Query 010608
Match_columns 506
No_of_seqs 340 out of 1723
Neff 3.9
Searched_HMMs 46136
Date Fri Mar 29 02:30:47 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/010608.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/010608hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1882 Transcriptional regula 100.0 1.6E-44 3.4E-49 352.0 7.3 167 338-505 124-290 (293)
2 KOG1881 Anion exchanger adapto 99.8 3.1E-19 6.6E-24 194.4 6.2 127 371-502 140-267 (793)
3 PF00498 FHA: FHA domain; Int 99.8 1.5E-18 3.4E-23 136.0 8.3 68 411-491 1-68 (68)
4 KOG1880 Nuclear inhibitor of p 99.7 4E-17 8.6E-22 164.3 4.4 116 374-501 4-119 (337)
5 cd00060 FHA Forkhead associate 99.6 6.6E-15 1.4E-19 120.5 12.8 98 388-499 2-100 (102)
6 PLN02927 antheraxanthin epoxid 99.6 9E-15 1.9E-19 161.3 10.9 94 387-494 533-638 (668)
7 TIGR03354 VI_FHA type VI secre 99.5 2.2E-13 4.8E-18 142.3 11.0 83 402-500 18-104 (396)
8 COG1716 FOG: FHA domain [Signa 99.4 6.1E-13 1.3E-17 121.9 9.3 77 408-500 88-165 (191)
9 smart00240 FHA Forkhead associ 99.3 8.2E-12 1.8E-16 92.8 5.3 52 411-474 1-52 (52)
10 COG3456 Predicted component of 98.9 1.8E-09 4E-14 113.6 7.2 77 409-500 26-105 (430)
11 KOG0615 Serine/threonine prote 98.3 7.2E-07 1.6E-11 94.7 6.9 93 403-499 59-155 (475)
12 TIGR02500 type_III_yscD type I 97.6 0.00016 3.4E-09 76.3 8.6 88 388-495 1-91 (410)
13 KOG0245 Kinesin-like protein [ 96.6 0.0059 1.3E-07 71.1 8.4 81 407-502 475-557 (1221)
14 KOG1892 Actin filament-binding 95.0 0.069 1.5E-06 62.4 8.1 91 388-494 358-449 (1629)
15 KOG2293 Daxx-interacting prote 94.4 0.08 1.7E-06 58.4 6.5 94 390-500 433-532 (547)
16 TIGR01663 PNK-3'Pase polynucle 94.4 0.13 2.7E-06 57.0 7.9 86 401-502 25-110 (526)
17 KOG0241 Kinesin-like protein [ 93.4 0.14 3.1E-06 60.0 6.2 96 386-500 444-541 (1714)
18 COG1188 Ribosome-associated he 57.5 13 0.00029 33.3 3.7 31 467-499 36-66 (100)
19 cd00165 S4 S4/Hsp/ tRNA synthe 56.8 16 0.00034 27.1 3.5 30 464-494 25-54 (70)
20 smart00363 S4 S4 RNA-binding d 56.2 15 0.00032 26.5 3.2 27 464-492 25-52 (60)
21 PF01479 S4: S4 domain; Inter 54.6 10 0.00022 28.1 2.1 24 464-488 25-48 (48)
22 TIGR02988 YaaA_near_RecF S4 do 53.9 13 0.00029 29.0 2.8 25 465-490 34-58 (59)
23 KOG1881 Anion exchanger adapto 53.2 6.1 0.00013 45.7 1.1 76 410-497 61-136 (793)
24 PRK11507 ribosome-associated p 52.8 19 0.00042 30.4 3.7 37 453-494 29-65 (70)
25 PF13275 S4_2: S4 domain; PDB: 48.7 13 0.00028 30.8 2.0 39 453-496 25-63 (65)
26 PRK01777 hypothetical protein; 43.5 21 0.00045 31.4 2.6 29 459-490 45-73 (95)
27 PF02626 AHS2: Allophanate hyd 43.3 31 0.00066 35.5 4.2 38 462-499 52-92 (271)
28 smart00797 AHS2 Allophanate hy 41.8 52 0.0011 34.1 5.6 38 462-499 52-92 (280)
29 TIGR01687 moaD_arch MoaD famil 41.7 24 0.00052 29.3 2.6 25 466-490 57-81 (88)
30 COG1984 DUR1 Allophanate hydro 41.4 66 0.0014 34.2 6.3 34 461-494 72-105 (314)
31 TIGR01642 U2AF_lg U2 snRNP aux 41.0 78 0.0017 33.8 7.0 11 464-474 357-367 (509)
32 cd01764 Urm1 Urm1-like ubuitin 40.9 21 0.00045 31.0 2.2 25 467-491 62-88 (94)
33 PF14478 DUF4430: Domain of un 40.9 22 0.00048 28.6 2.2 22 469-490 45-67 (68)
34 PRK10348 ribosome-associated h 39.6 39 0.00084 31.7 3.9 35 465-501 34-68 (133)
35 cd00754 MoaD Ubiquitin domain 39.1 27 0.00059 28.0 2.5 24 465-490 50-73 (80)
36 COG2501 S4-like RNA binding pr 38.5 48 0.001 28.3 3.9 39 452-495 28-66 (73)
37 TIGR00724 urea_amlyse_rel biot 38.1 59 0.0013 34.3 5.4 42 458-499 70-115 (314)
38 PF11012 DUF2850: Protein of u 37.8 45 0.00098 28.8 3.7 38 463-503 22-61 (79)
39 KOG2888 Putative RNA binding p 35.6 79 0.0017 34.3 5.8 11 73-83 219-229 (453)
40 KOG4676 Splicing factor, argin 33.2 38 0.00081 37.2 3.1 18 167-184 221-238 (479)
41 PRK15367 type III secretion sy 32.7 1.4E+02 0.003 32.8 7.2 85 387-494 4-88 (395)
42 PF02824 TGS: TGS domain; Int 32.5 29 0.00064 27.5 1.7 23 466-490 36-58 (60)
43 cd01666 TGS_DRG_C TGS_DRG_C: 29.2 50 0.0011 27.8 2.6 20 469-490 54-73 (75)
44 PRK06437 hypothetical protein; 29.2 57 0.0012 26.5 2.9 23 466-490 38-60 (67)
45 cd04089 eRF3_II eRF3_II: domai 28.8 54 0.0012 27.1 2.7 26 465-494 13-38 (82)
46 KOG0835 Cyclin L [General func 27.3 76 0.0016 34.3 4.1 23 47-72 288-310 (367)
47 TIGR02712 urea_carbox urea car 26.6 1.5E+02 0.0032 36.7 6.8 43 458-500 519-565 (1201)
48 PF02597 ThiS: ThiS family; I 26.6 39 0.00084 26.8 1.5 26 465-490 44-70 (77)
49 TIGR01683 thiS thiamine biosyn 26.3 53 0.0011 26.0 2.2 22 469-490 34-57 (64)
50 KOG3263 Nucleic acid binding p 25.4 28 0.0006 34.4 0.5 81 1-122 1-89 (196)
51 PF09269 DUF1967: Domain of un 25.1 54 0.0012 27.0 2.1 16 482-497 54-69 (69)
52 PF08648 DUF1777: Protein of u 24.4 2.5E+02 0.0054 26.5 6.6 6 354-359 132-137 (180)
53 KOG4368 Predicted RNA binding 24.0 1.3E+02 0.0029 34.8 5.3 18 104-122 666-683 (757)
54 cd00565 ThiS ThiaminS ubiquiti 23.5 73 0.0016 25.2 2.5 24 467-490 33-58 (65)
55 PRK06488 sulfur carrier protei 23.2 57 0.0012 25.9 1.8 23 468-490 34-58 (65)
56 PF12538 FtsK_SpoIIIE_N: DNA t 23.0 2.4E+02 0.0051 25.1 5.9 43 390-440 2-46 (113)
57 PF14451 Ub-Mut7C: Mut7-C ubiq 22.5 82 0.0018 27.0 2.7 23 467-491 52-74 (81)
58 TIGR03595 Obg_CgtA_exten Obg f 22.5 61 0.0013 26.7 1.9 25 469-497 45-69 (69)
59 PF09138 Urm1: Urm1 (Ubiquitin 20.7 43 0.00093 29.8 0.7 24 468-491 65-90 (96)
60 COG5131 URM1 Ubiquitin-like pr 20.2 65 0.0014 28.8 1.7 24 468-491 65-90 (96)
No 1
>KOG1882 consensus Transcriptional regulator SNIP1, contains FHA domain [Signal transduction mechanisms]
Probab=100.00 E-value=1.6e-44 Score=351.97 Aligned_cols=167 Identities=65% Similarity=1.062 Sum_probs=156.5
Q ss_pred hhHHHHHHhhhhccCCCccccccchhcccccCCccccccCCCCCCCCCCceEEEEEecCceeeeeEEecccceeeecccc
Q 010608 338 MKAAEEALQAKEKQKPSFELSGKLAAETNRFRGVTLLFNEPPDARKPSVRWRLYVFKAGEMLKEPLYIHRQSCYLFGRER 417 (506)
Q Consensus 338 ~~~~ee~~e~k~KekPnFe~SG~La~etNtv~GVtLkYsePpeArkP~~~wrL~VfKdGe~i~e~I~L~rks~ylIGRdr 417 (506)
+..++++.+++.+++|+|+++|+|++++|++.||+|+|++|++|.+|...|.||+|+++..+ ++++|+.++||||||+.
T Consensus 124 ~~~~~k~~~~~dke~p~f~lsg~l~E~tn~~~gv~v~y~eppearkP~kRwrLy~fk~~e~l-~~l~iHrqs~yL~gRer 202 (293)
T KOG1882|consen 124 EGIALKEVEPQDKEKPSFELSGALLEDTNRFRGVVVKYNEPPEARKPKKRWRLYPFKCYEVL-PVLYIHRQSCYLDGRER 202 (293)
T ss_pred ccccccccCchhccCCchhhchhhhhhhcceeeEEEEecCCchhcCchhheecccccCCccc-chheeeeeeeeecCcee
Confidence 33445566778999999999999999999999999999999999999999999999966555 88999999999999998
Q ss_pred cccceecCCCCcCccceEEEEecccccCCCCCCCCccceEEEeCCCCCcceeCCeecCCCCeeecCCCCEEEEcCceEEE
Q 010608 418 RVADIPTDHPSCSKQHAVIQFRQVEKEQPDGMLSKEVRPYIMDLGSTNKTYLNDNPIEPQRYYELFEKDTIKFGNSSREY 497 (506)
Q Consensus 418 ~~cDIvLddPSVSRqHAvIq~r~~ek~~eDG~~~g~~r~yLiDLgSTNGTfVNGeRI~~~r~~eL~dGDvIkFG~StreY 497 (506)
.++||.|+||+||+|||+|||..+++.-+||.+...+++|||||+|+||||||+++|++..||+|..+|+|+||+++++|
T Consensus 203 kIaDi~idhpScSKQHaviQyR~v~~~r~dGt~grrvkpYiiDLgS~NgTfLNnk~IepqRYyEL~ekDvlkfgfs~rEy 282 (293)
T KOG1882|consen 203 KIADIPIDHPSCSKQHAVIQYRLVEFTRADGTVGRRVKPYIIDLGSGNGTFLNNKVIEPQRYYELREKDVLKFGFSSREY 282 (293)
T ss_pred eeeccCCCCccccccceeeeeeecccccCCCccceeeeeEEEecCCCCcceecCcccCchheeeeecCceeeeccchHHH
Confidence 89999999999999999999999998889999999999999999999999999999999999999999999999999999
Q ss_pred EEeecCCC
Q 010608 498 VLLHENSN 505 (506)
Q Consensus 498 VLl~e~s~ 505 (506)
||+++.+.
T Consensus 283 vllhe~s~ 290 (293)
T KOG1882|consen 283 VLLHEISM 290 (293)
T ss_pred HHHHhhhc
Confidence 99998753
No 2
>KOG1881 consensus Anion exchanger adaptor protein Kanadaptin, contains FHA domain [General function prediction only]
Probab=99.76 E-value=3.1e-19 Score=194.45 Aligned_cols=127 Identities=32% Similarity=0.517 Sum_probs=111.2
Q ss_pred ccccccCCCCCCCCCCceEEEEEecCceeeeeEEecccceeeecccccccceecCCCCcCccceEEEEecccccCCCCC-
Q 010608 371 VTLLFNEPPDARKPSVRWRLYVFKAGEMLKEPLYIHRQSCYLFGRERRVADIPTDHPSCSKQHAVIQFRQVEKEQPDGM- 449 (506)
Q Consensus 371 VtLkYsePpeArkP~~~wrL~VfKdGe~i~e~I~L~rks~ylIGRdr~~cDIvLddPSVSRqHAvIq~r~~ek~~eDG~- 449 (506)
-.+.|..|+|+++|...|.|.+++.|. +++++.|.....|+|||. ..||+.|.||+||+.||+|||.... +++.
T Consensus 140 ~~~py~vppw~~P~~~~~~lEvlKeg~-iiet~~l~~~~~~~fgr~-~~cD~~~eHpsISr~h~vlQy~~~~---~~~p~ 214 (793)
T KOG1881|consen 140 AAAPYEVPPWSGPPAAIFQLEVLKEGA-IIETEDLKGAAACLFGRL-GGCDVALEHPSISRFHAVLQYKASG---PDDPC 214 (793)
T ss_pred CCCcccCCCCCCCcccchhhhhhccCc-eeeeeecccceeEEeccc-CCCccccccCcccccceeeeccCCC---CCccc
Confidence 467899999999999999999999765 557888988899999998 6999999999999999999997531 2221
Q ss_pred CCCccceEEEeCCCCCcceeCCeecCCCCeeecCCCCEEEEcCceEEEEEeec
Q 010608 450 LSKEVRPYIMDLGSTNKTYLNDNPIEPQRYYELFEKDTIKFGNSSREYVLLHE 502 (506)
Q Consensus 450 ~~g~~r~yLiDLgSTNGTfVNGeRI~~~r~~eL~dGDvIkFG~StreYVLl~e 502 (506)
......|||.|||||+|||||..+|++.+|+.+..|++|.||.+++.|+|...
T Consensus 215 ~s~~~g~~i~dlgsThgt~~NK~rvppk~yir~~Vg~v~~fggsTrl~i~Qgp 267 (793)
T KOG1881|consen 215 ASNGEGWYIYDLGSTHGTFLNKDRVPPKVYIRDRVGHVARFGGSTRLYIFQGP 267 (793)
T ss_pred cCCCCceEEeeccccccceeccccCCCcchhhhhHHHHHHhcCceEEEEeeCC
Confidence 22456799999999999999999999999999999999999999999998754
No 3
>PF00498 FHA: FHA domain; InterPro: IPR000253 The forkhead-associated (FHA) domain [] is a phosphopeptide recognition domain found in many regulatory proteins. It displays specificity for phosphothreonine-containing epitopes but will also recognise phosphotyrosine with relatively high affinity. It spans approximately 80-100 amino acid residues folded into an 11-stranded beta sandwich, which sometimes contain small helical insertions between the loops connecting the strands []. To date, genes encoding FHA-containing proteins have been identified in eubacterial and eukaryotic but not archaeal genomes. The domain is present in a diverse range of proteins, such as kinases, phosphatases, kinesins, transcription factors, RNA-binding proteins and metabolic enzymes which partake in many different cellular processes - DNA repair, signal transduction, vesicular transport and protein degradation are just a few examples.; GO: 0005515 protein binding; PDB: 1LGQ_B 1LGP_A 2CSW_A 2PIE_A 3FM8_A 3MDB_B 3GQS_B 1UHT_A 1WLN_A 3POA_A ....
Probab=99.76 E-value=1.5e-18 Score=136.02 Aligned_cols=68 Identities=40% Similarity=0.584 Sum_probs=62.0
Q ss_pred eeecccccccceecCCCCcCccceEEEEecccccCCCCCCCCccceEEEeCCCCCcceeCCeecCCCCeeecCCCCEEEE
Q 010608 411 YLFGRERRVADIPTDHPSCSKQHAVIQFRQVEKEQPDGMLSKEVRPYIMDLGSTNKTYLNDNPIEPQRYYELFEKDTIKF 490 (506)
Q Consensus 411 ylIGRdr~~cDIvLddPSVSRqHAvIq~r~~ek~~eDG~~~g~~r~yLiDLgSTNGTfVNGeRI~~~r~~eL~dGDvIkF 490 (506)
|+|||+ ..|||+|.++.||++||.|.+.. ...|||+||+|+|||||||++|.++.++.|.+||+|+|
T Consensus 1 ~~iGR~-~~~di~l~~~~iSr~Ha~i~~~~------------~~~~~i~d~~s~ngt~vng~~l~~~~~~~L~~gd~i~~ 67 (68)
T PF00498_consen 1 VTIGRS-PDCDIVLPDPSISRRHARISFDD------------DGQFYIEDLGSTNGTFVNGQRLGPGEPVPLKDGDIIRF 67 (68)
T ss_dssp EEEESS-TTSSEEETSTTSSTTSEEEEEET------------TEEEEEEESSSSS-EEETTEEESSTSEEEE-TTEEEEE
T ss_pred CEEcCC-CCCCEEECCHheeeeeeEEEEec------------eeeEEEEeCCCCCcEEECCEEcCCCCEEECCCCCEEEc
Confidence 689998 79999999999999999999974 14899999999999999999999999999999999999
Q ss_pred c
Q 010608 491 G 491 (506)
Q Consensus 491 G 491 (506)
|
T Consensus 68 G 68 (68)
T PF00498_consen 68 G 68 (68)
T ss_dssp T
T ss_pred C
Confidence 8
No 4
>KOG1880 consensus Nuclear inhibitor of phosphatase-1 [General function prediction only]
Probab=99.66 E-value=4e-17 Score=164.32 Aligned_cols=116 Identities=37% Similarity=0.620 Sum_probs=103.1
Q ss_pred cccCCCCCCCCCCceEEEEEecCceeeeeEEecccceeeecccccccceecCCCCcCccceEEEEecccccCCCCCCCCc
Q 010608 374 LFNEPPDARKPSVRWRLYVFKAGEMLKEPLYIHRQSCYLFGRERRVADIPTDHPSCSKQHAVIQFRQVEKEQPDGMLSKE 453 (506)
Q Consensus 374 kYsePpeArkP~~~wrL~VfKdGe~i~e~I~L~rks~ylIGRdr~~cDIvLddPSVSRqHAvIq~r~~ek~~eDG~~~g~ 453 (506)
+|..|.||.+|+...+|.|.+ |+.+.+.+.|..+.+|+|||+...||++|+|.+||++||.+.|... .
T Consensus 4 ~~~~p~wA~kpp~g~hldv~k-~d~li~kl~iddkr~y~Fgrn~q~~df~idh~scSrvhaa~vyhkh-----------l 71 (337)
T KOG1880|consen 4 NFDPPSWAGKPPAGLHLDVVK-GDKLIQKLIIDDKRRYLFGRNHQTCDFVIDHASCSRVHAALVYHKH-----------L 71 (337)
T ss_pred cCCCCCcccCCCCCCceeeee-cchhHHHHHhhhhhhhhhccCCCccceEeecchhhhhHhhhhhhhc-----------c
Confidence 578899999999999999998 5555455556667899999998999999999999999999988753 3
Q ss_pred cceEEEeCCCCCcceeCCeecCCCCeeecCCCCEEEEcCceEEEEEee
Q 010608 454 VRPYIMDLGSTNKTYLNDNPIEPQRYYELFEKDTIKFGNSSREYVLLH 501 (506)
Q Consensus 454 ~r~yLiDLgSTNGTfVNGeRI~~~r~~eL~dGDvIkFG~StreYVLl~ 501 (506)
..+||+||+|++||||...+|.+..+++|..|-.+.||.+++.|.|-.
T Consensus 72 ~~~~lidl~s~hgtf~g~~rL~~~~p~~l~i~~~~~fgasTr~y~lr~ 119 (337)
T KOG1880|consen 72 SRIFLIDLGSTHGTFLGNERLEPHKPVQLEIGSTFHFGASTRIYLLRE 119 (337)
T ss_pred ceEEEEEccCCcceeeeeeeeccCCCccccCCceEEEeccceeeeeec
Confidence 479999999999999999999999999999999999999999998854
No 5
>cd00060 FHA Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins localize to the nucleus, where they participate in establishing or maintaining cell cycle checkpoints, DNA repair, or transcriptional regulation. Members of the FHA family include: Dun1, Rad53, Cds1, Mek1, KAPP(kinase-associated protein phosphatase),and Ki-67 (a human nuclear protein related to cell proliferation).
Probab=99.62 E-value=6.6e-15 Score=120.51 Aligned_cols=98 Identities=34% Similarity=0.558 Sum_probs=81.1
Q ss_pred eEEEEEecCceeeeeEEecccceeeeccccccc-ceecCCCCcCccceEEEEecccccCCCCCCCCccceEEEeCCCCCc
Q 010608 388 WRLYVFKAGEMLKEPLYIHRQSCYLFGRERRVA-DIPTDHPSCSKQHAVIQFRQVEKEQPDGMLSKEVRPYIMDLGSTNK 466 (506)
Q Consensus 388 wrL~VfKdGe~i~e~I~L~rks~ylIGRdr~~c-DIvLddPSVSRqHAvIq~r~~ek~~eDG~~~g~~r~yLiDLgSTNG 466 (506)
|.|.++. +......+.|.....++|||+ ..| +|.|.++.||++||+|.+.. ...++++|+.|.||
T Consensus 2 ~~L~~~~-~~~~~~~~~l~~~~~~~iGr~-~~~~~i~l~~~~iS~~H~~i~~~~------------~~~~~~~~~~s~~g 67 (102)
T cd00060 2 PRLVVLS-GDASGRRYYLDPGGTYTIGRD-SDNCDIVLDDPSVSRRHAVIRYDG------------DGGVVLIDLGSTNG 67 (102)
T ss_pred eEEEEec-CCCceeEEEECCCCeEEECcC-CCcCCEEcCCCCeeCcceEEEEcC------------CCCEEEEECCCCCC
Confidence 6777776 334455677766477999998 677 99999999999999999974 14799999999999
Q ss_pred ceeCCeecCCCCeeecCCCCEEEEcCceEEEEE
Q 010608 467 TYLNDNPIEPQRYYELFEKDTIKFGNSSREYVL 499 (506)
Q Consensus 467 TfVNGeRI~~~r~~eL~dGDvIkFG~StreYVL 499 (506)
||||+..|..+..+.|.+||+|.||.....|.|
T Consensus 68 ~~vn~~~~~~~~~~~l~~gd~i~ig~~~~~~~~ 100 (102)
T cd00060 68 TFVNGQRVSPGEPVRLRDGDVIRLGNTSISFRF 100 (102)
T ss_pred eEECCEECCCCCcEECCCCCEEEECCeEEEEEE
Confidence 999999999888899999999999974444443
No 6
>PLN02927 antheraxanthin epoxidase/zeaxanthin epoxidase
Probab=99.56 E-value=9e-15 Score=161.26 Aligned_cols=94 Identities=26% Similarity=0.390 Sum_probs=79.6
Q ss_pred ceEEEEEecCceeeeeEEe--cccceeeecccccccce-----ecCCCCcCccceEEEEecccccCCCCCCCCccceEEE
Q 010608 387 RWRLYVFKAGEMLKEPLYI--HRQSCYLFGRERRVADI-----PTDHPSCSKQHAVIQFRQVEKEQPDGMLSKEVRPYIM 459 (506)
Q Consensus 387 ~wrL~VfKdGe~i~e~I~L--~rks~ylIGRdr~~cDI-----vLddPSVSRqHAvIq~r~~ek~~eDG~~~g~~r~yLi 459 (506)
.|+|++.-++....++|.| +.+..|+||+. +.||+ +|.++.||+.||.|.+.. +.|||+
T Consensus 533 ~w~l~~~~~~~~~~~~~~l~~~~~~p~~iG~~-~~~~~~~~~i~i~~~~vS~~Ha~i~~~~-------------~~~~~~ 598 (668)
T PLN02927 533 EWYLIPHGDDCCVSETLCLTKDEDQPCIVGSE-PDQDFPGMRIVIPSSQVSKMHARVIYKD-------------GAFFLM 598 (668)
T ss_pred CeEEEecCCCCcccceeeeecCCCCCeEecCC-CCcCCCCceEEecCCccChhHeEEEEEC-------------CEEEEE
Confidence 4999998655555566777 23467999998 78995 999999999999999973 489999
Q ss_pred eCCCCCcceeCCee-----cCCCCeeecCCCCEEEEcCce
Q 010608 460 DLGSTNKTYLNDNP-----IEPQRYYELFEKDTIKFGNSS 494 (506)
Q Consensus 460 DLgSTNGTfVNGeR-----I~~~r~~eL~dGDvIkFG~St 494 (506)
||+|+|||||||.. +.++.++.|.+||+|.||...
T Consensus 599 Dl~S~nGT~v~~~~~~r~~~~p~~~~~l~~~d~I~~g~~~ 638 (668)
T PLN02927 599 DLRSEHGTYVTDNEGRRYRATPNFPARFRSSDIIEFGSDK 638 (668)
T ss_pred ECCCCCccEEeCCCCceEecCCCCceEeCCCCEEEeCCCc
Confidence 99999999998887 568889999999999999953
No 7
>TIGR03354 VI_FHA type VI secretion system FHA domain protein. Members of this protein family are FHA (forkhead-associated) domain-containing proteins that are part of type VI secretion loci in a considerable number of bacteria, most of which are known pathogens. Species include Pseudomonas aeruginosa PAO1, Aeromonas hydrophila, Yersinia pestis, Burkholderia mallei, etc.
Probab=99.46 E-value=2.2e-13 Score=142.27 Aligned_cols=83 Identities=25% Similarity=0.309 Sum_probs=73.1
Q ss_pred eEEecccceeeecccccccceecCCCC--cCccceEEEEecccccCCCCCCCCccceEEEeCCCCCcceeC--CeecCCC
Q 010608 402 PLYIHRQSCYLFGRERRVADIPTDHPS--CSKQHAVIQFRQVEKEQPDGMLSKEVRPYIMDLGSTNKTYLN--DNPIEPQ 477 (506)
Q Consensus 402 ~I~L~rks~ylIGRdr~~cDIvLddPS--VSRqHAvIq~r~~ek~~eDG~~~g~~r~yLiDLgSTNGTfVN--GeRI~~~ 477 (506)
.+.|.. ..++|||+ ..|||+|.++. ||+.||.|.+.. +.|||+|+ |+|||||| |.+|..+
T Consensus 18 ~~~f~~-~~~~IGR~-~~~d~~l~d~~~~VS~~Ha~I~~~~-------------g~~~l~Dl-StNGT~VN~sg~~l~~~ 81 (396)
T TIGR03354 18 QKTFGT-NGGTIGRS-EDCDWVLPDPERHVSGRHARIRYRD-------------GAYLLTDL-STNGVFLNGSGSPLGRG 81 (396)
T ss_pred EEEECC-CCEEEecC-CCCCEEeCCCCCCcchhhcEEEEEC-------------CEEEEEEC-CCCCeEECCCCCCCCCC
Confidence 456654 56999998 68999999999 999999999873 48999999 99999999 8999998
Q ss_pred CeeecCCCCEEEEcCceEEEEEe
Q 010608 478 RYYELFEKDTIKFGNSSREYVLL 500 (506)
Q Consensus 478 r~~eL~dGDvIkFG~StreYVLl 500 (506)
.++.|.+||+|+||...+.|.+-
T Consensus 82 ~~~~L~~GD~I~iG~~~lrv~~~ 104 (396)
T TIGR03354 82 NPVRLEQGDRLRLGDYEIRVSLG 104 (396)
T ss_pred CceEcCCCCEEEECCEEEEEEeC
Confidence 88999999999999988877763
No 8
>COG1716 FOG: FHA domain [Signal transduction mechanisms]
Probab=99.42 E-value=6.1e-13 Score=121.90 Aligned_cols=77 Identities=27% Similarity=0.422 Sum_probs=68.2
Q ss_pred cceeeecccccccceecCCCCcCccceEEEEecccccCCCCCCCCccceEEEeCCCCCcceeCCeecCCCCeeecCCCCE
Q 010608 408 QSCYLFGRERRVADIPTDHPSCSKQHAVIQFRQVEKEQPDGMLSKEVRPYIMDLGSTNKTYLNDNPIEPQRYYELFEKDT 487 (506)
Q Consensus 408 ks~ylIGRdr~~cDIvLddPSVSRqHAvIq~r~~ek~~eDG~~~g~~r~yLiDLgSTNGTfVNGeRI~~~r~~eL~dGDv 487 (506)
...++|||+ ..|+|+|.+..||+.||.|.+.. ..+||+||+|+|||||||.+|.. .+.|.+||+
T Consensus 88 ~~~~tigr~-~~~~i~~~~~~vSR~Ha~l~~~~-------------~~~~~~d~~S~nGt~vn~~~v~~--~~~l~~gd~ 151 (191)
T COG1716 88 EPVTTIGRD-PDNDIVLDDDVVSRRHAELRREG-------------NEVFLEDLGSTNGTYVNGEKVRQ--RVLLQDGDV 151 (191)
T ss_pred cceEEeccC-CCCCEEcCCCccccceEEEEEeC-------------CceEEEECCCCcceEECCeEccC--cEEcCCCCE
Confidence 457999997 79999999999999999999974 47899999999999999999996 468999999
Q ss_pred EEEcCceE-EEEEe
Q 010608 488 IKFGNSSR-EYVLL 500 (506)
Q Consensus 488 IkFG~Str-eYVLl 500 (506)
|.||.... .|.++
T Consensus 152 i~i~~~~~~~~~~~ 165 (191)
T COG1716 152 IRLGGTLAERLRII 165 (191)
T ss_pred EEECccceeeEeec
Confidence 99999887 55444
No 9
>smart00240 FHA Forkhead associated domain. Found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain.
Probab=99.25 E-value=8.2e-12 Score=92.81 Aligned_cols=52 Identities=40% Similarity=0.566 Sum_probs=45.4
Q ss_pred eeecccccccceecCCCCcCccceEEEEecccccCCCCCCCCccceEEEeCCCCCcceeCCeec
Q 010608 411 YLFGRERRVADIPTDHPSCSKQHAVIQFRQVEKEQPDGMLSKEVRPYIMDLGSTNKTYLNDNPI 474 (506)
Q Consensus 411 ylIGRdr~~cDIvLddPSVSRqHAvIq~r~~ek~~eDG~~~g~~r~yLiDLgSTNGTfVNGeRI 474 (506)
++|||....|+|+|+++.||+.||.|.+... ..|+|.|++|+|||||||++|
T Consensus 1 ~~iGr~~~~~~i~~~~~~vs~~H~~i~~~~~------------~~~~i~d~~s~~gt~vng~~v 52 (52)
T smart00240 1 VTIGRSSEDCDIQLPGPSISRRHAEIVYDGG------------GRFYLIDLGSTNGTFVNGKRI 52 (52)
T ss_pred CEeCCCCCCCCEEeCCCCcchhHcEEEECCC------------CeEEEEECCCCCCeeECCEEC
Confidence 5799983389999999999999999998631 269999999999999999976
No 10
>COG3456 Predicted component of the type VI protein secretion system, contains a FHA domain [Intracellular trafficking, secretion, and vesicular transport; Signal transduction mechanisms]
Probab=98.91 E-value=1.8e-09 Score=113.55 Aligned_cols=77 Identities=25% Similarity=0.234 Sum_probs=67.6
Q ss_pred ceeeecccccccceecCCC--CcCccceEEEEecccccCCCCCCCCccceEEEeCCCCCcceeCCeecCCCCe-eecCCC
Q 010608 409 SCYLFGRERRVADIPTDHP--SCSKQHAVIQFRQVEKEQPDGMLSKEVRPYIMDLGSTNKTYLNDNPIEPQRY-YELFEK 485 (506)
Q Consensus 409 s~ylIGRdr~~cDIvLddP--SVSRqHAvIq~r~~ek~~eDG~~~g~~r~yLiDLgSTNGTfVNGeRI~~~r~-~eL~dG 485 (506)
...+|||+ ..||..|+|+ .||++||.|.++. +.|||.|. |.|||||||-.+..+.. ..|..|
T Consensus 26 ~~g~IGrs-~dcdW~i~D~~~~VS~~Hc~I~~~d-------------g~f~L~Dt-S~g~l~VNgs~~~~g~~~~RLqqG 90 (430)
T COG3456 26 GGGVIGRS-PDCDWQIDDPERFVSKQHCTISYRD-------------GGFCLTDT-SNGGLLVNGSDLPLGEGSARLQQG 90 (430)
T ss_pred CCcccccC-CCCCccccCcccccchhheEEEecC-------------CeEEEEec-CCCceeecccccCCCCCccccccC
Confidence 34799998 7999999887 5999999999973 48999999 89999999999988877 899999
Q ss_pred CEEEEcCceEEEEEe
Q 010608 486 DTIKFGNSSREYVLL 500 (506)
Q Consensus 486 DvIkFG~StreYVLl 500 (506)
|+|.||...+...|.
T Consensus 91 d~i~iG~y~i~V~l~ 105 (430)
T COG3456 91 DEILIGRYIIRVHLS 105 (430)
T ss_pred CEEeeccEEEEEEec
Confidence 999999987766654
No 11
>KOG0615 consensus Serine/threonine protein kinase Chk2 and related proteins [Cell cycle control, cell division, chromosome partitioning]
Probab=98.35 E-value=7.2e-07 Score=94.67 Aligned_cols=93 Identities=25% Similarity=0.310 Sum_probs=72.5
Q ss_pred EEecccceeeecccccccceecCCCCcCccceEEEEecc-ccc--CCCCCCCCccceEEEeCCCCCcceeCCeecCCCCe
Q 010608 403 LYIHRQSCYLFGRERRVADIPTDHPSCSKQHAVIQFRQV-EKE--QPDGMLSKEVRPYIMDLGSTNKTYLNDNPIEPQRY 479 (506)
Q Consensus 403 I~L~rks~ylIGRdr~~cDIvLddPSVSRqHAvIq~r~~-ek~--~eDG~~~g~~r~yLiDLgSTNGTfVNGeRI~~~r~ 479 (506)
+.+.. ..|+|||+ +.||+++..+.+|..|..|.+-.. .+. ..+++ .....+||.|. |+||||||.+.|..+..
T Consensus 59 ~d~~n-d~f~fGR~-~~~d~~ln~~~~s~~~~~i~~~~~~~~~~f~~dr~-~~sn~~y~~Dh-S~nGT~VN~e~i~k~~~ 134 (475)
T KOG0615|consen 59 IDLAN-DEFTFGRG-DSCDAPLNLNNVSNKHFKILLYNKISKIHFRIDRD-KNSNRVYLHDH-SRNGTFVNDEMIGKGLS 134 (475)
T ss_pred ceecc-ceEEecCC-CcccccccCccccccchheeeeeeeeeeeecccCC-CccceEEEEec-ccCcccccHhHhhcccc
Confidence 45543 57999998 799999999999999998866411 010 22333 34567899997 99999999999999999
Q ss_pred eecCCCCEEEEcCceEE-EEE
Q 010608 480 YELFEKDTIKFGNSSRE-YVL 499 (506)
Q Consensus 480 ~eL~dGDvIkFG~Stre-YVL 499 (506)
..|++||+|.||.+... ||+
T Consensus 135 r~lkN~dei~is~p~~~~~v~ 155 (475)
T KOG0615|consen 135 RILKNGDEISISIPALKIFVF 155 (475)
T ss_pred ccccCCCEEEeccchhheeee
Confidence 99999999999988764 444
No 12
>TIGR02500 type_III_yscD type III secretion apparatus protein, YscD/HrpQ family. This family represents a conserved protein of bacterial type III secretion systems. Gene symbols are variable from species to species. Members are designated YscD in Yersinia, HrpQ in Pseudomonas syringae, and EscD in enteropathogenic Escherichia coli. In the Chlamydiae, this model describes the C-terminal 400 residues of a longer protein.
Probab=97.64 E-value=0.00016 Score=76.34 Aligned_cols=88 Identities=15% Similarity=0.180 Sum_probs=67.8
Q ss_pred eEEEEEecCceeeeeEEecccceeeec-ccccccceecCCCCcCccceEEEEecccccCCCCCCCCccceEEEeCCCCCc
Q 010608 388 WRLYVFKAGEMLKEPLYIHRQSCYLFG-RERRVADIPTDHPSCSKQHAVIQFRQVEKEQPDGMLSKEVRPYIMDLGSTNK 466 (506)
Q Consensus 388 wrL~VfKdGe~i~e~I~L~rks~ylIG-Rdr~~cDIvLddPSVSRqHAvIq~r~~ek~~eDG~~~g~~r~yLiDLgSTNG 466 (506)
|.|.|+. |...+..+.|... .|+|| ++ ..|||+|.++.||+.||.|.+.. ..+.|.+ +..+
T Consensus 1 ~~lrvl~-G~~~G~~~~L~~g-~~~iG~~~-~~~di~L~d~~~~~~h~~l~v~~-------------~~~~l~~--~~~~ 62 (410)
T TIGR02500 1 WKLRVLS-GPHRGAELPLPEG-NLVLGTDA-ADCDIVLSDGGIAAVHVSLHVRL-------------EGVTLAG--AVEP 62 (410)
T ss_pred CEEEEec-CCCCCcEEECCCC-ceEeccCC-CCcEEEeCCCCccchheEEEEcC-------------ceEEEec--CCcc
Confidence 6788887 8888778888764 49999 77 79999999999999999999973 2566665 4778
Q ss_pred ceeCC--eecCCCCeeecCCCCEEEEcCceE
Q 010608 467 TYLND--NPIEPQRYYELFEKDTIKFGNSSR 495 (506)
Q Consensus 467 TfVNG--eRI~~~r~~eL~dGDvIkFG~Str 495 (506)
+++|| ..+..+ ..|..+-.|.+|...+
T Consensus 63 ~~~~g~~~~~~~g--~~l~~~~~l~~g~~~~ 91 (410)
T TIGR02500 63 AWEEGGVLPDEEG--TPLPSGTPLLVAGVAF 91 (410)
T ss_pred eeECCcccccCCC--CccCCCCceecceeEE
Confidence 99999 555444 3567777777776553
No 13
>KOG0245 consensus Kinesin-like protein [Cytoskeleton]
Probab=96.61 E-value=0.0059 Score=71.12 Aligned_cols=81 Identities=20% Similarity=0.224 Sum_probs=59.2
Q ss_pred ccceeeecccc--cccceecCCCCcCccceEEEEecccccCCCCCCCCccceEEEeCCCCCcceeCCeecCCCCeeecCC
Q 010608 407 RQSCYLFGRER--RVADIPTDHPSCSKQHAVIQFRQVEKEQPDGMLSKEVRPYIMDLGSTNKTYLNDNPIEPQRYYELFE 484 (506)
Q Consensus 407 rks~ylIGRdr--~~cDIvLddPSVSRqHAvIq~r~~ek~~eDG~~~g~~r~yLiDLgSTNGTfVNGeRI~~~r~~eL~d 484 (506)
......||+.. ...||+|.-+.|=-+||.|.-.. ++.++.+-.---.-|||||+.|. .+..|+.
T Consensus 475 keG~TrVG~~~a~~~~DI~LsG~~I~~qHC~i~~~~------------g~~~vtl~p~e~aetyVNGk~v~--ep~qL~~ 540 (1221)
T KOG0245|consen 475 KEGETRVGREDASSRQDIVLSGQLIREQHCSIRNEG------------GNDVVTLEPCEDAETYVNGKLVT--EPTQLRS 540 (1221)
T ss_pred ccCceecCCCCcccCCceEecchhhhhhceEEEecC------------CCceEEeccCCccceeEccEEcC--Ccceecc
Confidence 44668899853 34799999999999999996652 22344433323456999999998 4679999
Q ss_pred CCEEEEcCceEEEEEeec
Q 010608 485 KDTIKFGNSSREYVLLHE 502 (506)
Q Consensus 485 GDvIkFG~StreYVLl~e 502 (506)
||.|-||..- .|.|.+.
T Consensus 541 GdRiilG~~H-~frfn~P 557 (1221)
T KOG0245|consen 541 GDRIILGGNH-VFRFNHP 557 (1221)
T ss_pred CCEEEEcCce-eEEecCH
Confidence 9999999854 3555543
No 14
>KOG1892 consensus Actin filament-binding protein Afadin [Cytoskeleton]
Probab=95.04 E-value=0.069 Score=62.39 Aligned_cols=91 Identities=19% Similarity=0.142 Sum_probs=66.3
Q ss_pred eEEEEEecCceeeeeEEecccceeeeccccc-ccceecCCCCcCccceEEEEecccccCCCCCCCCccceEEEeCCCCCc
Q 010608 388 WRLYVFKAGEMLKEPLYIHRQSCYLFGRERR-VADIPTDHPSCSKQHAVIQFRQVEKEQPDGMLSKEVRPYIMDLGSTNK 466 (506)
Q Consensus 388 wrL~VfKdGe~i~e~I~L~rks~ylIGRdr~-~cDIvLddPSVSRqHAvIq~r~~ek~~eDG~~~g~~r~yLiDLgSTNG 466 (506)
+.+.+..+|......|.|+. +.+-||-+.. .+.|.|.-|.|=-.||.|.+- .+-+.|.-+.--.-
T Consensus 358 vLve~s~dG~~s~~ri~L~~-~vtEVGs~~~~~~~iqLfGP~IqprHc~it~m-------------eGVvTvTP~~~DA~ 423 (1629)
T KOG1892|consen 358 VLVELSPDGSDSRKRIRLQL-SVTEVGSEKLDDNSIQLFGPGIQPRHCDITNM-------------EGVVTVTPRSMDAE 423 (1629)
T ss_pred EEEEEcCCCCCcceeEEecc-CceeccccccCCcceeeeCCCCCccccchhhc-------------cceEEecccccchh
Confidence 34444455665545677765 6688998732 247899999999999999774 23456665533356
Q ss_pred ceeCCeecCCCCeeecCCCCEEEEcCce
Q 010608 467 TYLNDNPIEPQRYYELFEKDTIKFGNSS 494 (506)
Q Consensus 467 TfVNGeRI~~~r~~eL~dGDvIkFG~St 494 (506)
|||||..|-. ...|++|+.|.||.+.
T Consensus 424 t~VnGh~isq--ttiL~~G~~v~fGa~h 449 (1629)
T KOG1892|consen 424 TYVNGHRISQ--TTILQSGMKVQFGASH 449 (1629)
T ss_pred hhccceecch--hhhhccCCEEEeccce
Confidence 9999999974 4689999999999864
No 15
>KOG2293 consensus Daxx-interacting protein MSP58/p78, contains FHA domain [Transcription; Signal transduction mechanisms]
Probab=94.44 E-value=0.08 Score=58.37 Aligned_cols=94 Identities=15% Similarity=0.243 Sum_probs=71.0
Q ss_pred EEEEecCceeeeeEEecccceeeecccccccceec----CC--CCcCccceEEEEecccccCCCCCCCCccceEEEeCCC
Q 010608 390 LYVFKAGEMLKEPLYIHRQSCYLFGRERRVADIPT----DH--PSCSKQHAVIQFRQVEKEQPDGMLSKEVRPYIMDLGS 463 (506)
Q Consensus 390 L~VfKdGe~i~e~I~L~rks~ylIGRdr~~cDIvL----dd--PSVSRqHAvIq~r~~ek~~eDG~~~g~~r~yLiDLgS 463 (506)
|.|+. |.... +++ .+..++|||+...|.|-| .. .-||+..|.|.+.. .+.|+|..| -
T Consensus 433 iAvL~-Gr~sk--h~m-rk~EVtlGRat~d~~VDIDLgkegpatKISRRQa~IkL~n------------~GsF~IkNl-G 495 (547)
T KOG2293|consen 433 IAVLY-GRFSK--HYM-RKKEVTLGRATGDLKVDIDLGKEGPATKISRRQALIKLKN------------DGSFFIKNL-G 495 (547)
T ss_pred eEEEe-chhhH--hhh-cCcceEeeccCCCcceeeeccccCccceeeccceeEEecc------------CCcEEeccC-c
Confidence 44554 44331 344 446799999865554444 23 35999999998874 347999999 4
Q ss_pred CCcceeCCeecCCCCeeecCCCCEEEEcCceEEEEEe
Q 010608 464 TNKTYLNDNPIEPQRYYELFEKDTIKFGNSSREYVLL 500 (506)
Q Consensus 464 TNGTfVNGeRI~~~r~~eL~dGDvIkFG~StreYVLl 500 (506)
..-.||||..|..+..+.|.+.-+|.|-.-+|.|.+.
T Consensus 496 K~~I~vng~~l~~gq~~~L~~nclveIrg~~FiF~~N 532 (547)
T KOG2293|consen 496 KRSILVNGGELDRGQKVILKNNCLVEIRGLRFIFEIN 532 (547)
T ss_pred ceeEEeCCccccCCceEEeccCcEEEEccceEEEeec
Confidence 7889999999999999999999999999988777664
No 16
>TIGR01663 PNK-3'Pase polynucleotide 5'-kinase 3'-phosphatase. Note that the EC number for the kinase function is: 2.7.1.78
Probab=94.35 E-value=0.13 Score=56.98 Aligned_cols=86 Identities=19% Similarity=0.203 Sum_probs=67.9
Q ss_pred eeEEecccceeeecccccccceecCCCCcCccceEEEEecccccCCCCCCCCccceEEEeCCCCCcceeCCeecCCCCee
Q 010608 401 EPLYIHRQSCYLFGRERRVADIPTDHPSCSKQHAVIQFRQVEKEQPDGMLSKEVRPYIMDLGSTNKTYLNDNPIEPQRYY 480 (506)
Q Consensus 401 e~I~L~rks~ylIGRdr~~cDIvLddPSVSRqHAvIq~r~~ek~~eDG~~~g~~r~yLiDLgSTNGTfVNGeRI~~~r~~ 480 (506)
..|.|.. ...+|||.+ .-.|.|..||++...|+.+.. ...+.|.-|| .|-|-|||+.|.++..+
T Consensus 25 ~~~~~~~-~~~~~gr~p---et~i~d~~cs~~qv~l~a~~~-----------~~~v~~k~lg-~np~~~~~~~~~~~~~~ 88 (526)
T TIGR01663 25 HFIHLDA-GALFLGRGP---ETGIRDRKCSKRQIELQADLE-----------KATVALKQLG-VNPCGTGGLELKPGGEG 88 (526)
T ss_pred CeeccCC-CceEEccCc---ccccchhhhchhhheeeeccc-----------CceEEEEEcc-CCCcccCceEecCCCee
Confidence 3567665 447799984 355679999999999988742 3466777885 69999999999999999
Q ss_pred ecCCCCEEEEcCceEEEEEeec
Q 010608 481 ELFEKDTIKFGNSSREYVLLHE 502 (506)
Q Consensus 481 eL~dGDvIkFG~StreYVLl~e 502 (506)
.|.+||+|.|=+...-|.|.+.
T Consensus 89 ~l~~g~~l~~v~~~~~~~~~f~ 110 (526)
T TIGR01663 89 ELGHGDLLEIVNGLHPLTLQFE 110 (526)
T ss_pred eecCCCEEEEeccccceeEEee
Confidence 9999999999887776666654
No 17
>KOG0241 consensus Kinesin-like protein [Cytoskeleton]
Probab=93.39 E-value=0.14 Score=59.97 Aligned_cols=96 Identities=21% Similarity=0.273 Sum_probs=69.0
Q ss_pred CceEEEEEecCceeee--eEEecccceeeecccccccceecCCCCcCccceEEEEecccccCCCCCCCCccceEEEeCCC
Q 010608 386 VRWRLYVFKAGEMLKE--PLYIHRQSCYLFGRERRVADIPTDHPSCSKQHAVIQFRQVEKEQPDGMLSKEVRPYIMDLGS 463 (506)
Q Consensus 386 ~~wrL~VfKdGe~i~e--~I~L~rks~ylIGRdr~~cDIvLddPSVSRqHAvIq~r~~ek~~eDG~~~g~~r~yLiDLgS 463 (506)
.+++|+-+.....+.+ .|+|. ...+||-. ..-||++---.|=.+||+|.+.. + +.+++.-+-.
T Consensus 444 DK~ylvnlnadP~lnellvyyl~--~~tlig~~-~~~~i~l~glgi~p~h~vidI~~------d------g~l~~~p~~~ 508 (1714)
T KOG0241|consen 444 DKCYLVNLNADPALNELLVYYLK--DHTLIGLF-KSQDIQLSGLGIQPKHCVIDIES------D------GELRLTPLLN 508 (1714)
T ss_pred cceEEEeccCCccHHHHHHHhhc--Cceeeccc-cCcceeeecCcccCccceeeecc------C------CcEEeccccc
Confidence 3455554443333333 24453 34789976 68899999889999999999873 2 2478877755
Q ss_pred CCcceeCCeecCCCCeeecCCCCEEEEcCceEEEEEe
Q 010608 464 TNKTYLNDNPIEPQRYYELFEKDTIKFGNSSREYVLL 500 (506)
Q Consensus 464 TNGTfVNGeRI~~~r~~eL~dGDvIkFG~StreYVLl 500 (506)
+ -+||||..|.. .+.|.+||.|-.|+.-| |.|.
T Consensus 509 ~-R~~VNGs~v~~--~t~L~~GdRiLwGnnHF-FrvN 541 (1714)
T KOG0241|consen 509 A-RSCVNGSLVCS--TTQLWHGDRILWGNNHF-FRVN 541 (1714)
T ss_pred c-eeeecCceecc--ccccccCceEEecccce-EEec
Confidence 5 89999999875 46899999999999775 4343
No 18
>COG1188 Ribosome-associated heat shock protein implicated in the recycling of the 50S subunit (S4 paralog) [Translation, ribosomal structure and biogenesis]
Probab=57.53 E-value=13 Score=33.34 Aligned_cols=31 Identities=16% Similarity=0.292 Sum_probs=23.7
Q ss_pred ceeCCeecCCCCeeecCCCCEEEEcCceEEEEE
Q 010608 467 TYLNDNPIEPQRYYELFEKDTIKFGNSSREYVL 499 (506)
Q Consensus 467 TfVNGeRI~~~r~~eL~dGDvIkFG~StreYVL 499 (506)
..|||+.+.+. ..++.||+|+|......|++
T Consensus 36 V~vNG~~aKpS--~~VK~GD~l~i~~~~~~~~v 66 (100)
T COG1188 36 VKVNGQRAKPS--KEVKVGDILTIRFGNKEFTV 66 (100)
T ss_pred EEECCEEcccc--cccCCCCEEEEEeCCcEEEE
Confidence 56899999876 48999999988766554443
No 19
>cd00165 S4 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized functional similarity between these three protein classes.
Probab=56.77 E-value=16 Score=27.10 Aligned_cols=30 Identities=17% Similarity=0.273 Sum_probs=22.4
Q ss_pred CCcceeCCeecCCCCeeecCCCCEEEEcCce
Q 010608 464 TNKTYLNDNPIEPQRYYELFEKDTIKFGNSS 494 (506)
Q Consensus 464 TNGTfVNGeRI~~~r~~eL~dGDvIkFG~St 494 (506)
.++.+|||+.+... .+.|..||+|.|....
T Consensus 25 ~g~V~vn~~~~~~~-~~~v~~~d~i~i~~~~ 54 (70)
T cd00165 25 HGHVLVNGKVVTKP-SYKVKPGDVIEVDGKS 54 (70)
T ss_pred cCCEEECCEEccCC-ccCcCCCCEEEEcCCC
Confidence 46889999988322 3478899999997643
No 20
>smart00363 S4 S4 RNA-binding domain.
Probab=56.24 E-value=15 Score=26.48 Aligned_cols=27 Identities=19% Similarity=0.337 Sum_probs=21.1
Q ss_pred CCcceeCCeec-CCCCeeecCCCCEEEEcC
Q 010608 464 TNKTYLNDNPI-EPQRYYELFEKDTIKFGN 492 (506)
Q Consensus 464 TNGTfVNGeRI-~~~r~~eL~dGDvIkFG~ 492 (506)
.++.+|||+.+ .+ .+.|..||+|.|-.
T Consensus 25 ~g~i~vng~~~~~~--~~~l~~gd~i~~~~ 52 (60)
T smart00363 25 QGRVKVNGKKVTKP--SYIVKPGDVISVRG 52 (60)
T ss_pred cCCEEECCEEecCC--CeEeCCCCEEEEcc
Confidence 45788999998 44 35789999998865
No 21
>PF01479 S4: S4 domain; InterPro: IPR002942 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. The S4 domain is a small domain consisting of 60-65 amino acid residues that was detected in the bacterial ribosomal protein S4, eukaryotic ribosomal S9, two families of pseudouridine synthases, a novel family of predicted RNA methylases, a yeast protein containing a pseudouridine synthetase and a deaminase domain, bacterial tyrosyl-tRNA synthetases, and a number of uncharacterised, small proteins that may be involved in translation regulation []. The S4 domain probably mediates binding to RNA.; GO: 0003723 RNA binding; PDB: 3BBU_A 1DM9_B 2K6P_A 3U5G_E 3U5C_E 3IZB_D 2XZM_D 2XZN_D 3O30_E 3O2Z_E ....
Probab=54.57 E-value=10 Score=28.11 Aligned_cols=24 Identities=17% Similarity=0.250 Sum_probs=18.9
Q ss_pred CCcceeCCeecCCCCeeecCCCCEE
Q 010608 464 TNKTYLNDNPIEPQRYYELFEKDTI 488 (506)
Q Consensus 464 TNGTfVNGeRI~~~r~~eL~dGDvI 488 (506)
.++.+|||+.+... .+.|..||+|
T Consensus 25 ~g~V~VNg~~v~~~-~~~v~~~d~I 48 (48)
T PF01479_consen 25 QGRVKVNGKVVKDP-SYIVKPGDVI 48 (48)
T ss_dssp TTTEEETTEEESST-TSBESTTEEE
T ss_pred CCEEEECCEEEcCC-CCCCCCcCCC
Confidence 36899999999833 2578999987
No 22
>TIGR02988 YaaA_near_RecF S4 domain protein YaaA. This small protein has a single S4 domain (pfam01479), as do bacterial ribosomal protein S4, some pseudouridine synthases, tyrosyl-tRNA synthetases. The S4 domain may bind RNA. Members of this protein family are found almost exclusively in the Firmicutes, and almost invariably just a few nucleotides upstream of the gene for the DNA replication and repair protein RecF. The few members of this family that are not near recF are found instead near dnaA and/or dnaN, the usual neighbors of recF, near the origin of replication. The conserved location suggests a possible role in replication in the Firmicutes lineage.
Probab=53.87 E-value=13 Score=29.00 Aligned_cols=25 Identities=24% Similarity=0.332 Sum_probs=19.7
Q ss_pred CcceeCCeecCCCCeeecCCCCEEEE
Q 010608 465 NKTYLNDNPIEPQRYYELFEKDTIKF 490 (506)
Q Consensus 465 NGTfVNGeRI~~~r~~eL~dGDvIkF 490 (506)
...+|||+.+.. ..+.|..||+|.|
T Consensus 34 G~V~VNg~~~~~-~~~~l~~Gd~v~i 58 (59)
T TIGR02988 34 NEVLVNGELENR-RGKKLYPGDVIEI 58 (59)
T ss_pred CCEEECCEEccC-CCCCCCCCCEEEe
Confidence 578899998843 2358999999987
No 23
>KOG1881 consensus Anion exchanger adaptor protein Kanadaptin, contains FHA domain [General function prediction only]
Probab=53.18 E-value=6.1 Score=45.74 Aligned_cols=76 Identities=14% Similarity=0.043 Sum_probs=55.5
Q ss_pred eeeecccccccceecCCCCcCccceEEEEecccccCCCCCCCCccceEEEeCCCCCcceeCCeecCCCCeeecCCCCEEE
Q 010608 410 CYLFGRERRVADIPTDHPSCSKQHAVIQFRQVEKEQPDGMLSKEVRPYIMDLGSTNKTYLNDNPIEPQRYYELFEKDTIK 489 (506)
Q Consensus 410 ~ylIGRdr~~cDIvLddPSVSRqHAvIq~r~~ek~~eDG~~~g~~r~yLiDLgSTNGTfVNGeRI~~~r~~eL~dGDvIk 489 (506)
..++|+. +.|++++.||++|..|+-|.-.... .....-++-+..+|.|-..++++........++.|+
T Consensus 61 ilvvG~~-~~~~~l~~hpS~S~~~~~~~S~p~~-----------~~~~~p~s~e~~~s~v~d~p~P~~Gc~D~~el~e~~ 128 (793)
T KOG1881|consen 61 ILVVGDF-KDCAELLEHPSESDAAADEFSIPAP-----------HPKPAPDAPEKHRSEVPDEPPPPEGCGDDEELAEAQ 128 (793)
T ss_pred ccCCCCC-CcccccCCCcccccccccCcCCCcc-----------cCCCCCCchhhcCCCCccCCCCCCCccccccccccc
Confidence 4678886 7999999999999999999554321 111122223457888887777776666777888899
Q ss_pred EcCceEEE
Q 010608 490 FGNSSREY 497 (506)
Q Consensus 490 FG~StreY 497 (506)
++.+++.|
T Consensus 129 ~~~t~kis 136 (793)
T KOG1881|consen 129 IPKTPKIS 136 (793)
T ss_pred cCCCcccc
Confidence 99988877
No 24
>PRK11507 ribosome-associated protein; Provisional
Probab=52.75 E-value=19 Score=30.39 Aligned_cols=37 Identities=11% Similarity=0.215 Sum_probs=27.1
Q ss_pred ccceEEEeCCCCCcceeCCeecCCCCeeecCCCCEEEEcCce
Q 010608 453 EVRPYIMDLGSTNKTYLNDNPIEPQRYYELFEKDTIKFGNSS 494 (506)
Q Consensus 453 ~~r~yLiDLgSTNGTfVNGeRI~~~r~~eL~dGDvIkFG~St 494 (506)
..+++|.+ +...|||+.-.. +-..|.+||+|.|+...
T Consensus 29 ~AK~~I~e----g~V~VNGeve~r-RgkKl~~GD~V~~~g~~ 65 (70)
T PRK11507 29 QAKIAIAE----GQVKVDGAVETR-KRCKIVAGQTVSFAGHS 65 (70)
T ss_pred HHHHHHHc----CceEECCEEecc-cCCCCCCCCEEEECCEE
Confidence 34555554 678999985543 34579999999999866
No 25
>PF13275 S4_2: S4 domain; PDB: 1P9K_A.
Probab=48.66 E-value=13 Score=30.80 Aligned_cols=39 Identities=15% Similarity=0.186 Sum_probs=22.3
Q ss_pred ccceEEEeCCCCCcceeCCeecCCCCeeecCCCCEEEEcCceEE
Q 010608 453 EVRPYIMDLGSTNKTYLNDNPIEPQRYYELFEKDTIKFGNSSRE 496 (506)
Q Consensus 453 ~~r~yLiDLgSTNGTfVNGeRI~~~r~~eL~dGDvIkFG~Stre 496 (506)
..+++|.+ +..+|||+.... +-..|.+||+|.|+...+.
T Consensus 25 eAK~~I~~----g~V~VNGe~e~r-rg~Kl~~GD~V~~~~~~~~ 63 (65)
T PF13275_consen 25 EAKALIQE----GEVKVNGEVETR-RGKKLRPGDVVEIDGEEYR 63 (65)
T ss_dssp TTSHHHHH----HHHEETTB-----SS----SSEEEEETTEEEE
T ss_pred HHHHHHHc----CceEECCEEccc-cCCcCCCCCEEEECCEEEE
Confidence 34555544 588999996654 3458999999999876643
No 26
>PRK01777 hypothetical protein; Validated
Probab=43.48 E-value=21 Score=31.42 Aligned_cols=29 Identities=24% Similarity=0.355 Sum_probs=23.5
Q ss_pred EeCCCCCcceeCCeecCCCCeeecCCCCEEEE
Q 010608 459 MDLGSTNKTYLNDNPIEPQRYYELFEKDTIKF 490 (506)
Q Consensus 459 iDLgSTNGTfVNGeRI~~~r~~eL~dGDvIkF 490 (506)
+|+ +++-..|||+.+... ..|++||.|.|
T Consensus 45 i~~-~~~~vgI~Gk~v~~d--~~L~dGDRVeI 73 (95)
T PRK01777 45 IDL-AKNKVGIYSRPAKLT--DVLRDGDRVEI 73 (95)
T ss_pred ccc-ccceEEEeCeECCCC--CcCCCCCEEEE
Confidence 355 677888999999764 58999999987
No 27
>PF02626 AHS2: Allophanate hydrolase subunit 2; InterPro: IPR003778 Allophanate hydrolase catalyses the second reaction in an ATP-dependent, two-step degradation of urea to ammonia and C02. This follows the action of the biotin-containing urea carboxylase. Saccharomyces cerevisiae can use urea as a sole nitrogen source via this degradation pathway []. In yeast, the fusion of allophanate hydrolase to urea carboxylase is called urea amidolyase. In bacteria, the second step in the urea degradation pathway is also the ATP-dependent allophanate hydrolase. The gene encoding this enzyme is found adjacent to the urea carboxylase gene []. Allophanate hydrolase has strict substrate specificity, as analogues of allophanate are not hydrolysed by it []. This domain represents subunit 2 of allophanate hydrolase (AHS2) which is found in urea carboxylase.; PDB: 3MML_G 3VA7_A 3OEP_A 3OPF_C 3ORE_B.
Probab=43.33 E-value=31 Score=35.48 Aligned_cols=38 Identities=26% Similarity=0.478 Sum_probs=27.7
Q ss_pred CCCCcceeCCeecCCCCeeecCCCCEEEEcCc---eEEEEE
Q 010608 462 GSTNKTYLNDNPIEPQRYYELFEKDTIKFGNS---SREYVL 499 (506)
Q Consensus 462 gSTNGTfVNGeRI~~~r~~eL~dGDvIkFG~S---treYVL 499 (506)
|.--..+|||+.|..+..+.|+.||+|+||.. .+.|+-
T Consensus 52 Ga~~~~~lng~~~~~~~~~~v~~Gd~L~~~~~~~G~r~YLA 92 (271)
T PF02626_consen 52 GADFEATLNGKPVPMWQPFLVKAGDVLKFGPPRSGARAYLA 92 (271)
T ss_dssp ESCEEEEETTEEE-TTSEEEE-TT-EEEEEEESSECEEEEE
T ss_pred CCCCceEECCEEccCCEEEEECCCCEEEecCCCCccEEEEE
Confidence 34456678999999999999999999999975 345643
No 28
>smart00797 AHS2 Allophanate hydrolase subunit 2. This domain represents subunit 2 of allophanate hydrolase (AHS2).
Probab=41.79 E-value=52 Score=34.06 Aligned_cols=38 Identities=18% Similarity=0.447 Sum_probs=29.6
Q ss_pred CCCCcceeCCeecCCCCeeecCCCCEEEEcCc---eEEEEE
Q 010608 462 GSTNKTYLNDNPIEPQRYYELFEKDTIKFGNS---SREYVL 499 (506)
Q Consensus 462 gSTNGTfVNGeRI~~~r~~eL~dGDvIkFG~S---treYVL 499 (506)
|-.-...|||+.|.....+.|..||+|+||.. .+.|+-
T Consensus 52 GA~~~~~ln~~~~~~~~~~~v~~Gd~L~~g~~~~G~R~YLA 92 (280)
T smart00797 52 GADFPATLDGQPVPPWKPFLVRAGQVLSLGAPKAGARAYLA 92 (280)
T ss_pred CCCCeeeECCEEcCCCeEEEECCCCEEEeCCCCCccEEEEE
Confidence 33445668999999998899999999999964 355643
No 29
>TIGR01687 moaD_arch MoaD family protein, archaeal. Members of this family appear to be archaeal versions of MoaD, subunit 1 of molybdopterin converting factor. This model has been split from the bacterial/eukaryotic equivalog model TIGR01682 because the presence of two members of this family in a substantial number of archaeal species suggests that roles might not be interchangeable.
Probab=41.74 E-value=24 Score=29.27 Aligned_cols=25 Identities=16% Similarity=0.114 Sum_probs=17.5
Q ss_pred cceeCCeecCCCCeeecCCCCEEEE
Q 010608 466 KTYLNDNPIEPQRYYELFEKDTIKF 490 (506)
Q Consensus 466 GTfVNGeRI~~~r~~eL~dGDvIkF 490 (506)
-++|||+.|.....+.|.+||.|.|
T Consensus 57 ~v~vN~~~v~~~~~~~l~dgdev~i 81 (88)
T TIGR01687 57 IILVNGRNVDWGLGTELKDGDVVAI 81 (88)
T ss_pred EEEECCEecCccCCCCCCCCCEEEE
Confidence 3456777665443368999999986
No 30
>COG1984 DUR1 Allophanate hydrolase subunit 2 [Amino acid transport and metabolism]
Probab=41.44 E-value=66 Score=34.19 Aligned_cols=34 Identities=21% Similarity=0.358 Sum_probs=29.3
Q ss_pred CCCCCcceeCCeecCCCCeeecCCCCEEEEcCce
Q 010608 461 LGSTNKTYLNDNPIEPQRYYELFEKDTIKFGNSS 494 (506)
Q Consensus 461 LgSTNGTfVNGeRI~~~r~~eL~dGDvIkFG~St 494 (506)
.|-.-..+|||+.|.....+.++.||+|+||...
T Consensus 72 TGad~~a~ld~~~i~~~~~~~vk~Gq~L~~g~~~ 105 (314)
T COG1984 72 TGADCEATLDGQEVPPWSPYLVKAGQTLKLGRPK 105 (314)
T ss_pred eCCcccceECCEEcCCCceEEccCCCEEEecCCC
Confidence 3455577899999999999999999999999754
No 31
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=41.01 E-value=78 Score=33.83 Aligned_cols=11 Identities=27% Similarity=0.259 Sum_probs=5.2
Q ss_pred CCcceeCCeec
Q 010608 464 TNKTYLNDNPI 474 (506)
Q Consensus 464 TNGTfVNGeRI 474 (506)
.||+.|+|..|
T Consensus 357 l~g~~~~~~~l 367 (509)
T TIGR01642 357 LNGKDTGDNKL 367 (509)
T ss_pred cCCCEECCeEE
Confidence 35555555433
No 32
>cd01764 Urm1 Urm1-like ubuitin domain. Urm1 (Ubiquitin-Related Modifier1) The Urm1 fold, like those of two closely related proteins MoaD (molybdopterin synthase) and ThiS (sulfur carrier protein), is similar to that of ubiquitin although there is little or no sequence similarity. The C-terminal glycines of Urm1 are conjugated to an E1-like protein Uba4 as part of a novel conjugation system in yeast. The Urm1 fold is found only in eukaryotes.
Probab=40.89 E-value=21 Score=31.02 Aligned_cols=25 Identities=28% Similarity=0.344 Sum_probs=18.9
Q ss_pred ceeCCeecC--CCCeeecCCCCEEEEc
Q 010608 467 TYLNDNPIE--PQRYYELFEKDTIKFG 491 (506)
Q Consensus 467 TfVNGeRI~--~~r~~eL~dGDvIkFG 491 (506)
.+|||..|. .+..++|++||.|.|=
T Consensus 62 VlvN~~di~~l~g~~t~L~dgD~v~i~ 88 (94)
T cd01764 62 VLINDTDWELLGEEDYILEDGDHVVFI 88 (94)
T ss_pred EEECCccccccCCcccCCCCcCEEEEE
Confidence 357888764 4556799999999873
No 33
>PF14478 DUF4430: Domain of unknown function (DUF4430); PDB: 3U7Z_B 2BB5_A.
Probab=40.88 E-value=22 Score=28.64 Aligned_cols=22 Identities=23% Similarity=0.395 Sum_probs=11.4
Q ss_pred eCCeecCC-CCeeecCCCCEEEE
Q 010608 469 LNDNPIEP-QRYYELFEKDTIKF 490 (506)
Q Consensus 469 VNGeRI~~-~r~~eL~dGDvIkF 490 (506)
|||+.... ...+.|++||.|.|
T Consensus 45 vNG~~~~~ga~~~~l~~GD~i~~ 67 (68)
T PF14478_consen 45 VNGESANVGAGSYKLKDGDKITW 67 (68)
T ss_dssp ETTEE-SS-CCC-B--TTEEEEE
T ss_pred ECCEEhhcCcceeEeCCCCEEEe
Confidence 34444332 23568999999987
No 34
>PRK10348 ribosome-associated heat shock protein Hsp15; Provisional
Probab=39.63 E-value=39 Score=31.69 Aligned_cols=35 Identities=14% Similarity=0.151 Sum_probs=25.1
Q ss_pred CcceeCCeecCCCCeeecCCCCEEEEcCceEEEEEee
Q 010608 465 NKTYLNDNPIEPQRYYELFEKDTIKFGNSSREYVLLH 501 (506)
Q Consensus 465 NGTfVNGeRI~~~r~~eL~dGDvIkFG~StreYVLl~ 501 (506)
.-++|||++..++ ..+..||+|+|-....+|+|..
T Consensus 34 G~V~vnG~~~Kps--~~V~~gd~l~v~~~~~~~~v~V 68 (133)
T PRK10348 34 GKVHYNGQRSKPS--KIVELNATLTLRQGNDERTVIV 68 (133)
T ss_pred CCEEECCEECCCC--CccCCCCEEEEEECCEEEEEEE
Confidence 4577899997666 4678999998876665555543
No 35
>cd00754 MoaD Ubiquitin domain of MoaD-like proteins. MoaD family. Members of this family are involved in biosynthesis of the molybdenum cofactor (Moco), an essential cofactor of a diverse group of redox enzymes. Moco biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and eukaryotes. Moco contains a tricyclic pyranopterin, termed molybdopterin (MPT), that contains the cis-dithiolene group responsible for molybdenum ligation. This dithiolene group is generated by MPT synthase, the second major step in Moco biosynthesis. MPT synthase consists of a large (MoeE) and small (MoaD) subunit. The small subunit is inserted into the lare subunit to form the active site. The small subunit, which is structurally similar to ubiquitin, contains a C-terminal thiocarboxylated glycine residue that serves as a sulfur donor for the synthesis of the MPT dithiolene group.
Probab=39.11 E-value=27 Score=27.99 Aligned_cols=24 Identities=13% Similarity=0.110 Sum_probs=18.0
Q ss_pred CcceeCCeecCCCCeeecCCCCEEEE
Q 010608 465 NKTYLNDNPIEPQRYYELFEKDTIKF 490 (506)
Q Consensus 465 NGTfVNGeRI~~~r~~eL~dGDvIkF 490 (506)
.-.+|||+.|.. .+.|.+||.|.|
T Consensus 50 ~~v~vNg~~v~~--~~~l~~gD~v~i 73 (80)
T cd00754 50 VRIAVNGEYVRL--DTPLKDGDEVAI 73 (80)
T ss_pred EEEEECCeEcCC--CcccCCCCEEEE
Confidence 346677777763 468999999987
No 36
>COG2501 S4-like RNA binding protein [Replication, recombination, and repair]
Probab=38.47 E-value=48 Score=28.33 Aligned_cols=39 Identities=13% Similarity=0.212 Sum_probs=30.1
Q ss_pred CccceEEEeCCCCCcceeCCeecCCCCeeecCCCCEEEEcCceE
Q 010608 452 KEVRPYIMDLGSTNKTYLNDNPIEPQRYYELFEKDTIKFGNSSR 495 (506)
Q Consensus 452 g~~r~yLiDLgSTNGTfVNGeRI~~~r~~eL~dGDvIkFG~Str 495 (506)
+..++||.| +.++|||+.-.. +-..|..||+|.|.....
T Consensus 28 G~AK~~i~e----g~V~vNGe~EtR-RgkKlr~gd~V~i~~~~~ 66 (73)
T COG2501 28 GQAKAFIAE----GEVKVNGEVETR-RGKKLRDGDVVEIPGQRY 66 (73)
T ss_pred HHHHHHHHC----CeEEECCeeeec-cCCEeecCCEEEECCEEE
Confidence 356777766 589999996654 345799999999998773
No 37
>TIGR00724 urea_amlyse_rel biotin-dependent carboxylase uncharacterized domain. Urea amidolyase of Saccharomyces cerevisiae is a 1835 amino acid protein with an amidase domain, a biotin/lipoyl cofactor attachment domain, a carbamoyl-phosphate synthase L chain-like domain, and uncharacterized regions. It has both urea carboxylase and allophanate hydrolase activities. This alignment models a domain that represents uncharacterized prokaryotic proteins of about 300 amino acids, regions of prokaryotic urea carboxylase and of the urea carboxylase region of yeast urea amidolyase, and regions of other biotin-containing proteins.
Probab=38.10 E-value=59 Score=34.28 Aligned_cols=42 Identities=26% Similarity=0.431 Sum_probs=31.7
Q ss_pred EEeCCCCCcceeCCeecCC-CCeeecCCCCEEEEcCce---EEEEE
Q 010608 458 IMDLGSTNKTYLNDNPIEP-QRYYELFEKDTIKFGNSS---REYVL 499 (506)
Q Consensus 458 LiDLgSTNGTfVNGeRI~~-~r~~eL~dGDvIkFG~St---reYVL 499 (506)
|.=.|-.-..+|||++|.. ...+.|..||+|+||... +.|+-
T Consensus 70 iAltGA~~~~~lng~~~~~~~~~~~v~~Gd~L~~g~~~~G~R~YLA 115 (314)
T TIGR00724 70 FAVTGADTDLCLNDGQVIPQWRPYEVKRGQILSLGRLKSGMRGYLA 115 (314)
T ss_pred EEEeCCCCcceeCCcccCCCceEEEECCCCEEEeCCCCCccEEEEE
Confidence 3334555678899999976 778999999999999753 45543
No 38
>PF11012 DUF2850: Protein of unknown function (DUF2850); InterPro: IPR021271 This family of proteins with unknown function appear to be restricted to Vibrionaceae.
Probab=37.80 E-value=45 Score=28.79 Aligned_cols=38 Identities=18% Similarity=0.322 Sum_probs=28.7
Q ss_pred CCCcceeCCeecCCCCeeecCCCCEEE--EcCceEEEEEeecC
Q 010608 463 STNKTYLNDNPIEPQRYYELFEKDTIK--FGNSSREYVLLHEN 503 (506)
Q Consensus 463 STNGTfVNGeRI~~~r~~eL~dGDvIk--FG~StreYVLl~e~ 503 (506)
+.+|.|+||..|... -=.+|+.|. +|..+..|.|..+.
T Consensus 22 ~~~GV~~ngrlV~T~---F~fDG~~l~~~~G~~~~~y~~~~~~ 61 (79)
T PF11012_consen 22 NESGVFRNGRLVATS---FEFDGKTLEYRTGSGTYRYQISGEN 61 (79)
T ss_pred CCCcEEECCCEEeeE---EEECCCEEEEEECCeEEEEEEcCCC
Confidence 678999999999865 346777765 57778888877654
No 39
>KOG2888 consensus Putative RNA binding protein [General function prediction only]
Probab=35.55 E-value=79 Score=34.28 Aligned_cols=11 Identities=27% Similarity=0.682 Sum_probs=7.3
Q ss_pred CCCCChhhhhh
Q 010608 73 SRSPSPRTRRL 83 (506)
Q Consensus 73 ~~sp~~~~~~~ 83 (506)
||-|||.-|-|
T Consensus 219 PRIPVPvqkqI 229 (453)
T KOG2888|consen 219 PRIPVPVQKQI 229 (453)
T ss_pred CCCCchHHHHH
Confidence 47888876443
No 40
>KOG4676 consensus Splicing factor, arginine/serine-rich [RNA processing and modification]
Probab=33.22 E-value=38 Score=37.25 Aligned_cols=18 Identities=22% Similarity=0.237 Sum_probs=10.3
Q ss_pred CCCCChhhhhhhhhhhhh
Q 010608 167 RSPSPRTKRLRRAHAEKD 184 (506)
Q Consensus 167 rs~sp~~~r~r~~~~~~~ 184 (506)
..-.|-.|+---|+++.+
T Consensus 221 ai~kP~kK~~k~a~~~is 238 (479)
T KOG4676|consen 221 AIIKPHKKRSKSAERRIS 238 (479)
T ss_pred hhcCccccchHHHHHHHH
Confidence 344566666666666544
No 41
>PRK15367 type III secretion system protein SsaD; Provisional
Probab=32.70 E-value=1.4e+02 Score=32.80 Aligned_cols=85 Identities=11% Similarity=0.238 Sum_probs=54.0
Q ss_pred ceEEEEEecCceeeeeEEecccceeeecccccccceecCCCCcCccceEEEEecccccCCCCCCCCccceEEEeCCCCCc
Q 010608 387 RWRLYVFKAGEMLKEPLYIHRQSCYLFGRERRVADIPTDHPSCSKQHAVIQFRQVEKEQPDGMLSKEVRPYIMDLGSTNK 466 (506)
Q Consensus 387 ~wrL~VfKdGe~i~e~I~L~rks~ylIGRdr~~cDIvLddPSVSRqHAvIq~r~~ek~~eDG~~~g~~r~yLiDLgSTNG 466 (506)
.|.|..+. |...+..+.|.. ..++||=. .|||+|.-+. +..|...-. ...++|.- +.-=
T Consensus 4 ~~Klr~Ln-g~L~GrEl~Lp~-G~~tlG~~--gcDi~lpL~~----~~~~~L~i~-----------e~gi~l~~--~~~~ 62 (395)
T PRK15367 4 SWKIRFLG-HVLQGREVWLNE-GNLSLGEK--GCDICIPLTI----NEKIILREQ-----------ADSLFVDA--GKAR 62 (395)
T ss_pred ceeeeecC-CcccCcEEecCC-CceeecCC--CceEEEECCC----CCEEEEEEc-----------CCcEEEec--CCce
Confidence 47777776 777777788865 56899985 5999986654 233333211 22455531 2346
Q ss_pred ceeCCeecCCCCeeecCCCCEEEEcCce
Q 010608 467 TYLNDNPIEPQRYYELFEKDTIKFGNSS 494 (506)
Q Consensus 467 TfVNGeRI~~~r~~eL~dGDvIkFG~St 494 (506)
+||||.+...+.+ |--+-+|.+....
T Consensus 63 vwVnG~~~~~~~~--LPl~q~Ie~aG~~ 88 (395)
T PRK15367 63 VRVNGRRFNPNKP--LPSSGVLQVAGVA 88 (395)
T ss_pred EEECCEEcCCCCC--CCCcchhhhcceE
Confidence 8999998877655 5555666655544
No 42
>PF02824 TGS: TGS domain; InterPro: IPR004095 The TGS domain is present in a number of enzymes, for example, in threonyl-tRNA synthetase (ThrRS), GTPase, and guanosine-3',5'-bis(diphosphate) 3'-pyrophosphohydrolase (SpoT) []. The TGS domain is also present at the amino terminus of the uridine kinase from the spirochaete Treponema pallidum (but not any other organism, including the related spirochaete Borrelia burgdorferi). TGS is a small domain that consists of ~50 amino acid residues and is predicted to possess a predominantly beta-sheet structure. There is no direct information on the functions of the TGS domain, but its presence in two types of regulatory proteins (the GTPases and guanosine polyphosphate phosphohydrolases/synthetases) suggests a ligand (most likely nucleotide)-binding, regulatory role []. ; PDB: 1WXQ_A 1NYR_B 1NYQ_B 2KMM_A 1WWT_A 1TKE_A 1TKG_A 1TJE_A 1QF6_A 1TKY_A ....
Probab=32.50 E-value=29 Score=27.49 Aligned_cols=23 Identities=13% Similarity=0.228 Sum_probs=17.5
Q ss_pred cceeCCeecCCCCeeecCCCCEEEE
Q 010608 466 KTYLNDNPIEPQRYYELFEKDTIKF 490 (506)
Q Consensus 466 GTfVNGeRI~~~r~~eL~dGDvIkF 490 (506)
+..|||+.+.-. ++|.+||+|.|
T Consensus 36 ~A~Vng~~vdl~--~~L~~~d~v~i 58 (60)
T PF02824_consen 36 AAKVNGQLVDLD--HPLEDGDVVEI 58 (60)
T ss_dssp EEEETTEEEETT--SBB-SSEEEEE
T ss_pred EEEEcCEECCCC--CCcCCCCEEEE
Confidence 455888888754 58999999987
No 43
>cd01666 TGS_DRG_C TGS_DRG_C: DRG (developmentally regulated GTP-binding protein) represents a family of GTP-binding proteins that includes two members, DRG1 and DRG2. DRG1 and DRG2 have a C-terminal TGS domain (named after the ThrRS, GTPase, and SpoT proteins where it occurs) with a predominantly beta-sheet structure. The function of TGS is unknown but its presence in two types of regulatory proteins (the DRG GTPases and guanosine polyphosphate phosphohydrolases/synthetases) suggests a ligand (most likely nucleotide)-binding, regulatory role.
Probab=29.22 E-value=50 Score=27.82 Aligned_cols=20 Identities=10% Similarity=0.155 Sum_probs=17.1
Q ss_pred eCCeecCCCCeeecCCCCEEEE
Q 010608 469 LNDNPIEPQRYYELFEKDTIKF 490 (506)
Q Consensus 469 VNGeRI~~~r~~eL~dGDvIkF 490 (506)
+||++|... ++|++||+|+|
T Consensus 54 ~~gq~Vgl~--~~L~d~DvVeI 73 (75)
T cd01666 54 HSPQRVGLD--HVLEDEDVVQI 73 (75)
T ss_pred CCCeECCCC--CEecCCCEEEE
Confidence 588999865 58999999987
No 44
>PRK06437 hypothetical protein; Provisional
Probab=29.20 E-value=57 Score=26.52 Aligned_cols=23 Identities=13% Similarity=0.234 Sum_probs=17.2
Q ss_pred cceeCCeecCCCCeeecCCCCEEEE
Q 010608 466 KTYLNDNPIEPQRYYELFEKDTIKF 490 (506)
Q Consensus 466 GTfVNGeRI~~~r~~eL~dGDvIkF 490 (506)
...|||..|+ ..+.|++||.|.|
T Consensus 38 aV~vNg~iv~--~~~~L~dgD~Vei 60 (67)
T PRK06437 38 VVIVNGSPVL--EDHNVKKEDDVLI 60 (67)
T ss_pred EEEECCEECC--CceEcCCCCEEEE
Confidence 4456777776 3468999999986
No 45
>cd04089 eRF3_II eRF3_II: domain II of the eukaryotic class II release factor (eRF3). In eukaryotes, translation termination is mediated by two interacting release factors, eRF1 and eRF3, which act as class I and II factors, respectively. eRF1 functions as an omnipotent release factor, decoding all three stop codons and triggering the release of the nascent peptide catalyzed by the ribsome. eRF3 is a GTPase, which enhances the termination efficiency by stimulating the eRF1 activity in a GTP-dependent manner. Sequence comparison of class II release factors with elongation factors shows that eRF3 is more similar to eEF1alpha whereas prokaryote RF3 is more similar to EF-G, implying that their precise function may differ. Only eukaryote RF3s are found in this group. Saccharomyces cerevisiae eRF3 (Sup35p) is a translation termination factor which is divided into three regions N, M and a C-terminal eEF1a-like region essential for translation termination. Sup35NM is a non-pathogenic prion-li
Probab=28.82 E-value=54 Score=27.07 Aligned_cols=26 Identities=12% Similarity=0.056 Sum_probs=19.8
Q ss_pred CcceeCCeecCCCCeeecCCCCEEEEcCce
Q 010608 465 NKTYLNDNPIEPQRYYELFEKDTIKFGNSS 494 (506)
Q Consensus 465 NGTfVNGeRI~~~r~~eL~dGDvIkFG~St 494 (506)
+||.|.| +|..+ .|+.||.|.|..+.
T Consensus 13 ~g~vv~G-~v~~G---~i~~G~~v~i~P~~ 38 (82)
T cd04089 13 MGTVVLG-KVESG---TIKKGDKLLVMPNK 38 (82)
T ss_pred CCEEEEE-EEeee---EEecCCEEEEeCCC
Confidence 4888888 45555 78899999888754
No 46
>KOG0835 consensus Cyclin L [General function prediction only]
Probab=27.34 E-value=76 Score=34.25 Aligned_cols=23 Identities=39% Similarity=0.748 Sum_probs=11.7
Q ss_pred CCCcccccccccccCCcccccCCCCC
Q 010608 47 SSPAREKERHSSRAKSPKRAQSQSPV 72 (506)
Q Consensus 47 rsp~~~~~~~~~~~~~~~~~~s~sp~ 72 (506)
.||++.+ |+.+-+ .+.+.+.||+
T Consensus 288 ~s~~~~~--~kk~~e-s~k~~sesp~ 310 (367)
T KOG0835|consen 288 PSPVRTK--HKKRPE-SRKSKSESPS 310 (367)
T ss_pred CCccccc--cccCcc-cccccccCCC
Confidence 6666665 443333 3444455554
No 47
>TIGR02712 urea_carbox urea carboxylase. Members of this family are ATP-dependent urea carboxylase, including characterized members from Oleomonas sagaranensis (alpha class Proteobacterium) and yeasts such as Saccharomyces cerevisiae. The allophanate hydrolase domain of the yeast enzyme is not included in this model and is represented by an adjacent gene in Oleomonas sagaranensis. The fusion of urea carboxylase and allophanate hydrolase is designated urea amidolyase. The enzyme from Oleomonas sagaranensis was shown to be highly active on acetamide and formamide as well as urea.
Probab=26.60 E-value=1.5e+02 Score=36.67 Aligned_cols=43 Identities=19% Similarity=0.340 Sum_probs=34.3
Q ss_pred EEeCCCCCcceeCCeecCCCCeeecCCCCEEEEcCce----EEEEEe
Q 010608 458 IMDLGSTNKTYLNDNPIEPQRYYELFEKDTIKFGNSS----REYVLL 500 (506)
Q Consensus 458 LiDLgSTNGTfVNGeRI~~~r~~eL~dGDvIkFG~St----reYVLl 500 (506)
|.=.|-.-...|||+.|.....+.|..||+|+||... +.|+-+
T Consensus 519 ialtGa~~~~~l~g~~v~~~~~~~v~~G~~L~~g~~~~~G~r~Ylav 565 (1201)
T TIGR02712 519 IAITGAPAPATLDGQPVPQWKPITVKAGSTLSIGKIAGSGCRTYLAI 565 (1201)
T ss_pred EEEeCCCCcceECCEEcCCCeEEEECCCCEEEecCCCcCceEEEEEe
Confidence 3334555678899999999999999999999999755 677654
No 48
>PF02597 ThiS: ThiS family; InterPro: IPR003749 ThiS (thiaminS) is a 66 aa protein involved in sulphur transfer. ThiS is coded in the thiCEFSGH operon in Escherichia coli. This family of proteins have two conserved Glycines at the COOH terminus. Thiocarboxylate is formed at the last G in the activation process. Sulphur is transferred from ThiI to ThiS in a reaction catalysed by IscS []. MoaD, a protein involved in sulphur transfer during molybdopterin synthesis, is about the same length and shows limited sequence similarity to ThiS. Both have the conserved GG at the COOH end.; PDB: 1JW9_D 1JWB_D 1JWA_D 3BII_D 1NVI_D 1FMA_D 1FM0_D 2QIE_G 2Q5W_D 2K5P_A ....
Probab=26.57 E-value=39 Score=26.80 Aligned_cols=26 Identities=12% Similarity=0.045 Sum_probs=17.4
Q ss_pred CcceeCCeecCC-CCeeecCCCCEEEE
Q 010608 465 NKTYLNDNPIEP-QRYYELFEKDTIKF 490 (506)
Q Consensus 465 NGTfVNGeRI~~-~r~~eL~dGDvIkF 490 (506)
--.+|||+.|.. +..+.|.+||.|.|
T Consensus 44 ~~v~vN~~~v~~~~~~~~l~~gD~V~i 70 (77)
T PF02597_consen 44 VAVAVNGEIVPDDGLDTPLKDGDEVAI 70 (77)
T ss_dssp EEEEETTEEEGGGTTTSBEETTEEEEE
T ss_pred EEEEECCEEcCCccCCcCcCCCCEEEE
Confidence 344566666665 22358999999987
No 49
>TIGR01683 thiS thiamine biosynthesis protein ThiS. This model represents ThiS, a small thiamine-biosynthesis protein related to MoaD, a molybdenum cofactor biosynthesis protein. Both proteins are involved in sulfur transfer. ThiS has a conserved Gly-Gly C-terminus that is modified, in reactions requiring ThiI, ThiF, IscS, and a sulfur atom from Cys, into the thiocarboxylate that provides the sulfur for thiazole biosynthesis.
Probab=26.31 E-value=53 Score=26.05 Aligned_cols=22 Identities=23% Similarity=0.196 Sum_probs=15.5
Q ss_pred eCCeecCCCC--eeecCCCCEEEE
Q 010608 469 LNDNPIEPQR--YYELFEKDTIKF 490 (506)
Q Consensus 469 VNGeRI~~~r--~~eL~dGDvIkF 490 (506)
|||+-|.+.. .+.|++||.|.|
T Consensus 34 vN~~iv~~~~~~~~~L~~gD~vei 57 (64)
T TIGR01683 34 VNGEIVPRSEWDDTILKEGDRIEI 57 (64)
T ss_pred ECCEEcCHHHcCceecCCCCEEEE
Confidence 5776665433 357999999976
No 50
>KOG3263 consensus Nucleic acid binding protein [General function prediction only]
Probab=25.42 E-value=28 Score=34.37 Aligned_cols=81 Identities=41% Similarity=0.558 Sum_probs=0.0
Q ss_pred CCCCCCCCCCCCCCCC------CCCCccccccCC--CCCccccCCCCCCCCCCCCCCcccccccccccCCcccccCCCCC
Q 010608 1 MGRNLSNHSESPVRDQ------GGPSRRRSLSRK--SPSRRERSPVLHRSSHRGSSPAREKERHSSRAKSPKRAQSQSPV 72 (506)
Q Consensus 1 ~~~~~~~~~~~~~~~~------~~~~~~~~~~~~--~~~~r~rsp~~~~~s~r~rsp~~~~~~~~~~~~~~~~~~s~sp~ 72 (506)
||++-+ |+|+...+ +---+++++|++ -+.++.--++.+..| |.+|| +.+
T Consensus 1 mgR~rs--srsr~~~R~Re~~R~~~dRrrErsRsREr~~~rrdr~~r~~~S-r~~sp-rr~------------------- 57 (196)
T KOG3263|consen 1 MGRSRS--SRSRDDRRDRERRRSRRDRRRERSRSRERRDRRRDRYERHKES-RSRSP-RRN------------------- 57 (196)
T ss_pred CCcCcc--cccccchhhHHHhhhHHHHHHHHHhhhhhhhhhcccccccccc-cccCc-ccc-------------------
Q ss_pred CCCCChhhhhhhcchhhhhcccchhHHHhhhcCCcCCCCcccCCCCCCCh
Q 010608 73 SRSPSPRTRRLMRSRDERELGKVTEREQERNHSRKSDRGTHIGKSSSPSP 122 (506)
Q Consensus 73 ~~sp~~~~~~~~~~~~~re~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~ 122 (506)
|+|-. ++-.+.-.|.+.|+-+-.|+-+ .|+||
T Consensus 58 -r~per----------~rsRsR~reRdrErdR~R~~r~-------rs~Sp 89 (196)
T KOG3263|consen 58 -RSPER----------KRSRSRSRERDRERDRERKKRR-------RSVSP 89 (196)
T ss_pred -cchhh----------hccccccccchhhhHHHHHhhh-------cccCC
No 51
>PF09269 DUF1967: Domain of unknown function (DUF1967); InterPro: IPR015349 The Obg family comprises a group of ancient P-loop small G proteins (GTPases) belonging to the TRAFAC (for translation factors) class and can be subdivided into several distinct protein subfamilies []. OBG GTPases have been found in both prokaryotes and eukaryotes []. The structure of the OBG GTPase from Thermus thermophilus has been determined []. This entry represents a C-terminal domain found in certain OBG GTPases. This domain contains a four-stranded beta sheet and three alpha helices flanked by an additional beta strand. It is predominantly found in the bacterial GTP-binding protein Obg, and is functionally uncharacterised. ; GO: 0000166 nucleotide binding; PDB: 1UDX_A.
Probab=25.12 E-value=54 Score=27.04 Aligned_cols=16 Identities=38% Similarity=0.569 Sum_probs=11.1
Q ss_pred cCCCCEEEEcCceEEE
Q 010608 482 LFEKDTIKFGNSSREY 497 (506)
Q Consensus 482 L~dGDvIkFG~StreY 497 (506)
+++||+|.||...++|
T Consensus 54 ~~~GD~V~Ig~~eFe~ 69 (69)
T PF09269_consen 54 AKEGDTVRIGDYEFEY 69 (69)
T ss_dssp --TT-EEEETTEEEE-
T ss_pred CCCCCEEEEcCEEEEC
Confidence 7899999999988776
No 52
>PF08648 DUF1777: Protein of unknown function (DUF1777); InterPro: IPR013957 This entry shows eukaryotic proteins of unknown function. Some of the proteins are putative nucleic acid binding proteins.
Probab=24.36 E-value=2.5e+02 Score=26.51 Aligned_cols=6 Identities=17% Similarity=0.468 Sum_probs=2.3
Q ss_pred Cccccc
Q 010608 354 SFELSG 359 (506)
Q Consensus 354 nFe~SG 359 (506)
.++.+|
T Consensus 132 ~MGf~g 137 (180)
T PF08648_consen 132 MMGFGG 137 (180)
T ss_pred hhcccc
Confidence 333333
No 53
>KOG4368 consensus Predicted RNA binding protein, contains SWAP, RPR and G-patch domains [General function prediction only]
Probab=23.98 E-value=1.3e+02 Score=34.77 Aligned_cols=18 Identities=28% Similarity=0.433 Sum_probs=7.6
Q ss_pred cCCcCCCCcccCCCCCCCh
Q 010608 104 HSRKSDRGTHIGKSSSPSP 122 (506)
Q Consensus 104 ~~~~~~~~~~~~~~~~~~~ 122 (506)
++.-.++.. .|.-+++.|
T Consensus 666 Rsr~~~r~~-~g~~~~s~~ 683 (757)
T KOG4368|consen 666 RSRSPTPPS-AGLGSNSAP 683 (757)
T ss_pred cCCCCCCCC-CccccCCCc
Confidence 333333333 344455544
No 54
>cd00565 ThiS ThiaminS ubiquitin-like sulfur carrier protein. ThiS (ThiaminS) is a sulfur carrier protein involved in thiamin biosynthesis in bacteria. The ThiS fold, like those of two closely related proteins MoaD and Urm1, is similar to that of ubiquitin although there is little or no sequence similarity.
Probab=23.49 E-value=73 Score=25.24 Aligned_cols=24 Identities=21% Similarity=0.206 Sum_probs=16.7
Q ss_pred ceeCCeecCCC--CeeecCCCCEEEE
Q 010608 467 TYLNDNPIEPQ--RYYELFEKDTIKF 490 (506)
Q Consensus 467 TfVNGeRI~~~--r~~eL~dGDvIkF 490 (506)
..|||+.|... ..+.|++||.|.|
T Consensus 33 V~vNg~~v~~~~~~~~~L~~gD~V~i 58 (65)
T cd00565 33 VALNGEIVPRSEWASTPLQDGDRIEI 58 (65)
T ss_pred EEECCEEcCHHHcCceecCCCCEEEE
Confidence 44677766653 2257999999986
No 55
>PRK06488 sulfur carrier protein ThiS; Validated
Probab=23.20 E-value=57 Score=25.88 Aligned_cols=23 Identities=22% Similarity=0.359 Sum_probs=15.7
Q ss_pred eeCCeecCCCC--eeecCCCCEEEE
Q 010608 468 YLNDNPIEPQR--YYELFEKDTIKF 490 (506)
Q Consensus 468 fVNGeRI~~~r--~~eL~dGDvIkF 490 (506)
-||++-|+... .+.|.+||.|.|
T Consensus 34 avN~~iv~~~~~~~~~L~dgD~Iei 58 (65)
T PRK06488 34 AVNGELVHKEARAQFVLHEGDRIEI 58 (65)
T ss_pred EECCEEcCHHHcCccccCCCCEEEE
Confidence 35666665432 357999999986
No 56
>PF12538 FtsK_SpoIIIE_N: DNA transporter ; InterPro: IPR022206 This domain family is found in bacteria, and is typically between 107 and 121 amino acids in length. The family is found in association with PF01580 from PFAM. The FtsK/SpoIIIE family of DNA transporters are responsible for translocating missegregated chromosomes after the completion of cell division. ; PDB: 1WV3_A.
Probab=23.02 E-value=2.4e+02 Score=25.09 Aligned_cols=43 Identities=21% Similarity=0.365 Sum_probs=22.3
Q ss_pred EEEEecCceeeeeEEecc--cceeeecccccccceecCCCCcCccceEEEEec
Q 010608 390 LYVFKAGEMLKEPLYIHR--QSCYLFGRERRVADIPTDHPSCSKQHAVIQFRQ 440 (506)
Q Consensus 390 L~VfKdGe~i~e~I~L~r--ks~ylIGRdr~~cDIvLddPSVSRqHAvIq~r~ 440 (506)
|.||- +..+ +.+.|.. ...++||-+ ..++|.|.+. ...|++..
T Consensus 2 L~I~Y-~~~~-qk~~L~~~~~k~vtIG~~-~~~~ITi~~l-----~~~I~l~~ 46 (113)
T PF12538_consen 2 LWIFY-GQQL-QKYELSPKEDKTVTIGND-EKADITIPSL-----EEPITLKW 46 (113)
T ss_dssp EEEEE-TTEE-EEEE--T--T--EEEES--TTSSEE-TT---------EEEEE
T ss_pred EEEEe-CCEE-EEEECCcccCccEEECCC-ccccEEccCC-----CccEEEEE
Confidence 45554 4444 4566665 788999998 7899998775 45555543
No 57
>PF14451 Ub-Mut7C: Mut7-C ubiquitin
Probab=22.52 E-value=82 Score=26.97 Aligned_cols=23 Identities=22% Similarity=0.431 Sum_probs=18.2
Q ss_pred ceeCCeecCCCCeeecCCCCEEEEc
Q 010608 467 TYLNDNPIEPQRYYELFEKDTIKFG 491 (506)
Q Consensus 467 TfVNGeRI~~~r~~eL~dGDvIkFG 491 (506)
.+|||..+... +.|++||.|.|=
T Consensus 52 i~vNG~~v~~~--~~~~~Gd~v~V~ 74 (81)
T PF14451_consen 52 ILVNGRPVDFD--YRLKDGDRVAVY 74 (81)
T ss_pred EEECCEECCCc--ccCCCCCEEEEE
Confidence 45788888764 689999999874
No 58
>TIGR03595 Obg_CgtA_exten Obg family GTPase CgtA, C-terminal extension. CgtA (see model TIGR02729) is a broadly conserved member of the obg family of GTPases associated with ribosome maturation. This model represents a unique C-terminal domain found in some but not all sequences of CgtA. This region is preceded, and may be followed, by a region of low-complexity sequence.
Probab=22.48 E-value=61 Score=26.75 Aligned_cols=25 Identities=20% Similarity=0.331 Sum_probs=17.9
Q ss_pred eCCeecCCCCeeecCCCCEEEEcCceEEE
Q 010608 469 LNDNPIEPQRYYELFEKDTIKFGNSSREY 497 (506)
Q Consensus 469 VNGeRI~~~r~~eL~dGDvIkFG~StreY 497 (506)
|+......| +++||+|.||...++|
T Consensus 45 v~~~L~~~G----~~~GD~V~Ig~~eFe~ 69 (69)
T TIGR03595 45 VEDALRKAG----AKDGDTVRIGDFEFEW 69 (69)
T ss_pred HHHHHHHcC----CCCCCEEEEccEEEeC
Confidence 333444444 7999999999887765
No 59
>PF09138 Urm1: Urm1 (Ubiquitin related modifier); InterPro: IPR015221 Ubiquitin related modifier 1 (Urm1) is a ubiquitin related protein that modifies proteins in the yeast ubiquitin-like urmylation pathway []. Structural comparisons and phylogenetic analysis of the ubiquitin superfamily has indicated that Urm1 has the most conserved structural and sequence features of the common ancestor of the entire superfamily []. ; GO: 0034227 tRNA thio-modification, 0005737 cytoplasm; PDB: 2AX5_A 2QJL_A 2PKO_A 1WGK_A 1XO3_A 2K9X_A.
Probab=20.67 E-value=43 Score=29.80 Aligned_cols=24 Identities=29% Similarity=0.393 Sum_probs=15.3
Q ss_pred eeCCe--ecCCCCeeecCCCCEEEEc
Q 010608 468 YLNDN--PIEPQRYYELFEKDTIKFG 491 (506)
Q Consensus 468 fVNGe--RI~~~r~~eL~dGDvIkFG 491 (506)
+||+. .|.....|+|++||.|.|=
T Consensus 65 LINd~DwEl~g~~~y~l~~~D~I~Fi 90 (96)
T PF09138_consen 65 LINDADWELLGEEDYVLKDGDNITFI 90 (96)
T ss_dssp EETTCEHHHHTCCCSB--TTEEEEEE
T ss_pred EEcCccceeecCcceEcCCCCEEEEE
Confidence 35665 3444566899999999983
No 60
>COG5131 URM1 Ubiquitin-like protein [Posttranslational modification, protein turnover, chaperones]
Probab=20.20 E-value=65 Score=28.84 Aligned_cols=24 Identities=29% Similarity=0.364 Sum_probs=18.0
Q ss_pred eeCCe--ecCCCCeeecCCCCEEEEc
Q 010608 468 YLNDN--PIEPQRYYELFEKDTIKFG 491 (506)
Q Consensus 468 fVNGe--RI~~~r~~eL~dGDvIkFG 491 (506)
.||+. .|-..+.|.|.+||+|.|=
T Consensus 65 LINd~DWeLleke~y~ledgDiIvfi 90 (96)
T COG5131 65 LINDMDWELLEKERYPLEDGDIIVFI 90 (96)
T ss_pred EEcCccHhhhhcccccCCCCCEEEEE
Confidence 45766 4555667899999999884
Done!