Query 033621
Match_columns 115
No_of_seqs 111 out of 371
Neff 6.1
Searched_HMMs 46136
Date Fri Mar 29 04:23:15 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/033621.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/033621hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG3343 Vesicle coat complex C 100.0 6E-33 1.3E-37 202.8 11.1 102 1-106 3-105 (175)
2 COG5030 APS2 Clathrin adaptor 100.0 1.3E-28 2.8E-33 176.7 11.9 99 6-107 1-99 (152)
3 KOG0936 Clathrin adaptor compl 100.0 8.4E-28 1.8E-32 175.2 10.7 98 6-106 1-104 (182)
4 KOG0934 Clathrin adaptor compl 99.9 3.4E-26 7.3E-31 163.8 8.4 99 6-107 1-99 (145)
5 PF01217 Clat_adaptor_s: Clath 99.9 2.2E-24 4.7E-29 153.5 14.6 98 6-106 1-98 (141)
6 COG5541 RET3 Vesicle coat comp 99.9 1.5E-24 3.2E-29 158.8 10.6 102 2-107 3-113 (187)
7 KOG0935 Clathrin adaptor compl 99.9 1.8E-22 3.9E-27 142.4 12.0 100 6-107 1-100 (143)
8 KOG0938 Adaptor complexes medi 96.6 0.036 7.8E-07 45.9 10.7 93 6-104 1-93 (446)
9 KOG0937 Adaptor complexes medi 96.6 0.064 1.4E-06 45.1 12.0 94 7-104 1-94 (424)
10 PF08923 MAPKK1_Int: Mitogen-a 96.4 0.055 1.2E-06 38.0 9.3 97 4-102 14-115 (119)
11 PF15001 AP-5_subunit_s1: AP-5 96.0 0.13 2.8E-06 39.1 9.9 44 61-104 102-145 (189)
12 PF03164 Mon1: Trafficking pro 94.1 1.5 3.2E-05 36.6 12.0 86 8-98 12-98 (415)
13 KOG2740 Clathrin-associated pr 92.9 0.35 7.6E-06 40.3 6.3 98 6-107 1-99 (418)
14 PF03259 Robl_LC7: Roadblock/L 85.6 4.9 0.00011 25.2 6.2 74 3-78 11-90 (91)
15 KOG2635 Medium subunit of clat 84.8 15 0.00033 31.6 10.2 91 6-103 2-94 (512)
16 COG3322 Predicted periplasmic 76.0 10 0.00022 30.6 6.1 23 6-28 103-125 (295)
17 PF09695 YtfJ_HI0045: Bacteria 67.6 15 0.00033 27.3 4.9 30 8-40 126-155 (160)
18 COG2018 Uncharacterized distan 65.3 46 0.001 23.5 7.7 80 3-84 15-100 (119)
19 PF05228 CHASE4: CHASE4 domain 54.2 42 0.00092 23.0 5.2 24 4-27 47-72 (161)
20 PF09561 RE_HpaII: HpaII restr 48.1 85 0.0018 26.2 6.7 57 6-75 291-347 (355)
21 PF05323 Pox_A21: Poxvirus A21 43.0 65 0.0014 22.5 4.5 38 30-71 20-57 (111)
22 PF13774 Longin: Regulated-SNA 42.9 83 0.0018 19.6 8.5 63 40-104 3-65 (83)
23 PF04315 DUF462: Protein of un 42.5 21 0.00046 26.6 2.2 20 21-40 65-84 (164)
24 cd03016 PRX_1cys Peroxiredoxin 40.0 57 0.0012 24.1 4.2 22 6-27 116-137 (203)
25 cd04670 Nudix_Hydrolase_12 Mem 36.7 1.2E+02 0.0027 19.9 5.2 41 9-49 6-57 (127)
26 COG0450 AhpC Peroxiredoxin [Po 36.3 1.2E+02 0.0026 23.2 5.5 23 6-28 123-145 (194)
27 PF13503 DUF4123: Domain of un 34.3 61 0.0013 21.4 3.3 18 11-28 89-106 (124)
28 PRK13190 putative peroxiredoxi 34.3 58 0.0013 24.1 3.5 23 6-28 116-138 (202)
29 COG3054 Predicted transcriptio 33.3 46 0.00099 25.0 2.7 17 8-24 148-164 (184)
30 PRK13599 putative peroxiredoxi 32.5 56 0.0012 24.7 3.2 22 6-27 118-139 (215)
31 PHA03023 hypothetical protein; 31.6 1.1E+02 0.0024 21.4 4.2 39 30-72 20-59 (112)
32 PHA03045 IMV membrane protein; 31.6 1.2E+02 0.0026 21.3 4.4 39 30-72 20-58 (113)
33 PF10623 PilI: Plasmid conjuga 30.1 76 0.0017 21.0 3.0 15 9-23 10-24 (83)
34 cd04669 Nudix_Hydrolase_11 Mem 29.5 1.7E+02 0.0036 19.3 4.9 39 9-47 4-53 (121)
35 cd04685 Nudix_Hydrolase_26 Mem 29.3 1.9E+02 0.0041 19.8 5.2 41 9-49 4-58 (133)
36 PF01820 Dala_Dala_lig_N: D-al 27.9 1.5E+02 0.0032 20.1 4.4 28 73-101 3-30 (117)
37 cd03671 Ap4A_hydrolase_plant_l 27.4 2.1E+02 0.0045 19.6 5.2 41 9-49 7-57 (147)
38 PF14903 WG_beta_rep: WG conta 27.4 68 0.0015 16.3 2.1 16 12-27 3-18 (35)
39 cd04678 Nudix_Hydrolase_19 Mem 26.8 1.7E+02 0.0037 19.2 4.5 40 9-48 6-57 (129)
40 PRK13191 putative peroxiredoxi 26.8 81 0.0018 23.8 3.2 23 5-27 122-144 (215)
41 PF15404 PH_4: Pleckstrin homo 26.2 42 0.00092 25.3 1.5 29 42-70 5-33 (185)
42 cd08151 AOS Allene oxide synth 26.1 83 0.0018 25.3 3.3 23 3-25 158-180 (328)
43 PRK00714 RNA pyrophosphohydrol 25.3 2.2E+02 0.0047 20.0 5.1 41 9-49 12-62 (156)
44 PF03456 uDENN: uDENN domain; 25.2 1.1E+02 0.0023 18.3 3.0 19 4-22 41-59 (65)
45 PF00989 PAS: PAS fold; Inter 24.7 82 0.0018 19.2 2.5 16 7-22 11-26 (113)
46 KOG0997 Uncharacterized conser 24.5 4.9E+02 0.011 22.9 10.1 70 8-83 118-189 (523)
47 cd03430 GDPMH GDP-mannose glyc 24.2 2.4E+02 0.0052 19.4 5.0 41 8-48 15-67 (144)
48 PRK13189 peroxiredoxin; Provis 24.0 96 0.0021 23.4 3.1 22 6-27 125-146 (222)
49 cd03018 PRX_AhpE_like Peroxire 23.6 1.8E+02 0.0038 19.5 4.2 19 9-27 116-134 (149)
50 PF15603 Imm45: Immunity prote 23.2 1.2E+02 0.0026 19.9 3.1 32 80-111 49-80 (82)
51 PF13426 PAS_9: PAS domain; PD 22.9 94 0.002 18.5 2.5 15 8-22 2-16 (104)
52 KOG0559 Dihydrolipoamide succi 22.7 98 0.0021 26.3 3.1 21 60-80 308-328 (457)
53 PLN02609 catalase 21.0 2.5E+02 0.0054 24.4 5.3 49 2-50 202-263 (492)
54 cd08156 catalase_clade_3 Clade 20.6 1.2E+02 0.0025 25.8 3.3 48 3-50 146-206 (429)
No 1
>KOG3343 consensus Vesicle coat complex COPI, zeta subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=100.00 E-value=6e-33 Score=202.82 Aligned_cols=102 Identities=51% Similarity=0.823 Sum_probs=96.9
Q ss_pred CCCcceEeEEEEEcCCCCEEEEeeCCCCCCC-hHHHHHHHHHHHHHHhcCCCccccceEEecCeEEEEEEeceEEEEEEe
Q 033621 1 MDTCPSIKNILLLDSEGKRVAVKYYSNDWPT-NSAKEAFEKAVFTKTQKTNARTEAEIAMLEGNVIVYKFVQDLHFFVTG 79 (115)
Q Consensus 1 ~~sl~~I~ailIld~~Gkr~~sKyY~~~~~~-~~~q~~fE~~i~~k~~~~~~~~~~~i~~~~~~~vVyr~~adl~f~vv~ 79 (115)
+.|+|.|+|++|+|++|+|+++|||++++++ .++|++|||.+|+|++|.+ +||.++||+++|||.+.||+||++|
T Consensus 3 ~~sly~vk~iliLD~~G~Ri~aKYY~~~~~s~vkeqkaFEK~lF~KT~kt~----~eI~~ldg~~vvYk~~~Dl~fyv~G 78 (175)
T KOG3343|consen 3 PLSLYTVKAILILDSDGKRILAKYYDDPHPSTVKEQKAFEKNLFSKTSKTE----SEILLLDGNTVVYKSVIDLHFYVVG 78 (175)
T ss_pred ccchhhhheEEEEcCCCCEeeeeecCCCcchhHHHHHHHHHHHhccccccc----ceeEEecCcEEEEEecccEEEEEec
Confidence 3589999999999999999999999998877 9999999999999999864 6999999999999999999999999
Q ss_pred cCCcchHHHHHHHHHHHHHHHhhhCCc
Q 033621 80 GEDENELILATVLQGFFDAVGLLLRLL 106 (115)
Q Consensus 80 ~~~ENEL~l~~~i~~~veaLd~~f~~~ 106 (115)
+.+||||+|.++++|++|||+.+|++.
T Consensus 79 ~~~ENEl~L~svL~~l~dal~llLr~n 105 (175)
T KOG3343|consen 79 SEEENELMLMSVLTCLFDALSLLLRKN 105 (175)
T ss_pred CcchhHHHHHHHHHHHHHHHHHHHHhC
Confidence 999999999999999999999999864
No 2
>COG5030 APS2 Clathrin adaptor complex, small subunit [Intracellular trafficking and secretion]
Probab=99.96 E-value=1.3e-28 Score=176.72 Aligned_cols=99 Identities=20% Similarity=0.381 Sum_probs=93.9
Q ss_pred eEeEEEEEcCCCCEEEEeeCCCCCCChHHHHHHHHHHHHHHhcCCCccccceEEecCeEEEEEEeceEEEEEEecCCcch
Q 033621 6 SIKNILLLDSEGKRVAVKYYSNDWPTNSAKEAFEKAVFTKTQKTNARTEAEIAMLEGNVIVYKFVQDLHFFVTGGEDENE 85 (115)
Q Consensus 6 ~I~ailIld~~Gkr~~sKyY~~~~~~~~~q~~fE~~i~~k~~~~~~~~~~~i~~~~~~~vVyr~~adl~f~vv~~~~ENE 85 (115)
||+++||+|++||+|++|||+| .+..+|+++.++|++.++.|+++ ++++..+.+.++|||+||+|||+++.+.+|||
T Consensus 1 ~i~~vli~nrqgk~RL~K~yt~--~~~~e~~kli~~i~~lIs~R~~k-e~N~~e~k~~kiVYrrYA~LyF~f~Vd~~dnE 77 (152)
T COG5030 1 MIKFVLIFNRQGKPRLVKWYTP--VSDPEQAKLIADIYELISARKPK-ESNFIEGKNEKIVYRRYATLYFVFGVDNDDNE 77 (152)
T ss_pred CeEEEEEEcCCCceeeeEeecc--CCcHHHHHHHHHHHHHHHcCCch-hcccccccCcEEEeeecCcEEEEEEEcCCCCc
Confidence 7999999999999999999987 47888999999999999999865 78999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHhhhCCcc
Q 033621 86 LILATVLQGFFDAVGLLLRLLH 107 (115)
Q Consensus 86 L~l~~~i~~~veaLd~~f~~~~ 107 (115)
|+++++||.|||+||++|+|+-
T Consensus 78 l~iL~lIh~FVE~lDr~FgnVC 99 (152)
T COG5030 78 LIILELIHNFVEILDRFFGNVC 99 (152)
T ss_pred chHHHHHHHHHHHHHHHhccce
Confidence 9999999999999999999863
No 3
>KOG0936 consensus Clathrin adaptor complex, small subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=99.95 E-value=8.4e-28 Score=175.21 Aligned_cols=98 Identities=20% Similarity=0.347 Sum_probs=88.8
Q ss_pred eEeEEEEEcCCCCEEEEeeCCCCCCChHHHHHHHHHHHHHHhcCCCccccceEE------ecCeEEEEEEeceEEEEEEe
Q 033621 6 SIKNILLLDSEGKRVAVKYYSNDWPTNSAKEAFEKAVFTKTQKTNARTEAEIAM------LEGNVIVYKFVQDLHFFVTG 79 (115)
Q Consensus 6 ~I~ailIld~~Gkr~~sKyY~~~~~~~~~q~~fE~~i~~k~~~~~~~~~~~i~~------~~~~~vVyr~~adl~f~vv~ 79 (115)
||+|++|+|++||+|++|||+| .+.+.|+++.+++|..+++|+. +-|+++. -.+..++||+||+|||+++.
T Consensus 1 MI~AvlifNn~gkPRL~KFY~p--~~~~~Qq~lir~vf~lvs~R~~-n~~nFLe~~~l~g~~d~rlIYrhYATLYFvfvv 77 (182)
T KOG0936|consen 1 MIKAVLIFNNKGKPRLVKFYTP--VDEEKQQQLIREVFHLVSKRPD-NVCNFLEGNSLIGGSDNRLIYRHYATLYFVFVV 77 (182)
T ss_pred CeeEEEEecCCCCcceeeecCc--CChHHHHHHHHHHHHHHHcCCc-hHhhhhccccccCCccceeehheeeeEEEEEEE
Confidence 8999999999999999999998 4899999999999999999984 1233333 25899999999999999999
Q ss_pred cCCcchHHHHHHHHHHHHHHHhhhCCc
Q 033621 80 GEDENELILATVLQGFFDAVGLLLRLL 106 (115)
Q Consensus 80 ~~~ENEL~l~~~i~~~veaLd~~f~~~ 106 (115)
|++||||+++|+||.|||+||++|.|+
T Consensus 78 D~sEsEL~iLDLIQvfVEtLDkCF~nV 104 (182)
T KOG0936|consen 78 DSSESELGILDLIQVFVETLDKCFENV 104 (182)
T ss_pred cCCcchhHHHHHHHHHHHHHHHHHHhh
Confidence 999999999999999999999999986
No 4
>KOG0934 consensus Clathrin adaptor complex, small subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=99.93 E-value=3.4e-26 Score=163.76 Aligned_cols=99 Identities=17% Similarity=0.325 Sum_probs=94.2
Q ss_pred eEeEEEEEcCCCCEEEEeeCCCCCCChHHHHHHHHHHHHHHhcCCCccccceEEecCeEEEEEEeceEEEEEEecCCcch
Q 033621 6 SIKNILLLDSEGKRVAVKYYSNDWPTNSAKEAFEKAVFTKTQKTNARTEAEIAMLEGNVIVYKFVQDLHFFVTGGEDENE 85 (115)
Q Consensus 6 ~I~ailIld~~Gkr~~sKyY~~~~~~~~~q~~fE~~i~~k~~~~~~~~~~~i~~~~~~~vVyr~~adl~f~vv~~~~ENE 85 (115)
||+++|+.++|||.|++|||++ .+.++|+++++++.+.+.+|+.+ .|+++.+.++++|||+||+|+|+++.+.+|||
T Consensus 1 mi~f~LlvsrQGk~rL~k~y~~--~~~~er~~i~re~i~~~Lar~pk-~csfie~kd~kvVyrryasl~f~~~v~~~dNE 77 (145)
T KOG0934|consen 1 MIKFFLLVSRQGKTRLQKWYEA--LSIKERKKIERELIKSVLARKPK-MCSFIEYKDEKVVYRRYASLFFCVGVEDNDNE 77 (145)
T ss_pred CeEEEEEEeccCceehhHHHhh--hcHHHHHHHHHHHHHHHHhCCcc-cccchhccCceehhhhhhhEEEEEEEecCCch
Confidence 7999999999999999999997 48999999999999999999754 68999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHhhhCCcc
Q 033621 86 LILATVLQGFFDAVGLLLRLLH 107 (115)
Q Consensus 86 L~l~~~i~~~veaLd~~f~~~~ 107 (115)
|+++++||.+||.||++|+++-
T Consensus 78 L~~LE~IH~~vE~lDkYFg~VC 99 (145)
T KOG0934|consen 78 LAILEFIHNYVELLDKYFGSVC 99 (145)
T ss_pred hhHHHHHHHHHHHHHHHhccce
Confidence 9999999999999999999874
No 5
>PF01217 Clat_adaptor_s: Clathrin adaptor complex small chain; InterPro: IPR022775 Proteins synthesized on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment. This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. Clathrin coats contain both clathrin and adaptor complexes that link clathrin to receptors in coated vesicles. Clathrin-associated protein complexes are believed to interact with the cytoplasmic tails of membrane proteins, leading to their selection and concentration. The two major types of clathrin adaptor complexes are the heterotetrameric adaptor protein (AP) complexes, and the monomeric GGA (Golgi-localising, Gamma-adaptin ear domain homology, ARF-binding proteins) adaptors []. All AP complexes are heterotetramers composed of two large subunits (adaptins), a medium subunit (mu) and a small subunit (sigma). Each subunit has a specific function. Adaptin subunits recognise and bind to clathrin through their hinge region (clathrin box), and recruit accessory proteins that modulate AP function through their C-terminal appendage domains. By contrast, GGAs are monomers composed of four domains, which have functions similar to AP subunits: an N-terminal VHS (Vps27p/Hrs/Stam) domain, a GAT (GGA and Tom1) domain, a hinge region, and a C-terminal GAE (gamma-adaptin ear) domain. The GAE domain is similar to the AP gamma-adaptin ear domain, being responsible for the recruitment of accessory proteins that regulate clathrin-mediated endocytosis []. While clathrin mediates endocytic protein transport from ER to Golgi, coatomers (COPI, COPII) primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the small sigma and mu subunits of various adaptins from different AP clathrin adaptor complexes (including AP1, AP2, AP3 and AP4), and the zeta and delta subunits of various coatomer (COP) adaptors. The small sigma subunit of AP proteins have been characterised in several species [, , , ]. The sigma subunit plays a role in protein sorting in the late-Golgi/trans-Golgi network (TGN) and/or endosomes. The zeta subunit of coatomers (zeta-COP) is required for coatomer binding to Golgi membranes and for coat-vesicle assembly [, ]. More information about these proteins can be found at Protein of the Month: Clathrin [].; PDB: 1W63_W 2JKR_I 2VGL_S 2JKT_I 2XA7_S 2HF6_A 3TJZ_C.
Probab=99.93 E-value=2.2e-24 Score=153.46 Aligned_cols=98 Identities=32% Similarity=0.506 Sum_probs=86.0
Q ss_pred eEeEEEEEcCCCCEEEEeeCCCCCCChHHHHHHHHHHHHHHhcCCCccccceEEecCeEEEEEEeceEEEEEEecCCcch
Q 033621 6 SIKNILLLDSEGKRVAVKYYSNDWPTNSAKEAFEKAVFTKTQKTNARTEAEIAMLEGNVIVYKFVQDLHFFVTGGEDENE 85 (115)
Q Consensus 6 ~I~ailIld~~Gkr~~sKyY~~~~~~~~~q~~fE~~i~~k~~~~~~~~~~~i~~~~~~~vVyr~~adl~f~vv~~~~ENE 85 (115)
||+|++|+|++|+||++|||.+. +.++++++++++.+++.++++. .++++.++++.+|||+++||+|+++++.+|||
T Consensus 1 MI~~i~i~n~~G~~i~~k~y~~~--~~~~~~~~~~~~~~~~~~~~~~-~~~i~~~~~~~~vy~~~~dl~~~~v~~~~eNe 77 (141)
T PF01217_consen 1 MIKAILILNSQGKRILSKYYRDV--SEEERQKLFEKFIKKKSSRNSK-QSPIFEHDNYRIVYKRYSDLYFVVVGDENENE 77 (141)
T ss_dssp SEEEEEEEETTSEEEEEEESSTS--TSHHHHHHHHHHHHHHHTSSSS-STSEEEETTEEEEEEEETTEEEEEEESSTSBH
T ss_pred CEEEEEEEcCCCCEEEehhcCCc--cHHHHHHHHHHHHHHHHhcccc-cceeeecccceeeeEeeccEEEEEEeecccch
Confidence 89999999999999999999653 5556666667777777777532 38999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHhhhCCc
Q 033621 86 LILATVLQGFFDAVGLLLRLL 106 (115)
Q Consensus 86 L~l~~~i~~~veaLd~~f~~~ 106 (115)
+++++++|.++++|+.+|++.
T Consensus 78 l~~~e~l~~~v~~l~~~~~~v 98 (141)
T PF01217_consen 78 LLLLEFLHRLVEVLDDYFGNV 98 (141)
T ss_dssp HHHHHHHHHHHHHHHHHHSS-
T ss_pred HHHHHHHHHhhhhhhhhhccc
Confidence 999999999999999999964
No 6
>COG5541 RET3 Vesicle coat complex COPI, zeta subunit [Posttranslational modification, protein turnover, chaperones]
Probab=99.92 E-value=1.5e-24 Score=158.76 Aligned_cols=102 Identities=25% Similarity=0.407 Sum_probs=96.0
Q ss_pred CCcceEeEEEEEcCCCCEEEEeeCCCCC---------CChHHHHHHHHHHHHHHhcCCCccccceEEecCeEEEEEEece
Q 033621 2 DTCPSIKNILLLDSEGKRVAVKYYSNDW---------PTNSAKEAFEKAVFTKTQKTNARTEAEIAMLEGNVIVYKFVQD 72 (115)
Q Consensus 2 ~sl~~I~ailIld~~Gkr~~sKyY~~~~---------~~~~~q~~fE~~i~~k~~~~~~~~~~~i~~~~~~~vVyr~~ad 72 (115)
.|||.|+|+||+|+||+|+++|||.|++ .+.+++++||+++++|+.+.. .+|.+++|++|+|+++.|
T Consensus 3 lsLy~v~a~LilDsqGeriy~kyy~pph~~eg~~~vFnsvkkekefek~l~eKt~k~~----~~Il~f~d~lV~~k~~~d 78 (187)
T COG5541 3 LSLYDVEALLILDSQGERIYRKYYQPPHRSEGHQLVFNSVKKEKEFEKKLAEKTAKDR----ESILMFYDRLVMCKRLDD 78 (187)
T ss_pred cchheeeeeEEecCCccchhhhhcCCcccccccchhhcchhHHHHHHHHHHHHhhcCc----cceeeEcceeeeeeeehh
Confidence 3799999999999999999999999974 577899999999999999875 499999999999999999
Q ss_pred EEEEEEecCCcchHHHHHHHHHHHHHHHhhhCCcc
Q 033621 73 LHFFVTGGEDENELILATVLQGFFDAVGLLLRLLH 107 (115)
Q Consensus 73 l~f~vv~~~~ENEL~l~~~i~~~veaLd~~f~~~~ 107 (115)
+.+|++++-+|||..+.+++..+..||+.+++..+
T Consensus 79 v~~yiv~~meeNE~~l~q~f~~ir~Al~li~k~~~ 113 (187)
T COG5541 79 VLLYIVSPMEENEPFLGQVFDEIRAALILIVKTPT 113 (187)
T ss_pred EEEEEecccccccHHHHHHHHHHHHHHHHHHcCCc
Confidence 99999999999999999999999999999998754
No 7
>KOG0935 consensus Clathrin adaptor complex, small subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=99.89 E-value=1.8e-22 Score=142.44 Aligned_cols=100 Identities=17% Similarity=0.229 Sum_probs=90.9
Q ss_pred eEeEEEEEcCCCCEEEEeeCCCCCCChHHHHHHHHHHHHHHhcCCCccccceEEecCeEEEEEEeceEEEEEEecCCcch
Q 033621 6 SIKNILLLDSEGKRVAVKYYSNDWPTNSAKEAFEKAVFTKTQKTNARTEAEIAMLEGNVIVYKFVQDLHFFVTGGEDENE 85 (115)
Q Consensus 6 ~I~ailIld~~Gkr~~sKyY~~~~~~~~~q~~fE~~i~~k~~~~~~~~~~~i~~~~~~~vVyr~~adl~f~vv~~~~ENE 85 (115)
||++|||.|++||+|++|||-|. +..++++.+.++++.++.|+++-.+.+....+.++++|+||+|+|+++.|..+||
T Consensus 1 mi~FILiqNr~Gk~RLak~yv~~--dd~ek~~~~~~vh~lvs~Rd~K~~~~~~~~~~~~~~~rryagLyf~~~vd~tDne 78 (143)
T KOG0935|consen 1 MIRFILIQNRAGKTRLAKWYVQF--DDDEKQKLIEEVHALVTVRDAKHTNFVEFRNFKIIYRRRYAGLYFCICVDVTDNE 78 (143)
T ss_pred CeEEEEEEccccceeheeeeecc--CchHHHHHHHHHHHHHhhccchhhhheeeeeceEEEEEeeCCEEEEEEEecCCch
Confidence 79999999999999999999773 5556788899999999999987667777788888888899999999999999999
Q ss_pred HHHHHHHHHHHHHHHhhhCCcc
Q 033621 86 LILATVLQGFFDAVGLLLRLLH 107 (115)
Q Consensus 86 L~l~~~i~~~veaLd~~f~~~~ 107 (115)
++.++.||.|||.||.+|+|+-
T Consensus 79 layLe~IHlFVEvLd~fF~NVC 100 (143)
T KOG0935|consen 79 LAYLEHIHLFVEVLDEFFHNVC 100 (143)
T ss_pred HHHHHHHHHHHHHHHHHhcccc
Confidence 9999999999999999999973
No 8
>KOG0938 consensus Adaptor complexes medium subunit family [Intracellular trafficking, secretion, and vesicular transport]
Probab=96.63 E-value=0.036 Score=45.92 Aligned_cols=93 Identities=10% Similarity=0.132 Sum_probs=74.0
Q ss_pred eEeEEEEEcCCCCEEEEeeCCCCCCChHHHHHHHHHHHHHHhcCCCccccceEEecCeEEEEEEeceEEEEEEecCCcch
Q 033621 6 SIKNILLLDSEGKRVAVKYYSNDWPTNSAKEAFEKAVFTKTQKTNARTEAEIAMLEGNVIVYKFVQDLHFFVTGGEDENE 85 (115)
Q Consensus 6 ~I~ailIld~~Gkr~~sKyY~~~~~~~~~q~~fE~~i~~k~~~~~~~~~~~i~~~~~~~vVyr~~adl~f~vv~~~~ENE 85 (115)
||.|++|+|..|..++.|.|... ++ +.. -++|+--.-.+.-.-+++...++...+|-+..+|+++.+..++.|=
T Consensus 1 misglfi~n~rGevlink~fr~d---lk-rs~--~diFRv~vi~n~d~r~PV~~igsttf~~~r~~nl~lvaitksN~Nv 74 (446)
T KOG0938|consen 1 MISGLFIYNLRGEVLINKTFRDD---LK-RSI--VDIFRVQVINNLDVRSPVLTIGSTTFHHIRSSNLWLVAITKSNANV 74 (446)
T ss_pred CcceEEEEeccCcEEEehhhhhh---hh-hhH--HHHHHHhhhhccccCCCeeEecceeEEEEeeccEEEEEEecCCCch
Confidence 78999999999999999999753 32 111 2233322211111236899999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHhhhC
Q 033621 86 LILATVLQGFFDAVGLLLR 104 (115)
Q Consensus 86 L~l~~~i~~~veaLd~~f~ 104 (115)
.+..+++--+.+.+..+|+
T Consensus 75 a~v~eFl~kl~avm~aYfg 93 (446)
T KOG0938|consen 75 AAVFEFLYKLDAVMNAYFG 93 (446)
T ss_pred hhHHHHHHHHHHHHHHHhc
Confidence 9999999999999999998
No 9
>KOG0937 consensus Adaptor complexes medium subunit family [Intracellular trafficking, secretion, and vesicular transport]
Probab=96.55 E-value=0.064 Score=45.14 Aligned_cols=94 Identities=17% Similarity=0.281 Sum_probs=77.4
Q ss_pred EeEEEEEcCCCCEEEEeeCCCCCCChHHHHHHHHHHHHHHhcCCCccccceEEecCeEEEEEEeceEEEEEEecCCcchH
Q 033621 7 IKNILLLDSEGKRVAVKYYSNDWPTNSAKEAFEKAVFTKTQKTNARTEAEIAMLEGNVIVYKFVQDLHFFVTGGEDENEL 86 (115)
Q Consensus 7 I~ailIld~~Gkr~~sKyY~~~~~~~~~q~~fE~~i~~k~~~~~~~~~~~i~~~~~~~vVyr~~adl~f~vv~~~~ENEL 86 (115)
+.|+.++|..|+.+.+|=|... -+...=-+|=+.++.+. ..+ ...+++..+|...+|=+..++++.+++..+-|=-
T Consensus 1 ~sa~fild~~G~~lisr~yr~d-v~~s~~~~F~~~l~~~e-~~~--~~~p~l~~~g~~~~~ik~s~lylv~~~~~n~~a~ 76 (424)
T KOG0937|consen 1 ASAVFILDHKGEVLISRDYRGD-VPMSSTEKFFRKLFEKE-EGD--ESPPFLVHDGSRFIHIKHSNLYLVAGTRPNVSAA 76 (424)
T ss_pred CceEEEEcCCCcEeEeeccccc-CChhhhhhHHHHHhhhc-ccC--CCCCeEEeCCceEEEEeecceEEEEEeccCCCHH
Confidence 4689999999999999999764 23444455665666665 222 1357889999999999999999999998999999
Q ss_pred HHHHHHHHHHHHHHhhhC
Q 033621 87 ILATVLQGFFDAVGLLLR 104 (115)
Q Consensus 87 ~l~~~i~~~veaLd~~f~ 104 (115)
.++++++.+++.+..+|+
T Consensus 77 ~v~~~l~~~~~v~~~y~~ 94 (424)
T KOG0937|consen 77 LVLSFLYAVADVFGDYLS 94 (424)
T ss_pred HHHHHHHHHHHHHHHHhc
Confidence 999999999999999998
No 10
>PF08923 MAPKK1_Int: Mitogen-activated protein kinase kinase 1 interacting; InterPro: IPR015019 Protein phosphorylation, which plays a key role in most cellular activities, is a reversible process mediated by protein kinases and phosphoprotein phosphatases. Protein kinases catalyse the transfer of the gamma phosphate from nucleotide triphosphates (often ATP) to one or more amino acid residues in a protein substrate side chain, resulting in a conformational change affecting protein function. Phosphoprotein phosphatases catalyse the reverse process. Protein kinases fall into three broad classes, characterised with respect to substrate specificity []: Serine/threonine-protein kinases Tyrosine-protein kinases Dual specific protein kinases (e.g. MEK - phosphorylates both Thr and Tyr on target proteins) Protein kinase function has been evolutionarily conserved from Escherichia coli to human []. Protein kinases play a role in a multitude of cellular processes, including division, proliferation, apoptosis, and differentiation []. Phosphorylation usually results in a functional change of the target protein by changing enzyme activity, cellular location, or association with other proteins. The catalytic subunits of protein kinases are highly conserved, and several structures have been solved [], leading to large screens to develop kinase-specific inhibitors for the treatments of a number of diseases []. This entry represents Mitogen-activated protein kinase kinase 1 interacting protein, which is a small subcellular adaptor protein required for MAPK signalling and ERK1/2 activation. The overall topology of this domain has a central five-stranded beta-sheet sandwiched between a two alpha-helix and a one alpha-helix layer []. ; PDB: 1VEU_A 1VET_A 1SKO_A 2ZL1_A 3CPT_A.
Probab=96.40 E-value=0.055 Score=38.04 Aligned_cols=97 Identities=13% Similarity=0.198 Sum_probs=66.8
Q ss_pred cceEeEEEEEcCCCCEEEEeeCCCCCCChHHHHHHHHHHHHH----HhcCC-CccccceEEecCeEEEEEEeceEEEEEE
Q 033621 4 CPSIKNILLLDSEGKRVAVKYYSNDWPTNSAKEAFEKAVFTK----TQKTN-ARTEAEIAMLEGNVIVYKFVQDLHFFVT 78 (115)
Q Consensus 4 l~~I~ailIld~~Gkr~~sKyY~~~~~~~~~q~~fE~~i~~k----~~~~~-~~~~~~i~~~~~~~vVyr~~adl~f~vv 78 (115)
.+-+.+|+|-|+||-+++.=..+.. ++..-+..|... |.. ++|.+ +++..=+..|+++.++--....+++.++
T Consensus 14 v~Gl~~I~itDrDGvpi~~v~~~~~-~~~~~~~~~~~t-f~~a~~Q~~KL~lG~nk~ii~~Y~~~qvv~~~~~pl~it~i 91 (119)
T PF08923_consen 14 VDGLQAIVITDRDGVPIAKVSSDSA-PESAMRPSLLST-FAMAIDQASKLGLGKNKSIIAYYDSYQVVQFNKLPLYITFI 91 (119)
T ss_dssp STTEEEEEEEETTS-EEEEEE-TTS--GGGGSHHHHCC-HHHHHHHHTTSSS-SEEEEEEEESSEEEEEEEETTEEEEEE
T ss_pred cCCeEEEEEECCCCcEEEEecCCCC-cchhhhhHHHHH-HHHHhhcccccCCCCceEEEEEeCCEEEEEEeCCCeEEEEE
Confidence 4558999999999999888555542 333444455433 322 33432 2333457779999999999999999999
Q ss_pred ecCCcchHHHHHHHHHHHHHHHhh
Q 033621 79 GGEDENELILATVLQGFFDAVGLL 102 (115)
Q Consensus 79 ~~~~ENEL~l~~~i~~~veaLd~~ 102 (115)
++++-|==.++++-+-+.+.|..+
T Consensus 92 as~~aN~G~il~l~~~L~~~l~~l 115 (119)
T PF08923_consen 92 ASSNANTGLILSLEEELAPILNEL 115 (119)
T ss_dssp EETTS-HHHHHHHHHHHHHHHHHH
T ss_pred ecCCCCHHHHHHhHHHHHHHHHHH
Confidence 999999888888877777776643
No 11
>PF15001 AP-5_subunit_s1: AP-5 complex subunit sigma-1
Probab=95.97 E-value=0.13 Score=39.05 Aligned_cols=44 Identities=23% Similarity=0.275 Sum_probs=38.6
Q ss_pred cCeEEEEEEeceEEEEEEecCCcchHHHHHHHHHHHHHHHhhhC
Q 033621 61 EGNVIVYKFVQDLHFFVTGGEDENELILATVLQGFFDAVGLLLR 104 (115)
Q Consensus 61 ~~~~vVyr~~adl~f~vv~~~~ENEL~l~~~i~~~veaLd~~f~ 104 (115)
+...+|++...++.|.+|.+..||=+..-.+++.++..|...++
T Consensus 102 ~~k~vvW~~v~~l~ftLVce~hEN~lLa~~~L~~~~~~l~~~~~ 145 (189)
T PF15001_consen 102 TPKIVVWLGVGSLCFTLVCEPHENRLLAENTLRLFIRHLLEHLK 145 (189)
T ss_pred CCcEEEeeccCCEEEEEEecCchhHHHHHHHHHHHHHHHHHHHH
Confidence 45789999999999999999999999999999999888865553
No 12
>PF03164 Mon1: Trafficking protein Mon1; InterPro: IPR004353 Members of this family have been called SAND proteins [] although these proteins do not contain a SAND domain. In Saccharomyces cerevisiae a protein complex of Mon1 and Ccz1 functions with the small GTPase Ypt7 to mediate vesicle trafficking to the vacuole [, ]. The Mon1/Ccz1 complex is conserved in eukaryotic evolution and members of this family (previously known as DUF254) are distant homologues to domains of known structure that assemble into cargo vesicle adapter (AP) complexes [, ].
Probab=94.13 E-value=1.5 Score=36.62 Aligned_cols=86 Identities=15% Similarity=0.181 Sum_probs=58.6
Q ss_pred eEEEEEcCCCCEEEEeeCCCCCCChHHHHHHHHHHHHHHhcCCCccc-cceEEecCeEEEEEEeceEEEEEEecCCcchH
Q 033621 8 KNILLLDSEGKRVAVKYYSNDWPTNSAKEAFEKAVFTKTQKTNARTE-AEIAMLEGNVIVYKFVQDLHFFVTGGEDENEL 86 (115)
Q Consensus 8 ~ailIld~~Gkr~~sKyY~~~~~~~~~q~~fE~~i~~k~~~~~~~~~-~~i~~~~~~~vVyr~~adl~f~vv~~~~ENEL 86 (115)
+=++|+.+.||+++++| . ++++=..+-.-+...++--...++ -.-+..+++++||..-+-|+++.+...+|.+-
T Consensus 12 kh~fIlS~AGKPIysr~-G----~e~~l~~~~g~~~aiiS~~~~~~d~l~~i~~~~~~ivfl~r~pl~lv~vS~~~e~~~ 86 (415)
T PF03164_consen 12 KHFFILSSAGKPIYSRY-G----DEDKLSSLMGVIQAIISFFQSNGDELRSIRAGDHRIVFLNRGPLILVAVSKTGESES 86 (415)
T ss_pred CeEEEECCCCceeEEec-C----ChHHHHHHHHHHHHHHHHHHhCCCcEEEEEeCCEEEEEEecCCEEEEEEcCCcCCHH
Confidence 45789999999999988 2 333333444444333332211111 23455789999999999999999999999987
Q ss_pred HHHHHHHHHHHH
Q 033621 87 ILATVLQGFFDA 98 (115)
Q Consensus 87 ~l~~~i~~~vea 98 (115)
.|..-++.++.-
T Consensus 87 ~l~~qL~~ly~q 98 (415)
T PF03164_consen 87 QLRKQLDYLYSQ 98 (415)
T ss_pred HHHHHHHHHHHH
Confidence 777766666543
No 13
>KOG2740 consensus Clathrin-associated protein medium chain [Intracellular trafficking, secretion, and vesicular transport]
Probab=92.92 E-value=0.35 Score=40.32 Aligned_cols=98 Identities=14% Similarity=0.201 Sum_probs=63.1
Q ss_pred eEeEEEEEcCCCCEEEEeeCCCCCCChHHHHHHHHHHHHHHhcCCCccccceEEecCeEEEEEEeceE-EEEEEecCCcc
Q 033621 6 SIKNILLLDSEGKRVAVKYYSNDWPTNSAKEAFEKAVFTKTQKTNARTEAEIAMLEGNVIVYKFVQDL-HFFVTGGEDEN 84 (115)
Q Consensus 6 ~I~ailIld~~Gkr~~sKyY~~~~~~~~~q~~fE~~i~~k~~~~~~~~~~~i~~~~~~~vVyr~~adl-~f~vv~~~~EN 84 (115)
||+++.+.|.+|+..+-|--... ..-+..+...|+.-++....-+.....--.+--++.-+.+. +|+.+.-.+--
T Consensus 1 mi~siflidtsg~l~lek~~~g~----t~~rsic~~f~e~~~~~~~~e~~ppvi~~p~hylfsv~~~~i~~~~~st~e~p 76 (418)
T KOG2740|consen 1 MILSIFLIDTSGDLLLEKHLKGS----TVVRSICDYFFEDQSSDDDLEHVPPVISTPHHYLFSVYRDLIFFCAVSTVETP 76 (418)
T ss_pred CeeEEEEEcCCchhhhhHhhCCc----eeeeehHHHHHHhhhhccccccCCceecCCceeeeeeeccCcEEEEEEeccCC
Confidence 79999999999999887765421 12344555555554444321123344444444455555554 44444444445
Q ss_pred hHHHHHHHHHHHHHHHhhhCCcc
Q 033621 85 ELILATVLQGFFDAVGLLLRLLH 107 (115)
Q Consensus 85 EL~l~~~i~~~veaLd~~f~~~~ 107 (115)
-|...++++.+++.|..+|+..+
T Consensus 77 PL~~iefL~rv~dv~~eyFg~~s 99 (418)
T KOG2740|consen 77 PLMVIEFLHRVVDVLLEYFGGLS 99 (418)
T ss_pred ChhHHHHHHHHHHHHHHHhcccC
Confidence 89999999999999999999654
No 14
>PF03259 Robl_LC7: Roadblock/LC7 domain; InterPro: IPR004942 This family includes proteins that are about 100 amino acids long and have been shown to be related []. Members of this family of proteins are associated with both flagellar outer arm dynein and Drosophila and rat brain cytoplasmic dynein. It is proposed that roadblock/LC7 family members may modulate specific dynein functions []. This family also includes Golgi-associated MP1 adapter protein (Q9Y2Q5 from SWISSPROT) and MglB from Myxococcus xanthus (Q50883 from SWISSPROT), a protein involved in gliding motility []. However the family also includes members from non-motile bacteria such as Streptomyces coelicolor, suggesting that the protein may play a structural or regulatory role.; PDB: 2B95_B 1Z09_A 2E8J_B 2HZ5_B 3KYE_A 2ZL1_B 1SKO_B 3CPT_B 1VEU_B 1VET_B ....
Probab=85.58 E-value=4.9 Score=25.20 Aligned_cols=74 Identities=19% Similarity=0.220 Sum_probs=41.7
Q ss_pred CcceEeEEEEEcCCCCEEEEeeCCCCCCChHHHHHHHHHHHHHHhcCCC---ccc--cceEEecCeEEEEEEece-EEEE
Q 033621 3 TCPSIKNILLLDSEGKRVAVKYYSNDWPTNSAKEAFEKAVFTKTQKTNA---RTE--AEIAMLEGNVIVYKFVQD-LHFF 76 (115)
Q Consensus 3 sl~~I~ailIld~~Gkr~~sKyY~~~~~~~~~q~~fE~~i~~k~~~~~~---~~~--~~i~~~~~~~vVyr~~ad-l~f~ 76 (115)
+.+-|++.+++|++|..+.+ ..+...+.+.=.+.-..++..+.+... .++ .=.+..++..++....++ .+++
T Consensus 11 ~~~gv~~~~l~~~dG~~i~~--~~~~~~~~~~~aa~~a~~~~~~~~~~~~l~~~~~~~v~i~~~~~~i~i~~~~~~~~L~ 88 (91)
T PF03259_consen 11 SVPGVRGAVLVDKDGLVIAS--SGIDDDDAEKLAAMAASLLAAAEKLAKELGEGELEQVRIETEKGEIIITPVGDFYLLV 88 (91)
T ss_dssp HSTTEEEEEEEETTSEEEEE--TSSSHHHHHHHHHHHHHHHHHHHHHHHHHTTSSEEEEEEEESSEEEEEEECSTCEEEE
T ss_pred CCCCeeEEEEEcCCCCEEEE--ecCCcccHHHHHHHHHHHHHHHHHHHHHhCCCCcEEEEEEECCCEEEEEEcCCCEEEE
Confidence 46789999999999999998 332111122222333444444443211 111 124446777777777777 5555
Q ss_pred EE
Q 033621 77 VT 78 (115)
Q Consensus 77 vv 78 (115)
++
T Consensus 89 v~ 90 (91)
T PF03259_consen 89 VL 90 (91)
T ss_dssp EE
T ss_pred EE
Confidence 54
No 15
>KOG2635 consensus Medium subunit of clathrin adaptor complex [Intracellular trafficking, secretion, and vesicular transport]
Probab=84.81 E-value=15 Score=31.63 Aligned_cols=91 Identities=13% Similarity=0.162 Sum_probs=67.3
Q ss_pred eEeEEEEEcCCCCEEEEeeCCCCCCChHHHHHHHHHH--HHHHhcCCCccccceEEecCeEEEEEEeceEEEEEEecCCc
Q 033621 6 SIKNILLLDSEGKRVAVKYYSNDWPTNSAKEAFEKAV--FTKTQKTNARTEAEIAMLEGNVIVYKFVQDLHFFVTGGEDE 83 (115)
Q Consensus 6 ~I~ailIld~~Gkr~~sKyY~~~~~~~~~q~~fE~~i--~~k~~~~~~~~~~~i~~~~~~~vVyr~~adl~f~vv~~~~E 83 (115)
++-|..+....||.++++=+.. + .|.++|.-| |.|.-... .+.-++.-+...-||+-...+|++++...+.
T Consensus 2 vvlaa~i~t~~Gk~ivsRqf~~--M---sr~RIEgLl~aFpkLv~~~--~qhT~vEt~~VRYVYqP~d~lY~vLITtk~S 74 (512)
T KOG2635|consen 2 VVLAASINTKTGKAIVSRQFRE--M---SRSRIEGLLAAFPKLVSAG--KQHTFVETDSVRYVYQPLDNLYIVLITTKQS 74 (512)
T ss_pred eEEEEEEeecCCceeeehHhHh--h---hHHHHHHHHHHhHHhhccC--CCccEEecccEEEEEEecccEEEEEEecccc
Confidence 3567788999999998876653 2 255666554 34444322 2467888899999999999999999999999
Q ss_pred chHHHHHHHHHHHHHHHhhh
Q 033621 84 NELILATVLQGFFDAVGLLL 103 (115)
Q Consensus 84 NEL~l~~~i~~~veaLd~~f 103 (115)
|=|-=++.|+-|......+.
T Consensus 75 NIleDl~TL~Lfskvipey~ 94 (512)
T KOG2635|consen 75 NILEDLETLRLFSKVIPEYC 94 (512)
T ss_pred chhhHHHHHHHHHHhchhhh
Confidence 98888888877766555443
No 16
>COG3322 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]
Probab=75.98 E-value=10 Score=30.62 Aligned_cols=23 Identities=22% Similarity=0.463 Sum_probs=20.8
Q ss_pred eEeEEEEEcCCCCEEEEeeCCCC
Q 033621 6 SIKNILLLDSEGKRVAVKYYSND 28 (115)
Q Consensus 6 ~I~ailIld~~Gkr~~sKyY~~~ 28 (115)
-+.+++++|.+|+.+++|.+++.
T Consensus 103 g~d~vf~vd~~G~~vy~~~~d~~ 125 (295)
T COG3322 103 GLDGVFVVDPSGKLVYSKLVDQE 125 (295)
T ss_pred CccEEEEECCCCCEEEEeeeccc
Confidence 47899999999999999999874
No 17
>PF09695 YtfJ_HI0045: Bacterial protein of unknown function (YtfJ_HI0045); InterPro: IPR006513 These are sequences from gammaproteobacteria that are related to the Escherichia coli protein, YtfJ.
Probab=67.60 E-value=15 Score=27.26 Aligned_cols=30 Identities=23% Similarity=0.225 Sum_probs=22.5
Q ss_pred eEEEEEcCCCCEEEEeeCCCCCCChHHHHHHHH
Q 033621 8 KNILLLDSEGKRVAVKYYSNDWPTNSAKEAFEK 40 (115)
Q Consensus 8 ~ailIld~~Gkr~~sKyY~~~~~~~~~q~~fE~ 40 (115)
.+|+++|++|+.+++|.=. .+.++.+++-.
T Consensus 126 SaiiVlDK~G~V~F~k~G~---Ls~~Ev~qVi~ 155 (160)
T PF09695_consen 126 SAIIVLDKQGKVQFVKEGA---LSPAEVQQVIA 155 (160)
T ss_pred ceEEEEcCCccEEEEECCC---CCHHHHHHHHH
Confidence 5899999999999998643 46666655543
No 18
>COG2018 Uncharacterized distant relative of homeotic protein bithoraxoid [General function prediction only]
Probab=65.31 E-value=46 Score=23.53 Aligned_cols=80 Identities=19% Similarity=0.322 Sum_probs=53.2
Q ss_pred CcceEeEEEEEcCCCCEEEEeeCCCCCCChHHHHHHHHHHHHHHhcCCC---ccccceEE---ecCeEEEEEEeceEEEE
Q 033621 3 TCPSIKNILLLDSEGKRVAVKYYSNDWPTNSAKEAFEKAVFTKTQKTNA---RTEAEIAM---LEGNVIVYKFVQDLHFF 76 (115)
Q Consensus 3 sl~~I~ailIld~~Gkr~~sKyY~~~~~~~~~q~~fE~~i~~k~~~~~~---~~~~~i~~---~~~~~vVyr~~adl~f~ 76 (115)
+++-|++.+|.+.+|=.+.+..-.+ .+.+.=.+.-..++....+... -++-+-+. -++++++|+.-.+.++.
T Consensus 15 ~v~gv~ga~Ivs~DGL~ia~~~p~~--~d~e~vaA~~a~~~g~~er~~~~l~~g~leqi~I~g~~g~i~l~~~g~~~il~ 92 (119)
T COG2018 15 NVPGVRGALVVSKDGLPIAAELPGN--VDAEIVAAMAATALGLAERAADELGGGELEQIMIEGKKGKILLYDAGDDAILV 92 (119)
T ss_pred hccCceEEEEEccCCceEeecCCCc--ccHHHHHHHHHHHHHHhHHHHHHhCCCCceEEEEeccccEEEEEEcCCceEEE
Confidence 3788999999999999999866443 2334445555666665554332 11223333 35678888887799999
Q ss_pred EEecCCcc
Q 033621 77 VTGGEDEN 84 (115)
Q Consensus 77 vv~~~~EN 84 (115)
++.+...|
T Consensus 93 ~~a~~~~n 100 (119)
T COG2018 93 VLADEGTN 100 (119)
T ss_pred EEcCCCCc
Confidence 98887766
No 19
>PF05228 CHASE4: CHASE4 domain; InterPro: IPR007892 CHASE4 is an extracellular sensory domain, which is present in various classes of transmembrane receptors that are upstream of signal transduction pathways in prokaryotes. Specifically, CHASE4 domains are found in histidine kinases in archaea and in predicted diguanylate cyclases/phosphodiesterases in bacteria. Environmental factors that are recognised by CHASE4 domains are not known at this time [].
Probab=54.19 E-value=42 Score=23.03 Aligned_cols=24 Identities=25% Similarity=0.362 Sum_probs=19.9
Q ss_pred cceEeEEEEEcCCCCEEE--EeeCCC
Q 033621 4 CPSIKNILLLDSEGKRVA--VKYYSN 27 (115)
Q Consensus 4 l~~I~ailIld~~Gkr~~--sKyY~~ 27 (115)
-..+.+++++|.+|+.++ ++.++.
T Consensus 47 ~~~~d~~~~~d~~g~~~~~~~~~~~~ 72 (161)
T PF05228_consen 47 NFGLDLIFILDPDGRVLYSSSKGYDF 72 (161)
T ss_pred hcCccEEEEEcCCCCEEEEeccCccc
Confidence 356889999999999999 766655
No 20
>PF09561 RE_HpaII: HpaII restriction endonuclease; InterPro: IPR019062 There are four classes of restriction endonucleases: types I, II,III and IV. All types of enzymes recognise specific short DNA sequences and carry out the endonucleolytic cleavage of DNA to give specific double-stranded fragments with terminal 5'-phosphates. They differ in their recognition sequence, subunit composition, cleavage position, and cofactor requirements [, ], as summarised below: Type I enzymes (3.1.21.3 from EC) cleave at sites remote from recognition site; require both ATP and S-adenosyl-L-methionine to function; multifunctional protein with both restriction and methylase (2.1.1.72 from EC) activities. Type II enzymes (3.1.21.4 from EC) cleave within or at short specific distances from recognition site; most require magnesium; single function (restriction) enzymes independent of methylase. Type III enzymes (3.1.21.5 from EC) cleave at sites a short distance from recognition site; require ATP (but doesn't hydrolyse it); S-adenosyl-L-methionine stimulates reaction but is not required; exists as part of a complex with a modification methylase methylase (2.1.1.72 from EC). Type IV enzymes target methylated DNA. Type II restriction endonucleases (3.1.21.4 from EC) are components of prokaryotic DNA restriction-modification mechanisms that protect the organism against invading foreign DNA. These site-specific deoxyribonucleases catalyse the endonucleolytic cleavage of DNA to give specific double-stranded fragments with terminal 5'-phosphates. Of the 3000 restriction endonucleases that have been characterised, most are homodimeric or tetrameric enzymes that cleave target DNA at sequence-specific sites close to the recognition site. For homodimeric enzymes, the recognition site is usually a palindromic sequence 4-8 bp in length. Most enzymes require magnesium ions as a cofactor for catalysis. Although they can vary in their mode of recognition, many restriction endonucleases share a similar structural core comprising four beta-strands and one alpha-helix, as well as a similar mechanism of cleavage, suggesting a common ancestral origin []. However, there is still considerable diversity amongst restriction endonucleases [, ]. The target site recognition process triggers large conformational changes of the enzyme and the target DNA, leading to the activation of the catalytic centres. Like other DNA binding proteins, restriction enzymes are capable of non-specific DNA binding as well, which is the prerequisite for efficient target site location by facilitated diffusion. Non-specific binding usually does not involve interactions with the bases but only with the DNA backbone []. This family includes HpaII, which recognises the double-stranded sequence CCGG and cleaves after C-1.
Probab=48.06 E-value=85 Score=26.15 Aligned_cols=57 Identities=12% Similarity=0.302 Sum_probs=40.6
Q ss_pred eEeEEEEEcCCCCEEEEeeCCCCCCChHHHHHHHHHHHHHHhcCCCccccceEEecCeEEEEEEeceEEE
Q 033621 6 SIKNILLLDSEGKRVAVKYYSNDWPTNSAKEAFEKAVFTKTQKTNARTEAEIAMLEGNVIVYKFVQDLHF 75 (115)
Q Consensus 6 ~I~ailIld~~Gkr~~sKyY~~~~~~~~~q~~fE~~i~~k~~~~~~~~~~~i~~~~~~~vVyr~~adl~f 75 (115)
..-|.+|++.+|..++=+-|+ |..||.-+|.-|+=..+ =..=.++--+||.-+..||
T Consensus 291 a~gGyivV~~dGevlcYHiy~--------rn~FedYL~~NTkle~~-----SssRh~fG~iy~enG~~yf 347 (355)
T PF09561_consen 291 ATGGYIVVKEDGEVLCYHIYN--------RNEFEDYLYNNTKLETP-----SSSRHKFGFIYRENGEYYF 347 (355)
T ss_pred ccceEEEEeCCCCEEEEEehh--------HHHHHHHHHhcccccCC-----CCCcccceEEEEECCEEEE
Confidence 356899999999998876664 78999999998873221 0111456668887777665
No 21
>PF05323 Pox_A21: Poxvirus A21 Protein; InterPro: IPR007987 This family consists of several poxvirus A21 proteins.
Probab=42.95 E-value=65 Score=22.54 Aligned_cols=38 Identities=21% Similarity=0.389 Sum_probs=31.9
Q ss_pred CChHHHHHHHHHHHHHHhcCCCccccceEEecCeEEEEEEec
Q 033621 30 PTNSAKEAFEKAVFTKTQKTNARTEAEIAMLEGNVIVYKFVQ 71 (115)
Q Consensus 30 ~~~~~q~~fE~~i~~k~~~~~~~~~~~i~~~~~~~vVyr~~a 71 (115)
|...++.+.|+..|.+.++.+ ..+.-.||+...|+.-.
T Consensus 20 P~I~eKLr~E~~ay~~~k~~~----~~~~CVdd~lf~y~f~~ 57 (111)
T PF05323_consen 20 PAISEKLRLEHDAYVKYKNLK----KKFICVDDRLFSYKFNT 57 (111)
T ss_pred HHHHHHHHHHHHHHHHHHhcC----CcEEEECCEEEEEEccc
Confidence 456789999999999999874 47888999999998644
No 22
>PF13774 Longin: Regulated-SNARE-like domain; PDB: 1IOU_A 3BW6_A 1H8M_A 3EGX_C 2NUP_C 3EGD_C 2NUT_C 3KYQ_A 1IFQ_B 2VX8_D ....
Probab=42.89 E-value=83 Score=19.65 Aligned_cols=63 Identities=5% Similarity=0.027 Sum_probs=45.9
Q ss_pred HHHHHHHhcCCCccccceEEecCeEEEEEEeceEEEEEEecCCcchHHHHHHHHHHHHHHHhhhC
Q 033621 40 KAVFTKTQKTNARTEAEIAMLEGNVIVYKFVQDLHFFVTGGEDENELILATVLQGFFDAVGLLLR 104 (115)
Q Consensus 40 ~~i~~k~~~~~~~~~~~i~~~~~~~vVyr~~adl~f~vv~~~~ENEL~l~~~i~~~veaLd~~f~ 104 (115)
++|-+++.+.+. .-..+..+++..=|..-.++.+++++|.+-..-.-..+|+.+.+....-++
T Consensus 3 ~~il~~i~~~~~--~k~s~~~~~~~fh~~~~~~i~~~citd~~~~~r~aF~fL~~i~~~F~~~~~ 65 (83)
T PF13774_consen 3 RKILKRIPPNGN--SKMSYESGNYVFHYLVEDGIAYLCITDKSYPKRVAFAFLEEIKQEFIQTYG 65 (83)
T ss_dssp HHHHHTS-TTSE--SEEEEEETTEEEEEEEETTEEEEEEEETTS-HHHHHHHHHHHHHHHHHHCT
T ss_pred HHHHHhcCCCCC--CeEEEEECCEEEEEEEcCCeEEEEEEcCCCCcchHHHHHHHHHHHHHHHcC
Confidence 455555554331 136777899999999999999999999998888888888877777666555
No 23
>PF04315 DUF462: Protein of unknown function, DUF462; InterPro: IPR007411 This family consists of bacterial proteins of uncharacterised function.
Probab=42.50 E-value=21 Score=26.59 Aligned_cols=20 Identities=20% Similarity=0.277 Sum_probs=16.4
Q ss_pred EEeeCCCCCCChHHHHHHHH
Q 033621 21 AVKYYSNDWPTNSAKEAFEK 40 (115)
Q Consensus 21 ~sKyY~~~~~~~~~q~~fE~ 40 (115)
+.=||.|..-+.++|++||+
T Consensus 65 fGYWY~PDGR~~~qQ~~FE~ 84 (164)
T PF04315_consen 65 FGYWYCPDGRDAEQQAEFEQ 84 (164)
T ss_pred CCCCcCCCCCCHHHHHHHHh
Confidence 34588887778999999997
No 24
>cd03016 PRX_1cys Peroxiredoxin (PRX) family, 1-cys PRX subfamily; composed of PRXs containing only one conserved cysteine, which serves as the peroxidatic cysteine. They are homodimeric thiol-specific antioxidant (TSA) proteins that confer a protective role in cells by reducing and detoxifying hydrogen peroxide, peroxynitrite, and organic hydroperoxides. As with all other PRXs, a cysteine sulfenic acid intermediate is formed upon reaction of 1-cys PRX with its substrates. Having no resolving cysteine, the oxidized enzyme is resolved by an external small-molecule or protein reductant such as thioredoxin or glutaredoxin. Similar to typical 2-cys PRX, 1-cys PRX forms a functional dimeric unit with a B-type interface, as well as a decameric structure which is stabilized in the reduced form of the enzyme. Other oligomeric forms, tetramers and hexamers, have also been reported. Mammalian 1-cys PRX is localized cellularly in the cytosol and is expressed at high levels in brain, eye, testes an
Probab=39.96 E-value=57 Score=24.10 Aligned_cols=22 Identities=18% Similarity=0.587 Sum_probs=19.1
Q ss_pred eEeEEEEEcCCCCEEEEeeCCC
Q 033621 6 SIKNILLLDSEGKRVAVKYYSN 27 (115)
Q Consensus 6 ~I~ailIld~~Gkr~~sKyY~~ 27 (115)
.+.+.+|+|.+|+.+...+|..
T Consensus 116 ~~r~~fiID~~G~I~~~~~~~~ 137 (203)
T cd03016 116 TVRAVFIIDPDKKIRLILYYPA 137 (203)
T ss_pred eeeEEEEECCCCeEEEEEecCC
Confidence 3678999999999999998864
No 25
>cd04670 Nudix_Hydrolase_12 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly conserved 23-residue nudix motif (GX5EX7REUXEEXGU, where U = I, L or V), which functions as a metal binding and catalytic site. Substrates of nudix hydrolases include intact and oxidatively damaged nucleoside triphosphates, dinucleoside polyphosphates, nucleotide-sugars and dinucleotide enzymes. These substrates are metabolites or cell signaling molecules that require regulation during different stages of the cell cycle or during periods of stress. In general, the role of the nudix hydrolase is to sanitize the nucleotide pools and to maintain cell viability, thereby serving as surveillance & "house-cleaning" enzymes. Substrate specificity is used to define families within the superfamily. Differences in substrate
Probab=36.71 E-value=1.2e+02 Score=19.87 Aligned_cols=41 Identities=15% Similarity=0.161 Sum_probs=28.3
Q ss_pred EEEEEcCCCCEEEEeeCC--CC---------CCChHHHHHHHHHHHHHHhcC
Q 033621 9 NILLLDSEGKRVAVKYYS--ND---------WPTNSAKEAFEKAVFTKTQKT 49 (115)
Q Consensus 9 ailIld~~Gkr~~sKyY~--~~---------~~~~~~q~~fE~~i~~k~~~~ 49 (115)
+.+|+|.+|+.++.|.+. +. -....-..+..|++.+.+.-.
T Consensus 6 ~~~v~~~~~~vLl~~r~~~~~~~w~~PGG~ve~gEt~~~aa~RE~~EE~Gl~ 57 (127)
T cd04670 6 GGLVLNEKNEVLVVQERNKTPNGWKLPGGLVDPGEDIFDGAVREVLEETGID 57 (127)
T ss_pred EEEEEcCCCeEEEEEccCCCCCcEECCCccCCCCCCHHHHHHHHHHHHHCCC
Confidence 346778889999887665 21 034456788889988887743
No 26
>COG0450 AhpC Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]
Probab=36.31 E-value=1.2e+02 Score=23.16 Aligned_cols=23 Identities=9% Similarity=0.254 Sum_probs=21.1
Q ss_pred eEeEEEEEcCCCCEEEEeeCCCC
Q 033621 6 SIKNILLLDSEGKRVAVKYYSND 28 (115)
Q Consensus 6 ~I~ailIld~~Gkr~~sKyY~~~ 28 (115)
.++|++|+|.+|.+|..-+|+.+
T Consensus 123 a~R~~FIIDp~g~ir~~~v~~~~ 145 (194)
T COG0450 123 ALRGTFIIDPDGVIRHILVNPLT 145 (194)
T ss_pred ceeEEEEECCCCeEEEEEEecCC
Confidence 68999999999999999999864
No 27
>PF13503 DUF4123: Domain of unknown function (DUF4123)
Probab=34.31 E-value=61 Score=21.38 Aligned_cols=18 Identities=17% Similarity=0.466 Sum_probs=14.6
Q ss_pred EEEcCCCCEEEEeeCCCC
Q 033621 11 LLLDSEGKRVAVKYYSND 28 (115)
Q Consensus 11 lIld~~Gkr~~sKyY~~~ 28 (115)
.+...+|+..+-|||+|.
T Consensus 89 ~v~~~~g~~~llRfyDpr 106 (124)
T PF13503_consen 89 QVRLPDGRSVLLRFYDPR 106 (124)
T ss_pred eeECCCCCEEEEEcCCHH
Confidence 455667999999999983
No 28
>PRK13190 putative peroxiredoxin; Provisional
Probab=34.27 E-value=58 Score=24.12 Aligned_cols=23 Identities=13% Similarity=0.459 Sum_probs=20.3
Q ss_pred eEeEEEEEcCCCCEEEEeeCCCC
Q 033621 6 SIKNILLLDSEGKRVAVKYYSND 28 (115)
Q Consensus 6 ~I~ailIld~~Gkr~~sKyY~~~ 28 (115)
.+.+.+|+|.+|+.+.+.+|...
T Consensus 116 ~~p~~fiId~~G~I~~~~~~~~~ 138 (202)
T PRK13190 116 TVRGVFIIDPNQIVRWMIYYPAE 138 (202)
T ss_pred EEeEEEEECCCCEEEEEEEeCCC
Confidence 47899999999999999988764
No 29
>COG3054 Predicted transcriptional regulator [General function prediction only]
Probab=33.27 E-value=46 Score=24.99 Aligned_cols=17 Identities=29% Similarity=0.495 Sum_probs=15.0
Q ss_pred eEEEEEcCCCCEEEEee
Q 033621 8 KNILLLDSEGKRVAVKY 24 (115)
Q Consensus 8 ~ailIld~~Gkr~~sKy 24 (115)
.||+++|++|+.-++|=
T Consensus 148 SaivVlDk~G~Vkfvke 164 (184)
T COG3054 148 SAVVVLDKDGRVKFVKE 164 (184)
T ss_pred ceEEEEcCCCcEEEEec
Confidence 48999999999988874
No 30
>PRK13599 putative peroxiredoxin; Provisional
Probab=32.48 E-value=56 Score=24.68 Aligned_cols=22 Identities=18% Similarity=0.646 Sum_probs=19.4
Q ss_pred eEeEEEEEcCCCCEEEEeeCCC
Q 033621 6 SIKNILLLDSEGKRVAVKYYSN 27 (115)
Q Consensus 6 ~I~ailIld~~Gkr~~sKyY~~ 27 (115)
.+.+++|+|.+|+.+.+-+|..
T Consensus 118 ~~R~tfIID~dG~Ir~~~~~p~ 139 (215)
T PRK13599 118 TVRAVFIVDDKGTIRLIMYYPQ 139 (215)
T ss_pred eeeEEEEECCCCEEEEEEEcCC
Confidence 5899999999999999987754
No 31
>PHA03023 hypothetical protein; Provisional
Probab=31.63 E-value=1.1e+02 Score=21.43 Aligned_cols=39 Identities=13% Similarity=0.228 Sum_probs=32.0
Q ss_pred CChHHHHHHHHHHHHHHh-cCCCccccceEEecCeEEEEEEece
Q 033621 30 PTNSAKEAFEKAVFTKTQ-KTNARTEAEIAMLEGNVIVYKFVQD 72 (115)
Q Consensus 30 ~~~~~q~~fE~~i~~k~~-~~~~~~~~~i~~~~~~~vVyr~~ad 72 (115)
|...++-+.|++.|.+.+ +.+ .++.-.+|+...|+.-..
T Consensus 20 p~I~eKLr~E~~ay~~y~~~L~----~~~~Cv~d~lf~y~f~~~ 59 (112)
T PHA03023 20 NKELNKLELDKKIFENAEDDLK----TTISCINDHWFIVKRNSR 59 (112)
T ss_pred HHHHHHHHHHHHHHHHHHHhcC----CcEEEECCEEEEEEcCch
Confidence 456789999999999998 443 378889999999998665
No 32
>PHA03045 IMV membrane protein; Provisional
Probab=31.58 E-value=1.2e+02 Score=21.33 Aligned_cols=39 Identities=21% Similarity=0.336 Sum_probs=31.2
Q ss_pred CChHHHHHHHHHHHHHHhcCCCccccceEEecCeEEEEEEece
Q 033621 30 PTNSAKEAFEKAVFTKTQKTNARTEAEIAMLEGNVIVYKFVQD 72 (115)
Q Consensus 30 ~~~~~q~~fE~~i~~k~~~~~~~~~~~i~~~~~~~vVyr~~ad 72 (115)
|...++.+.|+..|.+-++.. .++.-.||+.+.|+.-..
T Consensus 20 p~I~eKLr~E~~ay~~~~~l~----~~~~CVdd~~f~y~f~~~ 58 (113)
T PHA03045 20 PAISEKLRREYDAYTKYKQLK----KNFICVDDRLFSYDFTTS 58 (113)
T ss_pred HHHHHHHHHHHHHHHHHHHcC----CcEEEECCEEEEEEccch
Confidence 456789999999999966554 368889999999987554
No 33
>PF10623 PilI: Plasmid conjugative transfer protein PilI; InterPro: IPR018897 The thin pilus of plasmid R64 belongs to the type IV family and is required for liquid matings. PilI is one of 14 genes that have been identified as being involved in biogenesis of the R64 thin pilus [].
Probab=30.14 E-value=76 Score=21.04 Aligned_cols=15 Identities=13% Similarity=0.330 Sum_probs=12.9
Q ss_pred EEEEEcCCCCEEEEe
Q 033621 9 NILLLDSEGKRVAVK 23 (115)
Q Consensus 9 ailIld~~Gkr~~sK 23 (115)
-||++|++|++.+.-
T Consensus 10 ~VLVv~n~c~~kL~~ 24 (83)
T PF10623_consen 10 QVLVVSNHCERKLFD 24 (83)
T ss_pred EEEEEeCCcceeEee
Confidence 489999999999873
No 34
>cd04669 Nudix_Hydrolase_11 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly conserved 23-residue nudix motif (GX5EX7REUXEEXGU, where U = I, L or V), which functions as a metal binding and catalytic site. Substrates of nudix hydrolases include intact and oxidatively damaged nucleoside triphosphates, dinucleoside polyphosphates, nucleotide-sugars and dinucleotide enzymes. These substrates are metabolites or cell signaling molecules that require regulation during different stages of the cell cycle or during periods of stress. In general, the role of the nudix hydrolase is to sanitize the nucleotide pools and to maintain cell viability, thereby serving as surveillance & "house-cleaning" enzymes. Substrate specificity is used to define families within the superfamily. Differences in substrate
Probab=29.50 E-value=1.7e+02 Score=19.32 Aligned_cols=39 Identities=10% Similarity=0.276 Sum_probs=26.8
Q ss_pred EEEEEcCCCCEEEEeeCCCC-------C----CChHHHHHHHHHHHHHHh
Q 033621 9 NILLLDSEGKRVAVKYYSND-------W----PTNSAKEAFEKAVFTKTQ 47 (115)
Q Consensus 9 ailIld~~Gkr~~sKyY~~~-------~----~~~~~q~~fE~~i~~k~~ 47 (115)
+++|+|.+|+.++.|-+.+. . ....-+.+..|++...+.
T Consensus 4 ~~ii~~~~~~vLL~~r~~~~~~~w~lPGG~ve~gEs~~~a~~REl~EEtG 53 (121)
T cd04669 4 SIVIINDQGEILLIRRIKPGKTYYVFPGGGIEEGETPEEAAKREALEELG 53 (121)
T ss_pred EEEEEeCCCEEEEEEEecCCCCcEECCceeccCCCCHHHHHHHHHHHhhC
Confidence 45677778999998865431 1 344567888888888775
No 35
>cd04685 Nudix_Hydrolase_26 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily requires a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly conserved 23-residue nudix motif (GX5EX7REUXEEXGU, where U = I, L or V), which functions as a metal binding and catalytic site. Substrates of nudix hydrolases include intact and oxidatively damaged nucleoside triphosphates, dinucleoside polyphosphates, nucleotide-sugars and dinucleotide enzymes. These substrates are metabolites or cell signaling molecules that require regulation during different stages of the cell cycle or during periods of stress. In general, the role of the nudix hydrolase is to sanitize the nucleotide pools and to maintain cell viability, thereby serving as surveillance & "house-cleaning" enzymes. Substrate specificity is used to define families within the superfamily. Differences in substrate
Probab=29.29 E-value=1.9e+02 Score=19.80 Aligned_cols=41 Identities=22% Similarity=0.308 Sum_probs=29.9
Q ss_pred EEEEEcCCCCEEEEeeCCCC--------------CCChHHHHHHHHHHHHHHhcC
Q 033621 9 NILLLDSEGKRVAVKYYSND--------------WPTNSAKEAFEKAVFTKTQKT 49 (115)
Q Consensus 9 ailIld~~Gkr~~sKyY~~~--------------~~~~~~q~~fE~~i~~k~~~~ 49 (115)
.++++|.+|+.++.|...+. -....-..+..|++...+.-.
T Consensus 4 ~~~i~~~~g~vLl~r~~~~~~~~~~~w~~PgG~ve~gE~~~~a~~Re~~EE~G~~ 58 (133)
T cd04685 4 RVVLLDPDDRVLLLRGDDPDSPGPDWWFTPGGGVEPGESPEQAARRELREETGIT 58 (133)
T ss_pred EEEEEcCCCeEEEEEEeCCCCCCCCEEECCcCCCCCCCCHHHHHHHHHHHHHCCc
Confidence 57889999999998876431 034456788888888887644
No 36
>PF01820 Dala_Dala_lig_N: D-ala D-ala ligase N-terminus; InterPro: IPR011127 This entry represents the N-terminal region of the D-alanine--D-alanine ligase enzyme (6.3.2.4 from EC) which is thought to be involved in substrate binding []. D-Alanine is one of the central molecules of the cross-linking step of peptidoglycan assembly. There are three enzymes involved in the D-alanine branch of peptidoglycan biosynthesis: the pyridoxal phosphate-dependent D-alanine racemase (Alr), the ATP-dependent D-alanine:D-alanine ligase (Ddl), and the ATP-dependent D-alanine:D-alanine-adding enzyme (MurF) [].; GO: 0008716 D-alanine-D-alanine ligase activity, 0009252 peptidoglycan biosynthetic process, 0005618 cell wall; PDB: 4EG0_B 3E5N_A 3RFC_A 3R5F_A 1IOV_A 1IOW_A 2DLN_A 3Q1K_D 3I12_C 3N8D_B ....
Probab=27.87 E-value=1.5e+02 Score=20.07 Aligned_cols=28 Identities=18% Similarity=0.363 Sum_probs=24.0
Q ss_pred EEEEEEecCCcchHHHHHHHHHHHHHHHh
Q 033621 73 LHFFVTGGEDENELILATVLQGFFDAVGL 101 (115)
Q Consensus 73 l~f~vv~~~~ENEL~l~~~i~~~veaLd~ 101 (115)
+.+++.|.+.|-|..+.+.-+ +.++|+.
T Consensus 3 v~vlfGG~S~EheVSl~Sa~~-v~~~L~~ 30 (117)
T PF01820_consen 3 VAVLFGGRSSEHEVSLRSARN-VYEALDK 30 (117)
T ss_dssp EEEEEETSSTTHHHHHHHHHH-HHHHSHT
T ss_pred EEEEeccCchhHHHHHHHHHH-HHHHHhh
Confidence 678889999999999999877 7788875
No 37
>cd03671 Ap4A_hydrolase_plant_like Diadenosine tetraphosphate (Ap4A) hydrolase is a member of the Nudix hydrolase superfamily. Members of this family are well represented in a variety of prokaryotic and eukaryotic organisms. Phylogenetic analysis reveals two distinct subgroups where plant enzymes fall into one group (represented by this subfamily) and fungi/animals/archaea enzymes fall into another. Bacterial enzymes are found in both subfamilies. Ap4A is a potential by-product of aminoacyl tRNA synthesis, and accumulation of Ap4A has been implicated in a range of biological events, such as DNA replication, cellular differentiation, heat shock, metabolic stress, and apoptosis. Ap4A hydrolase cleaves Ap4A asymmetrically into ATP and AMP. It is important in the invasive properties of bacteria and thus presents a potential target for the inhibition of such invasive bacteria. Besides the signature nudix motif (G[X5]E[X7]REUXEEXGU where U is Ile, Leu, or Val), Ap4A hydrolase is structurally
Probab=27.41 E-value=2.1e+02 Score=19.58 Aligned_cols=41 Identities=12% Similarity=0.160 Sum_probs=30.1
Q ss_pred EEEEEcCCCCEEEEeeCCCC-C---------CChHHHHHHHHHHHHHHhcC
Q 033621 9 NILLLDSEGKRVAVKYYSND-W---------PTNSAKEAFEKAVFTKTQKT 49 (115)
Q Consensus 9 ailIld~~Gkr~~sKyY~~~-~---------~~~~~q~~fE~~i~~k~~~~ 49 (115)
+++|+|.+|+.++.|.+... . +...-..+..|++.+-+.-+
T Consensus 7 ~~ii~~~~~~vLL~~r~~~~~~W~~PgG~~e~gE~~~~aA~REv~EEtGl~ 57 (147)
T cd03671 7 GVVLFNEDGKVFVGRRIDTPGAWQFPQGGIDEGEDPEQAALRELEEETGLD 57 (147)
T ss_pred EEEEEeCCCEEEEEEEcCCCCCEECCcCCCCCCcCHHHHHHHHHHHHHCCC
Confidence 57788989999998877642 1 33456788888888887754
No 38
>PF14903 WG_beta_rep: WG containing repeat
Probab=27.36 E-value=68 Score=16.33 Aligned_cols=16 Identities=31% Similarity=0.484 Sum_probs=13.0
Q ss_pred EEcCCCCEEEEeeCCC
Q 033621 12 LLDSEGKRVAVKYYSN 27 (115)
Q Consensus 12 Ild~~Gkr~~sKyY~~ 27 (115)
++|.+|+.++.--|+.
T Consensus 3 ~id~~G~~vi~~~yd~ 18 (35)
T PF14903_consen 3 YIDKNGKIVIPPKYDE 18 (35)
T ss_pred EEeCCCCEEEEccccC
Confidence 5799999998877764
No 39
>cd04678 Nudix_Hydrolase_19 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly conserved 23-residue nudix motif (GX5EX7REUXEEXGU, where U = I, L or V), which functions as a metal binding and catalytic site. Substrates of nudix hydrolases include intact and oxidatively damaged nucleoside triphosphates, dinucleoside polyphosphates, nucleotide-sugars and dinucleotide enzymes. These substrates are metabolites or cell signaling molecules that require regulation during different stages of the cell cycle or during periods of stress. In general, the role of the nudix hydrolase is to sanitize the nucleotide pools and to maintain cell viability, thereby serving as surveillance & "house-cleaning" enzymes. Substrate specificity is used to define families within the superfamily. Differences in substrate
Probab=26.79 E-value=1.7e+02 Score=19.17 Aligned_cols=40 Identities=20% Similarity=0.192 Sum_probs=26.7
Q ss_pred EEEEEcCCCCEEEEeeCC----C----C----CCChHHHHHHHHHHHHHHhc
Q 033621 9 NILLLDSEGKRVAVKYYS----N----D----WPTNSAKEAFEKAVFTKTQK 48 (115)
Q Consensus 9 ailIld~~Gkr~~sKyY~----~----~----~~~~~~q~~fE~~i~~k~~~ 48 (115)
+++|.|.+|+.++.|=-. . + -+...-..+..|++.+.+.-
T Consensus 6 ~~ii~~~~~~iLl~~r~~~~~~~~w~~PGG~ve~gEt~~~Aa~REl~EE~Gl 57 (129)
T cd04678 6 GVFVLNPKGKVLLGKRKGSHGAGTWALPGGHLEFGESFEECAAREVLEETGL 57 (129)
T ss_pred EEEEECCCCeEEEEeccCCCCCCeEECCcccccCCCCHHHHHHHHHHHHhCC
Confidence 567788889988887331 1 1 13445678888888877664
No 40
>PRK13191 putative peroxiredoxin; Provisional
Probab=26.77 E-value=81 Score=23.76 Aligned_cols=23 Identities=17% Similarity=0.576 Sum_probs=20.3
Q ss_pred ceEeEEEEEcCCCCEEEEeeCCC
Q 033621 5 PSIKNILLLDSEGKRVAVKYYSN 27 (115)
Q Consensus 5 ~~I~ailIld~~Gkr~~sKyY~~ 27 (115)
..+.+.+|+|.+|+.+..-+|+.
T Consensus 122 ~~~r~tfIID~~G~Ir~~~~~~~ 144 (215)
T PRK13191 122 ATVRAVFIVDDKGTVRLILYYPM 144 (215)
T ss_pred ceeEEEEEECCCCEEEEEEecCC
Confidence 35789999999999999999874
No 41
>PF15404 PH_4: Pleckstrin homology domain
Probab=26.18 E-value=42 Score=25.31 Aligned_cols=29 Identities=14% Similarity=0.417 Sum_probs=23.6
Q ss_pred HHHHHhcCCCccccceEEecCeEEEEEEe
Q 033621 42 VFTKTQKTNARTEAEIAMLEGNVIVYKFV 70 (115)
Q Consensus 42 i~~k~~~~~~~~~~~i~~~~~~~vVyr~~ 70 (115)
||+|-.+.+.+....+++..|++|+|+.+
T Consensus 5 LY~K~~khs~F~~~~vvL~~G~Li~f~~~ 33 (185)
T PF15404_consen 5 LYQKPRKHSTFKKYFVVLIPGFLILFQLF 33 (185)
T ss_pred eeecCCCCCCceEEEEEEeCCEEEEEEEE
Confidence 56777777777678999999999999974
No 42
>cd08151 AOS Allene oxide synthase. Allene oxide synthase converts a fatty acid hydroperoxide to an allene oxide, which is an unstable epoxide. In corals, the enzyme is part of a eiconaosid synthesis pathway that is initiated by a lipoxygenase, which generates the fatty acid hydroperoxides in the first step. The structure of allene oxide synthase closely resembles that of catalase, but allene oxide synthase does not have catalase activity.
Probab=26.10 E-value=83 Score=25.34 Aligned_cols=23 Identities=13% Similarity=0.069 Sum_probs=20.4
Q ss_pred CcceEeEEEEEcCCCCEEEEeeC
Q 033621 3 TCPSIKNILLLDSEGKRVAVKYY 25 (115)
Q Consensus 3 sl~~I~ailIld~~Gkr~~sKyY 25 (115)
.=+.++++-..|.+|+++++||=
T Consensus 158 ~y~s~~~f~f~~~~G~~~~vK~~ 180 (328)
T cd08151 158 HYYSQICYEFVALDGKSRYARFR 180 (328)
T ss_pred cceeEeeEEEECCCCCEEEEEEE
Confidence 34678999999999999999996
No 43
>PRK00714 RNA pyrophosphohydrolase; Reviewed
Probab=25.34 E-value=2.2e+02 Score=19.98 Aligned_cols=41 Identities=15% Similarity=0.323 Sum_probs=29.3
Q ss_pred EEEEEcCCCCEEEEeeCCCCC----------CChHHHHHHHHHHHHHHhcC
Q 033621 9 NILLLDSEGKRVAVKYYSNDW----------PTNSAKEAFEKAVFTKTQKT 49 (115)
Q Consensus 9 ailIld~~Gkr~~sKyY~~~~----------~~~~~q~~fE~~i~~k~~~~ 49 (115)
+++++|.+|+.++.|....+. +...-..+..|++.+.+.-.
T Consensus 12 ~~~i~~~~g~vLL~~r~~~~~~w~~P~G~~~~gE~~~~aa~REl~EEtG~~ 62 (156)
T PRK00714 12 GIILLNRQGQVFWGRRIGQGHSWQFPQGGIDPGETPEQAMYRELYEEVGLR 62 (156)
T ss_pred EEEEEecCCEEEEEEEcCCCCeEECCcccCCCCcCHHHHHHHHHHHHhCCC
Confidence 567999999999988865421 34445777888888877643
No 44
>PF03456 uDENN: uDENN domain; InterPro: IPR005113 This region is always found associated with IPR001194 from INTERPRO. It is predicted to form an all beta domain [].; PDB: 3TW8_A.
Probab=25.25 E-value=1.1e+02 Score=18.31 Aligned_cols=19 Identities=26% Similarity=0.424 Sum_probs=13.5
Q ss_pred cceEeEEEEEcCCCCEEEE
Q 033621 4 CPSIKNILLLDSEGKRVAV 22 (115)
Q Consensus 4 l~~I~ailIld~~Gkr~~s 22 (115)
.++...+++-|.+|+|++.
T Consensus 41 ~~~~f~FvLT~~~G~r~Yg 59 (65)
T PF03456_consen 41 PPQFFSFVLTDEDGSRLYG 59 (65)
T ss_dssp SSCEEEEEEE-TTS-EEEE
T ss_pred CCeEEEEEEECCCCCEEEE
Confidence 4567788999999999864
No 45
>PF00989 PAS: PAS fold; InterPro: IPR013767 PAS domains are involved in many signalling proteins where they are used as a signal sensor domain []. PAS domains appear in archaea, bacteria and eukaryotes. Several PAS-domain proteins are known to detect their signal by way of an associated cofactor. Haeme, flavin, and a 4-hydroxycinnamyl chromophore are used in different proteins. The PAS domain was named after three proteins that it occurs in: Per- period circadian protein Arnt- Ah receptor nuclear translocator protein Sim- single-minded protein. PAS domains are often associated with PAC domains IPR001610 from INTERPRO. It appears that these domains are directly linked, and that together they form the conserved 3D PAS fold. The division between the PAS and PAC domains is caused by major differences in sequences in the region connecting these two motifs []. In human PAS kinase, this region has been shown to be very flexible, and adopts different conformations depending on the bound ligand []. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels [].; GO: 0006355 regulation of transcription, DNA-dependent; PDB: 2GJ3_A 4F3L_B 1XFN_A 1OTD_A 2PYR_A 1KOU_A 1XFQ_A 2ZOI_A 2ZOH_A 1OTA_A ....
Probab=24.70 E-value=82 Score=19.24 Aligned_cols=16 Identities=25% Similarity=0.551 Sum_probs=13.8
Q ss_pred EeEEEEEcCCCCEEEE
Q 033621 7 IKNILLLDSEGKRVAV 22 (115)
Q Consensus 7 I~ailIld~~Gkr~~s 22 (115)
-.+++++|.+|+.++.
T Consensus 11 ~~~i~~~d~~g~I~~~ 26 (113)
T PF00989_consen 11 PDGIFVIDEDGRILYV 26 (113)
T ss_dssp SSEEEEEETTSBEEEE
T ss_pred CceEEEEeCcCeEEEE
Confidence 3589999999999876
No 46
>KOG0997 consensus Uncharacterized conserved protein Sand [Function unknown]
Probab=24.52 E-value=4.9e+02 Score=22.91 Aligned_cols=70 Identities=19% Similarity=0.207 Sum_probs=44.5
Q ss_pred eEEEEEcCCCCEEEEeeCCCC--CCChHHHHHHHHHHHHHHhcCCCccccceEEecCeEEEEEEeceEEEEEEecCCc
Q 033621 8 KNILLLDSEGKRVAVKYYSND--WPTNSAKEAFEKAVFTKTQKTNARTEAEIAMLEGNVIVYKFVQDLHFFVTGGEDE 83 (115)
Q Consensus 8 ~ailIld~~Gkr~~sKyY~~~--~~~~~~q~~fE~~i~~k~~~~~~~~~~~i~~~~~~~vVyr~~adl~f~vv~~~~E 83 (115)
|-++|+.+.||+++++|=+.. .++...++++..- ++ ..+. .---+..+|+++||-+-+-+.++.+...++
T Consensus 118 khifilseaGKPiyS~~gs~e~l~stmGv~~alISf-~q---~~~~--~i~si~a~g~k~vfl~kspl~LvA~s~t~~ 189 (523)
T KOG0997|consen 118 KHIFILSEAGKPIYSRHGSDEALSSTMGVMQALISF-FQ---VSGL--AITSIHAFGNKLVFLQKSPLLLVAVSRTSQ 189 (523)
T ss_pred ceEEEEecCCCceeeecCcHHHHHHHHHHHHHHHHH-Hh---hCCc--eEEEEEecCceEEEEecCcEEEEEEccccc
Confidence 458999999999999986432 1233334443332 11 1110 112334689999999999999999988655
No 47
>cd03430 GDPMH GDP-mannose glycosyl hydrolase (AKA GDP-mannose mannosyl hydrolase (GDPMH)) is a member of the Nudix hydrolase superfamily. This class of enzymes is unique from other members of the superfamily in two aspects. First, it contains a modified Nudix signature sequence. The slight changes to the conserved sequence motif, GX5EX7REUXEEXGU, where U = I, L or V), are believed to contribute to the removal of all magnesium binding sites but one, retaining only the metal site that coordinates the pyrophosphate of the substrate. Secondly, it is not a pyrophosphatase that substitutes at a phosphorus; instead, it hydrolyzes nucleotide sugars such as GDP-mannose to GDP and mannose, cleaving the phosphoglycosyl bond by substituting at a carbon position. GDP-mannose provides mannosyl components for cell wall synthesis and is required for the synthesis of other glycosyl donors (such as GDP-fucose and colitose) for the cell wall. The importance of GDP-sugar hydrolase activities is thus close
Probab=24.24 E-value=2.4e+02 Score=19.41 Aligned_cols=41 Identities=15% Similarity=0.292 Sum_probs=26.9
Q ss_pred eEEEEEcCCCCEEEEe---------eCCCC---CCChHHHHHHHHHHHHHHhc
Q 033621 8 KNILLLDSEGKRVAVK---------YYSND---WPTNSAKEAFEKAVFTKTQK 48 (115)
Q Consensus 8 ~ailIld~~Gkr~~sK---------yY~~~---~~~~~~q~~fE~~i~~k~~~ 48 (115)
-+++|+|.+|+.++.| |.-|. -+...-..+..|++.+.+.-
T Consensus 15 v~~vI~~~~g~vLl~~R~~~p~~g~w~lPGG~ve~gEs~~~aa~RE~~EE~Gl 67 (144)
T cd03430 15 IDLIVENEDGQYLLGKRTNRPAQGYWFVPGGRIRKNETLTEAFERIAKDELGL 67 (144)
T ss_pred EEEEEEeCCCeEEEEEccCCCCCCcEECCCceecCCCCHHHHHHHHHHHHHCC
Confidence 3566678899999876 22221 13455678888888887763
No 48
>PRK13189 peroxiredoxin; Provisional
Probab=24.02 E-value=96 Score=23.44 Aligned_cols=22 Identities=23% Similarity=0.670 Sum_probs=19.5
Q ss_pred eEeEEEEEcCCCCEEEEeeCCC
Q 033621 6 SIKNILLLDSEGKRVAVKYYSN 27 (115)
Q Consensus 6 ~I~ailIld~~Gkr~~sKyY~~ 27 (115)
.+.+.+|+|.+|+.+...+|+.
T Consensus 125 ~~r~tfIID~~G~Ir~~~~~~~ 146 (222)
T PRK13189 125 TVRAVFIIDPKGIIRAILYYPQ 146 (222)
T ss_pred ceeEEEEECCCCeEEEEEecCC
Confidence 5789999999999999988865
No 49
>cd03018 PRX_AhpE_like Peroxiredoxin (PRX) family, AhpE-like subfamily; composed of proteins similar to Mycobacterium tuberculosis AhpE. AhpE is described as a 1-cys PRX because of the absence of a resolving cysteine. The structure and sequence of AhpE, however, show greater similarity to 2-cys PRXs than 1-cys PRXs. PRXs are thiol-specific antioxidant (TSA) proteins that confer a protective role in cells through their peroxidase activity in which hydrogen peroxide, peroxynitrate, and organic hydroperoxides are reduced and detoxified using reducing equivalents derived from either thioredoxin, glutathione, trypanothione and AhpF. The first step of catalysis is the nucleophilic attack by the peroxidatic cysteine on the peroxide leading to the formation of a cysteine sulfenic acid intermediate. The absence of a resolving cysteine suggests that functional AhpE is regenerated by an external reductant. The solution behavior and crystal structure of AhpE show that it forms dimers and octamers.
Probab=23.59 E-value=1.8e+02 Score=19.48 Aligned_cols=19 Identities=11% Similarity=0.191 Sum_probs=14.6
Q ss_pred EEEEEcCCCCEEEEeeCCC
Q 033621 9 NILLLDSEGKRVAVKYYSN 27 (115)
Q Consensus 9 ailIld~~Gkr~~sKyY~~ 27 (115)
..+++|++|+.+...+...
T Consensus 116 ~~~lid~~G~v~~~~~~~~ 134 (149)
T cd03018 116 AVFVIDRDGIIRYAWVSDD 134 (149)
T ss_pred eEEEECCCCEEEEEEecCC
Confidence 6799999998777765543
No 50
>PF15603 Imm45: Immunity protein 45
Probab=23.18 E-value=1.2e+02 Score=19.92 Aligned_cols=32 Identities=19% Similarity=0.103 Sum_probs=28.1
Q ss_pred cCCcchHHHHHHHHHHHHHHHhhhCCcceEEE
Q 033621 80 GEDENELILATVLQGFFDAVGLLLRLLHYVIV 111 (115)
Q Consensus 80 ~~~ENEL~l~~~i~~~veaLd~~f~~~~~~~~ 111 (115)
++.|||-+--.-++.++++....|.+++....
T Consensus 49 ~P~e~~~it~~e~q~II~aI~~~~~~~~~~v~ 80 (82)
T PF15603_consen 49 PPHENEPITIAERQKIIEAIEKYFSERGMTVD 80 (82)
T ss_pred CCCCCcccCHHHHHHHHHHHHHHHhcCceEEE
Confidence 46889888888999999999999999988764
No 51
>PF13426 PAS_9: PAS domain; PDB: 3ULF_B 3UE6_E 2Z6D_B 2Z6C_B 3P7N_B 1LL8_A 3MJQ_A 3BWL_A 4EET_B 4EEP_A ....
Probab=22.94 E-value=94 Score=18.54 Aligned_cols=15 Identities=33% Similarity=0.698 Sum_probs=12.8
Q ss_pred eEEEEEcCCCCEEEE
Q 033621 8 KNILLLDSEGKRVAV 22 (115)
Q Consensus 8 ~ailIld~~Gkr~~s 22 (115)
.+++++|.+|..+.+
T Consensus 2 ~~i~i~d~~g~i~~~ 16 (104)
T PF13426_consen 2 DGIFILDPDGRILYV 16 (104)
T ss_dssp SEEEEEETTSBEEEE
T ss_pred EEEEEECCcCcEEeh
Confidence 378999999999876
No 52
>KOG0559 consensus Dihydrolipoamide succinyltransferase (2-oxoglutarate dehydrogenase, E2 subunit) [Energy production and conversion]
Probab=22.73 E-value=98 Score=26.31 Aligned_cols=21 Identities=29% Similarity=0.455 Sum_probs=18.3
Q ss_pred ecCeEEEEEEeceEEEEEEec
Q 033621 60 LEGNVIVYKFVQDLHFFVTGG 80 (115)
Q Consensus 60 ~~~~~vVyr~~adl~f~vv~~ 80 (115)
.||.-||||.|-|+.+.|..+
T Consensus 308 Idg~~iVYRDyvDISvAVaTp 328 (457)
T KOG0559|consen 308 IDGDDIVYRDYVDISVAVATP 328 (457)
T ss_pred ecCCeeEEeecceeEEEeecC
Confidence 577799999999999998765
No 53
>PLN02609 catalase
Probab=20.98 E-value=2.5e+02 Score=24.43 Aligned_cols=49 Identities=12% Similarity=0.106 Sum_probs=35.8
Q ss_pred CCcceEeEEEEEcCCCCEEEEeeCCCC-----CCChHHHHHH--------HHHHHHHHhcCC
Q 033621 2 DTCPSIKNILLLDSEGKRVAVKYYSND-----WPTNSAKEAF--------EKAVFTKTQKTN 50 (115)
Q Consensus 2 ~sl~~I~ailIld~~Gkr~~sKyY~~~-----~~~~~~q~~f--------E~~i~~k~~~~~ 50 (115)
+.=+.+++.-+.|.+|++.++||-=.+ ..+.++.+++ .++|++.+.+-+
T Consensus 202 ~~~~gvhtF~~vn~~G~~~~Vk~h~~p~~G~~~l~~eeA~~~~g~~~d~l~~DL~~~I~~G~ 263 (492)
T PLN02609 202 MEGFGVHTYKLINKAGKAHYVKFHWKPTCGVKNLLDEEAVRVGGSNHSHATQDLYDSIAAGN 263 (492)
T ss_pred CCcccccceEEECCCCCEEEEEEEEEeCCCCCCCCHHHHHHhhCCCCcHHHHHHHHHHhcCC
Confidence 345679999999999999999997322 1244444444 788999998754
No 54
>cd08156 catalase_clade_3 Clade 3 of the heme-binding enzyme catalase. Catalase is a ubiquitous enzyme found in both prokaryotes and eukaryotes, which is involved in the protection of cells from the toxic effects of peroxides. It catalyzes the conversion of hydrogen peroxide to water and molecular oxygen. Catalases also utilize hydrogen peroxide to oxidize various substrates such as alcohol or phenols. Clade 3 catalases are the most abundant subfamily and are found in all three kingdoms of life; they have a relatively small subunit size of 43 to 75 kDa, and bind a protoheme IX (heme b) group buried deep inside the structure. Clade 3 catalases also bind NADPH as a second redox-active cofactor. They form tetramers, and in eukaryotic cells, catalases are located in peroxisomes.
Probab=20.63 E-value=1.2e+02 Score=25.85 Aligned_cols=48 Identities=17% Similarity=0.264 Sum_probs=33.7
Q ss_pred CcceEeEEEEEcCCCCEEEEeeCCCC---C--CChHHHHH--------HHHHHHHHHhcCC
Q 033621 3 TCPSIKNILLLDSEGKRVAVKYYSND---W--PTNSAKEA--------FEKAVFTKTQKTN 50 (115)
Q Consensus 3 sl~~I~ailIld~~Gkr~~sKyY~~~---~--~~~~~q~~--------fE~~i~~k~~~~~ 50 (115)
.=+.+++.-..|.+|++.++||-=.+ . .+.++.++ +.+++++.+.+-+
T Consensus 146 ~~~gvhtf~~vn~~G~~~~Vk~h~~p~~G~~~l~~eea~~~~g~~~d~l~~dL~~~I~~G~ 206 (429)
T cd08156 146 NGYGSHTFSLVNAKGERFWVKFHFKTDQGIKNLTNEEAAELAGEDPDYAQRDLFEAIERGD 206 (429)
T ss_pred CccccceEEEEcCCCCEEEEEEEEEeCCCCCCCCHHHHHHhhCCCCCHHHHHHHHHHhcCC
Confidence 34679999999999999999996221 1 23333332 4678999988765
Done!