus 136 ~n~~g~DLNRD~~~--~s~pEtra~~~~~~~---~~p~~~~D~H~~g~~~~~~~~ 185 (271)
T cd06238 136 TNHYWFDLNRDWLP--LTQPESRGRLAAYHE---WRPNVVVDFHEMGTNSTYFFA 185 (271)
T ss_pred ccccCccccccccc--ccCHHHHHHHHHHHh---cCCeEEEEeccCCCccceEEe
Confidence 34589999973321 226677877776553 378999999976543333443
No 44
>PTZ00436 60S ribosomal protein L19-like protein; Provisional
Probab=56.08 E-value=14 Score=31.38 Aligned_cols=49 Identities=10% Similarity=0.040 Sum_probs=38.6
Q ss_pred eccccccccCCccccchhHHHHHHH-HHHHHHHHhcCCCeEEEecCCCCC
Q psy3963 47 ESTYCGFDQGSFKIGTKESMKIVRG-LIEFCTRVLKKTPYFYCDFHGHSL 95 (128)
Q Consensus 47 E~Sf~G~dlg~~kf~~kdL~pigk~-L~e~l~~ll~~~~~~y~D~HGHSr 95 (128)
=+|.-||=.++.|++..++.++... ..+-|.++++..+++--..+||||
T Consensus 11 AAsVL~cGk~RVWiDPnel~eIa~AiTReDIRkLIkdGlIikKp~KGhSR 60 (357)
T PTZ00436 11 AADILRCGRHRVWLDPNEASEISNANSRKSVRKLIKDGLIIRKPVKVHSR 60 (357)
T ss_pred HHHHhCCCCCceeeCHHHHHHHHHhhhHHHHHHHHHCCCeeecCcccCCh
Confidence 3455566667788999999887654 357788888899999999999995
No 45
>cd03863 M14_CPD_II The second carboxypeptidase (CP)-like domain of Carboxypeptidase D (CPD; EC 3.4.17.22), domain II. CPD differs from all other metallocarboxypeptidases in that it contains multiple CP-like domains. CPD belongs to the N/E-like subfamily of the M14 family of metallocarboxypeptidases (MCPs).The M14 family are zinc-binding CPs which hydrolyze single, C-terminal amino acids from polypeptide chains, and have a recognition site for the free C-terminal carboxyl group, which is a key determinant of specificity. CPD is a single-chain protein containing a signal peptide, three tandem repeats of CP-like domains separated by short bridge regions, followed by a transmembrane domain, and a C-terminal cytosolic tail. The first two CP-like domains of CPD contain all of the essential active site and substrate-binding residues, while the third CP-like domain lacks critical residues necessary for enzymatic activity and is inactive towards standard CP substrates. Domain I is optimally ac
Probab=54.41 E-value=26 Score=29.91 Aligned_cols=51 Identities=14% Similarity=0.195 Sum_probs=34.6
Q ss_pred cccccccCC-c--cc--cchhHHHHHHHHHHHHHHHhcCCCeEEEecCCCCCccceeEeccC
Q psy3963 49 TYCGFDQGS-F--KI--GTKESMKIVRGLIEFCTRVLKKTPYFYCDFHGHSLKKNIFLYGCS 105 (128)
Q Consensus 49 Sf~G~dlg~-~--kf--~~kdL~pigk~L~e~l~~ll~~~~~~y~D~HGHSrk~N~F~yGc~ 105 (128)
.-.|.|+|| + ++ .....+|.++++.+++.+ .++.++.++||=+ .+.+|-..
T Consensus 130 n~~GVDLNRNfp~~~~~~~~~~EpEt~Av~~~~~~---~~f~l~~~lHsg~---~~~~yPy~ 185 (375)
T cd03863 130 NSNNYDLNRNFPDQFFQVTDPPQPETLAVMSWLKS---YPFVLSANLHGGS---LVVNYPFD 185 (375)
T ss_pred cCCCcccccCCccccccCCCCCcHHHHHHHHHHhh---CCceEEEEecCCC---EEEEccCc
Confidence 347999995 2 11 123457999999888764 3689999998844 45555443
No 46
>cd06242 Peptidase_M14-like_1_5 Peptidase M14-like domain of a functionally uncharacterized subgroup of the M14 family of metallocarboxypeptidases (MCPs). The M14 family are zinc-binding carboxypeptidases (CPs) which hydrolyze single, C-terminal amino acids from polypeptide chains, and have a recognition site for the free C-terminal carboxyl group, which is a key determinant of specificity. Two major subfamilies of the M14 family, defined based on sequence and structural homology, are the A/B and N/E subfamilies. Enzymes belonging to the A/B subfamily are normally synthesized as inactive precursors containing preceding signal peptide, followed by an N-terminal pro-region linked to the enzyme; these proenzymes are called procarboxypeptidases. The A/B enzymes can be further divided based on their substrate specificity; Carboxypeptidase A-like (CPA-like) enzymes favor hydrophobic residues while carboxypeptidase B-like (CPB-like) enzymes only cleave the basic residues lysine or arginine. Th
Probab=52.35 E-value=26 Score=28.42 Aligned_cols=58 Identities=14% Similarity=0.116 Sum_probs=38.3
Q ss_pred EEEeeeecceeeeeeeccccccccCCccccchhHHHHHHHHHHHHHHHhcCCCeEEEecCCCCCc
Q psy3963 32 ITIWREYGVVRSYTMESTYCGFDQGSFKIGTKESMKIVRGLIEFCTRVLKKTPYFYCDFHGHSLK 96 (128)
Q Consensus 32 V~~~~~~gi~~syTlE~Sf~G~dlg~~kf~~kdL~pigk~L~e~l~~ll~~~~~~y~D~HGHSrk 96 (128)
|.+.+..|.... -+..-.|.|+|+-.... -.|.++++.+.+.+ -.|.++.|+|...-.
T Consensus 99 vP~~NPDG~~~~--~R~na~g~DlNRD~~~~--~~pEtra~~~~~~~---~~P~v~iD~He~~~~ 156 (268)
T cd06242 99 LPRYNPDGSAYF--QRTLATGYDPNRDHTKL--ARQQTRDIKEAFSK---FNPHIAIDAHEYGAF 156 (268)
T ss_pred EeccCcchhhhc--cccCCcCcccCCCCCcc--cCHHHHHHHHHHHH---hCCcEEEEeccCCcc
Confidence 566677777654 25667899999733211 14667777776554 368999999976543
No 47
>PF08608 Wyosine_form: Wyosine base formation; InterPro: IPR013917 The proteins in this entry appear to be important in wyosine base formation in a subset of phenylalanine specific tRNAs. It has been proposed that it participates in converting tRNA(Phe)-m(1)G(37) to tRNA(Phe)-yW []. ; PDB: 2YX0_A 2Z2U_A.
Probab=51.84 E-value=23 Score=22.83 Aligned_cols=43 Identities=23% Similarity=0.280 Sum_probs=20.9
Q ss_pred ccccccCCccccchhHHHHHHHHHHHHHHHhcCCCeEEEecCCCCC
Q psy3963 50 YCGFDQGSFKIGTKESMKIVRGLIEFCTRVLKKTPYFYCDFHGHSL 95 (128)
Q Consensus 50 f~G~dlg~~kf~~kdL~pigk~L~e~l~~ll~~~~~~y~D~HGHSr 95 (128)
|+|...+++....-..++-+..+++.|.+.+ .+...|=|=|||
T Consensus 14 ~~G~s~~rLt~~nmp~h~eV~~F~~~l~~~~---~y~i~~e~~~Sr 56 (62)
T PF08608_consen 14 HVGYSRNRLTMGNMPWHEEVLDFAEELAELL---GYEITDEHEHSR 56 (62)
T ss_dssp ----------GGGS--HHHHHHHHHHHHTTS---TEEEEEEECCCT
T ss_pred ccccccCccccCCCCcHHHHHHHHHHHHhhc---CCEEEecccccc
Confidence 8897666666666666666666666665433 377888888886
No 48
>cd06246 M14_CPB2 Peptidase M14 Carboxypeptidase (CP) B2 (CPB2, also known as plasma carboxypeptidase B, carboxypeptidase U, and CPU), belongs to the carboxpeptidase A/B subfamily of the M14 family of metallocarboxypeptidases (MCPs). The M14 family are zinc-binding CPs which hydrolyze single, C-terminal amino acids from polypeptide chains, and have a recognition site for the free C-terminal carboxyl group, which is a key determinant of specificity. CPB2 enzyme displays B-like activity; it only cleaves the basic residues lysine or arginine. It is produced and secreted by the liver as the inactive precursor, procarboxypeptidase U or PCPB2, commonly referred to as thrombin-activatable fibrinolysis inhibitor (TAFI). It circulates in plasma as a zymogen bound to plasminogen, and the active enzyme, TAFIa, inhibits fibrinolysis. It is highly regulated, increased TAFI concentrations are thought to increase the risk of thrombosis and coronary artery disease by reducing fibrinolytic activity whil
Probab=51.81 E-value=20 Score=29.52 Aligned_cols=34 Identities=24% Similarity=0.324 Sum_probs=24.6
Q ss_pred HHHHHHHHHHHHHHHhcCCCeEEEecCCCCCccceeEe
Q psy3963 65 SMKIVRGLIEFCTRVLKKTPYFYCDFHGHSLKKNIFLY 102 (128)
Q Consensus 65 L~pigk~L~e~l~~ll~~~~~~y~D~HGHSrk~N~F~y 102 (128)
.+|.++++.+++.+. ...+.+|.|+|+.+ ++++|
T Consensus 166 SEpEt~av~~~~~~~-~~~i~~~is~Hs~g---~~i~~ 199 (300)
T cd06246 166 SEPEVKAVASFLRRH-INQIKAYISMHSYS---QMILF 199 (300)
T ss_pred ccHHHHHHHHHHHhC-CcceeEEEEeccCC---cEEEe
Confidence 467999999988753 34588999999755 34455
No 49
>PTZ00097 60S ribosomal protein L19; Provisional
Probab=46.51 E-value=27 Score=27.19 Aligned_cols=48 Identities=10% Similarity=-0.010 Sum_probs=37.2
Q ss_pred ccccccccCCccccchhHHHHHHH-HHHHHHHHhcCCCeEEEecCCCCC
Q psy3963 48 STYCGFDQGSFKIGTKESMKIVRG-LIEFCTRVLKKTPYFYCDFHGHSL 95 (128)
Q Consensus 48 ~Sf~G~dlg~~kf~~kdL~pigk~-L~e~l~~ll~~~~~~y~D~HGHSr 95 (128)
|+.-||=.++.++++.++.++..+ ..+-+..+++..++.--..+||||
T Consensus 10 A~vL~cG~~rVWiDP~~~~eI~~A~tR~dIR~LIkdG~I~~kp~kg~SR 58 (175)
T PTZ00097 10 ASVLKCGKNRVWLDPNEASEISLANSRFSIRKLIKDGLIIRKPVAVHSR 58 (175)
T ss_pred HHHHCCCCCceeeCHHHHHHHHHhhhHHHHHHHHHCCCeeecCCCCCCh
Confidence 455566566788999999887754 356677888888999999999995
No 50
>cd06243 Peptidase_M14-like_1_6 Peptidase M14-like domain of a functionally uncharacterized subgroup of the M14 family of metallocarboxypeptidases (MCPs). The M14 family are zinc-binding carboxypeptidases (CPs) which hydrolyze single, C-terminal amino acids from polypeptide chains, and have a recognition site for the free C-terminal carboxyl group, which is a key determinant of specificity. Two major subfamilies of the M14 family, defined based on sequence and structural homology, are the A/B and N/E subfamilies. Enzymes belonging to the A/B subfamily are normally synthesized as inactive precursors containing preceding signal peptide, followed by an N-terminal pro-region linked to the enzyme; these proenzymes are called procarboxypeptidases. The A/B enzymes can be further divided based on their substrate specificity; Carboxypeptidase A-like (CPA-like) enzymes favor hydrophobic residues while carboxypeptidase B-like (CPB-like) enzymes only cleave the basic residues lysine or arginine. Th
Probab=46.31 E-value=32 Score=27.53 Aligned_cols=52 Identities=15% Similarity=0.031 Sum_probs=33.2
Q ss_pred eeeecceeeeeeeccccccccCCccccchhHHHHHHHHHHHHHHHhcCCCeEEEecCCC
Q psy3963 35 WREYGVVRSYTMESTYCGFDQGSFKIGTKESMKIVRGLIEFCTRVLKKTPYFYCDFHGH 93 (128)
Q Consensus 35 ~~~~gi~~syTlE~Sf~G~dlg~~kf~~kdL~pigk~L~e~l~~ll~~~~~~y~D~HGH 93 (128)
.+..|.... -...-.|.|+|+-+... -.|.++++.+.+.+ ..+-++.|+|.-
T Consensus 79 ~NPDG~~~~--~R~n~~g~DlNRd~~~~--~~pEt~al~~~~~~---~~p~~~iDlHe~ 130 (236)
T cd06243 79 ANPDGREAD--TRSNADGIDINRDHLLL--NTPEAQALASVLRD---YRPDVVVDAHEY 130 (236)
T ss_pred cCccHhhcC--CcCCCCCcccCCCCCCC--CCHHHHHHHHHHHh---cCCEEEEEeCCC
Confidence 455555432 24556899999633222 14667777776654 379999999966
No 51
>cd00481 Ribosomal_L19e Ribosomal protein L19e. L19e is found in the large ribosomal subunit of eukaryotes and archaea. L19e is distinct from the ribosomal subunit L19, which is found in prokaryotes. It consists of two small globular domains connected by an extended segment. It is located toward the surface of the large subunit, with one exposed end involved in forming the intersubunit bridge with the small subunit. The other exposed end is involved in forming the translocon binding site, along with L22, L23, L24, L29, and L31e subunits.
Probab=44.54 E-value=31 Score=26.06 Aligned_cols=48 Identities=17% Similarity=0.076 Sum_probs=36.9
Q ss_pred ccccccccCCccccchhHHHHHHHH-HHHHHHHhcCCCeEEEecCCCCC
Q psy3963 48 STYCGFDQGSFKIGTKESMKIVRGL-IEFCTRVLKKTPYFYCDFHGHSL 95 (128)
Q Consensus 48 ~Sf~G~dlg~~kf~~kdL~pigk~L-~e~l~~ll~~~~~~y~D~HGHSr 95 (128)
|+.-||=.++.++++.++.++..++ .+-+..+++..++.--...||||
T Consensus 9 A~vL~~G~~rVW~DP~~~~eI~~A~tR~dIR~LIkdG~I~~kp~kg~Sr 57 (145)
T cd00481 9 ADILKCGKNRVWIDPNELEEIANANTREDIRKLIKDGLIIKKPKKGHSR 57 (145)
T ss_pred HHHHCCCCCceeeCHHHHHHHHHhhhHHHHHHHHHCCCeeecCCCCCCh
Confidence 4455565667889999988876543 56677888888999999999995
No 52
>PRK08570 rpl19e 50S ribosomal protein L19e; Reviewed
Probab=44.34 E-value=30 Score=26.28 Aligned_cols=48 Identities=13% Similarity=0.028 Sum_probs=37.4
Q ss_pred ccccccccCCccccchhHHHHHHHH-HHHHHHHhcCCCeEEEecCCCCC
Q psy3963 48 STYCGFDQGSFKIGTKESMKIVRGL-IEFCTRVLKKTPYFYCDFHGHSL 95 (128)
Q Consensus 48 ~Sf~G~dlg~~kf~~kdL~pigk~L-~e~l~~ll~~~~~~y~D~HGHSr 95 (128)
|+.-||=.++.+++++++.++..++ .+-+..+++..++.--...||||
T Consensus 12 A~iL~~G~~rVw~DP~~~~eI~~A~tR~dIR~LI~~G~I~~kp~kg~Sr 60 (150)
T PRK08570 12 ADILGVGVSRVWIDPEALEDVAEAITREDIRELIKEGVIKAKPKKGISR 60 (150)
T ss_pred HHHHCCCccceeeCHHHHHHHHHHhhHHHHHHHHHCCCeeecCccCCCh
Confidence 4555665667889999998877554 56688888888999999999996
No 53
>cd03864 M14_CPN Peptidase M14 Carboxypeptidase N (CPN, also known as kininase I, creatine kinase conversion factor, plasma carboxypeptidase B, arginine carboxypeptidase, and protaminase; EC 3.4.17.3) is an extracellular glycoprotein synthesized in the liver and released into the blood, where it is present in high concentrations. CPN belongs to the N/E subfamily of the M14 family of metallocarboxypeptidases (MCPs).The M14 family are zinc-binding carboxypeptidases (CPs) which hydrolyze single, C-terminal amino acids from polypeptide chains, and have a recognition site for the free C-terminal carboxyl group, which is a key determinant of specificity. CPN plays an important role in protecting the body from excessive buildup of potentially deleterious peptides that normally act as local autocrine or paracrine hormones. It specifically removes C-terminal basic residues. As CPN can cleave lysine more avidly than arginine residues it is also called lysine carboxypeptidase. CPN substrates inclu
Probab=44.09 E-value=33 Score=29.52 Aligned_cols=37 Identities=16% Similarity=0.242 Sum_probs=27.7
Q ss_pred HHHHHHHHHHHHHHHhcCCCeEEEecCCCCCccceeEeccC
Q psy3963 65 SMKIVRGLIEFCTRVLKKTPYFYCDFHGHSLKKNIFLYGCS 105 (128)
Q Consensus 65 L~pigk~L~e~l~~ll~~~~~~y~D~HGHSrk~N~F~yGc~ 105 (128)
.+|.++++++.+.+ .++.+..|+||=+.--| +=|+.+
T Consensus 169 ~epET~Av~~~~~~---~~fvls~nlHgG~~v~~-YPyd~~ 205 (392)
T cd03864 169 VEPETLAVIQWMQN---YNFVLSANLHGGAVVAN-YPYDKS 205 (392)
T ss_pred cCHHHHHHHHHHHh---cCcEEEEEccCCceeee-CCcccc
Confidence 46889998888754 57999999999886666 444443
No 54
>cd01418 Ribosomal_L19e_A Ribosomal protein L19e, archaeal. L19e is found in the large ribosomal subunit of eukaryotes and archaea. L19e is distinct from the ribosomal subunit L19, which is found in prokaryotes. It consists of two small globular domains connected by an extended segment. It is located toward the surface of the large subunit, with one exposed end involved in forming the intersubunit bridge with the small subunit. The other exposed end is involved in forming the translocon binding site, along with L22, L23, L24, L29, and L31e subunits.
Probab=43.87 E-value=31 Score=26.08 Aligned_cols=48 Identities=10% Similarity=0.019 Sum_probs=37.0
Q ss_pred ccccccccCCccccchhHHHHHHHH-HHHHHHHhcCCCeEEEecCCCCC
Q psy3963 48 STYCGFDQGSFKIGTKESMKIVRGL-IEFCTRVLKKTPYFYCDFHGHSL 95 (128)
Q Consensus 48 ~Sf~G~dlg~~kf~~kdL~pigk~L-~e~l~~ll~~~~~~y~D~HGHSr 95 (128)
|+.-||=.++.++++.++.++..++ .+-+..+++..++.--+..||||
T Consensus 9 A~iL~~G~~rVw~DP~~~~eI~~A~tR~dIR~LI~~G~I~~kp~kg~Sr 57 (145)
T cd01418 9 ADILGVGINRVWIDPERLEEVAEAITRDDIRALIKEGVIKAKPKKGISR 57 (145)
T ss_pred HHHHCCCCCeeeeChHHHHHHHHhhhHHHHHHHHHCCCeeecCCCCCCH
Confidence 4455565567789999998877544 56678888888999999999995
No 55
>cd03862 Peptidase_M14-like_7 A functionally uncharacterized subgroup of the M14 family of metallocarboxypeptidases (MCPs). The M14 family are zinc-binding carboxypeptidases (CPs) which hydrolyze single, C-terminal amino acids from polypeptide chains, and have a recognition site for the free C-terminal carboxyl group, which is a key determinant of specificity. Two major subfamilies of the M14 family, defined based on sequence and structural homology, are the A/B and N/E subfamilies. Enzymes belonging to the A/B subfamily are normally synthesized as inactive precursors containing preceding signal peptide, followed by an N-terminal pro-region linked to the enzyme; these proenzymes are called procarboxypeptidases. The A/B enzymes can be further divided based on their substrate specificity; Carboxypeptidase A-like (CPA-like) enzymes favor hydrophobic residues while carboxypeptidase B-like (CPB-like) enzymes only cleave the basic residues lysine or arginine. The A forms have slightly differe
Probab=43.05 E-value=57 Score=26.65 Aligned_cols=41 Identities=12% Similarity=0.030 Sum_probs=29.8
Q ss_pred hHHHHHHHHHHHHHHHh-cCCCeEEEecCCCCCccceeEecc
Q psy3963 64 ESMKIVRGLIEFCTRVL-KKTPYFYCDFHGHSLKKNIFLYGC 104 (128)
Q Consensus 64 dL~pigk~L~e~l~~ll-~~~~~~y~D~HGHSrk~N~F~yGc 104 (128)
..++.+++|.+++.+.+ ..++.+|.|+|......+.++|-.
T Consensus 129 ~sEpEt~al~~~~~~~~~~~~~~~~ld~HSg~G~~~~i~~Py 170 (273)
T cd03862 129 GMELEAQALCRFVRELLFESPFSIALDCHSGFGLVDRIWFPY 170 (273)
T ss_pred CCCHHHHHHHHHHHHhcccCCeEEEEEECCCCCccCEEEcCC
Confidence 45678999999998765 468999999998754444444443
No 56
>cd01417 Ribosomal_L19e_E Ribosomal protein L19e, eukaryotic. L19e is found in the large ribosomal subunit of eukaryotes and archaea. L19e is distinct from the ribosomal subunit L19, which is found in prokaryotes. It consists of two small globular domains connected by an extended segment. It is located toward the surface of the large subunit, with one exposed end involved in forming the intersubunit bridge with the small subunit. The other exposed end is involved in forming the translocon binding site, along with L22, L23, L24, L29, and L31e subunits.
Probab=39.60 E-value=39 Score=26.08 Aligned_cols=48 Identities=10% Similarity=0.020 Sum_probs=36.8
Q ss_pred ccccccccCCccccchhHHHHHHHH-HHHHHHHhcCCCeEEEecCCCCC
Q psy3963 48 STYCGFDQGSFKIGTKESMKIVRGL-IEFCTRVLKKTPYFYCDFHGHSL 95 (128)
Q Consensus 48 ~Sf~G~dlg~~kf~~kdL~pigk~L-~e~l~~ll~~~~~~y~D~HGHSr 95 (128)
|+.-||=.++.++++.++.++..++ .+-+..+++..+++--...||||
T Consensus 9 A~vL~cG~~rVW~DP~~~~eI~~A~tR~dIR~LIkdG~I~~kp~kg~SR 57 (164)
T cd01417 9 ASVLKCGKRKVWLDPNEISEISNANSRQSIRKLIKDGLIIKKPVKVHSR 57 (164)
T ss_pred HHHHCCCCCceeeCHHHHHHHHHhhhHHHHHHHHHCCCeeecCCCcCCH
Confidence 4455665667889999998876543 56677788888999999999995
No 57
>KOG2719|consensus
Probab=35.25 E-value=54 Score=28.88 Aligned_cols=27 Identities=22% Similarity=0.321 Sum_probs=22.3
Q ss_pred CCCeEEEecCCCCCccceeEeccCCCC
Q psy3963 82 KTPYFYCDFHGHSLKKNIFLYGCSSQE 108 (128)
Q Consensus 82 ~~~~~y~D~HGHSrk~N~F~yGc~~~~ 108 (128)
-+.+...|-|=+|...|.++|||-..+
T Consensus 234 ~~k~~vi~~s~rs~hsNAyfyG~~~~K 260 (428)
T KOG2719|consen 234 LSKYRVIDGSKRSSHSNAYFYGLCKNK 260 (428)
T ss_pred ceEEEEEecCCCCCCCCeeeeeccccc
Confidence 367788888889999999999996544
No 58
>TIGR02364 dha_pts dihydroxyacetone kinase, phosphotransfer subunit. In E. coli and many other bacteria, unlike the yeasts and a few bacteria such as Citrobacter freundii, the dihydroxyacetone kinase (also called glycerone kinase) transfers a phosphate from a phosphoprotein rather than from ATP and contains multiple subunits. This protein, which resembles proteins of PTS transport systems, is found with its gene adjacent to
Probab=33.48 E-value=47 Score=23.96 Aligned_cols=28 Identities=14% Similarity=0.262 Sum_probs=19.4
Q ss_pred HHHHHHHHHHHhc--CCCeEEEecCCCCCcc
Q psy3963 69 VRGLIEFCTRVLK--KTPYFYCDFHGHSLKK 97 (128)
Q Consensus 69 gk~L~e~l~~ll~--~~~~~y~D~HGHSrk~ 97 (128)
...+.+.+.++.+ ..+++++|+ |.|--+
T Consensus 45 ~~~I~~ai~~~~~~~dgVlvl~DL-Ggs~~n 74 (125)
T TIGR02364 45 PDKIIEAIEKADNEADGVLIFYDL-GSAVMN 74 (125)
T ss_pred HHHHHHHHHHhcCCCCCEEEEEcC-CCcHhH
Confidence 3445566666643 579999999 988643
No 59
>cd00524 SORL Superoxide reductase-like (SORL) domain; present in a family of mononuclear non-heme iron proteins that includes superoxide reductase and desulfoferrodoxin. Superoxide reductase-like proteins scavenge superoxide anion radicals as a defense mechanism against reactive oxygen species and are found in anaerobic bacteria and archeae, and microaerophilic Treponema pallidum. The SORL domain contains an active iron site, Fe[His4Cys(Glu)], which in the reduced state loses the glutamate ligand. Superoxide reductase (class II) forms a homotetramer with four Fe[His4Cys(Glu)] centers. Desulfoferrodoxin (class I) is a homodimeric protein, with each protomer comprised of two domains, the N-terminal desulforedoxin (DSRD) domain and C-terminal SORL domain. Each domain has a distinct iron center: the DSRD iron center I, Fe(S-Cys)4; and the SORL iron center II, Fe[His4Cys(Glu)].
Probab=33.25 E-value=17 Score=24.29 Aligned_cols=10 Identities=40% Similarity=1.119 Sum_probs=9.0
Q ss_pred CCeEEEecCC
Q psy3963 83 TPYFYCDFHG 92 (128)
Q Consensus 83 ~~~~y~D~HG 92 (128)
.+..||++||
T Consensus 74 ~a~~yCN~HG 83 (86)
T cd00524 74 VALSYCNLHG 83 (86)
T ss_pred EEEEEcccce
Confidence 6789999998
No 60
>PRK14484 phosphotransferase mannnose-specific family component IIA; Provisional
Probab=32.54 E-value=45 Score=24.25 Aligned_cols=24 Identities=13% Similarity=0.205 Sum_probs=16.4
Q ss_pred HHHHHHHHHHhcCCCeEEEecCCCC
Q psy3963 70 RGLIEFCTRVLKKTPYFYCDFHGHS 94 (128)
Q Consensus 70 k~L~e~l~~ll~~~~~~y~D~HGHS 94 (128)
..+.+.+.++-+..+++++|+ |.|
T Consensus 46 ~~i~~ai~~~~~dGVlVltDL-Gss 69 (124)
T PRK14484 46 DQIQEAIEKNESDGVLIFFDL-GSA 69 (124)
T ss_pred HHHHHHHHhcCcCCeEEEEeC-CCh
Confidence 334445555433679999999 987
No 61
>cd03171 SORL_Dfx_classI Superoxide reductase-like (SORL) domain, class I; SORL-domains are present in a family of mononuclear non-heme iron proteins that includes superoxide reductase and desulfoferrodoxin. Superoxide reductase-like proteins scavenge superoxide anion radicals as a defense mechanism against reactive oxygen species and are found in anaerobic bacteria and archeae, and microaerophilic Treponema pallidum. Desulfoferrodoxin (class I) is a homodimeric protein, with each protomer comprised of two domains, the N-terminal desulforedoxin (DSRD) domain and C-terminal SORL domain. Each domain has a distinct iron center: the DSRD iron center I, Fe(S-Cys)4; and the SORL iron center II, Fe[His4Cys(Glu)].
Probab=30.28 E-value=24 Score=23.62 Aligned_cols=10 Identities=50% Similarity=1.158 Sum_probs=8.7
Q ss_pred CCeEEEecCC
Q psy3963 83 TPYFYCDFHG 92 (128)
Q Consensus 83 ~~~~y~D~HG 92 (128)
.+..||++||
T Consensus 66 ~a~~yCNlHG 75 (78)
T cd03171 66 TARAYCNLHG 75 (78)
T ss_pred EEEEEecccc
Confidence 4779999998
No 62
>PHA03082 DNA-dependent RNA polymerase subunit; Provisional
Probab=30.16 E-value=16 Score=23.75 Aligned_cols=37 Identities=24% Similarity=0.550 Sum_probs=26.3
Q ss_pred eeeeeccccccccCC--cc--ccchhHHHHHHHHHHHHHHH
Q psy3963 43 SYTMESTYCGFDQGS--FK--IGTKESMKIVRGLIEFCTRV 79 (128)
Q Consensus 43 syTlE~Sf~G~dlg~--~k--f~~kdL~pigk~L~e~l~~l 79 (128)
.|.|-||=||.|+.. |+ .....|..+-+.....|.++
T Consensus 2 Vf~lVCsTCGrDlSeeRy~Lli~~~~L~~Vl~~v~~~CCRl 42 (63)
T PHA03082 2 VFQLVCSTCGRDLSEERYRLLIKKKSLKKVLRTVKNSCCRL 42 (63)
T ss_pred eeeeeecccCcchhHHHHHHHHHHhhHHHHHHHhhccceee
Confidence 477899999999984 65 44455667777666666654
No 63
>KOG2650|consensus
Probab=29.21 E-value=56 Score=28.60 Aligned_cols=59 Identities=24% Similarity=0.305 Sum_probs=38.7
Q ss_pred EeeeecceeeeeeeccccccccCC-cc---cc----------------chhHHHHHHHHHHHHHHHhcCCCeEEEecCCC
Q psy3963 34 IWREYGVVRSYTMESTYCGFDQGS-FK---IG----------------TKESMKIVRGLIEFCTRVLKKTPYFYCDFHGH 93 (128)
Q Consensus 34 ~~~~~gi~~syTlE~Sf~G~dlg~-~k---f~----------------~kdL~pigk~L~e~l~~ll~~~~~~y~D~HGH 93 (128)
|||--.=++... ....|.|+|+ |. .. .--.+|.++++.++|.....+ +.+|++||..
T Consensus 235 ~WRKnRs~~~~~--~~C~GvDlNRNfd~~W~~~~Gas~~PCse~Y~G~~pfSEpEt~av~~fi~~~~~~-i~~yislHSY 311 (418)
T KOG2650|consen 235 LWRKNRSPNGCA--SRCIGVDLNRNFDFHWGGGKGASSDPCSETYAGPSPFSEPETRAVRDFITSFENN-IKAYISLHSY 311 (418)
T ss_pred cccccCCCCCCC--CeeeCCCCCCCccCcCCCCCCCCCCCCccccCCCCCCCcHHHHHHHHHHHhcCcc-eEEEEEeccc
Confidence 566544444432 2368999995 22 11 012457999999999875444 9999999988
Q ss_pred CC
Q psy3963 94 SL 95 (128)
Q Consensus 94 Sr 95 (128)
|.
T Consensus 312 sQ 313 (418)
T KOG2650|consen 312 SQ 313 (418)
T ss_pred ce
Confidence 74
No 64
>PF01280 Ribosomal_L19e: Ribosomal protein L19e; InterPro: IPR000196 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This entry represents structural domain of the ribosomal protein L19 from eukaryotes, as well as L19e from archaea []. L19/L19e is absent in bacteria. L19/L19e is part of the large ribosomal subunit, whose structure has been determined in a number of eukaryotic and archaeal species []. L19/L19e is a multi-helical protein consisting of two different 3-helical domains connected by a long, partly helical linker.; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 3IZR_T 3O58_S 3O5H_S 3IZS_T 2WWA_J 1S1I_P 2WW9_J 2ZKR_7 4A1A_O 4A1C_O ....
Probab=28.91 E-value=51 Score=24.96 Aligned_cols=48 Identities=19% Similarity=0.201 Sum_probs=28.5
Q ss_pred ccccccccCCccccchhHHHHHHHH-HHHHHHHhcCCCeEEEecCCCCC
Q psy3963 48 STYCGFDQGSFKIGTKESMKIVRGL-IEFCTRVLKKTPYFYCDFHGHSL 95 (128)
Q Consensus 48 ~Sf~G~dlg~~kf~~kdL~pigk~L-~e~l~~ll~~~~~~y~D~HGHSr 95 (128)
|+.-||=.++.++++.++.++..++ .+-+..+++..+++--...||||
T Consensus 11 a~vL~~G~~rVw~DP~~~~eI~~A~tR~~IR~LIk~G~I~~k~~k~~Sr 59 (148)
T PF01280_consen 11 ASVLGCGKNRVWIDPNELEEIANAITREDIRKLIKDGLIIKKPVKGHSR 59 (148)
T ss_dssp HHHHTS-GGGEEE-STTHHHHHH--SHHHHHHHHHTTSEEE---S--ST
T ss_pred HHHHCCCCCcEEeCHHHHHHHHhhhhHHHHHHHHHCCCeEeCCCCCCch
Confidence 3344444455679998888876544 66777888888999999999995
No 65
>PF01880 Desulfoferrodox: Desulfoferrodoxin; InterPro: IPR002742 Desulfoferrodoxins contains two types of iron: an Fe-S4 site very similar to that found in desulfoferrodoxin from Desulfovibrio gigas, and an octahedral coordinated high-spin ferrous site most probably with nitrogen/oxygen-containing ligands. Due to this rather unusual combination of active centres, this novel protein is named desulfoferrodoxin []. This domain comprises essentially the full length of neelaredoxin (O50258 from SWISSPROT, []), a monomeric, blue, non-haem iron protein of D. gigas said to bind two iron atoms per monomer with identical spectral properties. Neelaredoxin was shown recently to have significant superoxide dismutase activity []. This domain is also found (in a form in which the distance between the motifs H[HWYF]IXW and CN[IL]HGXW is somewhat shorter) as the C-terminal domain of desulfoferrodoxin, which is said to bind a single ferrous iron atom. The N-terminal domain of desulfoferrodoxin is described by IPR004462 from INTERPRO.; GO: 0005506 iron ion binding, 0016491 oxidoreductase activity, 0055114 oxidation-reduction process; PDB: 1VZI_B 2JI2_D 1VZH_B 2JI3_C 2JI1_C 1VZG_A 1Y07_D 1DFX_A 3QZB_A 2AMU_A ....
Probab=28.11 E-value=21 Score=24.66 Aligned_cols=10 Identities=50% Similarity=1.398 Sum_probs=8.9
Q ss_pred CCeEEEecCC
Q psy3963 83 TPYFYCDFHG 92 (128)
Q Consensus 83 ~~~~y~D~HG 92 (128)
.+..||++||
T Consensus 82 ~a~~yCNlHG 91 (96)
T PF01880_consen 82 KAYAYCNLHG 91 (96)
T ss_dssp EEEEEETTTE
T ss_pred EEEEEccccc
Confidence 6789999998
No 66
>PRK10602 murein peptide amidase A; Provisional
Probab=27.75 E-value=97 Score=24.84 Aligned_cols=55 Identities=16% Similarity=0.291 Sum_probs=37.1
Q ss_pred EEEeeeecceeeeeeeccccccccCCccccc------------------hh----------HHHHHHHHHHHHHHHhcCC
Q psy3963 32 ITIWREYGVVRSYTMESTYCGFDQGSFKIGT------------------KE----------SMKIVRGLIEFCTRVLKKT 83 (128)
Q Consensus 32 V~~~~~~gi~~syTlE~Sf~G~dlg~~kf~~------------------kd----------L~pigk~L~e~l~~ll~~~ 83 (128)
|.+.+..|...+ -...-.|.|+|+ .|+. ++ .+|.++++++++.++ .
T Consensus 76 ipvvNPDG~~~~--~R~n~~GvDLNR-nFp~~~w~~~~~~~~w~~~~~~~~~~~y~G~~p~SepEt~al~~~i~~~---~ 149 (237)
T PRK10602 76 VLAVNPDGCQLG--LRANANGVDLNR-NFPAANWKEGETVYRWNSAAEERDVVLLTGDKPGSEPETQALCQLIHRL---Q 149 (237)
T ss_pred EEEECccccccc--cccCCCCCchhh-cCCCcccccccccccccCCCCccchhhccCCCCCCCHHHHHHHHHHHHc---C
Confidence 456777776544 345568999985 2332 11 167899999988764 3
Q ss_pred CeEEEecCC
Q psy3963 84 PYFYCDFHG 92 (128)
Q Consensus 84 ~~~y~D~HG 92 (128)
+.+|.|+|.
T Consensus 150 ~~~~~s~Hs 158 (237)
T PRK10602 150 PAWVVSFHD 158 (237)
T ss_pred CCEEEEeec
Confidence 578999997
No 67
>cd06227 Peptidase_M14-like_2 A functionally uncharacterized subgroup of the M14 family of metallocarboxypeptidases (MCPs). The M14 family are zinc-binding carboxypeptidases (CPs) which hydrolyze single, C-terminal amino acids from polypeptide chains, and have a recognition site for the free C-terminal carboxyl group, which is a key determinant of specificity. Two major subfamilies of the M14 family, defined based on sequence and structural homology, are the A/B and N/E subfamilies. Enzymes belonging to the A/B subfamily are normally synthesized as inactive precursors containing preceding signal peptide, followed by an N-terminal pro-region linked to the enzyme; these proenzymes are called procarboxypeptidases. The A/B enzymes can be further divided based on their substrate specificity; Carboxypeptidase A-like (CPA-like) enzymes favor hydrophobic residues while carboxypeptidase B-like (CPB-like) enzymes only cleave the basic residues lysine or arginine. The A forms have slightly differe
Probab=27.55 E-value=27 Score=28.40 Aligned_cols=45 Identities=18% Similarity=0.071 Sum_probs=30.8
Q ss_pred cCCCccCCCCeecccccccccceEEEeeeecceeeeeeecccccccc
Q psy3963 9 CALSFDPKSSHYKIERSKESTARITIWREYGVVRSYTMESTYCGFDQ 55 (128)
Q Consensus 9 ~~p~Fs~~~C~F~v~k~Ke~TaRV~~~~~~gi~~syTlE~Sf~G~dl 55 (128)
..+.|.+.++.-.+.-.--||++--+|..+||+.+||+|-. |-+.
T Consensus 217 ~~~~y~~G~~~~~~~Y~a~G~s~Dway~~~gip~s~t~EL~--~~~~ 261 (272)
T cd06227 217 HCPRCQVGSAGKLVGYLAHGTSMDYMYDVLKVPYSFTFEIY--GDDK 261 (272)
T ss_pred hCCCCceecCccceeecCCCCHHHHHhhcCCCcEEEEEEcc--CCcc
Confidence 34445554444334344668888888988999999999987 5544
No 68
>PF01242 PTPS: 6-pyruvoyl tetrahydropterin synthase; InterPro: IPR007115 The complex organic chemistry involved in the transformation of GTP to tetrahydrobiopterin is catalysed by only three enzymes: GTP cyclohydrolase I, 6-pyruvoyltetrahydropterin synthase and sepiapterin reductase. Tetrahydrobiopterin is the cofactor for several aromatic amino acid monooxygenases and the nitric oxide synthases. 6-Pyruvoyl tetrahydropterin synthase (PTPS) [] is a Zn-dependent metalloprotein, transforms dihydroneopterin triphosphate into 6-pyruvoyltetrahydropterin in the presence of Mg(II) and for which the crystal structure is known. The enzyme is a homohexameric, composed of a dimer of trimers. A transition metal binding site formed by the three histidine residues 23, 48 and 50 is present in each subunit, and bound Zn(II) is responsible for the enzymatic activity. Site-directed mutagenesis of each of these three histidine residues results in a complete loss of metal binding and enzymatic activity [, ]. The function of the bacterial branch of the sequence lineage appears not to have been established.; GO: 0003874 6-pyruvoyltetrahydropterin synthase activity, 0046872 metal ion binding, 0006729 tetrahydrobiopterin biosynthetic process; PDB: 3QNA_E 3QN9_A 3QN0_B 1Y13_C 3D7J_A 3I2B_J 2OBA_D 3M0N_A 2A0S_A 3LZE_A ....
Probab=26.65 E-value=1e+02 Score=21.44 Aligned_cols=36 Identities=17% Similarity=0.189 Sum_probs=23.7
Q ss_pred eeeeeeeccccccccC--CccccchhHHHHHHHHHHHH
Q psy3963 41 VRSYTMESTYCGFDQG--SFKIGTKESMKIVRGLIEFC 76 (128)
Q Consensus 41 ~~syTlE~Sf~G~dlg--~~kf~~kdL~pigk~L~e~l 76 (128)
-++|+++..+.|..++ .+-+.-.++.+..+.+++.+
T Consensus 26 GH~y~v~v~v~g~~~~~~g~v~DF~~lk~~~~~i~~~l 63 (123)
T PF01242_consen 26 GHSYRVEVEVEGEELDEDGMVVDFGDLKKIIKEIDDQL 63 (123)
T ss_dssp EEEEEEEEEEEEESSTTTSSSS-HHHHHHHHHHHHHHH
T ss_pred CCEEEEEEEEEEeeCCCCCEEEEHHHHHHHHHHHHHHh
Confidence 4779999999998544 34456666666666655543
No 69
>TIGR00332 neela_ferrous desulfoferrodoxin ferrous iron-binding domain. The N-terminal domain of desulfoferrodoxin is described in a separate model, dfx_rbo (TIGR00320).
Probab=25.43 E-value=34 Score=24.17 Aligned_cols=11 Identities=36% Similarity=1.002 Sum_probs=9.3
Q ss_pred CCeEEEecCCC
Q psy3963 83 TPYFYCDFHGH 93 (128)
Q Consensus 83 ~~~~y~D~HGH 93 (128)
.+..||++||=
T Consensus 87 ~a~~YCNlHGL 97 (107)
T TIGR00332 87 RARMYCNIHGL 97 (107)
T ss_pred EEEEEeccccc
Confidence 57899999994
No 70
>COG4057 McrG Methyl coenzyme M reductase, gamma subunit [Coenzyme metabolism]
Probab=25.24 E-value=32 Score=27.77 Aligned_cols=60 Identities=25% Similarity=0.384 Sum_probs=35.3
Q ss_pred eeeeeeccccccccCC---cc---ccchhHHHHHHHHHHHHHHHhc--CCCeEEEecCCCC--CccceeEec
Q psy3963 42 RSYTMESTYCGFDQGS---FK---IGTKESMKIVRGLIEFCTRVLK--KTPYFYCDFHGHS--LKKNIFLYG 103 (128)
Q Consensus 42 ~syTlE~Sf~G~dlg~---~k---f~~kdL~pigk~L~e~l~~ll~--~~~~~y~D~HGHS--rk~N~F~yG 103 (128)
.++|.-+-|-|.|.|- ++ .-..||..+.|.|++.=. .+ +.=+==...|||| .-.|=+|+.
T Consensus 104 Rar~ymwr~RGvDtGtLSGRQiiE~RE~DlE~isK~l~eTe~--fDPA~~GiRGatVHGHslRLdEnGlMfd 173 (257)
T COG4057 104 RARTYMWRFRGVDTGTLSGRQIIEMRERDLEKISKELLETEF--FDPARSGIRGATVHGHSLRLDENGLMFD 173 (257)
T ss_pred HHHHHHhhhcccccCcccchhhhhHHHhhHHHHHHHHHHhhc--cChhhcccccceeccceeeecCCchhHH
Confidence 3456666677887663 33 445688899997776421 11 1112234679999 345656654
No 71
>PF12268 DUF3612: Protein of unknown function (DUF3612); InterPro: IPR022055 This domain family is found in bacteria, and is approximately 180 amino acids in length. The family is found in association with PF01381 from PFAM.
Probab=25.18 E-value=1.6e+02 Score=22.83 Aligned_cols=55 Identities=27% Similarity=0.355 Sum_probs=40.1
Q ss_pred cccccccceEEEeeeecceeeeeeecc------------ccccccCC-ccccchhHHHHHHHHHHHHH
Q psy3963 23 ERSKESTARITIWREYGVVRSYTMEST------------YCGFDQGS-FKIGTKESMKIVRGLIEFCT 77 (128)
Q Consensus 23 ~k~Ke~TaRV~~~~~~gi~~syTlE~S------------f~G~dlg~-~kf~~kdL~pigk~L~e~l~ 77 (128)
+...-+.|-+.+.+.-+-+..|.-|+. .+|.|||+ ..-.-.|-..++..|++.|.
T Consensus 54 ~~~~gssAQiSIL~v~~~prIYcCESi~v~D~Agn~hVLCaGIDLNPAi~aQG~da~~iA~~lK~~Cv 121 (178)
T PF12268_consen 54 EPSSGSSAQISILNVGNEPRIYCCESIKVKDLAGNNHVLCAGIDLNPAIDAQGGDALSIAEELKQACV 121 (178)
T ss_pred CCCCCcceeEEEeecCCCceEEEecccccccCCCCceeEEecccCCHhHhhcCCCHHHHHHHHHHHHH
Confidence 455677889999998889999999886 46788885 33444566666666666665
No 72
>PF05864 Chordopox_RPO7: Chordopoxvirus DNA-directed RNA polymerase 7 kDa polypeptide (RPO7); InterPro: IPR008448 DNA-directed RNA polymerases 2.7.7.6 from EC (also known as DNA-dependent RNA polymerases) are responsible for the polymerisation of ribonucleotides into a sequence complementary to the template DNA. In eukaryotes, there are three different forms of DNA-directed RNA polymerases transcribing different sets of genes. Most RNA polymerases are multimeric enzymes and are composed of a variable number of subunits. The core RNA polymerase complex consists of five subunits (two alpha, one beta, one beta-prime and one omega) and is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. The core RNA polymerase complex forms a "crab claw"-like structure with an internal channel running along the full length []. The key functional sites of the enzyme, as defined by mutational and cross-linking analysis, are located on the inner wall of this channel. RNA synthesis follows after the attachment of RNA polymerase to a specific site, the promoter, on the template DNA strand. The RNA synthesis process continues until a termination sequence is reached. The RNA product, which is synthesised in the 5' to 3'direction, is known as the primary transcript. Eukaryotic nuclei contain three distinct types of RNA polymerases that differ in the RNA they synthesise: RNA polymerase I: located in the nucleoli, synthesises precursors of most ribosomal RNAs. RNA polymerase II: occurs in the nucleoplasm, synthesises mRNA precursors. RNA polymerase III: also occurs in the nucleoplasm, synthesises the precursors of 5S ribosomal RNA, the tRNAs, and a variety of other small nuclear and cytosolic RNAs. Eukaryotic cells are also known to contain separate mitochondrial and chloroplast RNA polymerases. Eukaryotic RNA polymerases, whose molecular masses vary in size from 500 to 700 kDa, contain two non-identical large (>100 kDa) subunits and an array of up to 12 different small (less than 50 kDa) subunits. This family consists of several Chordopoxvirus DNA-directed RNA polymerase 7 kDa polypeptide sequences. DNA-dependent RNA polymerase catalyses the transcription of DNA into RNA [].; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent
Probab=23.72 E-value=24 Score=22.94 Aligned_cols=37 Identities=22% Similarity=0.507 Sum_probs=25.0
Q ss_pred eeeeeccccccccCC--cc--ccchhHHHHHHHHHHHHHHH
Q psy3963 43 SYTMESTYCGFDQGS--FK--IGTKESMKIVRGLIEFCTRV 79 (128)
Q Consensus 43 syTlE~Sf~G~dlg~--~k--f~~kdL~pigk~L~e~l~~l 79 (128)
.|.|-||=||.|+.. |. .....|..+-+.....|.++
T Consensus 2 Vf~lvCSTCGrDlSeeRy~Lli~~~~Lk~Vl~~v~n~CCRl 42 (63)
T PF05864_consen 2 VFQLVCSTCGRDLSEERYRLLIKEMSLKKVLRTVKNSCCRL 42 (63)
T ss_pred eeeeeecccCCcchHHHHHHHHHHhhHHHHHHHhhccceee
Confidence 478899999999984 55 33344556666666666554
No 73
>PF14399 Transpep_BrtH: NlpC/p60-like transpeptidase
Probab=23.48 E-value=1.6e+02 Score=23.39 Aligned_cols=51 Identities=20% Similarity=0.295 Sum_probs=31.4
Q ss_pred hhHHHHHHHHHHHHHHHhcCCCeEEEec----------CCCCCccceeEeccCCCCC-ccccCc
Q psy3963 63 KESMKIVRGLIEFCTRVLKKTPYFYCDF----------HGHSLKKNIFLYGCSSQES-WLSSDK 115 (128)
Q Consensus 63 kdL~pigk~L~e~l~~ll~~~~~~y~D~----------HGHSrk~N~F~yGc~~~~~-~~~~~~ 115 (128)
++.......|++.|.+ ++.|++.+|+ +-|--.+++.+||....++ +.-.|.
T Consensus 72 ~~~~~~~~~l~~~l~~--g~pv~~~~D~~~lpy~~~~~~~~~~~H~i~v~G~d~~~~~~~v~D~ 133 (317)
T PF14399_consen 72 SSPDEAWEELKEALDA--GRPVIVWVDMYYLPYRPNYYKKHHADHYIVVYGYDEEEDVFYVSDP 133 (317)
T ss_pred CCHHHHHHHHHHHHhC--CCceEEEeccccCCCCccccccccCCcEEEEEEEeCCCCEEEEEcC
Confidence 3444455555555542 4689999994 2344678999999986544 333444
No 74
>cd03172 SORL_classII Superoxide reductase-like (SORL) domain, class II; SORL-domains are present in a family of mononuclear non-heme iron proteins that includes superoxide reductase and desulfoferrodoxin. Superoxide reductase-like proteins scavenge superoxide anion radicals as a defense mechanism against reactive oxygen species and are found in anaerobic bacteria and archeae, and microaerophilic Treponema pallidum. The SORL domain contains an active iron site, Fe[His4Cys(Glu)], which in the reduced state loses the glutamate ligand. Superoxide reductase (class II) forms a homotetramer with four Fe[His4Cys(Glu)] centers.
Probab=23.35 E-value=34 Score=23.91 Aligned_cols=8 Identities=50% Similarity=1.344 Sum_probs=6.6
Q ss_pred eEEEecCC
Q psy3963 85 YFYCDFHG 92 (128)
Q Consensus 85 ~~y~D~HG 92 (128)
.-||++||
T Consensus 91 ~~yCNlHG 98 (104)
T cd03172 91 LSYCNIHG 98 (104)
T ss_pred EEEcccce
Confidence 34999998
No 75
>PF04952 AstE_AspA: Succinylglutamate desuccinylase / Aspartoacylase family; InterPro: IPR007036 This family describes both succinylglutamate desuccinylase that catalyses the fifth and last step in arginine catabolism by the arginine succinyltransferase pathway and also includes aspartoacylase 3.5.1.15 from EC which cleaves acylaspartate into a fatty acid and aspartate. Mutations in P45381 from SWISSPROT lead to Canavan disease [].; GO: 0016788 hydrolase activity, acting on ester bonds, 0008152 metabolic process; PDB: 3CDX_A 3FMC_A 3NA6_A 2BCO_B 3B2Y_A 3LWU_A 3IEH_A 2QVP_B 2G9D_A 1YW4_A ....
Probab=22.82 E-value=1.1e+02 Score=24.17 Aligned_cols=47 Identities=11% Similarity=-0.016 Sum_probs=29.8
Q ss_pred ccccccCCccccchhHH---------HHHHHHHHHHHHHhcCCCeEEEecCCCCCcc
Q psy3963 50 YCGFDQGSFKIGTKESM---------KIVRGLIEFCTRVLKKTPYFYCDFHGHSLKK 97 (128)
Q Consensus 50 f~G~dlg~~kf~~kdL~---------pigk~L~e~l~~ll~~~~~~y~D~HGHSrk~ 97 (128)
..|.|+|+ .|+-+..- ..+..+...+.+..-...-+..|||.=+...
T Consensus 58 ~d~~dLNR-~Fpg~~~~~~~~~~~~~~~~~~ia~~l~~~~~~~aD~~iDLHs~~~~~ 113 (292)
T PF04952_consen 58 IDGRDLNR-CFPGDALGSSLQEDYEATETERIAHALFEEILPDADYVIDLHSGSSSS 113 (292)
T ss_dssp TTSSBGGG-STTHHHHCHCTTHHHHHHHHHHHHHHHHHTTCCCGSEEEEEEEESSTB
T ss_pred CCCCCHHH-hCCCCccccccccccchhHHHHHHHHHhhhhhccceEEEEeccCCCCC
Confidence 45678873 46655555 5566666666544335677999999665544
No 76
>PF05677 DUF818: Chlamydia CHLPS protein (DUF818); InterPro: IPR008536 This family of unknown function includes several Chlamydia CHLPS proteins and Legionella SidB proteins.
Probab=22.40 E-value=1.4e+02 Score=25.77 Aligned_cols=42 Identities=21% Similarity=0.260 Sum_probs=29.5
Q ss_pred cccccceEEEeeeecceeeeeeeccccccccCCccccchhHHHHHHHHHHHHHHH
Q psy3963 25 SKESTARITIWREYGVVRSYTMESTYCGFDQGSFKIGTKESMKIVRGLIEFCTRV 79 (128)
Q Consensus 25 ~Ke~TaRV~~~~~~gi~~syTlE~Sf~G~dlg~~kf~~kdL~pigk~L~e~l~~l 79 (128)
+|+.-|-|.+|+--||..| .|+ .+.+||..-+.+.++||.+.
T Consensus 167 ak~~~aNvl~fNYpGVg~S-----------~G~--~s~~dLv~~~~a~v~yL~d~ 208 (365)
T PF05677_consen 167 AKELGANVLVFNYPGVGSS-----------TGP--PSRKDLVKDYQACVRYLRDE 208 (365)
T ss_pred HHHcCCcEEEECCCccccC-----------CCC--CCHHHHHHHHHHHHHHHHhc
Confidence 3556666777765566665 343 35689999999999999863
No 77
>cd03860 M14_CP_A-B_like The Peptidase M14 Carboxypeptidase (CP) A/B subfamily is one of two main M14 CP subfamilies defined by sequence and structural homology, the other being the N/E subfamily. CPs hydrolyze single, C-terminal amino acids from polypeptide chains. They have a recognition site for the free C-terminal carboxyl group, which is a key determinant of specificity. Enzymes belonging to the A/B subfamily are normally synthesized as inactive precursors containing preceding signal peptide, followed by a globular N-terminal pro-region linked to the enzyme; these proenzymes are called procarboxypeptidases. The A/B enzymes can be further divided based on their substrate specificity; Carboxypeptidase A-like (CPA-like) enzymes favor hydrophobic residues while carboxypeptidase B-like (CPB-like) enzymes only cleave the basic residues lysine or arginine. There are nine members in the A/B family: CPA1, CPA2, CPA3, CPA4, CPA5, CPA6, CPB, CPO and CPU. CPA1, CPA2 and CPB are produced by the
Probab=21.40 E-value=1.4e+02 Score=24.20 Aligned_cols=42 Identities=17% Similarity=0.187 Sum_probs=28.2
Q ss_pred EeeeecceeeeeeeccccccccCCccccchhHHHHHHHHHHHHH
Q psy3963 34 IWREYGVVRSYTMESTYCGFDQGSFKIGTKESMKIVRGLIEFCT 77 (128)
Q Consensus 34 ~~~~~gi~~syTlE~Sf~G~dlg~~kf~~kdL~pigk~L~e~l~ 77 (128)
+|...|++.+||+|..-.| ...+..+.++..++++..-..|.
T Consensus 247 ~y~~~~~~~~~t~El~~~~--~~gf~~p~~~i~~~~~e~~~~~~ 288 (294)
T cd03860 247 AYGVAGIPYSYTLELRDTG--RYGFLLPASQIIPTAEETFAGIK 288 (294)
T ss_pred hhccCCCcEEEEEEecCCC--CCCCcCChHHchhHHHHHHHHHH
Confidence 4444578899999998765 22356777888877765544444
No 78
>KOG2650|consensus
Probab=20.58 E-value=1.3e+02 Score=26.42 Aligned_cols=40 Identities=15% Similarity=0.258 Sum_probs=31.0
Q ss_pred eeeecceeeeeeeccccccccCC--ccccchhHHHHHHHHHHHHHH
Q psy3963 35 WREYGVVRSYTMESTYCGFDQGS--FKIGTKESMKIVRGLIEFCTR 78 (128)
Q Consensus 35 ~~~~gi~~syTlE~Sf~G~dlg~--~kf~~kdL~pigk~L~e~l~~ 78 (128)
+.+.||+-+||+|=- |.+. +..+.++..|.++.....|+-
T Consensus 372 y~~~gi~~~ft~ELr----d~g~~GF~LP~~~I~pt~~Et~~~i~~ 413 (418)
T KOG2650|consen 372 YDVLGIPYAFTFELR----DTGRYGFLLPASQIIPTAKETWAGIKA 413 (418)
T ss_pred hhccCCCEEEEEEec----cCCCCCccCChHHhhhhHHHHHHHHHH
Confidence 446899999999987 5554 457888999998877766653
Done!