Query 046819
Match_columns 80
No_of_seqs 69 out of 71
Neff 2.9
Searched_HMMs 46136
Date Fri Mar 29 04:45:51 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/046819.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/046819hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 cd01989 STK_N The N-terminal d 98.2 2.4E-06 5.2E-11 54.8 4.3 39 7-57 1-39 (146)
2 PF00582 Usp: Universal stress 98.1 7.9E-06 1.7E-10 49.0 4.4 42 6-59 3-44 (140)
3 PRK09982 universal stress prot 97.9 2.9E-05 6.3E-10 51.0 5.1 40 6-57 4-43 (142)
4 cd01987 USP_OKCHK USP domain i 97.8 3.5E-05 7.6E-10 48.2 4.4 40 7-58 1-40 (124)
5 PRK15118 universal stress glob 97.7 7.6E-05 1.6E-09 48.1 4.7 40 5-56 3-42 (144)
6 PRK15005 universal stress prot 97.7 0.00011 2.3E-09 46.9 4.7 40 6-57 3-44 (144)
7 PRK15456 universal stress prot 97.2 0.00072 1.6E-08 43.7 4.5 40 6-58 3-44 (142)
8 cd01988 Na_H_Antiporter_C The 97.1 0.0012 2.5E-08 40.9 4.6 40 7-58 1-40 (132)
9 PRK10116 universal stress prot 96.8 0.003 6.6E-08 40.2 4.8 41 5-57 3-43 (142)
10 cd00293 USP_Like Usp: Universa 96.8 0.004 8.6E-08 37.1 4.7 39 7-57 1-39 (130)
11 PRK11175 universal stress prot 96.2 0.0083 1.8E-07 42.9 4.4 39 6-56 4-42 (305)
12 PRK12652 putative monovalent c 96.2 0.01 2.3E-07 46.9 5.1 43 5-57 5-47 (357)
13 PRK11175 universal stress prot 92.4 0.39 8.4E-06 34.4 5.2 42 5-57 152-200 (305)
14 COG0589 UspA Universal stress 84.3 4.5 9.8E-05 24.9 5.3 44 4-59 4-48 (154)
15 PRK10490 sensor protein KdpD; 72.2 9.8 0.00021 33.0 5.4 41 5-57 250-290 (895)
16 PF02878 PGM_PMM_I: Phosphoglu 67.9 16 0.00035 24.1 4.7 63 4-78 39-114 (137)
17 PF14951 DUF4503: Domain of un 67.2 2.5 5.5E-05 35.1 0.8 18 5-35 259-276 (389)
18 PRK11798 ClpXP protease specif 55.3 15 0.00034 26.5 3.0 40 28-77 13-52 (138)
19 COG0603 Predicted PP-loop supe 49.5 21 0.00046 27.3 3.2 33 5-37 116-148 (222)
20 PRK10696 tRNA 2-thiocytidine b 48.3 53 0.0012 24.0 5.0 42 4-55 28-69 (258)
21 cd01984 AANH_like Adenine nucl 44.2 44 0.00094 19.7 3.4 34 8-54 1-34 (86)
22 cd01455 vWA_F11C1-5a_type Von 42.8 19 0.00041 26.8 1.9 17 6-32 1-17 (191)
23 PF03727 Hexokinase_2: Hexokin 38.6 37 0.0008 24.9 2.9 34 5-42 184-217 (243)
24 cd07029 RNAP_I_III_AC19 AC19 s 38.4 28 0.0006 22.5 2.0 16 25-40 61-76 (85)
25 PF12306 PixA: Inclusion body 36.4 13 0.00029 26.5 0.3 21 6-26 5-26 (172)
26 PF04386 SspB: Stringent starv 35.0 68 0.0015 22.6 3.7 45 31-77 15-60 (155)
27 PF05226 CHASE2: CHASE2 domain 33.5 50 0.0011 24.1 2.9 36 4-43 40-78 (310)
28 PF10672 Methyltrans_SAM: S-ad 32.9 38 0.00083 26.3 2.3 22 9-42 149-170 (286)
29 PF01676 Metalloenzyme: Metall 31.8 77 0.0017 23.2 3.6 44 12-58 110-153 (252)
30 PRK10799 metal-binding protein 31.7 66 0.0014 23.7 3.3 31 4-53 34-64 (247)
31 TIGR02432 lysidine_TilS_N tRNA 31.2 89 0.0019 21.1 3.6 36 7-54 1-36 (189)
32 COG0037 MesJ tRNA(Ile)-lysidin 30.8 1.1E+02 0.0024 22.0 4.3 36 6-55 22-57 (298)
33 cd05859 Ig4_PDGFR-alpha Fourth 29.9 36 0.00077 21.6 1.4 26 7-38 12-42 (101)
34 COG0634 Hpt Hypoxanthine-guani 29.7 96 0.0021 23.3 3.9 45 25-69 103-154 (178)
35 PRK14318 glmM phosphoglucosami 29.5 1.8E+02 0.0039 23.0 5.5 61 6-78 45-118 (448)
36 PLN02362 hexokinase 29.2 1.4E+02 0.0029 25.3 5.0 44 6-54 441-484 (509)
37 PF13973 DUF4222: Domain of un 28.6 40 0.00086 20.3 1.4 28 5-32 15-46 (53)
38 TIGR00486 YbgI_SA1388 dinuclea 28.4 1E+02 0.0023 22.7 3.9 31 4-53 35-65 (249)
39 PF07660 STN: Secretin and Ton 26.9 51 0.0011 18.2 1.6 33 10-42 3-36 (52)
40 PLN02596 hexokinase-like 25.5 1.4E+02 0.0029 25.2 4.4 44 6-54 427-470 (490)
41 cd01992 PP-ATPase N-terminal d 24.8 1.4E+02 0.003 19.8 3.7 37 7-55 1-37 (185)
42 COG1092 Predicted SAM-dependen 24.8 96 0.0021 25.3 3.4 22 9-42 243-264 (393)
43 cd06927 RNAP_L L subunit of Ar 24.6 66 0.0014 20.7 2.0 16 25-40 61-76 (83)
44 PLN02914 hexokinase 24.5 1.8E+02 0.0038 24.5 4.9 44 6-54 430-473 (490)
45 PLN02405 hexokinase 23.8 1.8E+02 0.0038 24.5 4.8 44 6-54 432-475 (497)
46 PRK11106 queuosine biosynthesi 23.2 1.1E+02 0.0025 22.8 3.3 32 5-36 116-147 (231)
47 KOG2326 DNA-binding subunit of 23.0 3.4E+02 0.0074 24.4 6.5 68 5-78 6-80 (669)
48 PF08929 DUF1911: Domain of un 22.6 20 0.00043 24.5 -0.8 14 9-22 92-105 (110)
49 PF01171 ATP_bind_3: PP-loop f 22.1 2.3E+02 0.005 19.3 4.4 37 7-55 1-37 (182)
50 cd01993 Alpha_ANH_like_II This 21.9 2E+02 0.0044 18.8 4.0 39 7-55 1-39 (185)
51 PTZ00271 hypoxanthine-guanine 21.4 3.5E+02 0.0076 20.1 5.6 44 26-69 129-179 (211)
52 cd06354 PBP1_BmpA_PnrA_like Pe 20.9 44 0.00096 23.4 0.7 27 7-34 207-233 (265)
No 1
>cd01989 STK_N The N-terminal domain of Eukaryotic Serine Threonine kinases. The Serine Threonine kinases are enzymes that belong to a very extensive family of proteins which share a conserved catalytic core common with both serine/threonine and tyrosine protein kinases. The N-terminal domain is homologous to the USP family which has a ATP binding fold. The N-terminal domain is predicted to be involved in ATP binding.
Probab=98.20 E-value=2.4e-06 Score=54.84 Aligned_cols=39 Identities=23% Similarity=0.564 Sum_probs=32.6
Q ss_pred EEEEEEeCCccCCCCCCCcchHHHHHHHhhhhhccCCCcceEEEEEeeCCC
Q 046819 7 RIIVAVNESTIKGYPHASISSRGAFEWSVQKIIRSNTSGFKLLFLHVQVPD 57 (80)
Q Consensus 7 rvmVaVDeSe~kgyp~~si~S~~AleWtL~~l~~~~~~~fkLvlLHvqpp~ 57 (80)
+||||||.|+ +|+.||+|+++...+.+ .+|.+|||.++.
T Consensus 1 ~ILVavD~S~---------~s~~al~~a~~~a~~~~---~~l~ll~v~~~~ 39 (146)
T cd01989 1 SVAVAVDKDK---------KSKNALKWALDNLATKG---QTIVLVHVHPPI 39 (146)
T ss_pred CEEEEecCcc---------ccHHHHHHHHHhccCCC---CcEEEEEeccCc
Confidence 4899999999 99999999998755433 379999998765
No 2
>PF00582 Usp: Universal stress protein family; InterPro: IPR006016 The universal stress protein UspA P28242 from SWISSPROT [] is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. UspA enhances the rate of cell survival during prolonged exposure to such conditions, and may provide a general "stress endurance" activity. The crystal structure of Haemophilus influenzae UspA [] reveals an alpha/beta fold similar to that of the Methanocaldococcus jannaschii (Methanococcus jannaschii) MJ0577 protein, which binds ATP [], though UspA lacks ATP-binding activity.; GO: 0006950 response to stress; PDB: 3DLO_C 3QTB_A 2PFS_A 3TNJ_A 1JMV_D 3FH0_B 3FDX_B 3AB7_A 3AB8_A 2GM3_F ....
Probab=98.07 E-value=7.9e-06 Score=49.02 Aligned_cols=42 Identities=33% Similarity=0.515 Sum_probs=35.3
Q ss_pred eEEEEEEeCCccCCCCCCCcchHHHHHHHhhhhhccCCCcceEEEEEeeCCCCC
Q 046819 6 TRIIVAVNESTIKGYPHASISSRGAFEWSVQKIIRSNTSGFKLLFLHVQVPDED 59 (80)
Q Consensus 6 ~rvmVaVDeSe~kgyp~~si~S~~AleWtL~~l~~~~~~~fkLvlLHvqpp~~~ 59 (80)
+||||++|+|+ .|..|++|++...-..+ .++.+|||.++...
T Consensus 3 ~~Ilv~~d~~~---------~~~~al~~a~~la~~~~---~~i~~l~v~~~~~~ 44 (140)
T PF00582_consen 3 KRILVAIDGSE---------ESRRALRFALELAKRSG---AEITLLHVIPPPPQ 44 (140)
T ss_dssp SEEEEEESSSH---------HHHHHHHHHHHHHHHHT---CEEEEEEEEESCHC
T ss_pred CEEEEEECCCH---------HHHHHHHHHHHHHHhhC---CeEEEEEeeccccc
Confidence 68999999999 99999999999555433 38999999888744
No 3
>PRK09982 universal stress protein UspD; Provisional
Probab=97.90 E-value=2.9e-05 Score=51.00 Aligned_cols=40 Identities=13% Similarity=0.105 Sum_probs=33.5
Q ss_pred eEEEEEEeCCccCCCCCCCcchHHHHHHHhhhhhccCCCcceEEEEEeeCCC
Q 046819 6 TRIIVAVNESTIKGYPHASISSRGAFEWSVQKIIRSNTSGFKLLFLHVQVPD 57 (80)
Q Consensus 6 ~rvmVaVDeSe~kgyp~~si~S~~AleWtL~~l~~~~~~~fkLvlLHvqpp~ 57 (80)
++|+||||.|+ .|..||+++++--...+ -+|.+|||.++.
T Consensus 4 k~ILvavD~S~---------~s~~al~~A~~lA~~~~---a~l~llhV~~~~ 43 (142)
T PRK09982 4 KHIGVAISGNE---------EDALLVNKALELARHND---AHLTLIHIDDGL 43 (142)
T ss_pred eEEEEEecCCc---------chHHHHHHHHHHHHHhC---CeEEEEEEccCc
Confidence 68999999999 99999999998654433 279999998765
No 4
>cd01987 USP_OKCHK USP domain is located between the N-terminal sensor domain and C-terminal catalytic domain of this Osmosensitive K+ channel histidine kinase family. The family of KdpD sensor kinase proteins regulates the kdpFABC operon responsible for potassium transport. The USP domain is homologous to the universal stress protein Usp Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to such conditions, and may provide a general "stress endurance" activity.
Probab=97.83 E-value=3.5e-05 Score=48.21 Aligned_cols=40 Identities=15% Similarity=0.204 Sum_probs=32.8
Q ss_pred EEEEEEeCCccCCCCCCCcchHHHHHHHhhhhhccCCCcceEEEEEeeCCCC
Q 046819 7 RIIVAVNESTIKGYPHASISSRGAFEWSVQKIIRSNTSGFKLLFLHVQVPDE 58 (80)
Q Consensus 7 rvmVaVDeSe~kgyp~~si~S~~AleWtL~~l~~~~~~~fkLvlLHvqpp~~ 58 (80)
+|||+||.|+ +|.+|++|+.+.....+ .+|.+|||.+++.
T Consensus 1 ~Ilv~vd~s~---------~s~~al~~a~~la~~~~---~~l~ll~v~~~~~ 40 (124)
T cd01987 1 RILVCISGGP---------NAERLIRRAARLADRLK---APWYVVYVETPRL 40 (124)
T ss_pred CEEEEECCCc---------chHHHHHHHHHHHHHhC---CCEEEEEEecCcc
Confidence 5999999999 99999999996544322 3799999998874
No 5
>PRK15118 universal stress global response regulator UspA; Provisional
Probab=97.72 E-value=7.6e-05 Score=48.08 Aligned_cols=40 Identities=30% Similarity=0.294 Sum_probs=32.4
Q ss_pred CeEEEEEEeCCccCCCCCCCcchHHHHHHHhhhhhccCCCcceEEEEEeeCC
Q 046819 5 PTRIIVAVNESTIKGYPHASISSRGAFEWSVQKIIRSNTSGFKLLFLHVQVP 56 (80)
Q Consensus 5 ~~rvmVaVDeSe~kgyp~~si~S~~AleWtL~~l~~~~~~~fkLvlLHvqpp 56 (80)
-++|+|++|-|+ .|..||+|+++-.-..+ -+|.+|||.++
T Consensus 3 ~~~ILvavD~S~---------~s~~al~~a~~la~~~~---a~l~ll~v~~~ 42 (144)
T PRK15118 3 YKHILIAVDLSP---------ESKVLVEKAVSMARPYN---AKVSLIHVDVN 42 (144)
T ss_pred ceEEEEEccCCh---------hHHHHHHHHHHHHHhhC---CEEEEEEEccC
Confidence 378999999999 99999999998644333 27999999544
No 6
>PRK15005 universal stress protein F; Provisional
Probab=97.65 E-value=0.00011 Score=46.92 Aligned_cols=40 Identities=18% Similarity=0.174 Sum_probs=32.3
Q ss_pred eEEEEEEeCCccCCCCCCCcc--hHHHHHHHhhhhhccCCCcceEEEEEeeCCC
Q 046819 6 TRIIVAVNESTIKGYPHASIS--SRGAFEWSVQKIIRSNTSGFKLLFLHVQVPD 57 (80)
Q Consensus 6 ~rvmVaVDeSe~kgyp~~si~--S~~AleWtL~~l~~~~~~~fkLvlLHvqpp~ 57 (80)
++|+|+||.|+ + +..|++|+++-..+.+ -+|.+|||.++.
T Consensus 3 ~~ILv~~D~s~---------~~~~~~a~~~a~~la~~~~---~~l~ll~v~~~~ 44 (144)
T PRK15005 3 RTILVPIDISD---------SELTQRVISHVEAEAKIDD---AEVHFLTVIPSL 44 (144)
T ss_pred ccEEEecCCCc---------hhHHHHHHHHHHHHHhccC---CeEEEEEEEccC
Confidence 57999999999 7 5799999998654433 279999998764
No 7
>PRK15456 universal stress protein UspG; Provisional
Probab=97.21 E-value=0.00072 Score=43.72 Aligned_cols=40 Identities=23% Similarity=0.245 Sum_probs=32.1
Q ss_pred eEEEEEEeCC--ccCCCCCCCcchHHHHHHHhhhhhccCCCcceEEEEEeeCCCC
Q 046819 6 TRIIVAVNES--TIKGYPHASISSRGAFEWSVQKIIRSNTSGFKLLFLHVQVPDE 58 (80)
Q Consensus 6 ~rvmVaVDeS--e~kgyp~~si~S~~AleWtL~~l~~~~~~~fkLvlLHvqpp~~ 58 (80)
++|||+||-| + .|..|++|+++ +... .. +|.+|||.++..
T Consensus 3 ~~ILv~vD~S~~~---------~s~~al~~A~~-la~~--~~-~l~llhv~~~~~ 44 (142)
T PRK15456 3 KTIIMPVDVFEME---------LSDKAVRHAEF-LAQD--DG-VIHLLHVLPGSA 44 (142)
T ss_pred ccEEEeccCCchh---------HHHHHHHHHHH-HHhc--CC-eEEEEEEecCcc
Confidence 6799999998 5 79999999996 4432 23 799999988763
No 8
>cd01988 Na_H_Antiporter_C The C-terminal domain of a subfamily of Na+ /H+ antiporter existed in bacteria and archea . Na+/H+ exchange proteins eject protons from cells, effectively eliminating excess acid from actively metabolising cells. Na+ /H+ exchange activity is also crucial for the regulation of cell volume, and for the reabsorption of NaCl across renal, intestinal, and other epithelia. These antiports exchange Na+ for H+ in an electroneutral manner, and this activity is carried out by a family of Na+ /H+ exchangers, or NHEs, which are known to be present in both prokaryotic and eukaryotic cells. These exchangers are highly-regulated (glyco)phosphoproteins, which, based on their primary structure, appear to contain 10-12 membrane-spanning regions (M) at the N-terminus and a large cytoplasmic region at the C-terminus. The transmembrane regions M3-M12 share identity wit h other members of the family. The M6 and M7 regions are highly conserved. Thus, this is thought to be the regio
Probab=97.12 E-value=0.0012 Score=40.85 Aligned_cols=40 Identities=20% Similarity=0.234 Sum_probs=32.2
Q ss_pred EEEEEEeCCccCCCCCCCcchHHHHHHHhhhhhccCCCcceEEEEEeeCCCC
Q 046819 7 RIIVAVNESTIKGYPHASISSRGAFEWSVQKIIRSNTSGFKLLFLHVQVPDE 58 (80)
Q Consensus 7 rvmVaVDeSe~kgyp~~si~S~~AleWtL~~l~~~~~~~fkLvlLHvqpp~~ 58 (80)
+|||+||.|+ .+..|++|+..-.-.. +-++.+||+.++.+
T Consensus 1 ~ILv~vd~s~---------~~~~~l~~a~~la~~~---~~~v~ll~v~~~~~ 40 (132)
T cd01988 1 RILVPVANPN---------TARDLLELAAALARAQ---NGEIIPLNVIEVPN 40 (132)
T ss_pred CEEEecCCch---------hHHHHHHHHHHHhhcC---CCeEEEEEEEecCC
Confidence 5999999999 9999999998764322 23799999987653
No 9
>PRK10116 universal stress protein UspC; Provisional
Probab=96.83 E-value=0.003 Score=40.24 Aligned_cols=41 Identities=20% Similarity=0.148 Sum_probs=32.8
Q ss_pred CeEEEEEEeCCccCCCCCCCcchHHHHHHHhhhhhccCCCcceEEEEEeeCCC
Q 046819 5 PTRIIVAVNESTIKGYPHASISSRGAFEWSVQKIIRSNTSGFKLLFLHVQVPD 57 (80)
Q Consensus 5 ~~rvmVaVDeSe~kgyp~~si~S~~AleWtL~~l~~~~~~~fkLvlLHvqpp~ 57 (80)
-++|+|++|.|+ .|..||+++++-....+ -+|.++|+-++.
T Consensus 3 ~~~ILv~~D~s~---------~s~~al~~A~~lA~~~~---a~l~ll~v~~~~ 43 (142)
T PRK10116 3 YSNILVAVAVTP---------ESQQLLAKAVSIARPVN---GKISLITLASDP 43 (142)
T ss_pred CceEEEEccCCc---------chHHHHHHHHHHHHHhC---CEEEEEEEccCc
Confidence 478999999999 99999999988654323 279999996554
No 10
>cd00293 USP_Like Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to such conditions, and may provide a general "stress endurance" activity. The crystal structure of Haemophilus influenzae Usp reveals an alpha/beta fold similar to that of the Methanococcus jannaschii MJ0577 protein, which binds ATP, athough Usp lacks ATP-binding activity.
Probab=96.77 E-value=0.004 Score=37.05 Aligned_cols=39 Identities=38% Similarity=0.582 Sum_probs=33.1
Q ss_pred EEEEEEeCCccCCCCCCCcchHHHHHHHhhhhhccCCCcceEEEEEeeCCC
Q 046819 7 RIIVAVNESTIKGYPHASISSRGAFEWSVQKIIRSNTSGFKLLFLHVQVPD 57 (80)
Q Consensus 7 rvmVaVDeSe~kgyp~~si~S~~AleWtL~~l~~~~~~~fkLvlLHvqpp~ 57 (80)
+|+|++|.++ .+..+++|+++-....+ .++.++|+.++.
T Consensus 1 ~ilv~i~~~~---------~~~~~l~~a~~~a~~~~---~~i~~l~v~~~~ 39 (130)
T cd00293 1 RILVAVDGSE---------ESERALRWAARLARRLG---AELVLLHVVDPP 39 (130)
T ss_pred CEEEEeCCCH---------HHHHHHHHHHHHHHhcC---CEEEEEEEecCC
Confidence 5899999999 99999999999877533 479999998765
No 11
>PRK11175 universal stress protein UspE; Provisional
Probab=96.25 E-value=0.0083 Score=42.89 Aligned_cols=39 Identities=15% Similarity=0.140 Sum_probs=31.1
Q ss_pred eEEEEEEeCCccCCCCCCCcchHHHHHHHhhhhhccCCCcceEEEEEeeCC
Q 046819 6 TRIIVAVNESTIKGYPHASISSRGAFEWSVQKIIRSNTSGFKLLFLHVQVP 56 (80)
Q Consensus 6 ~rvmVaVDeSe~kgyp~~si~S~~AleWtL~~l~~~~~~~fkLvlLHvqpp 56 (80)
++|+|++|.|+ .|..||+|++.-....+ -+|.+||+.++
T Consensus 4 ~~ILv~~D~s~---------~~~~al~~a~~lA~~~~---a~l~ll~v~~~ 42 (305)
T PRK11175 4 QNILVVIDPNQ---------DDQPALRRAVYLAQRNG---GKITAFLPIYD 42 (305)
T ss_pred ceEEEEcCCCc---------cccHHHHHHHHHHHhcC---CCEEEEEeccC
Confidence 57999999999 99999999998543323 26888998654
No 12
>PRK12652 putative monovalent cation/H+ antiporter subunit E; Reviewed
Probab=96.18 E-value=0.01 Score=46.89 Aligned_cols=43 Identities=14% Similarity=0.261 Sum_probs=34.4
Q ss_pred CeEEEEEEeCCccCCCCCCCcchHHHHHHHhhhhhccCCCcceEEEEEeeCCC
Q 046819 5 PTRIIVAVNESTIKGYPHASISSRGAFEWSVQKIIRSNTSGFKLLFLHVQVPD 57 (80)
Q Consensus 5 ~~rvmVaVDeSe~kgyp~~si~S~~AleWtL~~l~~~~~~~fkLvlLHvqpp~ 57 (80)
-+||+|+||.|+ .|..|++.+++--...+.+ -+|.+|||.++.
T Consensus 5 ykkILVavDGSe---------~S~~Al~~AielA~~~g~~-AeL~lL~Vv~~~ 47 (357)
T PRK12652 5 ANRLLVPVADSV---------TVRQTVAYAVESAEEAAET-PTVHLVAAASGR 47 (357)
T ss_pred cCeEEEEeCCCH---------HHHHHHHHHHHHHHhcCCC-CEEEEEEEecCc
Confidence 578999999999 9999999999965432112 389999998765
No 13
>PRK11175 universal stress protein UspE; Provisional
Probab=92.39 E-value=0.39 Score=34.36 Aligned_cols=42 Identities=14% Similarity=0.146 Sum_probs=29.7
Q ss_pred CeEEEEEEeCCccCCCCCCCcch-------HHHHHHHhhhhhccCCCcceEEEEEeeCCC
Q 046819 5 PTRIIVAVNESTIKGYPHASISS-------RGAFEWSVQKIIRSNTSGFKLLFLHVQVPD 57 (80)
Q Consensus 5 ~~rvmVaVDeSe~kgyp~~si~S-------~~AleWtL~~l~~~~~~~fkLvlLHvqpp~ 57 (80)
.++||||+|-|+ ++ ..||+++++-.-. ..+. +|.+|||.++.
T Consensus 152 ~~~Ilva~D~s~---------~~~~~~~~~~~al~~a~~la~~-~~~a-~l~ll~v~~~~ 200 (305)
T PRK11175 152 GGKILVAVNVAS---------EEPYHDALNEKLVEEAIDLAEQ-LNHA-EVHLVNAYPVT 200 (305)
T ss_pred CCeEEEEeCCCC---------CccchhHHHHHHHHHHHHHHhh-CcCC-ceEEEEEecCc
Confidence 578999999887 53 6799998864322 2122 69999997654
No 14
>COG0589 UspA Universal stress protein UspA and related nucleotide-binding proteins [Signal transduction mechanisms]
Probab=84.26 E-value=4.5 Score=24.87 Aligned_cols=44 Identities=32% Similarity=0.309 Sum_probs=33.7
Q ss_pred CCeEEEEEEe-CCccCCCCCCCcchHHHHHHHhhhhhccCCCcceEEEEEeeCCCCC
Q 046819 4 EPTRIIVAVN-ESTIKGYPHASISSRGAFEWSVQKIIRSNTSGFKLLFLHVQVPDED 59 (80)
Q Consensus 4 e~~rvmVaVD-eSe~kgyp~~si~S~~AleWtL~~l~~~~~~~fkLvlLHvqpp~~~ 59 (80)
.-++|++++| .|+ .+..|++++++-....+. .+.++||-.+...
T Consensus 4 ~~~~il~~~d~~s~---------~~~~a~~~a~~~~~~~~~---~~~~~~v~~~~~~ 48 (154)
T COG0589 4 MYKKILVAVDVGSE---------AAEKALEEAVALAKRLGA---PLILLVVIDPLEP 48 (154)
T ss_pred ccceEEEEeCCCCH---------HHHHHHHHHHHHHHhcCC---eEEEEEEeccccc
Confidence 3578999999 999 999999999987664332 4557887666543
No 15
>PRK10490 sensor protein KdpD; Provisional
Probab=72.24 E-value=9.8 Score=33.01 Aligned_cols=41 Identities=15% Similarity=0.142 Sum_probs=32.1
Q ss_pred CeEEEEEEeCCccCCCCCCCcchHHHHHHHhhhhhccCCCcceEEEEEeeCCC
Q 046819 5 PTRIIVAVNESTIKGYPHASISSRGAFEWSVQKIIRSNTSGFKLLFLHVQVPD 57 (80)
Q Consensus 5 ~~rvmVaVDeSe~kgyp~~si~S~~AleWtL~~l~~~~~~~fkLvlLHvqpp~ 57 (80)
+.||||||+.|. ++...++++..---+-+ -.+..|||+.+.
T Consensus 250 ~eriLV~v~~~~---------~~~~lIr~~~rlA~~~~---a~~~~l~V~~~~ 290 (895)
T PRK10490 250 RDAILLCIGHNT---------GSEKLVRTAARLAARLG---SVWHAVYVETPR 290 (895)
T ss_pred CCeEEEEECCCc---------chHHHHHHHHHHHHhcC---CCEEEEEEecCC
Confidence 457999999999 99999999876433322 269999999875
No 16
>PF02878 PGM_PMM_I: Phosphoglucomutase/phosphomannomutase, alpha/beta/alpha domain I; InterPro: IPR005844 The alpha-D-phosphohexomutase superfamily is composed of four related enzymes, each of which catalyses a phosphoryl transfer on their sugar substrates: phosphoglucomutase (PGM), phosphoglucomutase/phosphomannomutase (PGM/PMM), phosphoglucosamine mutase (PNGM), and phosphoacetylglucosamine mutase (PAGM) []. PGM (5.4.2.2 from EC) converts D-glucose 1-phosphate into D-glucose 6-phosphate, and participates in both the breakdown and synthesis of glucose []. PGM/PMM (5.4.2.2 from EC; 5.4.2.8 from EC) are primarily bacterial enzymes that use either glucose or mannose as substrate, participating in the biosynthesis of a variety of carbohydrates such as lipopolysaccharides and alginate [, ]. Both PNGM (5.4.2.3 from EC) and PAGM (5.4.2.10 from EC) are involved in the biosynthesis of UDP-N-acetylglucosamine [, ]. Despite differences in substrate specificity, these enzymes share a similar catalytic mechanism, converting 1-phospho-sugars to 6-phospho-sugars via a biphosphorylated 1,6-phospho-sugar. The active enzyme is phosphorylated at a conserved serine residue and binds one magnesium ion; residues around the active site serine are well conserved among family members. The reaction mechanism involves phosphoryl transfer from the phosphoserine to the substrate to create a biophosphorylated sugar, followed by a phosphoryl transfer from the substrate back to the enzyme []. The structures of PGM and PGM/PMM have been determined, and were found to be very similar in topology. These enzymes are both composed of four domains and a large central active site cleft, where each domain contains residues essential for catalysis and/or substrate recognition. Domain I contains the catalytic phosphoserine, domain II contains a metal-binding loop to coordinate the magnesium ion, domain III contains the sugar-binding loop that recognises the two different binding orientations of the 1- and 6-phospho-sugars, and domain IV contains a phosphate-binding site required for orienting the incoming phospho-sugar substrate. This entry represents domain I found in alpha-D-phosphohexomutase enzymes. This domain has a 3-layer alpha/beta/alpha topology.; GO: 0016868 intramolecular transferase activity, phosphotransferases, 0005975 carbohydrate metabolic process; PDB: 3I3W_B 1WQA_C 1KFQ_B 1KFI_A 2Z0F_A 2FKM_X 3C04_A 1K2Y_X 1P5G_X 2H4L_X ....
Probab=67.95 E-value=16 Score=24.09 Aligned_cols=63 Identities=16% Similarity=0.094 Sum_probs=43.9
Q ss_pred CCeEEEEEEeCCccCCCCCCCcchHHHHHHHhhhhhccCCCcceEEEEEeeCCCCC-------------ceeecCCcccc
Q 046819 4 EPTRIIVAVNESTIKGYPHASISSRGAFEWSVQKIIRSNTSGFKLLFLHVQVPDED-------------EIFASFDFGKE 70 (80)
Q Consensus 4 e~~rvmVaVDeSe~kgyp~~si~S~~AleWtL~~l~~~~~~~fkLvlLHvqpp~~~-------------s~yAspd~~~~ 70 (80)
.+.+|+||=|... +|....+++.+=|...+ .+++.+..-|.+.- -+-||.+....
T Consensus 39 ~~~~VvVg~D~R~---------~s~~~~~~~~~~l~~~G---~~V~~~g~~~tP~~~~~~~~~~~~ggi~iTaShnp~~~ 106 (137)
T PF02878_consen 39 NGSRVVVGRDTRP---------SSPMLAKALAAGLRANG---VDVIDIGLVPTPALSFAIRQLNADGGIMITASHNPPGY 106 (137)
T ss_dssp TSSEEEEEE-SST---------THHHHHHHHHHHHHHTT---EEEEEEEEB-HHHHHHHHHHHTESEEEEE--TTS-TTE
T ss_pred CCCeEEEEEcccC---------CHHHHHHHHHHHHhhcc---cccccccccCcHHhhhhccccccceeeEEEecCCCCCc
Confidence 3679999999999 99988888888887544 56777775554433 33478888889
Q ss_pred cceEEeee
Q 046819 71 NGILVLNE 78 (80)
Q Consensus 71 ~~~~~~~~ 78 (80)
|||-+.++
T Consensus 107 ngik~~~~ 114 (137)
T PF02878_consen 107 NGIKFFDA 114 (137)
T ss_dssp EEEEEEET
T ss_pred ceEEEEeC
Confidence 99888764
No 17
>PF14951 DUF4503: Domain of unknown function (DUF4503)
Probab=67.20 E-value=2.5 Score=35.09 Aligned_cols=18 Identities=50% Similarity=0.835 Sum_probs=15.0
Q ss_pred CeEEEEEEeCCccCCCCCCCcchHHHHHHHh
Q 046819 5 PTRIIVAVNESTIKGYPHASISSRGAFEWSV 35 (80)
Q Consensus 5 ~~rvmVaVDeSe~kgyp~~si~S~~AleWtL 35 (80)
-+-++||||||+ ||+|-.
T Consensus 259 vqG~VvgVdE~T-------------AfSWPv 276 (389)
T PF14951_consen 259 VQGTVVGVDEST-------------AFSWPV 276 (389)
T ss_pred EeeEEEEecCcc-------------cccCcc
Confidence 356899999999 888854
No 18
>PRK11798 ClpXP protease specificity-enhancing factor; Provisional
Probab=55.32 E-value=15 Score=26.46 Aligned_cols=40 Identities=28% Similarity=0.363 Sum_probs=23.9
Q ss_pred HHHHHHHhhhhhccCCCcceEEEEEeeCCCCCceeecCCcccccceEEee
Q 046819 28 RGAFEWSVQKIIRSNTSGFKLLFLHVQVPDEDEIFASFDFGKENGILVLN 77 (80)
Q Consensus 28 ~~AleWtL~~l~~~~~~~fkLvlLHvqpp~~~s~yAspd~~~~~~~~~~~ 77 (80)
+...|||+||=++ + .|+ |-+.-+ ...=|..|.++|-+|||
T Consensus 13 RA~yeW~~Dn~~T----P-~l~-Vda~~~----~v~VP~~~v~dg~IvLN 52 (138)
T PRK11798 13 RALYEWIVDNGLT----P-HLL-VDATYP----GVQVPMEYVRDGQIVLN 52 (138)
T ss_pred HHHHHHHhhCCCC----c-EEE-EEcCCC----CCcCCHHHccCCEEEEE
Confidence 4567999998442 2 122 222211 12246678899999998
No 19
>COG0603 Predicted PP-loop superfamily ATPase [General function prediction only]
Probab=49.51 E-value=21 Score=27.27 Aligned_cols=33 Identities=27% Similarity=0.407 Sum_probs=28.5
Q ss_pred CeEEEEEEeCCccCCCCCCCcchHHHHHHHhhh
Q 046819 5 PTRIIVAVNESTIKGYPHASISSRGAFEWSVQK 37 (80)
Q Consensus 5 ~~rvmVaVDeSe~kgyp~~si~S~~AleWtL~~ 37 (80)
.+.|.+||++.+..|||-=.-+--.|++=+++.
T Consensus 116 ~~~I~~Gv~~~D~sgYPDcrpefi~a~~~~~~l 148 (222)
T COG0603 116 ADAIIIGVNEEDFSGYPDCRPEFIEALNEALNL 148 (222)
T ss_pred CCeEEEEecccccCCCCCCCHHHHHHHHHHHHh
Confidence 578999999999999999888888888877765
No 20
>PRK10696 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional
Probab=48.28 E-value=53 Score=24.04 Aligned_cols=42 Identities=14% Similarity=0.305 Sum_probs=29.9
Q ss_pred CCeEEEEEEeCCccCCCCCCCcchHHHHHHHhhhhhccCCCcceEEEEEeeC
Q 046819 4 EPTRIIVAVNESTIKGYPHASISSRGAFEWSVQKIIRSNTSGFKLLFLHVQV 55 (80)
Q Consensus 4 e~~rvmVaVDeSe~kgyp~~si~S~~AleWtL~~l~~~~~~~fkLvlLHvqp 55 (80)
...+|+||+...- .|+.-|.|.. .+......+|+++.+|+..
T Consensus 28 ~~~kilVa~SGG~---------DS~~LL~ll~-~l~~~~~~~~~l~av~vd~ 69 (258)
T PRK10696 28 EGDRVMVCLSGGK---------DSYTLLDILL-NLQKRAPINFELVAVNLDQ 69 (258)
T ss_pred CCCEEEEEecCCH---------HHHHHHHHHH-HHHHhCCCCeEEEEEEecC
Confidence 4678999999999 8887666654 4443333457899999854
No 21
>cd01984 AANH_like Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide.
Probab=44.24 E-value=44 Score=19.73 Aligned_cols=34 Identities=18% Similarity=0.132 Sum_probs=24.0
Q ss_pred EEEEEeCCccCCCCCCCcchHHHHHHHhhhhhccCCCcceEEEEEee
Q 046819 8 IIVAVNESTIKGYPHASISSRGAFEWSVQKIIRSNTSGFKLLFLHVQ 54 (80)
Q Consensus 8 vmVaVDeSe~kgyp~~si~S~~AleWtL~~l~~~~~~~fkLvlLHvq 54 (80)
|+|+++-+. -|..++.|+.+.- +.. .+++.+|+-
T Consensus 1 ilv~~sgg~---------dS~~~l~~~~~~~-~~~---~~~~~~~~~ 34 (86)
T cd01984 1 ILVALSGGL---------DSSVLLHLAKRLK-SGG---PEVVALVVV 34 (86)
T ss_pred CEEEeeCCH---------HHHHHHHHHHHHH-hcC---CCEEEEEeH
Confidence 578999888 9999999998853 111 245566553
No 22
>cd01455 vWA_F11C1-5a_type Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of fold. The vWA domain, since its discovery, has drawn great interest because of its widespread occurrence and its involvement in a wide variety of important cellular functions. These include basal membrane formation, cell migration, cell differentiation, adhesion, haemostasis, signaling, chromosomal stability, malignant transformation and in immune defenses In integrins these domains form heterodimers while in vWF it forms multimers. There are different interaction surfaces of this domain as seen by the various molecules it complexes with. Ligand binding in most cases is mediated by the presence of a metal ion dependent adhesion site termed as the MIDAS motif that is a characteristic feature of most, if not all A
Probab=42.77 E-value=19 Score=26.77 Aligned_cols=17 Identities=29% Similarity=0.315 Sum_probs=14.1
Q ss_pred eEEEEEEeCCccCCCCCCCcchHHHHH
Q 046819 6 TRIIVAVNESTIKGYPHASISSRGAFE 32 (80)
Q Consensus 6 ~rvmVaVDeSe~kgyp~~si~S~~Ale 32 (80)
+|||++||=|. ||+.|+
T Consensus 1 ~~l~lavDlSg----------SM~~~~ 17 (191)
T cd01455 1 KRLKLVVDVSG----------SMYRFN 17 (191)
T ss_pred CceEEEEECcH----------hHHHHh
Confidence 48999999997 787765
No 23
>PF03727 Hexokinase_2: Hexokinase; InterPro: IPR022673 Hexokinase is an important enzyme that catalyses the ATP-dependent conversion of aldo- and keto-hexose sugars to the hexose-6-phosphate (H6P). The enzyme can catalyse this reaction on glucose, fructose, sorbitol and glucosamine, and as such is the first step in a number of metabolic pathways []. The addition of a phosphate group to the sugar acts to trap it in a cell, since the negatively charged phosphate cannot easily traverse the plasma membrane. The enzyme is widely distributed in eukaryotes. There are three isozymes of hexokinase in yeast (PI, PII and glucokinase): isozymes PI and PII phosphorylate both aldo- and keto-sugars; glucokinase is specific for aldo-hexoses. All three isozymes contain two domains []. Structural studies of yeast hexokinase reveal a well-defined catalytic pocket that binds ATP and hexose, allowing easy transfer of the phosphate from ATP to the sugar []. Vertebrates contain four hexokinase isozymes, designated I to IV, where types I to III contain a duplication of the two-domain yeast-type hexokinases. Both the N- and C-terminal halves bind hexose and H6P, though in types I an III only the C-terminal half supports catalysis, while both halves support catalysis in type II. The N-terminal half is the regulatory region. Type IV hexokinase is similar to the yeast enzyme in containing only the two domains, and is sometimes incorrectly referred to as glucokinase. The different vertebrate isozymes differ in their catalysis, localisation and regulation, thereby contributing to the different patterns of glucose metabolism in different tissues []. Whereas types I to III can phosphorylate a variety of hexose sugars and are inhibited by glucose-6-phosphate (G6P), type IV is specific for glucose and shows no G6P inhibition. Type I enzyme may have a catabolic function, producing H6P for energy production in glycolysis; it is bound to the mitochondrial membrane, which enables the coordination of glycolysis with the TCA cycle. Types II and III enzyme may have anabolic functions, providing H6P for glycogen or lipid synthesis. Type IV enzyme is found in the liver and pancreatic beta-cells, where it is controlled by insulin (activation) and glucagon (inhibition). In pancreatic beta-cells, type IV enzyme acts as a glucose sensor to modify insulin secretion. Mutations in type IV hexokinase have been associated with diabetes mellitus. Hexokinase (2.7.1.1 from EC), a fructose and glucose phosphorylating enzyme, contains two structurally similar domains represented by this family and PF00349 from PFAM. Some members of the family have two copies of each of these domains. This entry represents the more C-terminal domain.; GO: 0005524 ATP binding, 0016773 phosphotransferase activity, alcohol group as acceptor, 0005975 carbohydrate metabolic process; PDB: 4DHY_A 3ID8_A 4DCH_A 3FGU_A 3QIC_A 3A0I_X 3VEY_A 3IDH_A 3VEV_A 3VF6_A ....
Probab=38.56 E-value=37 Score=24.91 Aligned_cols=34 Identities=21% Similarity=0.406 Sum_probs=26.0
Q ss_pred CeEEEEEEeCCccCCCCCCCcchHHHHHHHhhhhhccC
Q 046819 5 PTRIIVAVNESTIKGYPHASISSRGAFEWSVQKIIRSN 42 (80)
Q Consensus 5 ~~rvmVaVDeSe~kgyp~~si~S~~AleWtL~~l~~~~ 42 (80)
.+++.||||.|-++.||. -..-++=+|+.+....
T Consensus 184 ~~~v~VavDGSv~~~~p~----f~~~l~~~l~~L~~~~ 217 (243)
T PF03727_consen 184 RREVTVAVDGSVYEKYPN----FRERLQEALDELLPEE 217 (243)
T ss_dssp SEEEEEEEESHHHHHSTT----HHHHHHHHHHHHSTT-
T ss_pred CCceEEEEeCcceeeCHH----HHHHHHHHHHHhcccc
Confidence 568999999999999884 5556677777777543
No 24
>cd07029 RNAP_I_III_AC19 AC19 subunit of Eukaryotic RNA polymerase (RNAP) I and RNAP III. The eukaryotic AC19 subunit of RNA polymerase (RNAP) I and RNAP III is involved in the assembly of RNAP subunits. RNAP is a large multi-subunit complex responsible for the synthesis of RNA. It is the principal enzyme of the transcription process, and is a final target in many regulatory pathways that control gene expression in all living cells. At least three distinct RNAP complexes are found in eukaryotic nuclei: RNAP I, RNAP II, and RNAP III. RNAP I is responsible for the synthesis of ribosomal RNA precursor, while RNAP III functions in the synthesis of 5S and tRNA. The AC19 subunit is the equivalent of the RPB11 subunit of RNAP II. The RPB11 subunit heterodimerizes with the RPB3 subunit, and together with RPB10 and RPB12, anchors the two largest subunits, RPB1 and RPB2, and stabilizes their association. The homology of AC19 to RPB11 suggests a similar function. The AC19 subunit is likely to ass
Probab=38.40 E-value=28 Score=22.52 Aligned_cols=16 Identities=0% Similarity=0.059 Sum_probs=13.0
Q ss_pred cchHHHHHHHhhhhhc
Q 046819 25 ISSRGAFEWSVQKIIR 40 (80)
Q Consensus 25 i~S~~AleWtL~~l~~ 40 (80)
+....||.|+++.+..
T Consensus 61 ~~p~~al~~a~~~l~~ 76 (85)
T cd07029 61 EPAVDVLKKGLEDLEQ 76 (85)
T ss_pred CCHHHHHHHHHHHHHH
Confidence 4677899999998873
No 25
>PF12306 PixA: Inclusion body protein; InterPro: IPR021087 This entry represents bacterial proteins that are typically between 173 and 191 amino acids in length. PixA is thought to be specifically produced in Xenorhabdus nematophila. It is an inclusion body protein []. This signature also identifies AidA.
Probab=36.42 E-value=13 Score=26.47 Aligned_cols=21 Identities=33% Similarity=0.534 Sum_probs=17.2
Q ss_pred eEEEEEEeCCccCC-CCCCCcc
Q 046819 6 TRIIVAVNESTIKG-YPHASIS 26 (80)
Q Consensus 6 ~rvmVaVDeSe~kg-yp~~si~ 26 (80)
--|||+||-.+|+. ||++|-.
T Consensus 5 IDVlv~vDa~~I~~~~~~~S~d 26 (172)
T PF12306_consen 5 IDVLVVVDADTILERYPKLSKD 26 (172)
T ss_pred EEEEEEEcHHHHHhhCCCCCCC
Confidence 45999999999877 9998843
No 26
>PF04386 SspB: Stringent starvation protein B; InterPro: IPR007481 Escherichia coli stringent starvation protein B (SspB), is thought to enhance the specificity of degradation of tmRNA-tagged proteins by the ClpXP protease. The tmRNA tag, also known as ssrA, is an 11-aa peptide added to the C terminus of proteins stalled during translation, targets proteins for degradation by ClpXP and ClpAP. SspB is a cytoplasmic protein that specifically binds to residues 1-4 and 7 of the tag. Binding of SspB enhances degradation of tagged proteins by ClpX, and masks sequence elements important for ClpA interactions, inhibiting degradation by ClpA []. However, more recent work has cast doubt on the importance of SspB in wild-type cells []. SspB is encoded in an operon whose synthesis is stimulated by carbon, amino acid, and phosphate starvation. SspB may play a special role during nutrient stress, for example by ensuring rapid degradation of the products of stalled translation, without causing a global increase in degradation of all ClpXP substrates [].; PDB: 2NYS_A 2QAZ_D 2QAS_A 1OX9_A 1OX8_A 1YFN_C 1TWB_B 1OU9_C 1OU8_B 1ZSZ_B ....
Probab=34.96 E-value=68 Score=22.57 Aligned_cols=45 Identities=18% Similarity=0.304 Sum_probs=25.3
Q ss_pred HHHHhhhhhccCCCcceEEEEEeeCCCCCceeecCCccc-ccceEEee
Q 046819 31 FEWSVQKIIRSNTSGFKLLFLHVQVPDEDEIFASFDFGK-ENGILVLN 77 (80)
Q Consensus 31 leWtL~~l~~~~~~~fkLvlLHvqpp~~~s~yAspd~~~-~~~~~~~~ 77 (80)
.+|+|...-..+...-.-..+++.... .+--=|+.|+ ++|-++||
T Consensus 15 ~~w~l~~~~~~~~d~~~tpyI~v~t~~--pgV~vP~~~~~~~~~ivln 60 (155)
T PF04386_consen 15 YEWILEDVAKAGLDNDHTPYITVDTDY--PGVQVPDQLVEQDGQIVLN 60 (155)
T ss_dssp HHHHHHHHCCCTHHTT--EEEEEETTS--TT-BSSGGGHCBTTEEEEE
T ss_pred HHHHHHHHHhcCCCCCCeEEEEEEeCC--CCCCCCHHHhccCCcEEEE
Confidence 479977765443111122334444444 2344578888 99998887
No 27
>PF05226 CHASE2: CHASE2 domain; InterPro: IPR007890 CHASE2 is an extracellular sensory domain, which is present in various classes of transmembrane receptors that are upstream of signal transduction pathways in bacteria. Specifically, CHASE2 domains are found in histidine kinases, adenylate cyclases, serine/threonine kinases and predicted diguanylate cyclases/phosphodiesterases. Environmental factors that are recognised by CHASE2 domains are not known at this time [].
Probab=33.50 E-value=50 Score=24.14 Aligned_cols=36 Identities=14% Similarity=0.519 Sum_probs=25.9
Q ss_pred CCeEEEEEEeCCccC---CCCCCCcchHHHHHHHhhhhhccCC
Q 046819 4 EPTRIIVAVNESTIK---GYPHASISSRGAFEWSVQKIIRSNT 43 (80)
Q Consensus 4 e~~rvmVaVDeSe~k---gyp~~si~S~~AleWtL~~l~~~~~ 43 (80)
.++.++|+|||.+|+ .+|- ++..+.-.++++...+.
T Consensus 40 ~~~iviV~ID~~Sl~~~g~~Pw----~R~~~A~ll~~L~~~ga 78 (310)
T PF05226_consen 40 DPDIVIVDIDDESLAELGRWPW----PRSVYARLLDRLAAAGA 78 (310)
T ss_pred CCCEEEEEECHHHHHHhCCCCC----CHHHHHHHHHHHHhCCC
Confidence 367899999999885 4553 34566678888876554
No 28
>PF10672 Methyltrans_SAM: S-adenosylmethionine-dependent methyltransferase; InterPro: IPR019614 Members of this entry are S-adenosylmethionine-dependent methyltransferases from gamma-proteobacterial species. The diversity in the roles of methylation is matched by the almost bewildering number of methyltransferase enzymes that catalyse the methylation reaction. Although several classes of methyltransferase enzymes are known, the great majority of methylation reactions are catalysed by the S-adenosylmethionine-dependent methyltransferases. SAM (S-adenosylmethionine, also known as AdoMet) is well known as the methyl donor for the majority of methyltransferases that modify DNA, RNA, histones and other proteins, dictating replicational, transcriptional and translational fidelity, mismatch repair, chromatin modelling, epigenetic modifications and imprinting [].; GO: 0008168 methyltransferase activity; PDB: 2IGT_B 1WXX_A 1WXW_D 2CWW_B 2AS0_B 3V8V_B 3V97_A 3C0K_A 2B78_A 3LDF_A.
Probab=32.88 E-value=38 Score=26.26 Aligned_cols=22 Identities=27% Similarity=0.551 Sum_probs=17.3
Q ss_pred EEEEeCCccCCCCCCCcchHHHHHHHhhhhhccC
Q 046819 9 IVAVNESTIKGYPHASISSRGAFEWSVQKIIRSN 42 (80)
Q Consensus 9 mVaVDeSe~kgyp~~si~S~~AleWtL~~l~~~~ 42 (80)
++.||-|. .|++|+-+|+..++
T Consensus 149 v~~VD~S~------------~al~~a~~N~~lNg 170 (286)
T PF10672_consen 149 VVSVDSSK------------RALEWAKENAALNG 170 (286)
T ss_dssp EEEEES-H------------HHHHHHHHHHHHTT
T ss_pred EEEEeCCH------------HHHHHHHHHHHHcC
Confidence 67898766 89999999988764
No 29
>PF01676 Metalloenzyme: Metalloenzyme superfamily; InterPro: IPR006124 This domain unites alkaline phosphatase, N-acetylgalactosamine-4-sulphatase, and cerebroside sulphatase, enzymes with known three-dimensional structures, with phosphopentomutase, 2,3-bisphosphoglycerate-independent phosphoglycerate mutase, phosphoglycerol transferase, phosphonate monoesterase, streptomycin-6-phosphate phosphatase, alkaline phosphodiesterase/nucleotide pyrophosphatase PC-1, and several closely related sulphatases. This domain is also related to alkaline phosphatase IPR001952 from INTERPRO []. The most conserved residues are probably involved in metal binding and catalysis.; GO: 0003824 catalytic activity, 0046872 metal ion binding; PDB: 1EQJ_A 1EJJ_A 1O99_A 1O98_A 3UN5_F 3UN3_B 3M8Y_C 3UO0_B 3UN2_B 3UNY_E ....
Probab=31.76 E-value=77 Score=23.20 Aligned_cols=44 Identities=18% Similarity=0.400 Sum_probs=33.1
Q ss_pred EeCCccCCCCCCCcchHHHHHHHhhhhhccCCCcceEEEEEeeCCCC
Q 046819 12 VNESTIKGYPHASISSRGAFEWSVQKIIRSNTSGFKLLFLHVQVPDE 58 (80)
Q Consensus 12 VDeSe~kgyp~~si~S~~AleWtL~~l~~~~~~~fkLvlLHvqpp~~ 58 (80)
++...+-++.+|...+..+++-+++.+.... +.|+++|++-+|.
T Consensus 110 ~~~~g~t~~~~~~~~~~~~~~~~~~~l~~~~---~~~v~~~~~~~D~ 153 (252)
T PF01676_consen 110 ISVEGATGDVDPDMSAKEIAEAAIEALKKDK---YDFVFVHVKGTDE 153 (252)
T ss_dssp E--STSSCCGSTTTTHHHHHHHHHHHHHHTT---SSEEEEEEEHHHH
T ss_pred ccccccccccccchhhHHHHHHHHHhhhccc---CCeEEEeecCcch
Confidence 4556667888999988888998888886432 3599999998873
No 30
>PRK10799 metal-binding protein; Provisional
Probab=31.69 E-value=66 Score=23.73 Aligned_cols=31 Identities=16% Similarity=0.264 Sum_probs=22.4
Q ss_pred CCeEEEEEEeCCccCCCCCCCcchHHHHHHHhhhhhccCCCcceEEEEEe
Q 046819 4 EPTRIIVAVNESTIKGYPHASISSRGAFEWSVQKIIRSNTSGFKLLFLHV 53 (80)
Q Consensus 4 e~~rvmVaVDeSe~kgyp~~si~S~~AleWtL~~l~~~~~~~fkLvlLHv 53 (80)
+-++|+||+|-+. ..+++|.++ + ..|+|.|=
T Consensus 34 ~v~~I~~alD~t~------------~vi~~A~~~----~---~dlIitHH 64 (247)
T PRK10799 34 TVQKIVTGVTASQ------------ALLDEAVRL----Q---ADAVIVHH 64 (247)
T ss_pred cccEEEEEeCCCH------------HHHHHHHHC----C---CCEEEECC
Confidence 4578999999877 678888876 2 24666664
No 31
>TIGR02432 lysidine_TilS_N tRNA(Ile)-lysidine synthetase, N-terminal domain. The only examples in which the wobble position of a tRNA must discriminate between G and A of mRNA are AUA (Ile) vs. AUG (Met) and UGA (stop) vs. UGG (Trp). In all bacteria, the wobble position of the tRNA(Ile) recognizing AUA is lysidine, a lysine derivative of cytidine. This family describes a protein domain found, apparently, in all bacteria in a single copy. Eukaryotic sequences appear to be organellar. The domain archictecture of this protein family is variable; some, including characterized proteins of E. coli and B. subtilis known to be tRNA(Ile)-lysidine synthetase, include a conserved 50-residue domain that many other members lack. This protein belongs to the ATP-binding PP-loop family ( pfam01171). It appears in the literature and protein databases as TilS, YacA, and putative cell cycle protein MesJ (a misnomer).
Probab=31.17 E-value=89 Score=21.06 Aligned_cols=36 Identities=25% Similarity=0.314 Sum_probs=24.9
Q ss_pred EEEEEEeCCccCCCCCCCcchHHHHHHHhhhhhccCCCcceEEEEEee
Q 046819 7 RIIVAVNESTIKGYPHASISSRGAFEWSVQKIIRSNTSGFKLLFLHVQ 54 (80)
Q Consensus 7 rvmVaVDeSe~kgyp~~si~S~~AleWtL~~l~~~~~~~fkLvlLHvq 54 (80)
||+||+..+. .|+-++.++.+- .+. .++++.++|+.
T Consensus 1 ~v~va~SGG~---------DS~~ll~ll~~~-~~~--~~~~v~~v~vd 36 (189)
T TIGR02432 1 RILVAVSGGV---------DSMALLHLLLKL-QPK--LKIRLIAAHVD 36 (189)
T ss_pred CEEEEeCCCH---------HHHHHHHHHHHH-HHH--cCCCEEEEEeC
Confidence 5889999998 898888766653 222 12457778874
No 32
>COG0037 MesJ tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]
Probab=30.80 E-value=1.1e+02 Score=22.00 Aligned_cols=36 Identities=22% Similarity=0.327 Sum_probs=25.8
Q ss_pred eEEEEEEeCCccCCCCCCCcchHHHHHHHhhhhhccCCCcceEEEEEeeC
Q 046819 6 TRIIVAVNESTIKGYPHASISSRGAFEWSVQKIIRSNTSGFKLLFLHVQV 55 (80)
Q Consensus 6 ~rvmVaVDeSe~kgyp~~si~S~~AleWtL~~l~~~~~~~fkLvlLHvqp 55 (80)
.+|+|||-..- -|+.+|.. |..+... +++.++||-.
T Consensus 22 ~~ilVavSGGk---------DS~~ll~~-L~~l~~~----~~~~a~~Vd~ 57 (298)
T COG0037 22 YKILVAVSGGK---------DSLALLHL-LKELGRR----IEVEAVHVDH 57 (298)
T ss_pred CeEEEEeCCCh---------HHHHHHHH-HHHhccC----ceEEEEEecC
Confidence 68999999998 88776654 4444422 5788888844
No 33
>cd05859 Ig4_PDGFR-alpha Fourth immunoglobulin (Ig)-like domain of platelet-derived growth factor receptor (PDGFR) alpha. IG4_PDGFR-alpha: The fourth immunoglobulin (Ig)-like domain of platelet-derived growth factor receptor (PDGFR) alpha. PDGF is a potent mitogen for connective tissue cells. PDGF-stimulated processes are mediated by three different PDGFs (PDGF-A,-B, and C). PDGFR alpha binds to all three PDGFs, whereas the PDGFR beta (not included in this group) binds only to PDGF-B. PDGF alpha is organized as an extracellular component having five Ig-like domains, a transmembrane segment, and a cytoplasmic portion having protein tyrosine kinase activity. In mice, PDGFR alpha and PDGFR beta are essential for normal development.
Probab=29.90 E-value=36 Score=21.64 Aligned_cols=26 Identities=19% Similarity=0.451 Sum_probs=17.9
Q ss_pred EEEEEEeCC-----ccCCCCCCCcchHHHHHHHhhhh
Q 046819 7 RIIVAVNES-----TIKGYPHASISSRGAFEWSVQKI 38 (80)
Q Consensus 7 rvmVaVDeS-----e~kgyp~~si~S~~AleWtL~~l 38 (80)
...+.++++ ++.|||.|.+ .|.-+.-
T Consensus 12 ~~~~~~~~~~~l~~~v~g~P~P~v------~W~kdg~ 42 (101)
T cd05859 12 LEFANLHEVKEFVVEVEAYPPPQI------RWLKDNR 42 (101)
T ss_pred eEEEecCCcEEEEEEEEEeCCCce------EEEECCE
Confidence 455666665 7899999965 5766553
No 34
>COG0634 Hpt Hypoxanthine-guanine phosphoribosyltransferase [Nucleotide transport and metabolism]
Probab=29.70 E-value=96 Score=23.30 Aligned_cols=45 Identities=11% Similarity=-0.073 Sum_probs=35.7
Q ss_pred cchHHHHHHHhhhhhccCCCcceEEEEEeeCCCCC-------ceeecCCccc
Q 046819 25 ISSRGAFEWSVQKIIRSNTSGFKLLFLHVQVPDED-------EIFASFDFGK 69 (80)
Q Consensus 25 i~S~~AleWtL~~l~~~~~~~fkLvlLHvqpp~~~-------s~yAspd~~~ 69 (80)
|.|-+.|+|..+.+...++.+++++.|=-||.+-. ++|.=||.|-
T Consensus 103 iDsG~TLs~i~~~l~~r~a~sv~i~tLldK~~~r~~~i~~DyvGf~vPd~FV 154 (178)
T COG0634 103 IDSGLTLSKVRDLLKERGAKSVRIATLLDKPERRKVDIEADYVGFEVPDEFV 154 (178)
T ss_pred cccChhHHHHHHHHHhCCCCeEEEEEEeeCcccccCCCCcceEeeecCCceE
Confidence 47888999999999988888888888877765533 7788888764
No 35
>PRK14318 glmM phosphoglucosamine mutase; Provisional
Probab=29.49 E-value=1.8e+02 Score=23.04 Aligned_cols=61 Identities=18% Similarity=0.082 Sum_probs=43.6
Q ss_pred eEEEEEEeCCccCCCCCCCcchHHHHHHHhhhhhccCCCcceEEEEEeeCCCCC-------------ceeecCCcccccc
Q 046819 6 TRIIVAVNESTIKGYPHASISSRGAFEWSVQKIIRSNTSGFKLLFLHVQVPDED-------------EIFASFDFGKENG 72 (80)
Q Consensus 6 ~rvmVaVDeSe~kgyp~~si~S~~AleWtL~~l~~~~~~~fkLvlLHvqpp~~~-------------s~yAspd~~~~~~ 72 (80)
.+|+||-|..- +|....+....=|... +.+++.+..-|++.. .+-||.+....||
T Consensus 45 ~~VvVg~D~R~---------ss~~l~~a~~~gL~s~---G~~V~~~g~~pTP~~~~av~~~~~~gGI~ITaSHnp~~~nG 112 (448)
T PRK14318 45 PVAVVGRDPRA---------SGEFLEAAVSAGLASA---GVDVLRVGVLPTPAVAYLTAALDADFGVMISASHNPMPDNG 112 (448)
T ss_pred CeEEEEeCCCc---------CHHHHHHHHHHHHHHC---CCEEEEecccCchHHHHHHHhcCCCEEEEEEcCCCCcccCC
Confidence 45999999988 7877666665555533 357777777776653 3457778888999
Q ss_pred eEEeee
Q 046819 73 ILVLNE 78 (80)
Q Consensus 73 ~~~~~~ 78 (80)
|.++++
T Consensus 113 iK~~~~ 118 (448)
T PRK14318 113 IKFFAA 118 (448)
T ss_pred EEEEcC
Confidence 988764
No 36
>PLN02362 hexokinase
Probab=29.20 E-value=1.4e+02 Score=25.29 Aligned_cols=44 Identities=14% Similarity=0.225 Sum_probs=28.2
Q ss_pred eEEEEEEeCCccCCCCCCCcchHHHHHHHhhhhhccCCCcceEEEEEee
Q 046819 6 TRIIVAVNESTIKGYPHASISSRGAFEWSVQKIIRSNTSGFKLLFLHVQ 54 (80)
Q Consensus 6 ~rvmVaVDeSe~kgyp~~si~S~~AleWtL~~l~~~~~~~fkLvlLHvq 54 (80)
+++.||||.|=++.||+=.- -++=+|+.++-... ..++.|.+++
T Consensus 441 ~~~~VavDGsvye~yp~f~~----~~~~~l~ell~~~~-~~~v~i~~a~ 484 (509)
T PLN02362 441 RRTVVAVEGGLYTNYTMFRE----YLHEALNEILGEDV-AQHVILKATE 484 (509)
T ss_pred ceEEEEEeCchhhcCcCHHH----HHHHHHHHHhCccc-CceEEEEEcc
Confidence 47999999999999997443 44444555553221 2356666554
No 37
>PF13973 DUF4222: Domain of unknown function (DUF4222)
Probab=28.56 E-value=40 Score=20.28 Aligned_cols=28 Identities=21% Similarity=0.380 Sum_probs=22.2
Q ss_pred CeEEEEEEeCCcc----CCCCCCCcchHHHHH
Q 046819 5 PTRIIVAVNESTI----KGYPHASISSRGAFE 32 (80)
Q Consensus 5 ~~rvmVaVDeSe~----kgyp~~si~S~~Ale 32 (80)
.++.++++|+-.+ .|||||-+.+.+-|+
T Consensus 15 ~~V~I~~~~~~rV~y~R~GY~~~c~~p~~~F~ 46 (53)
T PF13973_consen 15 YPVTIISVDFNRVTYRRDGYEHPCVMPVYRFR 46 (53)
T ss_pred CEEEEEEEECCEEEEEECCCCccccCCHHHhh
Confidence 4667778887754 699999999988774
No 38
>TIGR00486 YbgI_SA1388 dinuclear metal center protein, YbgI/SA1388 family. The characterization of this family of uncharacterized proteins as orthologous is tentative. Members are found in all three domains of life. Several members (from Bacillus subtilis, Listeria monocytogenes, and Mycobacterium tuberculosis - all classified as Firmicutes within the Eubacteria) share a long insert relative to other members.
Probab=28.43 E-value=1e+02 Score=22.70 Aligned_cols=31 Identities=26% Similarity=0.366 Sum_probs=23.0
Q ss_pred CCeEEEEEEeCCccCCCCCCCcchHHHHHHHhhhhhccCCCcceEEEEEe
Q 046819 4 EPTRIIVAVNESTIKGYPHASISSRGAFEWSVQKIIRSNTSGFKLLFLHV 53 (80)
Q Consensus 4 e~~rvmVaVDeSe~kgyp~~si~S~~AleWtL~~l~~~~~~~fkLvlLHv 53 (80)
+-++|++|+|-++ ..+++|+++ + ..|||.|=
T Consensus 35 ~v~~I~~alD~t~------------~vi~~Ai~~----~---~dlIitHH 65 (249)
T TIGR00486 35 EVKKVVVAVDASE------------SVADEAVRL----G---ADLIITHH 65 (249)
T ss_pred ccCEEEEEecCCH------------HHHHHHHHC----C---CCEEEEcC
Confidence 4689999999887 677888876 2 24677763
No 39
>PF07660 STN: Secretin and TonB N terminus short domain; InterPro: IPR011662 This is a conserved region found at the N-terminal region of bacterial proteins involved in either protein secretion or the uptake of selective substrates, including: Bundle-forming pilus protein B, an outer-membrane protein absolutely required for pilus biogenesis, and for enteropathogenic Escherichia coli localized adherence and autoaggregation []. PilQ, which is required for type IV pilus biogenesis and competence and is thought to function both as a pore for exit of the pilus and as a channel for entry of haem and antimicrobial agents and uptake of transforming DNA []. PupB, a specific receptor for the siderophores ferric pseudobactin BN8 and ferric pseudobactin BN7, iron chelating molecules that allow the organism to extract iron from the environment, especially under iron-restricted conditions []. TonB, which couples the electrochemical potential of the cytoplasmic membrane to the active transport of iron-siderophores and vitamin B12 across the outer membrane []. ; GO: 0019867 outer membrane; PDB: 2D1U_A 1ZZV_A 2W75_B 2O5P_A 2W77_A 2W16_A 2W6U_B 2W6T_A 2W76_B 2W78_B ....
Probab=26.91 E-value=51 Score=18.19 Aligned_cols=33 Identities=9% Similarity=0.328 Sum_probs=23.2
Q ss_pred EEEeCCccCCCCCCCcc-hHHHHHHHhhhhhccC
Q 046819 10 VAVNESTIKGYPHASIS-SRGAFEWSVQKIIRSN 42 (80)
Q Consensus 10 VaVDeSe~kgyp~~si~-S~~AleWtL~~l~~~~ 42 (80)
+..|+.+++|.+..+++ ...-++=+|+.++..+
T Consensus 3 ~~y~~~~v~~~~~vsl~~~~~~~~~~L~~ll~~t 36 (52)
T PF07660_consen 3 FVYDDDDVNGKKKVSLDVKNMSLEEALDQLLKGT 36 (52)
T ss_dssp EEE-CCCCTT-BE--EE-EEE-HHHHHHHHTTTS
T ss_pred EEEcHHHhCCCcceeEEcCCcCHHHHHHHHHccC
Confidence 56788999999999998 7778888899888654
No 40
>PLN02596 hexokinase-like
Probab=25.54 E-value=1.4e+02 Score=25.20 Aligned_cols=44 Identities=18% Similarity=0.224 Sum_probs=29.0
Q ss_pred eEEEEEEeCCccCCCCCCCcchHHHHHHHhhhhhccCCCcceEEEEEee
Q 046819 6 TRIIVAVNESTIKGYPHASISSRGAFEWSVQKIIRSNTSGFKLLFLHVQ 54 (80)
Q Consensus 6 ~rvmVaVDeSe~kgyp~~si~S~~AleWtL~~l~~~~~~~fkLvlLHvq 54 (80)
+++.||||.|-++.||+= ..-++=+|..++-... ..++.|.+++
T Consensus 427 ~~~~VavDGSvye~~p~f----~~~l~~al~ellg~~~-~~~i~~~~s~ 470 (490)
T PLN02596 427 KKSVVTVEGGLYEHYRVF----RNYLHSSVWEMLGSEL-SDNVVIEHSH 470 (490)
T ss_pred CceEEEEeCcceeeCcCH----HHHHHHHHHHHhCccc-CCcEEEEEcc
Confidence 479999999999999863 3445556666663221 2356666554
No 41
>cd01992 PP-ATPase N-terminal domain of predicted ATPase of the PP-loop faimly implicated in cell cycle control [Cell division and chromosome partitioning]. This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This domain has a strongly conserved motif SGGXD at the N terminus.
Probab=24.80 E-value=1.4e+02 Score=19.84 Aligned_cols=37 Identities=24% Similarity=0.315 Sum_probs=25.4
Q ss_pred EEEEEEeCCccCCCCCCCcchHHHHHHHhhhhhccCCCcceEEEEEeeC
Q 046819 7 RIIVAVNESTIKGYPHASISSRGAFEWSVQKIIRSNTSGFKLLFLHVQV 55 (80)
Q Consensus 7 rvmVaVDeSe~kgyp~~si~S~~AleWtL~~l~~~~~~~fkLvlLHvqp 55 (80)
||+||+...- .|+-++.++.+-.. .. ++++.++|+..
T Consensus 1 ~v~v~~SGG~---------DS~vl~~l~~~~~~-~~--~~~v~~v~id~ 37 (185)
T cd01992 1 KILVAVSGGP---------DSMALLHLLSELKP-RL--GLRLVAVHVDH 37 (185)
T ss_pred CEEEEeCCCH---------HHHHHHHHHHHHHH-Hc--CCcEEEEEecC
Confidence 5889998888 88888877755332 21 35788888754
No 42
>COG1092 Predicted SAM-dependent methyltransferases [General function prediction only]
Probab=24.77 E-value=96 Score=25.34 Aligned_cols=22 Identities=23% Similarity=0.421 Sum_probs=18.1
Q ss_pred EEEEeCCccCCCCCCCcchHHHHHHHhhhhhccC
Q 046819 9 IVAVNESTIKGYPHASISSRGAFEWSVQKIIRSN 42 (80)
Q Consensus 9 mVaVDeSe~kgyp~~si~S~~AleWtL~~l~~~~ 42 (80)
++.||-|. .||+||-+|+-.++
T Consensus 243 vt~VD~S~------------~al~~a~~N~~LNg 264 (393)
T COG1092 243 VTSVDLSK------------RALEWARENAELNG 264 (393)
T ss_pred eEEEeccH------------HHHHHHHHHHHhcC
Confidence 57888766 99999999988764
No 43
>cd06927 RNAP_L L subunit of Archaeal RNA polymerase. The archaeal L subunit of RNA polymerase (RNAP) is involved in the assembly of RNAP subunits. RNAP is a large multi-subunit complex responsible for the synthesis of RNA. It is the principal enzyme of the transcription process, and is a final target in many regulatory pathways that control gene expression in all living cells. A single distinct RNAP complex is found in archaea, which may be responsible for the synthesis of all RNAs. The archaeal RNAP harbors homologues of all eukaryotic RNAP II subunits with two exceptions (RPB8 and RPB9). The 12 archaeal subunits are designated by letters and can be divided into three functional groups that are engaged in: (I) catalysis (A'/A", B'/B" or B); (II) assembly (L, N, D and P); and (III) auxiliary functions (F, E, H and K). The assembly of the two largest archaeal RNAP subunits that provide most of the enzyme's catalytic functions depends on the presence of the archaeal D/L heterodimer.
Probab=24.63 E-value=66 Score=20.65 Aligned_cols=16 Identities=13% Similarity=0.298 Sum_probs=13.1
Q ss_pred cchHHHHHHHhhhhhc
Q 046819 25 ISSRGAFEWSVQKIIR 40 (80)
Q Consensus 25 i~S~~AleWtL~~l~~ 40 (80)
+....||.+|++.+..
T Consensus 61 ~~p~~al~~a~~~l~~ 76 (83)
T cd06927 61 VDPLEALKEAAKRLID 76 (83)
T ss_pred CCHHHHHHHHHHHHHH
Confidence 4678899999998873
No 44
>PLN02914 hexokinase
Probab=24.45 E-value=1.8e+02 Score=24.55 Aligned_cols=44 Identities=20% Similarity=0.330 Sum_probs=28.6
Q ss_pred eEEEEEEeCCccCCCCCCCcchHHHHHHHhhhhhccCCCcceEEEEEee
Q 046819 6 TRIIVAVNESTIKGYPHASISSRGAFEWSVQKIIRSNTSGFKLLFLHVQ 54 (80)
Q Consensus 6 ~rvmVaVDeSe~kgyp~~si~S~~AleWtL~~l~~~~~~~fkLvlLHvq 54 (80)
+++.||||.|=++-||+= +.-++=+|+.++-+... -++.|.+++
T Consensus 430 ~~~~VavDGSv~~~~p~f----~~~l~~~l~ellg~~~~-~~i~i~~a~ 473 (490)
T PLN02914 430 KRTVVAMDGGLYEKYPQY----RRYMQDAVTELLGLELS-KNIAIEHTK 473 (490)
T ss_pred ceEEEEEeCchhhcCccH----HHHHHHHHHHHhCcccC-CcEEEEEcc
Confidence 579999999999999964 34555566666633221 245555543
No 45
>PLN02405 hexokinase
Probab=23.82 E-value=1.8e+02 Score=24.55 Aligned_cols=44 Identities=11% Similarity=0.253 Sum_probs=27.4
Q ss_pred eEEEEEEeCCccCCCCCCCcchHHHHHHHhhhhhccCCCcceEEEEEee
Q 046819 6 TRIIVAVNESTIKGYPHASISSRGAFEWSVQKIIRSNTSGFKLLFLHVQ 54 (80)
Q Consensus 6 ~rvmVaVDeSe~kgyp~~si~S~~AleWtL~~l~~~~~~~fkLvlLHvq 54 (80)
+++.||||.|=++.||+=. .-++=+|+.++-... .-++.|.+++
T Consensus 432 ~~~~VavDGsvye~yp~f~----~~~~~~l~ell~~~~-~~~v~l~~a~ 475 (497)
T PLN02405 432 QKSVIAMDGGLFEHYTEFS----KCMESTLKELLGEEV-SESIEVEHSN 475 (497)
T ss_pred cceEEEEeCchhhcCcCHH----HHHHHHHHHHhCccc-CceEEEEEec
Confidence 5799999999999999643 334445555653221 1245555543
No 46
>PRK11106 queuosine biosynthesis protein QueC; Provisional
Probab=23.21 E-value=1.1e+02 Score=22.79 Aligned_cols=32 Identities=25% Similarity=0.391 Sum_probs=26.4
Q ss_pred CeEEEEEEeCCccCCCCCCCcchHHHHHHHhh
Q 046819 5 PTRIIVAVNESTIKGYPHASISSRGAFEWSVQ 36 (80)
Q Consensus 5 ~~rvmVaVDeSe~kgyp~~si~S~~AleWtL~ 36 (80)
-++|++|++.++..+||-=+-+-..|++=+++
T Consensus 116 ~~~I~~G~n~~D~~~YpDcr~~Fi~A~~~~~~ 147 (231)
T PRK11106 116 AEAVITGVCETDFSGYPDCRDEFVKALNHAVS 147 (231)
T ss_pred CCEEEEeeccCcCCCCCCCCHHHHHHHHHHHH
Confidence 46799999999999999877777777776655
No 47
>KOG2326 consensus DNA-binding subunit of a DNA-dependent protein kinase (Ku80 autoantigen) [Replication, recombination and repair]
Probab=23.02 E-value=3.4e+02 Score=24.44 Aligned_cols=68 Identities=12% Similarity=0.143 Sum_probs=35.5
Q ss_pred CeEEEEEEeCCccCCCCCCCcch-----HHHHHHHhhhhhccC-CCc-ceEEEEEeeCCCCCceeecCCcccccceEEee
Q 046819 5 PTRIIVAVNESTIKGYPHASISS-----RGAFEWSVQKIIRSN-TSG-FKLLFLHVQVPDEDEIFASFDFGKENGILVLN 77 (80)
Q Consensus 5 ~~rvmVaVDeSe~kgyp~~si~S-----~~AleWtL~~l~~~~-~~~-fkLvlLHvqpp~~~s~yAspd~~~~~~~~~~~ 77 (80)
.+++++ |-+.=-+--|+.++| +.+++|+|.+=+..+ ..+ +-+++----+.. --.++++-| +||-|++
T Consensus 6 ~ttfil--DvG~~Ms~~~~~~~S~fE~a~~y~~~~lsrK~fa~rktD~is~vlyncD~te--n~legg~~f--qnisvl~ 79 (669)
T KOG2326|consen 6 STTFIL--DVGPSMSKNNETGKSNFEKAMAYLEYTLSRKSFASRKTDWISCVLYNCDVTE--NSLEGGNVF--QNISVLA 79 (669)
T ss_pred ceEEEE--ecCccccccCCCccccHHHHHHHHHHHHHHHHhhccCCceEEEEEecCCCcc--Ccccccccc--ceeEEee
Confidence 444444 555433444444444 667778877655444 222 434433333333 445577766 5777776
Q ss_pred e
Q 046819 78 E 78 (80)
Q Consensus 78 ~ 78 (80)
+
T Consensus 80 p 80 (669)
T KOG2326|consen 80 P 80 (669)
T ss_pred c
Confidence 5
No 48
>PF08929 DUF1911: Domain of unknown function (DUF1911); InterPro: IPR015025 This domain is found in a group of hypothetical bacterial proteins; PDB: 2FEF_A.
Probab=22.63 E-value=20 Score=24.48 Aligned_cols=14 Identities=14% Similarity=0.579 Sum_probs=8.3
Q ss_pred EEEEeCCccCCCCC
Q 046819 9 IVAVNESTIKGYPH 22 (80)
Q Consensus 9 mVaVDeSe~kgyp~ 22 (80)
+.++|+|++|+.||
T Consensus 92 l~~lDDs~l~~~~~ 105 (110)
T PF08929_consen 92 LLGLDDSSLRDHPY 105 (110)
T ss_dssp HH----HHHHTSTT
T ss_pred HhcCChHHhcCCCC
Confidence 45799999999887
No 49
>PF01171 ATP_bind_3: PP-loop family; InterPro: IPR011063 This entry represents the PP-loop motif superfamily [,]. The PP-loop motif appears to be a modified version of the P-loop of nucleotide binding domain that is involved in phosphate binding []. Named PP-motif, since it appears to be a part of a previously uncharacterised ATP pyrophophatase domain. ATP sulfurylases, Escherichia coli NtrL, and Bacillus subtilis OutB consist of this domain alone. In other proteins, the pyrophosphatase domain is associated with amidotransferase domains (type I or type II), a putative citrulline-aspartate ligase domain or a nitrilase/amidase domain.; PDB: 3A2K_A 2E89_B 2E21_D 1WY5_B 1NI5_A.
Probab=22.10 E-value=2.3e+02 Score=19.27 Aligned_cols=37 Identities=32% Similarity=0.451 Sum_probs=22.6
Q ss_pred EEEEEEeCCccCCCCCCCcchHHHHHHHhhhhhccCCCcceEEEEEeeC
Q 046819 7 RIIVAVNESTIKGYPHASISSRGAFEWSVQKIIRSNTSGFKLLFLHVQV 55 (80)
Q Consensus 7 rvmVaVDeSe~kgyp~~si~S~~AleWtL~~l~~~~~~~fkLvlLHvqp 55 (80)
+|+|||-... -|+ ||=+.|..+..... .++..+|+-.
T Consensus 1 ki~va~SGG~---------DS~-~Ll~~l~~~~~~~~--~~~~~~~vdh 37 (182)
T PF01171_consen 1 KILVAVSGGK---------DSM-ALLHLLKELRRRNG--IKLIAVHVDH 37 (182)
T ss_dssp EEEEE--SSH---------HHH-HHHHHHHHHHTTTT--TEEEEEEEE-
T ss_pred CEEEEEcCCH---------HHH-HHHHHHHHHHHhcC--CCeEEEEEec
Confidence 6899999888 775 45556666654332 3788888753
No 50
>cd01993 Alpha_ANH_like_II This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily of proteins is predicted to bind ATP. This domainhas a strongly conserved motif SGGKD at the N terminus.
Probab=21.93 E-value=2e+02 Score=18.83 Aligned_cols=39 Identities=28% Similarity=0.302 Sum_probs=23.0
Q ss_pred EEEEEEeCCccCCCCCCCcchHHHHHHHhhhhhccCCCcceEEEEEeeC
Q 046819 7 RIIVAVNESTIKGYPHASISSRGAFEWSVQKIIRSNTSGFKLLFLHVQV 55 (80)
Q Consensus 7 rvmVaVDeSe~kgyp~~si~S~~AleWtL~~l~~~~~~~fkLvlLHvqp 55 (80)
||+||+...- -|..++.++.+ +.....-.++++.+|+..
T Consensus 1 ~v~v~~SGG~---------DS~~ll~~l~~-~~~~~~~~~~~~~~~~d~ 39 (185)
T cd01993 1 RILVALSGGK---------DSLVLLHVLKK-LQRRYPYGFELEALTVDE 39 (185)
T ss_pred CEEEEeCCCH---------HHHHHHHHHHH-HHhhcCCCeEEEEEEEEC
Confidence 4777777777 77777655444 332221235677777753
No 51
>PTZ00271 hypoxanthine-guanine phosphoribosyltransferase; Provisional
Probab=21.37 E-value=3.5e+02 Score=20.08 Aligned_cols=44 Identities=9% Similarity=0.086 Sum_probs=33.0
Q ss_pred chHHHHHHHhhhhhccCCCcceEEEEEeeCCCC------C-ceeecCCccc
Q 046819 26 SSRGAFEWSVQKIIRSNTSGFKLLFLHVQVPDE------D-EIFASFDFGK 69 (80)
Q Consensus 26 ~S~~AleWtL~~l~~~~~~~fkLvlLHvqpp~~------~-s~yAspd~~~ 69 (80)
.|-.-|++.++.+...++.+.+++.|.-||... | .++.-||.|-
T Consensus 129 DTG~TL~~v~~~l~~~~p~svk~avL~dK~~~r~~~i~~DyvG~~vpd~fv 179 (211)
T PTZ00271 129 DSAITLQYLMRFMLAKKPASLKTVVLLDKPSGRKVEVLVDYPVITIPHAFV 179 (211)
T ss_pred CCHHHHHHHHHHHHhcCCCEEEEEEEEEcccCCcCCCCCCEEEEEcCCceE
Confidence 677888999998887677778999999886553 2 5666666653
No 52
>cd06354 PBP1_BmpA_PnrA_like Periplasmic binding domain of basic membrane lipoprotein, PnrA, in Treponema pallidum and its homologs from other bacteria and Archaea. Periplasmic binding domain of basic membrane lipoprotein, PnrA, in Treponema pallidum and its homologs from other bacteria and Archaea. The PnrA lipoprotein, also known as Tp0319 or TmpC, represents a novel family of bacterial purine nucleoside receptor encoded within an ATP-binding cassette (ABC) transport system (pnrABCDE). It shows a striking structural similarity to another basic membrane lipoprotein Med which regulates the competence transcription factor gene, comK, in Bacillus subtilis. The members of PnrA-like subgroup are likely to have similar nucleoside-binding functions and a similar type I periplasmic sugar-binding protein-like fold.
Probab=20.88 E-value=44 Score=23.40 Aligned_cols=27 Identities=11% Similarity=-0.012 Sum_probs=22.5
Q ss_pred EEEEEEeCCccCCCCCCCcchHHHHHHH
Q 046819 7 RIIVAVNESTIKGYPHASISSRGAFEWS 34 (80)
Q Consensus 7 rvmVaVDeSe~kgyp~~si~S~~AleWt 34 (80)
.-+|+.|++.+--|+.|.+.|+. .+|.
T Consensus 207 isIvGfD~~~~~~~~~p~lttv~-~~~~ 233 (265)
T cd06354 207 VYAIGVDSDQYYLAPGVVLTSMV-KRVD 233 (265)
T ss_pred CeEEEecCcccccCCCcEEEEEe-ehhH
Confidence 45799999999999999999984 5553
Done!