Query 035229
Match_columns 70
No_of_seqs 123 out of 1031
Neff 7.8
Searched_HMMs 46136
Date Fri Mar 29 10:15:25 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/035229.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/035229hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF07683 CobW_C: Cobalamin syn 99.9 2.1E-21 4.6E-26 109.2 6.6 66 1-66 26-94 (94)
2 smart00833 CobW_C Cobalamin sy 99.8 3.8E-20 8.3E-25 103.5 8.5 65 2-66 27-92 (92)
3 PRK11537 putative GTP-binding 99.7 7.3E-17 1.6E-21 108.0 7.2 63 2-65 254-316 (318)
4 KOG2743 Cobalamin synthesis pr 99.7 1.7E-16 3.7E-21 106.3 5.8 65 1-66 326-390 (391)
5 TIGR02475 CobW cobalamin biosy 99.7 3.9E-16 8.4E-21 105.3 7.2 61 2-62 280-341 (341)
6 COG0523 Putative GTPases (G3E 99.4 4.3E-13 9.4E-18 90.2 6.9 66 2-67 255-322 (323)
7 PF09837 DUF2064: Uncharacteri 69.2 8.1 0.00018 22.6 3.1 23 44-66 61-86 (122)
8 PF13192 Thioredoxin_3: Thiore 64.0 7.5 0.00016 20.5 2.1 20 44-63 57-76 (76)
9 COG0104 PurA Adenylosuccinate 48.8 67 0.0014 23.2 5.2 54 7-65 28-86 (430)
10 PF13289 SIR2_2: SIR2-like dom 48.2 18 0.00039 20.6 2.0 24 43-66 86-109 (143)
11 PF10845 DUF2576: Protein of u 44.3 28 0.00061 17.3 2.0 20 46-65 4-23 (48)
12 PF14403 CP_ATPgrasp_2: Circul 42.7 25 0.00055 25.3 2.4 25 43-67 350-374 (445)
13 PRK13601 putative L7Ae-like ri 40.5 50 0.0011 18.1 3.0 23 43-65 24-46 (82)
14 PF03463 eRF1_1: eRF1 domain 1 40.3 77 0.0017 18.6 4.7 52 2-66 80-131 (132)
15 PHA01811 hypothetical protein 39.3 24 0.00051 18.9 1.4 8 3-10 8-15 (78)
16 PRK06683 hypothetical protein; 38.6 56 0.0012 17.8 3.0 23 43-65 27-49 (82)
17 PF02680 DUF211: Uncharacteriz 38.0 49 0.0011 18.9 2.7 24 42-65 47-70 (95)
18 PRK13600 putative ribosomal pr 34.5 69 0.0015 17.7 2.9 23 43-65 29-51 (84)
19 COG1888 Uncharacterized protei 34.2 73 0.0016 18.2 3.0 24 42-65 49-72 (97)
20 PRK09790 hypothetical protein; 33.7 23 0.0005 19.4 0.9 14 44-57 61-74 (91)
21 PF15491 CTC1_2: CST, telomere 33.2 19 0.00041 24.6 0.6 27 17-52 184-210 (291)
22 PF06265 DUF1027: Protein of u 32.8 24 0.00052 19.8 0.9 11 3-13 45-55 (86)
23 PF03265 DNase_II: Deoxyribonu 32.7 54 0.0012 22.1 2.7 24 6-29 92-115 (322)
24 PRK03459 rnpA ribonuclease P; 31.7 84 0.0018 18.4 3.1 25 43-67 85-113 (122)
25 PRK01313 rnpA ribonuclease P; 30.6 78 0.0017 18.8 2.9 27 42-68 84-114 (129)
26 PF09266 VirDNA-topo-I_N: Vira 29.6 18 0.0004 18.8 0.1 10 41-50 49-58 (58)
27 PF00842 Ala_racemase_C: Alani 29.5 1.3E+02 0.0027 17.7 4.1 24 41-64 85-111 (129)
28 smart00874 B5 tRNA synthetase 29.5 34 0.00074 17.5 1.1 19 48-66 14-32 (71)
29 PRK13602 putative ribosomal pr 29.2 1E+02 0.0022 16.7 3.0 18 43-60 27-44 (82)
30 PF09863 DUF2090: Uncharacteri 28.7 80 0.0017 21.8 3.0 27 41-67 234-261 (311)
31 PRK11470 hypothetical protein; 27.5 1.7E+02 0.0038 18.8 4.2 53 8-62 39-94 (200)
32 PLN02629 powdery mildew resist 27.3 66 0.0014 22.8 2.5 20 42-61 119-138 (387)
33 PF00076 RRM_1: RNA recognitio 26.9 87 0.0019 15.0 2.8 20 47-66 1-23 (70)
34 PF14821 Thr_synth_N: Threonin 26.1 30 0.00066 18.6 0.5 18 48-65 61-78 (79)
35 KOG2965 Arginase [Amino acid t 26.0 66 0.0014 22.1 2.2 21 36-56 172-193 (318)
36 COG0218 Predicted GTPase [Gene 25.1 1.2E+02 0.0026 19.6 3.2 23 42-64 23-46 (200)
37 COG3168 PilP Tfp pilus assembl 25.0 1.9E+02 0.0041 18.3 5.0 46 3-52 97-142 (170)
38 COG3414 SgaB Phosphotransferas 24.2 1.4E+02 0.0029 16.8 3.0 22 45-66 70-91 (93)
39 PF09634 DUF2025: Protein of u 24.1 89 0.0019 18.0 2.2 25 6-30 15-39 (106)
40 COG3222 Uncharacterized protei 23.6 1.1E+02 0.0024 19.9 2.8 23 44-66 105-130 (211)
41 PRK14097 pgi glucose-6-phospha 23.4 91 0.002 22.4 2.6 22 44-65 111-132 (448)
42 PRK11633 cell division protein 23.4 87 0.0019 20.5 2.4 21 45-65 190-210 (226)
43 PRK10030 hypothetical protein; 23.0 2.1E+02 0.0045 18.1 5.0 52 8-63 51-105 (197)
44 PRK00053 alr alanine racemase; 22.7 2.6E+02 0.0055 19.0 5.5 22 42-63 323-344 (363)
45 KOG1014 17 beta-hydroxysteroid 22.3 82 0.0018 21.8 2.1 22 42-63 72-94 (312)
46 PF12956 DUF3845: Domain of Un 21.5 1.6E+02 0.0035 19.0 3.2 22 4-27 136-157 (245)
47 KOG0840 ATP-dependent Clp prot 21.2 89 0.0019 21.2 2.1 16 44-59 92-107 (275)
No 1
>PF07683 CobW_C: Cobalamin synthesis protein cobW C-terminal domain; InterPro: IPR011629 Cobalamin (vitamin B12) is a structurally complex cofactor, consisting of a modified tetrapyrrole with a centrally chelated cobalt. Cobalamin is usually found in one of two biologically active forms: methylcobalamin and adocobalamin. Most prokaryotes, as well as animals, have cobalamin-dependent enzymes, whereas plants and fungi do not appear to use it. In bacteria and archaea, these include methionine synthase, ribonucleotide reductase, glutamate and methylmalonyl-CoA mutases, ethanolamine ammonia lyase, and diol dehydratase []. In mammals, cobalamin is obtained through the diet, and is required for methionine synthase and methylmalonyl-CoA mutase []. There are at least two distinct cobalamin biosynthetic pathways in bacteria []: Aerobic pathway that requires oxygen and in which cobalt is inserted late in the pathway []; found in Pseudomonas denitrificans and Rhodobacter capsulatus. Anaerobic pathway in which cobalt insertion is the first committed step towards cobalamin synthesis []; found in Salmonella typhimurium, Bacillus megaterium, and Propionibacterium freudenreichii subsp. shermanii. Either pathway can be divided into two parts: (1) corrin ring synthesis (differs in aerobic and anaerobic pathways) and (2) adenosylation of corrin ring, attachment of aminopropanol arm, and assembly of the nucleotide loop (common to both pathways) []. There are about 30 enzymes involved in either pathway, where those involved in the aerobic pathway are prefixed Cob and those of the anaerobic pathway Cbi. Several of these enzymes are pathway-specific: CbiD, CbiG, and CbiK are specific to the anaerobic route of S. typhimurium, whereas CobE, CobF, CobG, CobN, CobS, CobT, and CobW are unique to the aerobic pathway of P. denitrificans. CobW proteins are generally found proximal to the trimeric cobaltochelatase subunit CobN, which is essential for vitamin B12 (cobalamin) biosynthesis []. They contain a P-loop nucleotide-binding loop in the N-terminal domain and a histidine-rich region in the C-terminal portion suggesting a role in metal binding, possibly as an intermediary between the cobalt transport and chelation systems. CobW might be involved in cobalt reduction leading to cobalt(I) corrinoids. This entry represents the C-terminal domain found in CobW, as well as in P47K (P31521 from SWISSPROT), a Pseudomonas chlororaphis protein needed for nitrile hydratase expression [].; PDB: 1NIJ_A.
Probab=99.85 E-value=2.1e-21 Score=109.24 Aligned_cols=66 Identities=33% Similarity=0.656 Sum_probs=48.7
Q ss_pred CceEEeeEEEEeccCCceEEEEccceEEEeecCCC-CCc--cCCccceEEEEeCCCCHHHHHHHHhhcc
Q 035229 1 MDVYRCKGVLSVKHSDQLHTLQAVREIYEIVPARK-WRT--EENQMNKIVFIGHHLNQDILQDSLRTCT 66 (70)
Q Consensus 1 ~~vlR~KGiv~~~~~~~~~~~q~V~~~~~~~~~~~-~~~--~~~~~~~lVfIG~~ld~~~l~~~l~~~~ 66 (70)
.+|||+||++++.+.+.+++||+|++++++.+.+. |++ ...+.++|||||++||++.|++.|++|+
T Consensus 26 ~~vlR~KG~v~~~~~~~~~~~q~v~~~~~~~~~~~~~~~~~~~~~~~~lV~IG~~ld~~~l~~~l~~cl 94 (94)
T PF07683_consen 26 GDVLRAKGIVWVADGPRRLVFQGVGGRYDIEPAGRWWPPMLGEDRDSRLVFIGKNLDKEALREALDACL 94 (94)
T ss_dssp TTEEEEEEEE-BTT-SEEEEEEEETTEEEEE-EEEE-TT---S---EEEEEEEES--HHHHHHHHHT--
T ss_pred CCEEEEEEEEEeCCcCeEEEEEeeCCEEEecccccccccccCCCCCeEEEEEECCCCHHHHHHHHHccC
Confidence 36999999999999888999999999999997654 432 3567899999999999999999999996
No 2
>smart00833 CobW_C Cobalamin synthesis protein cobW C-terminal domain. CobW proteins are generally found proximal to the trimeric cobaltochelatase subunit CobN, which is essential for vitamin B12 (cobalamin) biosynthesis PUBMED:12869542. They contain a P-loop nucleotide-binding loop in the N-terminal domain and a histidine-rich region in the C-terminal portion suggesting a role in metal binding, possibly as an intermediary between the cobalt transport and chelation systems. CobW might be involved in cobalt reduction leading to cobalt(I) corrinoids. This entry represents the C-terminal domain found in CobW, as well as in P47K, a Pseudomonas chlororaphis protein needed for nitrile hydratase expression PUBMED:7765511.
Probab=99.83 E-value=3.8e-20 Score=103.53 Aligned_cols=65 Identities=25% Similarity=0.496 Sum_probs=57.5
Q ss_pred ceEEeeEEEEeccCC-ceEEEEccceEEEeecCCCCCccCCccceEEEEeCCCCHHHHHHHHhhcc
Q 035229 2 DVYRCKGVLSVKHSD-QLHTLQAVREIYEIVPARKWRTEENQMNKIVFIGHHLNQDILQDSLRTCT 66 (70)
Q Consensus 2 ~vlR~KGiv~~~~~~-~~~~~q~V~~~~~~~~~~~~~~~~~~~~~lVfIG~~ld~~~l~~~l~~~~ 66 (70)
+|||+||++++.+.+ .+++||+|++++++.+.+.|++++.+.++|||||++||++.|++.|.+|+
T Consensus 27 ~i~R~KG~v~~~~~~~~~~~~q~v~~~~~~~~~~~~~~~~~~~~~lV~IG~~l~~~~l~~~l~~~~ 92 (92)
T smart00833 27 GVLRAKGFFWLASRPDLPGVLSGAGGRLRIEPAGAWPAAGDRRTRLVFIGRDLDEEAIRAALDACL 92 (92)
T ss_pred CeEEEEEEEEeCCCCCeEEEEEccCCeeEcccCCCCCCCCCcceEEEEEeCCCCHHHHHHHHHHhC
Confidence 589999999998776 67899999999999887778765456789999999999999999999985
No 3
>PRK11537 putative GTP-binding protein YjiA; Provisional
Probab=99.69 E-value=7.3e-17 Score=108.02 Aligned_cols=63 Identities=24% Similarity=0.426 Sum_probs=55.4
Q ss_pred ceEEeeEEEEeccCCceEEEEccceEEEeecCCCCCccCCccceEEEEeCCCCHHHHHHHHhhc
Q 035229 2 DVYRCKGVLSVKHSDQLHTLQAVREIYEIVPARKWRTEENQMNKIVFIGHHLNQDILQDSLRTC 65 (70)
Q Consensus 2 ~vlR~KGiv~~~~~~~~~~~q~V~~~~~~~~~~~~~~~~~~~~~lVfIG~~ld~~~l~~~l~~~ 65 (70)
+|||+||++++++++.+++||+|++++.+....+|++ +++.++|||||++||++.|++.|++|
T Consensus 254 ~i~R~KG~v~~~~~~~~~~~q~v~~~~~~~~~~~~~~-~~~~~~lVfIG~~ld~~~l~~~l~~l 316 (318)
T PRK11537 254 KLLRYKGMLWIDGEPNRLLFQGVQRLYSADWDRPWGD-ETPHSTLVFIGIQLPEEEIRAAFAGL 316 (318)
T ss_pred ceEEeeeEEEeCCCCCEEEEEEehhhcccCccccCCC-CCCceEEEEEcCCCCHHHHHHHHHhh
Confidence 5899999999999888899999999998766666864 45678999999999999999999875
No 4
>KOG2743 consensus Cobalamin synthesis protein [Coenzyme transport and metabolism]
Probab=99.66 E-value=1.7e-16 Score=106.31 Aligned_cols=65 Identities=43% Similarity=0.769 Sum_probs=59.7
Q ss_pred CceEEeeEEEEeccCCceEEEEccceEEEeecCCCCCccCCccceEEEEeCCCCHHHHHHHHhhcc
Q 035229 1 MDVYRCKGVLSVKHSDQLHTLQAVREIYEIVPARKWRTEENQMNKIVFIGHHLNQDILQDSLRTCT 66 (70)
Q Consensus 1 ~~vlR~KGiv~~~~~~~~~~~q~V~~~~~~~~~~~~~~~~~~~~~lVfIG~~ld~~~l~~~l~~~~ 66 (70)
|.|||+||++...+.+.+++||+|+..|+..| ..|..+..+.+++||||+||+++.|++.|.+|+
T Consensus 326 ~evyR~KGllsi~d~~~~~i~QGV~e~~e~~P-~~w~~d~~~~~kiVliGknL~re~le~~~~~~l 390 (391)
T KOG2743|consen 326 MEVYRLKGLLSIKDKDQQVIFQGVHELYEETP-VSWKKDFERTNKIVLIGKNLDKEILEQLFRATL 390 (391)
T ss_pred eeEEEeeeeEEeccCCeeEEeechhhhhccCc-ccccccccccceEEEEecccCHHHHHHHHHhhc
Confidence 56999999999999999999999999999888 568877777789999999999999999999987
No 5
>TIGR02475 CobW cobalamin biosynthesis protein CobW. A broader CobW family is delineated by two PFAM models which identify the N- and C-terminal domains (pfam02492 and pfam07683).
Probab=99.65 E-value=3.9e-16 Score=105.30 Aligned_cols=61 Identities=30% Similarity=0.460 Sum_probs=53.2
Q ss_pred ceEEeeEEEEeccCCceEEEEccceEEEeecCCCCCccCCccceEEEEeCC-CCHHHHHHHH
Q 035229 2 DVYRCKGVLSVKHSDQLHTLQAVREIYEIVPARKWRTEENQMNKIVFIGHH-LNQDILQDSL 62 (70)
Q Consensus 2 ~vlR~KGiv~~~~~~~~~~~q~V~~~~~~~~~~~~~~~~~~~~~lVfIG~~-ld~~~l~~~l 62 (70)
+|||+||++++.+.+.+++||+|++++++....+|+...++.++|||||++ ||++.|++.|
T Consensus 280 ~i~R~KGiv~~~~~~~~~~~q~v~~~~~~~~~~~~~~~~~~~~~lV~IG~~~ld~~~l~~~l 341 (341)
T TIGR02475 280 DVLRIKGFAAVPGKPMRLLVQGVGQRVDSYYDRPWQAAETRQTRLVVIGLHDLDQAAIRAAL 341 (341)
T ss_pred ceEEeeEEEEeCCCCcEEEEEcccceeccCcccCCCCCCCCCceEEEEecCCCCHHHHHhhC
Confidence 589999999999988899999999999987666786544667899999999 9999998764
No 6
>COG0523 Putative GTPases (G3E family) [General function prediction only]
Probab=99.43 E-value=4.3e-13 Score=90.24 Aligned_cols=66 Identities=27% Similarity=0.622 Sum_probs=57.7
Q ss_pred ceEEeeEEEEec-cCCceEEEEccceEEEeec-CCCCCccCCccceEEEEeCCCCHHHHHHHHhhccc
Q 035229 2 DVYRCKGVLSVK-HSDQLHTLQAVREIYEIVP-ARKWRTEENQMNKIVFIGHHLNQDILQDSLRTCTL 67 (70)
Q Consensus 2 ~vlR~KGiv~~~-~~~~~~~~q~V~~~~~~~~-~~~~~~~~~~~~~lVfIG~~ld~~~l~~~l~~~~~ 67 (70)
+++|+||++|+. +.+.++++|+|++.++... ...|+.++.+.+++||||++++.+.+++.+.+|+.
T Consensus 255 ~v~R~KG~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~s~lv~Ig~~~~~~~~~~~~~~~~~ 322 (323)
T COG0523 255 KVLRAKGILWIAEGPPRRLVFQGVGGVFEVPPAGREWPAEGDRKSRLVFIGRDLDDEAIREAFLAALL 322 (323)
T ss_pred ceEEEeeEEecCCCCCeEEEEecccccccccccccccccccCccceEEEEecCcchHHHHHHHHHHhc
Confidence 599999999999 6678899999999999844 45687767889999999999999999999988864
No 7
>PF09837 DUF2064: Uncharacterized protein conserved in bacteria (DUF2064); InterPro: IPR018641 This entry contains proteins that have no known function. ; PDB: 3CGX_A.
Probab=69.17 E-value=8.1 Score=22.60 Aligned_cols=23 Identities=26% Similarity=0.494 Sum_probs=16.9
Q ss_pred ceEEEEeCC---CCHHHHHHHHhhcc
Q 035229 44 NKIVFIGHH---LNQDILQDSLRTCT 66 (70)
Q Consensus 44 ~~lVfIG~~---ld~~~l~~~l~~~~ 66 (70)
..+|+||.+ |+.+.|+++|+.+.
T Consensus 61 ~~vvliGsD~P~l~~~~l~~A~~~L~ 86 (122)
T PF09837_consen 61 EPVVLIGSDCPDLTPDDLEQAFEALQ 86 (122)
T ss_dssp SEEEEE-SS-TT--HHHHHHHHHHTT
T ss_pred CcEEEEcCCCCCCCHHHHHHHHHHhc
Confidence 489999986 89999999987764
No 8
>PF13192 Thioredoxin_3: Thioredoxin domain; PDB: 1ZYP_B 1ZYN_A 1HYU_A 1ILO_A 1J08_F 2YWM_B 2AYT_B 2HLS_B 1A8L_A 2K8S_B ....
Probab=63.98 E-value=7.5 Score=20.45 Aligned_cols=20 Identities=30% Similarity=0.600 Sum_probs=15.4
Q ss_pred ceEEEEeCCCCHHHHHHHHh
Q 035229 44 NKIVFIGHHLNQDILQDSLR 63 (70)
Q Consensus 44 ~~lVfIG~~ld~~~l~~~l~ 63 (70)
.+++|.|+-.+.++|++.++
T Consensus 57 g~~~~~G~~p~~~el~~~l~ 76 (76)
T PF13192_consen 57 GKVVFVGRVPSKEELKELLE 76 (76)
T ss_dssp TEEEEESS--HHHHHHHHHH
T ss_pred CEEEEEecCCCHHHHHHHhC
Confidence 58999999999999988763
No 9
>COG0104 PurA Adenylosuccinate synthase [Nucleotide transport and metabolism]
Probab=48.76 E-value=67 Score=23.19 Aligned_cols=54 Identities=9% Similarity=0.199 Sum_probs=33.5
Q ss_pred eEEEEeccC---CceEEEEccceEEEeecCCCCCccCCccceEEEEeCC--CCHHHHHHHHhhc
Q 035229 7 KGVLSVKHS---DQLHTLQAVREIYEIVPARKWRTEENQMNKIVFIGHH--LNQDILQDSLRTC 65 (70)
Q Consensus 7 KGiv~~~~~---~~~~~~q~V~~~~~~~~~~~~~~~~~~~~~lVfIG~~--ld~~~l~~~l~~~ 65 (70)
+-++++++. .+.+++++.--.+++.|+. --+.+..++||.+ +|++.|-+.++..
T Consensus 28 d~VvR~qGG~NAGHTvvv~g~~~~LhLiPSG-----il~~~~~~vIGnGvVvdP~~L~~Ei~~L 86 (430)
T COG0104 28 DVVVRYQGGHNAGHTVVVNGEKYKLHLIPSG-----ILRPGATLVIGNGVVVDPEVLLKEIEEL 86 (430)
T ss_pred CEEEEccCCCCCCcEEEECCEEEEEEecccc-----ccCCCceEEEcCcEEECHHHHHHHHHHH
Confidence 334555542 3455666555555655543 2344678999998 7999888777654
No 10
>PF13289 SIR2_2: SIR2-like domain
Probab=48.19 E-value=18 Score=20.63 Aligned_cols=24 Identities=25% Similarity=0.473 Sum_probs=18.0
Q ss_pred cceEEEEeCCCCHHHHHHHHhhcc
Q 035229 43 MNKIVFIGHHLNQDILQDSLRTCT 66 (70)
Q Consensus 43 ~~~lVfIG~~ld~~~l~~~l~~~~ 66 (70)
...++|||-.++-..++..|..+.
T Consensus 86 ~~~~lfiGys~~D~~i~~~l~~~~ 109 (143)
T PF13289_consen 86 SKTLLFIGYSFNDPDIRQLLRSAL 109 (143)
T ss_pred CCCEEEEEECCCCHHHHHHHHHHH
Confidence 457999999987777777776554
No 11
>PF10845 DUF2576: Protein of unknown function (DUF2576); InterPro: IPR022556 The function of this viral family of proteins is unknown. The entry contains Orf5 from Autographa californica nuclear polyhedrosis virus (AcMNPV).
Probab=44.25 E-value=28 Score=17.31 Aligned_cols=20 Identities=20% Similarity=0.424 Sum_probs=15.5
Q ss_pred EEEEeCCCCHHHHHHHHhhc
Q 035229 46 IVFIGHHLNQDILQDSLRTC 65 (70)
Q Consensus 46 lVfIG~~ld~~~l~~~l~~~ 65 (70)
+|.-|.+.|+++|++.+.++
T Consensus 4 ~v~~~~dydreqlrrelnsL 23 (48)
T PF10845_consen 4 VVVAQHDYDREQLRRELNSL 23 (48)
T ss_pred eeecccccCHHHHHHHHHHH
Confidence 45567889999998887654
No 12
>PF14403 CP_ATPgrasp_2: Circularly permuted ATP-grasp type 2
Probab=42.71 E-value=25 Score=25.28 Aligned_cols=25 Identities=20% Similarity=0.251 Sum_probs=21.3
Q ss_pred cceEEEEeCCCCHHHHHHHHhhccc
Q 035229 43 MNKIVFIGHHLNQDILQDSLRTCTL 67 (70)
Q Consensus 43 ~~~lVfIG~~ld~~~l~~~l~~~~~ 67 (70)
.++=|+||++.+++++++++++++.
T Consensus 350 gg~GV~~G~e~~~eeW~~~l~~a~~ 374 (445)
T PF14403_consen 350 GGKGVYIGWETSPEEWEAALEEAAR 374 (445)
T ss_pred CCCCeEECCcCCHHHHHHHHHHHhc
Confidence 3455999999999999999998864
No 13
>PRK13601 putative L7Ae-like ribosomal protein; Provisional
Probab=40.52 E-value=50 Score=18.10 Aligned_cols=23 Identities=13% Similarity=0.261 Sum_probs=16.2
Q ss_pred cceEEEEeCCCCHHHHHHHHhhc
Q 035229 43 MNKIVFIGHHLNQDILQDSLRTC 65 (70)
Q Consensus 43 ~~~lVfIG~~ld~~~l~~~l~~~ 65 (70)
.-++|||..|.+.+-.++..+.|
T Consensus 24 kakLViiA~Da~~~~~k~i~~~c 46 (82)
T PRK13601 24 NVLQVYIAKDAEEHVTKKIKELC 46 (82)
T ss_pred CeeEEEEeCCCCHHHHHHHHHHH
Confidence 35899999999975555444444
No 14
>PF03463 eRF1_1: eRF1 domain 1; InterPro: IPR005140 This domain is found in the release factor eRF1 which terminates protein biosynthesis by recognizing stop codons at the A site of the ribosome and stimulating peptidyl-tRNA bond hydrolysis at the peptidyl transferase centre. The crystal structure of human eRF1 is known []. The overall shape and dimensions of eRF1 resemble a tRNA molecule with domains 1, 2, and 3 of eRF1 corresponding to the anticodon loop, aminoacyl acceptor stem, and T stem of a tRNA molecule, respectively. The position of the essential GGQ motif at an exposed tip of domain 2 suggests that the Gln residue coordinates a water molecule to mediate the hydrolytic activity at the peptidyl transferase centre. A conserved groove on domain 1, 80 A from the GGQ motif, is proposed to form the codon recognition site []. This domain is also found in other proteins for which the precise molecular function is unknown. Many of them are from Archaebacteria. These proteins may also be involved in translation termination but this awaits experimental verification.; PDB: 2VGN_A 2VGM_A 3J16_A 3IZQ 3AGK_A 3AGJ_B 3OBW_A 3E1Y_D 1DT9_A 2LLX_A ....
Probab=40.27 E-value=77 Score=18.55 Aligned_cols=52 Identities=15% Similarity=0.194 Sum_probs=28.9
Q ss_pred ceEEeeEEEEeccCCceEEEEccceEEEeecCCCCCccCCccceEEEEeCCCCHHHHHHHHhhcc
Q 035229 2 DVYRCKGVLSVKHSDQLHTLQAVREIYEIVPARKWRTEENQMNKIVFIGHHLNQDILQDSLRTCT 66 (70)
Q Consensus 2 ~vlR~KGiv~~~~~~~~~~~q~V~~~~~~~~~~~~~~~~~~~~~lVfIG~~ld~~~l~~~l~~~~ 66 (70)
+.+|++|.+.-..+..+ -+-.+.+.+.+.. .+.++=.+-|...+.+..++|.
T Consensus 80 ~~Lri~G~i~~~~~~~~---~G~~hT~~i~~~~----------~~ti~K~~wd~~~~~~l~ea~~ 131 (132)
T PF03463_consen 80 GLLRISGKIVEENEDVK---LGKYHTLDIEPGR----------PFTIIKYRWDSYFLDRLKEAMD 131 (132)
T ss_dssp TEEEEEEEEEEGSCGGG---TTSEEEEEEETSS----------EEEEEEEEEEHHHHHHHHHHTS
T ss_pred CEEEEEeEEccCCCCCC---cceEEEEEEeCCC----------ceEEEEecCCHHHHHHHHHHhc
Confidence 47899999875533211 1223444444422 3455545677777776666653
No 15
>PHA01811 hypothetical protein
Probab=39.27 E-value=24 Score=18.95 Aligned_cols=8 Identities=38% Similarity=0.675 Sum_probs=6.4
Q ss_pred eEEeeEEE
Q 035229 3 VYRCKGVL 10 (70)
Q Consensus 3 vlR~KGiv 10 (70)
-||+||++
T Consensus 8 tlrvkgyi 15 (78)
T PHA01811 8 TLRVKGYI 15 (78)
T ss_pred EEEEeeEE
Confidence 48999966
No 16
>PRK06683 hypothetical protein; Provisional
Probab=38.58 E-value=56 Score=17.81 Aligned_cols=23 Identities=22% Similarity=0.260 Sum_probs=16.6
Q ss_pred cceEEEEeCCCCHHHHHHHHhhc
Q 035229 43 MNKIVFIGHHLNQDILQDSLRTC 65 (70)
Q Consensus 43 ~~~lVfIG~~ld~~~l~~~l~~~ 65 (70)
.-++|||..|.+..-.+...+.|
T Consensus 27 kaklViiA~Da~~~~~~~i~~~~ 49 (82)
T PRK06683 27 IVKEVVIAEDADMRLTHVIIRTA 49 (82)
T ss_pred CeeEEEEECCCCHHHHHHHHHHH
Confidence 45899999999887555544444
No 17
>PF02680 DUF211: Uncharacterized ArCR, COG1888; InterPro: IPR003831 This entry describes proteins of unknown function.; PDB: 3BPD_I 2RAQ_F 2X3D_E.
Probab=37.96 E-value=49 Score=18.93 Aligned_cols=24 Identities=17% Similarity=0.328 Sum_probs=19.0
Q ss_pred ccceEEEEeCCCCHHHHHHHHhhc
Q 035229 42 QMNKIVFIGHHLNQDILQDSLRTC 65 (70)
Q Consensus 42 ~~~~lVfIG~~ld~~~l~~~l~~~ 65 (70)
..-++++=|.|+|-+++++.++..
T Consensus 47 e~lkitiEG~~id~d~i~~~Ie~~ 70 (95)
T PF02680_consen 47 ENLKITIEGDDIDFDEIKEAIEEL 70 (95)
T ss_dssp EEEEEEEEESSE-HHHHHHHHHHT
T ss_pred cEEEEEEEeCCCCHHHHHHHHHHc
Confidence 345788889999999999998764
No 18
>PRK13600 putative ribosomal protein L7Ae-like; Provisional
Probab=34.46 E-value=69 Score=17.73 Aligned_cols=23 Identities=9% Similarity=0.127 Sum_probs=17.1
Q ss_pred cceEEEEeCCCCHHHHHHHHhhc
Q 035229 43 MNKIVFIGHHLNQDILQDSLRTC 65 (70)
Q Consensus 43 ~~~lVfIG~~ld~~~l~~~l~~~ 65 (70)
..++|||..|.|+..+.....-|
T Consensus 29 ~~~~v~iA~Da~~~vv~~l~~lc 51 (84)
T PRK13600 29 QVTSLIIAEDVEVYLMTRVLSQI 51 (84)
T ss_pred CceEEEEeCCCCHHHHHHHHHHH
Confidence 35799999999988666555544
No 19
>COG1888 Uncharacterized protein conserved in archaea [Function unknown]
Probab=34.17 E-value=73 Score=18.25 Aligned_cols=24 Identities=21% Similarity=0.332 Sum_probs=19.9
Q ss_pred ccceEEEEeCCCCHHHHHHHHhhc
Q 035229 42 QMNKIVFIGHHLNQDILQDSLRTC 65 (70)
Q Consensus 42 ~~~~lVfIG~~ld~~~l~~~l~~~ 65 (70)
...++.+=|.|||-++|++.++..
T Consensus 49 ~~~~itIeG~~ldydei~~~iE~~ 72 (97)
T COG1888 49 ENLKITIEGTNLDYDEIEEVIEEL 72 (97)
T ss_pred cceEEEEEcCCCCHHHHHHHHHHc
Confidence 345788889999999999988764
No 20
>PRK09790 hypothetical protein; Reviewed
Probab=33.68 E-value=23 Score=19.43 Aligned_cols=14 Identities=29% Similarity=0.406 Sum_probs=10.9
Q ss_pred ceEEEEeCCCCHHH
Q 035229 44 NKIVFIGHHLNQDI 57 (70)
Q Consensus 44 ~~lVfIG~~ld~~~ 57 (70)
-.||.||.||..+.
T Consensus 61 mclv~ig~nlpaek 74 (91)
T PRK09790 61 MCLVHIGKNLPAEK 74 (91)
T ss_pred EEEEEecCCCCccc
Confidence 35899999997653
No 21
>PF15491 CTC1_2: CST, telomere maintenance, complex subunit CTC1
Probab=33.17 E-value=19 Score=24.56 Aligned_cols=27 Identities=19% Similarity=0.212 Sum_probs=14.9
Q ss_pred ceEEEEccceEEEeecCCCCCccCCccceEEEEeCC
Q 035229 17 QLHTLQAVREIYEIVPARKWRTEENQMNKIVFIGHH 52 (70)
Q Consensus 17 ~~~~~q~V~~~~~~~~~~~~~~~~~~~~~lVfIG~~ 52 (70)
++++.+.||....++.. .-++||||+.
T Consensus 184 ~pVl~~lVG~~V~vsgL---------kKklv~vG~~ 210 (291)
T PF15491_consen 184 RPVLTKLVGSRVCVSGL---------KKKLVFVGKK 210 (291)
T ss_pred hHHHHHHhcCEEEeccc---------eeEEEEecCC
Confidence 34444555555554442 2378888764
No 22
>PF06265 DUF1027: Protein of unknown function (DUF1027); InterPro: IPR009370 This entry consists of several hypothetical bacterial proteins of unknown function.; PDB: 2KL5_A.
Probab=32.78 E-value=24 Score=19.84 Aligned_cols=11 Identities=27% Similarity=0.283 Sum_probs=4.7
Q ss_pred eEEeeEEEEec
Q 035229 3 VYRCKGVLSVK 13 (70)
Q Consensus 3 vlR~KGiv~~~ 13 (70)
=||+||+..-.
T Consensus 45 QLRLkGFy~d~ 55 (86)
T PF06265_consen 45 QLRLKGFYKDD 55 (86)
T ss_dssp S-EEEE----S
T ss_pred eeeecccccCC
Confidence 48999998643
No 23
>PF03265 DNase_II: Deoxyribonuclease II; InterPro: IPR004947 Deoxyribonuclease II (3.1.22.1 from EC) hydrolyses DNA under acidic conditions with a preference for double-stranded DNA. It catalyses the endonucleolytic cleavage of DNA to 3'-phosphomononucleotide and 3'-phosphooligonucleotide end-products. The enzyme may play a role in apoptosis. This family also includes hypothetical proteins from Caenorhabditis elegans.; GO: 0004531 deoxyribonuclease II activity, 0006259 DNA metabolic process
Probab=32.67 E-value=54 Score=22.11 Aligned_cols=24 Identities=21% Similarity=0.339 Sum_probs=19.2
Q ss_pred eeEEEEeccCCceEEEEccceEEE
Q 035229 6 CKGVLSVKHSDQLHTLQAVREIYE 29 (70)
Q Consensus 6 ~KGiv~~~~~~~~~~~q~V~~~~~ 29 (70)
.||++.+.....-+++|.|...-.
T Consensus 92 sKGv~~~d~~~G~wl~HS~P~FP~ 115 (322)
T PF03265_consen 92 SKGVLMFDKESGFWLIHSVPKFPN 115 (322)
T ss_pred cchheecccCceEEEEecCCCCCC
Confidence 699999888777788999987433
No 24
>PRK03459 rnpA ribonuclease P; Reviewed
Probab=31.72 E-value=84 Score=18.39 Aligned_cols=25 Identities=12% Similarity=0.093 Sum_probs=19.2
Q ss_pred cceEEEEeC----CCCHHHHHHHHhhccc
Q 035229 43 MNKIVFIGH----HLNQDILQDSLRTCTL 67 (70)
Q Consensus 43 ~~~lVfIG~----~ld~~~l~~~l~~~~~ 67 (70)
...+|||++ +.+-++|++.|..++.
T Consensus 85 g~D~Viiar~~~~~~~~~~l~~~l~~ll~ 113 (122)
T PRK03459 85 THHVVIRALPGAATASSAELERDVRAGLG 113 (122)
T ss_pred CcEEEEEECcccccCCHHHHHHHHHHHHH
Confidence 457999997 3677888888877763
No 25
>PRK01313 rnpA ribonuclease P; Reviewed
Probab=30.59 E-value=78 Score=18.80 Aligned_cols=27 Identities=15% Similarity=0.096 Sum_probs=20.7
Q ss_pred ccceEEEEeC----CCCHHHHHHHHhhcccc
Q 035229 42 QMNKIVFIGH----HLNQDILQDSLRTCTLA 68 (70)
Q Consensus 42 ~~~~lVfIG~----~ld~~~l~~~l~~~~~~ 68 (70)
+...+|||++ +++-++|++.|..++.+
T Consensus 84 ~g~DiVivar~~~~~~~~~~l~~~L~~~l~~ 114 (129)
T PRK01313 84 PGTDYVIVARRDALNAPFSQLTEELSRRIEA 114 (129)
T ss_pred CCceEEEEECcccccCCHHHHHHHHHHHHHh
Confidence 3457999997 47888999888887753
No 26
>PF09266 VirDNA-topo-I_N: Viral DNA topoisomerase I, N-terminal; InterPro: IPR015346 DNA topoisomerases regulate the number of topological links between two DNA strands (i.e. change the number of superhelical turns) by catalysing transient single- or double-strand breaks, crossing the strands through one another, then resealing the breaks []. These enzymes have several functions: to remove DNA supercoils during transcription and DNA replication; for strand breakage during recombination; for chromosome condensation; and to disentangle intertwined DNA during mitosis [, ]. DNA topoisomerases are divided into two classes: type I enzymes (5.99.1.2 from EC; topoisomerases I, III and V) break single-strand DNA, and type II enzymes (5.99.1.3 from EC; topoisomerases II, IV and VI) break double-strand DNA []. Type I topoisomerases are ATP-independent enzymes (except for reverse gyrase), and can be subdivided according to their structure and reaction mechanisms: type IA (bacterial and archaeal topoisomerase I, topoisomerase III and reverse gyrase) and type IB (eukaryotic topoisomerase I and topoisomerase V). These enzymes are primarily responsible for relaxing positively and/or negatively supercoiled DNA, except for reverse gyrase, which can introduce positive supercoils into DNA. This entry represents a domain foundpredominantly found in viral DNA topoisomerase I, a type IB enzyme. This domain assumes a beta(2)-alpha-beta-alpha-beta(2) fold, with a left-handed crossover between strands beta2 and beta3 []. More information about this protein can be found at Protein of the Month: DNA Topoisomerase [].; GO: 0003677 DNA binding, 0003916 DNA topoisomerase activity, 0006265 DNA topological change; PDB: 3IGC_A 2H7G_X 2H7F_X 1VCC_A.
Probab=29.58 E-value=18 Score=18.84 Aligned_cols=10 Identities=30% Similarity=0.959 Sum_probs=7.7
Q ss_pred CccceEEEEe
Q 035229 41 NQMNKIVFIG 50 (70)
Q Consensus 41 ~~~~~lVfIG 50 (70)
...+.|+|||
T Consensus 49 ea~~gLIfVG 58 (58)
T PF09266_consen 49 EALNGLIFVG 58 (58)
T ss_dssp HHTTSEEEEE
T ss_pred HhhccceeeC
Confidence 3557899998
No 27
>PF00842 Ala_racemase_C: Alanine racemase, C-terminal domain; InterPro: IPR011079 Alanine racemase (5.1.1.1 from EC) plays a role in providing the D-alanine required for cell wall biosynthesis by isomerising L-alanine to D-alanine. Proteins contains this domain are found in both prokaryotic and eukaryotic proteins [,]. The molecular structure of alanine racemase from Bacillus stearothermophilus (Geobacillus stearothermophilus) was determined by X-ray crystallography to a resolution of 1.9 A []. The alanine racemase monomer is composed of two domains, an eight-stranded alpha/beta barrel at the N terminus, and a C-terminal domain essentially composed of beta-strand. The pyridoxal 5'-phosphate (PLP) cofactor lies in and above the mouth of the alpha/beta barrel and is covalently linked via an aldimine linkage to a lysine residue, which is at the C terminus of the first beta-strand of the alpha/beta barrel.; GO: 0008784 alanine racemase activity, 0006522 alanine metabolic process; PDB: 3HUR_A 4A3Q_B 3S46_A 1RCQ_A 3CO8_A 1VFT_B 1VFH_A 1VFS_B 2DY3_B 4ECL_C ....
Probab=29.51 E-value=1.3e+02 Score=17.75 Aligned_cols=24 Identities=13% Similarity=0.279 Sum_probs=17.1
Q ss_pred CccceEEEEeCC---CCHHHHHHHHhh
Q 035229 41 NQMNKIVFIGHH---LNQDILQDSLRT 64 (70)
Q Consensus 41 ~~~~~lVfIG~~---ld~~~l~~~l~~ 64 (70)
....+++++|++ ++.+++.+....
T Consensus 85 ~~GD~V~l~G~~~~~~~~~~~a~~~~t 111 (129)
T PF00842_consen 85 KVGDEVTLFGRQDEEISAEDLAKQSGT 111 (129)
T ss_dssp -TT-EEEEEECETEEESHHHHHHHHTS
T ss_pred CCCCEEEEECCCCCCCCHHHHHHHhCC
Confidence 345689999988 888888776554
No 28
>smart00874 B5 tRNA synthetase B5 domain. This domain is found in phenylalanine-tRNA synthetase beta subunits.
Probab=29.51 E-value=34 Score=17.50 Aligned_cols=19 Identities=16% Similarity=0.420 Sum_probs=15.1
Q ss_pred EEeCCCCHHHHHHHHhhcc
Q 035229 48 FIGHHLNQDILQDSLRTCT 66 (70)
Q Consensus 48 fIG~~ld~~~l~~~l~~~~ 66 (70)
++|.+++.+++.+.|..+-
T Consensus 14 llG~~i~~~ei~~~L~~lg 32 (71)
T smart00874 14 LLGLDLSAEEIEEILKRLG 32 (71)
T ss_pred HHCCCCCHHHHHHHHHHCC
Confidence 4788899999888887654
No 29
>PRK13602 putative ribosomal protein L7Ae-like; Provisional
Probab=29.22 E-value=1e+02 Score=16.71 Aligned_cols=18 Identities=11% Similarity=0.169 Sum_probs=13.6
Q ss_pred cceEEEEeCCCCHHHHHH
Q 035229 43 MNKIVFIGHHLNQDILQD 60 (70)
Q Consensus 43 ~~~lVfIG~~ld~~~l~~ 60 (70)
..++|||..|.+..-.+.
T Consensus 27 kaklViiA~D~~~~~~~~ 44 (82)
T PRK13602 27 SVKEVVVAEDADPRLTEK 44 (82)
T ss_pred CeeEEEEECCCCHHHHHH
Confidence 358999999999864333
No 30
>PF09863 DUF2090: Uncharacterized protein conserved in bacteria (DUF2090); InterPro: IPR018659 This domain, found in various prokaryotic carbohydrate kinases, has no known function.
Probab=28.68 E-value=80 Score=21.84 Aligned_cols=27 Identities=11% Similarity=0.241 Sum_probs=22.1
Q ss_pred Cccce-EEEEeCCCCHHHHHHHHhhccc
Q 035229 41 NQMNK-IVFIGHHLNQDILQDSLRTCTL 67 (70)
Q Consensus 41 ~~~~~-lVfIG~~ld~~~l~~~l~~~~~ 67 (70)
++.|+ +|+.|.+-..++|.+.|..+..
T Consensus 234 Dp~crGvVvLGLdAP~e~L~~~F~~Aa~ 261 (311)
T PF09863_consen 234 DPYCRGVVVLGLDAPEEELAAGFAAAAG 261 (311)
T ss_pred CCCceeEEEecCCCCHHHHHHHHHHhhC
Confidence 45554 9999999999999999987653
No 31
>PRK11470 hypothetical protein; Provisional
Probab=27.52 E-value=1.7e+02 Score=18.80 Aligned_cols=53 Identities=9% Similarity=0.153 Sum_probs=31.4
Q ss_pred EEEEeccCCceEEEEccceEEEeecCCCCCccCCccceEEEEeC---CCCHHHHHHHH
Q 035229 8 GVLSVKHSDQLHTLQAVREIYEIVPARKWRTEENQMNKIVFIGH---HLNQDILQDSL 62 (70)
Q Consensus 8 Giv~~~~~~~~~~~q~V~~~~~~~~~~~~~~~~~~~~~lVfIG~---~ld~~~l~~~l 62 (70)
||+.-.+.+.++++.++......+|...|-... ...-++|+| .++.+..+++.
T Consensus 39 GII~~~~~~~~~VlEA~~~~vr~TpLs~fi~r~--~~g~i~v~Rl~~~l~~~~~~~~~ 94 (200)
T PRK11470 39 GIIIGHNGEDFLVAESRVPLSTVTTLSRFIKRS--ANQRYAIKRLDAGLTEQQKQRIV 94 (200)
T ss_pred EEEEEEcCCceEEEEecCCceEEeEHHHHHhcC--cCceEEEEEecCCCCHHHHHHHH
Confidence 666633335678999987766666665565422 234677776 35655544443
No 32
>PLN02629 powdery mildew resistance 5
Probab=27.27 E-value=66 Score=22.80 Aligned_cols=20 Identities=15% Similarity=0.436 Sum_probs=16.5
Q ss_pred ccceEEEEeCCCCHHHHHHH
Q 035229 42 QMNKIVFIGHHLNQDILQDS 61 (70)
Q Consensus 42 ~~~~lVfIG~~ld~~~l~~~ 61 (70)
+..+|+|||..|.+.+.+..
T Consensus 119 RgKrl~FVGDSL~RNQ~eSL 138 (387)
T PLN02629 119 KGKTVMFVGDSLGRNQWESL 138 (387)
T ss_pred cCCeEEEeccccchhHHHHH
Confidence 55789999999999877655
No 33
>PF00076 RRM_1: RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain); InterPro: IPR000504 Many eukaryotic proteins containing one or more copies of a putative RNA-binding domain of about 90 amino acids are known to bind single-stranded RNAs [, , ]. The largest group of single strand RNA-binding proteins is the eukaryotic RNA recognition motif (RRM) family that contains an eight amino acid RNP-1 consensus sequence [, ]. RRM proteins have a variety of RNA binding preferences and functions, and include heterogeneous nuclear ribonucleoproteins (hnRNPs), proteins implicated in regulation of alternative splicing (SR, U2AF, Sxl), protein components of small nuclear ribonucleoproteins (U1 and U2 snRNPs), and proteins that regulate RNA stability and translation (PABP, La, Hu) [, , ]. The RRM in heterodimeric splicing factor U2 snRNP auxiliary factor (U2AF) appears to have two RRM-like domains with specialised features for protein recognition []. The motif also appears in a few single stranded DNA binding proteins. The typical RRM consists of four anti-parallel beta-strands and two alpha-helices arranged in a beta-alpha-beta-beta-alpha-beta fold with side chains that stack with RNA bases. Specificity of RNA binding is determined by multiple contacts with surrounding amino acids. A third helix is present during RNA binding in some cases []. The RRM is reviewed in a number of publications [, , ].; GO: 0003676 nucleic acid binding; PDB: 2RNE_A 2DGO_A 2DO4_A 1YTY_B 2VOO_B 2VOP_A 2VON_B 1ZH5_B 2VOD_A 1S79_A ....
Probab=26.85 E-value=87 Score=15.04 Aligned_cols=20 Identities=15% Similarity=0.454 Sum_probs=14.5
Q ss_pred EEEe---CCCCHHHHHHHHhhcc
Q 035229 47 VFIG---HHLNQDILQDSLRTCT 66 (70)
Q Consensus 47 VfIG---~~ld~~~l~~~l~~~~ 66 (70)
|+|| .+.+.++|++.|..+-
T Consensus 1 l~v~nlp~~~t~~~l~~~f~~~g 23 (70)
T PF00076_consen 1 LYVGNLPPDVTEEELRDFFSQFG 23 (70)
T ss_dssp EEEESETTTSSHHHHHHHHHTTS
T ss_pred cEEcCCCCcCCHHHHHHHHHHhh
Confidence 4566 3678889998887754
No 34
>PF14821 Thr_synth_N: Threonine synthase N terminus; PDB: 3V7N_A 1VB3_A 1KL7_A.
Probab=26.14 E-value=30 Score=18.63 Aligned_cols=18 Identities=17% Similarity=0.575 Sum_probs=12.8
Q ss_pred EEeCCCCHHHHHHHHhhc
Q 035229 48 FIGHHLNQDILQDSLRTC 65 (70)
Q Consensus 48 fIG~~ld~~~l~~~l~~~ 65 (70)
|+|.++++++|++..+.+
T Consensus 61 f~~~di~~~~L~~ii~~A 78 (79)
T PF14821_consen 61 FLGDDIPEEELKEIIEKA 78 (79)
T ss_dssp HCCCCS-HHHHHHHHHHH
T ss_pred HHccCCCHHHHHHHHHHH
Confidence 458889998888877654
No 35
>KOG2965 consensus Arginase [Amino acid transport and metabolism]
Probab=25.99 E-value=66 Score=22.12 Aligned_cols=21 Identities=14% Similarity=0.490 Sum_probs=14.2
Q ss_pred CCccCCccceEEEEe-CCCCHH
Q 035229 36 WRTEENQMNKIVFIG-HHLNQD 56 (70)
Q Consensus 36 ~~~~~~~~~~lVfIG-~~ld~~ 56 (70)
|....-..-+|++|| |++|..
T Consensus 172 w~~p~i~~~~l~yIGLRDvdp~ 193 (318)
T KOG2965|consen 172 WVKPCISPKRLAYIGLRDVDPG 193 (318)
T ss_pred ccccccChhheEEEecccCChH
Confidence 543333456899999 788874
No 36
>COG0218 Predicted GTPase [General function prediction only]
Probab=25.12 E-value=1.2e+02 Score=19.59 Aligned_cols=23 Identities=22% Similarity=0.505 Sum_probs=17.8
Q ss_pred ccceEEEEeC-CCCHHHHHHHHhh
Q 035229 42 QMNKIVFIGH-HLNQDILQDSLRT 64 (70)
Q Consensus 42 ~~~~lVfIG~-~ld~~~l~~~l~~ 64 (70)
...+++|+|| |..+.-+-.+|..
T Consensus 23 ~~~EIaF~GRSNVGKSSlIN~l~~ 46 (200)
T COG0218 23 DLPEIAFAGRSNVGKSSLINALTN 46 (200)
T ss_pred CCcEEEEEccCcccHHHHHHHHhC
Confidence 4458999998 7999888777643
No 37
>COG3168 PilP Tfp pilus assembly protein PilP [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=25.02 E-value=1.9e+02 Score=18.27 Aligned_cols=46 Identities=15% Similarity=0.244 Sum_probs=29.1
Q ss_pred eEEeeEEEEeccCCceEEEEccceEEEeecCCCCCccCCccceEEEEeCC
Q 035229 3 VYRCKGVLSVKHSDQLHTLQAVREIYEIVPARKWRTEENQMNKIVFIGHH 52 (70)
Q Consensus 3 vlR~KGiv~~~~~~~~~~~q~V~~~~~~~~~~~~~~~~~~~~~lVfIG~~ 52 (70)
-+|++|++.-+ .....++++-++.+....+.-- +....++|=|+.+
T Consensus 97 ~~rlvGtm~~g-~~~~A~i~~~~~v~~V~vG~Yl---GqN~GrV~rI~d~ 142 (170)
T COG3168 97 TFRLVGTLKSG-QGVSALIEAPGGVYRVRVGQYL---GQNYGRVVRITDD 142 (170)
T ss_pred heeeEEEecCC-CceEEEEEcCCceEEEeeccEe---eccCceEEEecCC
Confidence 47999999754 4455677877777776664321 1234567777664
No 38
>COG3414 SgaB Phosphotransferase system, galactitol-specific IIB component [Carbohydrate transport and metabolism]
Probab=24.24 E-value=1.4e+02 Score=16.79 Aligned_cols=22 Identities=14% Similarity=0.288 Sum_probs=15.9
Q ss_pred eEEEEeCCCCHHHHHHHHhhcc
Q 035229 45 KIVFIGHHLNQDILQDSLRTCT 66 (70)
Q Consensus 45 ~lVfIG~~ld~~~l~~~l~~~~ 66 (70)
.++.+|..+|.+++.+.+.+.+
T Consensus 70 ~v~~~~~~~d~~ei~~~l~~~L 91 (93)
T COG3414 70 YVVITGNGMDIEEIKQKLLEIL 91 (93)
T ss_pred eEEEEcccCCHHHHHHHHHHHH
Confidence 5555566689999988876654
No 39
>PF09634 DUF2025: Protein of unknown function (DUF2025); InterPro: IPR018595 This protein is produced from gene PA1123 in Pseudomonas. It appears to be present in the biofilm layer and may be a lipoprotein. It contains three alpha helices and six beta strands and is thought to be monomeric.; PDB: 2HG6_A.
Probab=24.14 E-value=89 Score=17.96 Aligned_cols=25 Identities=12% Similarity=0.309 Sum_probs=16.1
Q ss_pred eeEEEEeccCCceEEEEccceEEEe
Q 035229 6 CKGVLSVKHSDQLHTLQAVREIYEI 30 (70)
Q Consensus 6 ~KGiv~~~~~~~~~~~q~V~~~~~~ 30 (70)
+||||-+......+++....+-|..
T Consensus 15 LkGFVGfn~KtG~~ivRFSEDsFGm 39 (106)
T PF09634_consen 15 LKGFVGFNRKTGQHIVRFSEDSFGM 39 (106)
T ss_dssp ---EEEEETTTTEEEEES-GGG-SS
T ss_pred hcccccccccCceEEEEecccccCC
Confidence 6999999988888888877766643
No 40
>COG3222 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=23.60 E-value=1.1e+02 Score=19.88 Aligned_cols=23 Identities=22% Similarity=0.473 Sum_probs=18.9
Q ss_pred ceEEEEeCC---CCHHHHHHHHhhcc
Q 035229 44 NKIVFIGHH---LNQDILQDSLRTCT 66 (70)
Q Consensus 44 ~~lVfIG~~---ld~~~l~~~l~~~~ 66 (70)
..+|+||.+ ++.+-|..+|.+..
T Consensus 105 ~~VliIg~DcP~lt~elLa~a~taL~ 130 (211)
T COG3222 105 YPVLIIGMDCPGLTAELLADAFTALL 130 (211)
T ss_pred CcEEEEecCCCccCHHHHHHHHHHHh
Confidence 679999986 89998888887654
No 41
>PRK14097 pgi glucose-6-phosphate isomerase; Provisional
Probab=23.43 E-value=91 Score=22.37 Aligned_cols=22 Identities=27% Similarity=0.487 Sum_probs=18.7
Q ss_pred ceEEEEeCCCCHHHHHHHHhhc
Q 035229 44 NKIVFIGHHLNQDILQDSLRTC 65 (70)
Q Consensus 44 ~~lVfIG~~ld~~~l~~~l~~~ 65 (70)
.++.|++.|+|...+.+.+..+
T Consensus 111 ~~~~f~~dn~Dp~~~~~~l~~l 132 (448)
T PRK14097 111 PQIIFAGNSISSTYLADLLEYL 132 (448)
T ss_pred ccEEEecCCCCHHHHHHHHhhC
Confidence 3688999999999999888765
No 42
>PRK11633 cell division protein DedD; Provisional
Probab=23.43 E-value=87 Score=20.51 Aligned_cols=21 Identities=24% Similarity=0.444 Sum_probs=16.9
Q ss_pred eEEEEeCCCCHHHHHHHHhhc
Q 035229 45 KIVFIGHHLNQDILQDSLRTC 65 (70)
Q Consensus 45 ~lVfIG~~ld~~~l~~~l~~~ 65 (70)
.=|+||-..+++++++.+..+
T Consensus 190 tRV~VGP~~sk~~ae~~~~~L 210 (226)
T PRK11633 190 TRIYVGPDASKDKLKGSLGEL 210 (226)
T ss_pred EEEEeCCCCCHHHHHHHHHHH
Confidence 459999999999888776543
No 43
>PRK10030 hypothetical protein; Provisional
Probab=23.05 E-value=2.1e+02 Score=18.10 Aligned_cols=52 Identities=13% Similarity=0.289 Sum_probs=27.6
Q ss_pred EEEEeccCCceEEEEccceEEEeecCCCCCccCCccceEEEEeC--C-CCHHHHHHHHh
Q 035229 8 GVLSVKHSDQLHTLQAVREIYEIVPARKWRTEENQMNKIVFIGH--H-LNQDILQDSLR 63 (70)
Q Consensus 8 Giv~~~~~~~~~~~q~V~~~~~~~~~~~~~~~~~~~~~lVfIG~--~-ld~~~l~~~l~ 63 (70)
||+.-. .+..++++++++ ....+...|-.... ..-+.|.| + ++.+.+++...
T Consensus 51 GIi~~~-~~~~~ViEAv~~-V~~~pL~~Fl~~~~--~~~~~V~Rl~~~lt~~~~~~li~ 105 (197)
T PRK10030 51 GMIVKR-NKKPYVFEAVGP-VKYTPLKQWIAHGE--KGKYVVRRLENGLSVEQQQKLAQ 105 (197)
T ss_pred EEEEEE-CCcEEEEEecCc-eEEEEHHHHhhcCc--cCcEEEEEeCCCCCHHHHHHHHH
Confidence 555433 346788999876 45555444432211 12234443 4 77777666544
No 44
>PRK00053 alr alanine racemase; Reviewed
Probab=22.70 E-value=2.6e+02 Score=19.00 Aligned_cols=22 Identities=9% Similarity=0.235 Sum_probs=16.8
Q ss_pred ccceEEEEeCCCCHHHHHHHHh
Q 035229 42 QMNKIVFIGHHLNQDILQDSLR 63 (70)
Q Consensus 42 ~~~~lVfIG~~ld~~~l~~~l~ 63 (70)
...+++|+|.+++.+++.+...
T Consensus 323 ~Gd~v~l~g~~~~~~~~a~~~~ 344 (363)
T PRK00053 323 VGDEVTLWGEALTAEDVAEIIG 344 (363)
T ss_pred CCCEEEEECCCCCHHHHHHHHC
Confidence 3568999999888888776543
No 45
>KOG1014 consensus 17 beta-hydroxysteroid dehydrogenase type 3, HSD17B3 [Lipid transport and metabolism]
Probab=22.34 E-value=82 Score=21.78 Aligned_cols=22 Identities=9% Similarity=0.261 Sum_probs=14.6
Q ss_pred ccceEEEEeCCCCH-HHHHHHHh
Q 035229 42 QMNKIVFIGHHLNQ-DILQDSLR 63 (70)
Q Consensus 42 ~~~~lVfIG~~ld~-~~l~~~l~ 63 (70)
+.-++|+|+|+.++ +.+.+.+.
T Consensus 72 rG~nvvLIsRt~~KL~~v~kEI~ 94 (312)
T KOG1014|consen 72 RGFNVVLISRTQEKLEAVAKEIE 94 (312)
T ss_pred cCCEEEEEeCCHHHHHHHHHHHH
Confidence 44579999999776 34444443
No 46
>PF12956 DUF3845: Domain of Unknown Function with PDB structure; InterPro: IPR024328 This entry represents a family of uncharacterised bacterial proteins. One member, Q8A8D4 from SWISSPROT, shows significant structural similarity to TNF-like jelly roll fold, which may indicate an immunomodulatory function [] or a bioadhesion role [].; PDB: 3GF6_B.
Probab=21.51 E-value=1.6e+02 Score=19.00 Aligned_cols=22 Identities=23% Similarity=0.277 Sum_probs=13.8
Q ss_pred EEeeEEEEeccCCceEEEEccceE
Q 035229 4 YRCKGVLSVKHSDQLHTLQAVREI 27 (70)
Q Consensus 4 lR~KGiv~~~~~~~~~~~q~V~~~ 27 (70)
||+||-+.+.+++. .+++|.-.
T Consensus 136 lrlkgel~l~gdew--midyvyaq 157 (245)
T PF12956_consen 136 LRLKGELTLTGDEW--MIDYVYAQ 157 (245)
T ss_dssp EEEEEEEE--SSSE--EEEEEEEE
T ss_pred eEecceEEecCchH--HHHHHHHH
Confidence 89999999987754 34555433
No 47
>KOG0840 consensus ATP-dependent Clp protease, proteolytic subunit [Posttranslational modification, protein turnover, chaperones]
Probab=21.18 E-value=89 Score=21.22 Aligned_cols=16 Identities=31% Similarity=0.848 Sum_probs=12.8
Q ss_pred ceEEEEeCCCCHHHHH
Q 035229 44 NKIVFIGHHLNQDILQ 59 (70)
Q Consensus 44 ~~lVfIG~~ld~~~l~ 59 (70)
.|+||||..+|.+--.
T Consensus 92 eRIi~lg~~Idd~va~ 107 (275)
T KOG0840|consen 92 ERIVFLGQPIDDDVAN 107 (275)
T ss_pred hheeeeCCcCcHHHHH
Confidence 5899999999886433
Done!