Query psy14757
Match_columns 90
No_of_seqs 109 out of 266
Neff 4.0
Searched_HMMs 46136
Date Fri Aug 16 19:51:01 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy14757.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/14757hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1770|consensus 100.0 1E-30 2.2E-35 182.1 6.6 77 1-77 12-99 (112)
2 TIGR01160 SUI1_MOF2 translatio 99.9 2.1E-25 4.5E-30 154.8 7.1 77 1-77 10-97 (110)
3 COG0023 SUI1 Translation initi 99.8 6.6E-20 1.4E-24 126.6 5.3 65 12-76 22-93 (104)
4 cd00474 SUI1_eIF1 The SUI1/eIF 99.7 4.7E-18 1E-22 110.9 4.8 61 17-77 1-67 (77)
5 PF01253 SUI1: Translation ini 99.7 1.6E-16 3.5E-21 103.2 6.3 64 13-76 2-76 (83)
6 PRK06824 translation initiatio 99.7 1.8E-16 3.9E-21 111.3 5.7 73 14-87 39-118 (118)
7 PRK00939 translation initiatio 99.6 3.4E-16 7.4E-21 106.5 5.9 66 12-77 20-91 (99)
8 PRK07451 translation initiatio 99.6 7.9E-16 1.7E-20 107.7 5.9 71 16-87 36-115 (115)
9 TIGR01159 DRP1 density-regulat 99.6 8.4E-16 1.8E-20 113.5 6.0 64 14-77 87-161 (173)
10 PRK09019 translation initiatio 99.6 1.2E-15 2.7E-20 105.8 5.6 73 13-87 28-108 (108)
11 TIGR01158 SUI1_rel translation 99.6 2E-15 4.3E-20 102.8 6.1 66 13-78 21-93 (101)
12 KOG3239|consensus 99.2 1.2E-11 2.7E-16 93.0 4.6 56 15-70 100-156 (193)
13 KOG2522|consensus 96.1 0.0064 1.4E-07 52.0 3.7 62 15-76 466-539 (560)
14 KOG1548|consensus 76.6 2.4 5.2E-05 35.4 2.7 43 32-78 137-179 (382)
15 COG2080 CoxS Aerobic-type carb 72.5 3.6 7.8E-05 30.4 2.5 28 28-55 69-97 (156)
16 PF11608 Limkain-b1: Limkain b 72.2 7.7 0.00017 26.6 3.9 34 30-63 3-37 (90)
17 PF05046 Img2: Mitochondrial l 61.6 39 0.00084 22.1 5.6 58 17-76 13-84 (87)
18 PF03477 ATP-cone: ATP cone do 59.5 8.4 0.00018 24.1 2.1 26 20-54 1-26 (90)
19 TIGR03193 4hydroxCoAred 4-hydr 57.8 9.1 0.0002 27.9 2.2 28 28-55 67-94 (148)
20 PRK09908 xanthine dehydrogenas 56.8 9.9 0.00022 28.0 2.3 28 28-55 73-100 (159)
21 PRK03988 translation initiatio 52.0 15 0.00033 26.3 2.6 34 25-60 37-75 (138)
22 PF11388 DotA: Phagosome traff 51.9 8.6 0.00019 26.9 1.3 26 33-60 3-29 (105)
23 TIGR03198 pucE xanthine dehydr 45.9 17 0.00038 26.3 2.1 27 28-55 69-95 (151)
24 KOG4616|consensus 42.8 10 0.00022 27.4 0.5 31 21-51 98-128 (137)
25 TIGR00311 aIF-2beta translatio 41.8 26 0.00056 24.9 2.5 32 27-60 34-70 (133)
26 KOG4034|consensus 39.4 64 0.0014 24.4 4.3 58 19-76 97-166 (169)
27 PRK11433 aldehyde oxidoreducta 39.3 27 0.00059 26.9 2.4 27 28-54 117-143 (217)
28 KOG1372|consensus 35.7 20 0.00044 29.6 1.3 23 51-85 202-224 (376)
29 PRK12336 translation initiatio 33.0 46 0.001 24.8 2.7 35 25-61 33-72 (201)
30 PF09776 Mitoc_L55: Mitochondr 32.9 13 0.00027 26.4 -0.3 31 22-52 86-116 (116)
31 smart00653 eIF2B_5 domain pres 32.5 54 0.0012 22.6 2.8 37 25-62 13-54 (110)
32 PF00076 RRM_1: RNA recognitio 27.6 69 0.0015 17.8 2.3 20 33-52 2-21 (70)
33 PF04461 DUF520: Protein of un 26.9 34 0.00074 25.5 1.1 26 26-52 89-114 (160)
34 PF02946 GTF2I: GTF2I-like rep 26.1 75 0.0016 21.0 2.5 20 32-51 37-64 (76)
35 TIGR03313 Se_sel_red_Mo probab 25.6 51 0.0011 30.1 2.1 28 28-55 64-91 (951)
36 PRK05412 putative nucleotide-b 25.4 39 0.00086 25.2 1.2 51 26-77 89-148 (161)
37 KOG3438|consensus 24.9 17 0.00037 25.5 -0.8 39 13-54 53-92 (105)
38 PF11543 UN_NPL4: Nuclear pore 24.2 1.3E+02 0.0027 19.3 3.3 36 15-54 2-37 (80)
39 PF01799 Fer2_2: [2Fe-2S] bind 24.0 40 0.00086 21.7 0.9 22 33-54 1-22 (75)
40 smart00362 RRM_2 RNA recogniti 20.4 1.2E+02 0.0027 16.0 2.4 19 33-51 3-21 (72)
No 1
>KOG1770|consensus
Probab=99.97 E-value=1e-30 Score=182.09 Aligned_cols=77 Identities=57% Similarity=0.857 Sum_probs=68.4
Q ss_pred CCcccCCC-CCCCCCcCeEEEEEEeeeCCeeEEEEecCCCCcchHHHHHHHhhhhccccEEEecCCCC----------cc
Q psy14757 1 PFADAFKG-SEDDVQDGLVHIRIQQRNGRKTLTTVQGLSSEYDLKKIVRACKKEFACNGTVIEVSRDT----------FP 69 (90)
Q Consensus 1 pfa~~~~~-d~~~~~~~~IhIRiqqRngrK~vTtVeGL~~~~dlKki~K~lKkkfaCgGtV~e~~e~~----------~~ 69 (90)
|||++.++ ++.+++.++||||||||||||++||||||+.+||+|+|+++|||+|||||||++|+|+| .+
T Consensus 12 pfad~~~~~~~~~g~~~~ihIRIQQRnGrKtlTtVQgi~~Eyd~kril~~lKKef~CnGtvved~e~gevIQLqGDqR~n 91 (112)
T KOG1770|consen 12 PFADARAGEDDIAGTEKYIHIRIQQRNGRKTLTTVQGIPMEYDLKKILKSLKKEFACNGTVVEDPEYGEVIQLQGDQRKN 91 (112)
T ss_pred cccccccccccccCccceEEEEEEeeCCceEEEEecCChhhhhHHHHHHHHHHhccCCCeEecCcccCceEEeccchhhh
Confidence 89999887 33577788999999999999999999999999999999999999999999999999866 46
Q ss_pred hhhhhhcc
Q psy14757 70 LCDFYRAT 77 (90)
Q Consensus 70 I~~~lr~~ 77 (90)
+|+||...
T Consensus 92 v~~fl~~~ 99 (112)
T KOG1770|consen 92 VCQFLVQV 99 (112)
T ss_pred HHHHHHHh
Confidence 67777543
No 2
>TIGR01160 SUI1_MOF2 translation initiation factor SUI1, eukaryotic. Alternate name: MOF2. A similar protein family (see TIGRFAMs model TIGR01158) is found in prokaryotes. The human proteins complements a yeast SUI1 mutatation.
Probab=99.92 E-value=2.1e-25 Score=154.78 Aligned_cols=77 Identities=61% Similarity=0.848 Sum_probs=65.1
Q ss_pred CCcccCCCCCCC-CCcCeEEEEEEeeeCCeeEEEEecCCCCcchHHHHHHHhhhhccccEEEecCCCC----------cc
Q psy14757 1 PFADAFKGSEDD-VQDGLVHIRIQQRNGRKTLTTVQGLSSEYDLKKIVRACKKEFACNGTVIEVSRDT----------FP 69 (90)
Q Consensus 1 pfa~~~~~d~~~-~~~~~IhIRiqqRngrK~vTtVeGL~~~~dlKki~K~lKkkfaCgGtV~e~~e~~----------~~ 69 (90)
||+|++++++.. .++++||||++||+|||+||+|+||+.++||++|+|.||++|||||||+++++++ ++
T Consensus 10 pf~d~~~~~~~~~~~~~~I~Iri~qR~grK~VTiI~Gl~~~~dlk~l~K~lKkk~~cGGsVk~~~~~~~~IelQGD~re~ 89 (110)
T TIGR01160 10 PFADAGDDDSALPGTSNYIHIRIQQRNGRKTLTTVQGLPKEYDLKKIVKALKKEFACNGTVIEDPEMGEVIQLQGDQRKN 89 (110)
T ss_pred CccccccccccccCccceEEEEEEEccCCccEEEEeccCChHHHHHHHHHHHHHhCCCceEEeCCCCCCEEEEeCcHHHH
Confidence 899986655432 4688999999999999999999999999999999999999999999999986643 55
Q ss_pred hhhhhhcc
Q psy14757 70 LCDFYRAT 77 (90)
Q Consensus 70 I~~~lr~~ 77 (90)
|.+||.+.
T Consensus 90 v~~~L~~~ 97 (110)
T TIGR01160 90 VCEFLISQ 97 (110)
T ss_pred HHHHHHHc
Confidence 66666553
No 3
>COG0023 SUI1 Translation initiation factor 1 (eIF-1/SUI1) and related proteins [Translation, ribosomal structure and biogenesis]
Probab=99.80 E-value=6.6e-20 Score=126.60 Aligned_cols=65 Identities=32% Similarity=0.474 Sum_probs=60.0
Q ss_pred CCC-cCeEEEEEEeeeCCeeEEEEecCCC-CcchHHHHHHHhhhhccccEEEecC-----CCCcchhhhhhc
Q psy14757 12 DVQ-DGLVHIRIQQRNGRKTLTTVQGLSS-EYDLKKIVRACKKEFACNGTVIEVS-----RDTFPLCDFYRA 76 (90)
Q Consensus 12 ~~~-~~~IhIRiqqRngrK~vTtVeGL~~-~~dlKki~K~lKkkfaCgGtV~e~~-----e~~~~I~~~lr~ 76 (90)
+++ +++|+|++++|++||.||+|+||+. ++||++|+++||++|||||||+++. +|.+.|.+||.+
T Consensus 22 ~k~~~~~V~I~~e~rr~gK~VTiI~Gld~~~~dlk~Lak~LKk~cacGGtvk~~~IeiQGdhr~~v~~~L~~ 93 (104)
T COG0023 22 AKEGDQIVRIRRETRRKGKTVTIIEGLDLKDIDLKKLAKELKKKCACGGTVKDGEIEIQGDHRDKVKELLIK 93 (104)
T ss_pred ccccCCeEEEEEEeecCCcEEEEEeCcccchhhHHHHHHHHHHHcCCCceecCCEEEEeChHHHHHHHHHHH
Confidence 445 8999999999999999999999997 8999999999999999999999872 588999999987
No 4
>cd00474 SUI1_eIF1 The SUI1/eIF1 (eukaryotic initiation factor 1) fold is found in eukaryotes, archaea, and some bacteria and is thought to play an important role in accurate initiator codon recognition during translation initiation. This fold, which includes two antiparallel alpha helices packed against the same side of a five-strand beta sheet, is structurally similar to other RNA-binding domains suggesting that SUI1/eIF1 may bind RNA. Point mutations in the yeast eIF1 implicate the protein in maintaining accurate start-site selection but its mechanism of action is unknown.
Probab=99.73 E-value=4.7e-18 Score=110.90 Aligned_cols=61 Identities=49% Similarity=0.665 Sum_probs=54.2
Q ss_pred eEEEEEEeeeCCeeEEEEecCCCC-cchHHHHHHHhhhhccccEEEec-----CCCCcchhhhhhcc
Q psy14757 17 LVHIRIQQRNGRKTLTTVQGLSSE-YDLKKIVRACKKEFACNGTVIEV-----SRDTFPLCDFYRAT 77 (90)
Q Consensus 17 ~IhIRiqqRngrK~vTtVeGL~~~-~dlKki~K~lKkkfaCgGtV~e~-----~e~~~~I~~~lr~~ 77 (90)
.|||++++|++||+||+|+||+.. .|+++++|.||++|||||||++. -++.+.+.+||.+.
T Consensus 1 ~V~I~~e~R~~~K~VT~I~Gl~~~~~dlk~l~k~lKk~~~cggtv~~~~I~lQGD~r~~v~~~L~~~ 67 (77)
T cd00474 1 VVRIRIQQRNGGKTVTTVQGLDLEYADLKKLAKELKKKCACGGTVKDEVIELQGDQRKKIKEFLIKM 67 (77)
T ss_pred CEEEEEEECCCCccEEEEECCCCchHhHHHHHHHHHHHcCCCcEEecCEEEEeCcHHHHHHHHHHHc
Confidence 489999999999999999999975 59999999999999999999874 24678888888764
No 5
>PF01253 SUI1: Translation initiation factor SUI1; InterPro: IPR001950 In Saccharomyces cerevisiae (Baker's yeast), SUI1 is a translation initiation factor that functions in concert with eIF-2 and the initiator tRNA-Met in directing the ribosome to the proper start site of translation []. SUI1 is a protein of 108 residues. Close homologs of SUI1 have been found [] in mammals, insects and plants. SUI1 is also evolutionary related to hypothetical proteins from Escherichia coli (yciH), Haemophilus influenzae (HI1225) and Methanococcus vannielii.; GO: 0003743 translation initiation factor activity, 0006413 translational initiation; PDB: 2OGH_A 1D1R_A 2IF1_A 2XZN_F 2XZM_F.
Probab=99.67 E-value=1.6e-16 Score=103.18 Aligned_cols=64 Identities=34% Similarity=0.550 Sum_probs=50.1
Q ss_pred CCcCeEEEEEEeeeCCeeEEEEecCC-CCcchHHHHHHHhhhhccccEEEecCC----------CCcchhhhhhc
Q psy14757 13 VQDGLVHIRIQQRNGRKTLTTVQGLS-SEYDLKKIVRACKKEFACNGTVIEVSR----------DTFPLCDFYRA 76 (90)
Q Consensus 13 ~~~~~IhIRiqqRngrK~vTtVeGL~-~~~dlKki~K~lKkkfaCgGtV~e~~e----------~~~~I~~~lr~ 76 (90)
++.+.|||++++|++||.||+|+||+ ..+|+++++|.||++|||+|||.+++. +..+|.+||.+
T Consensus 2 ~~~~~I~I~~e~r~~~K~vT~V~gl~~~~~d~~~lak~lkk~~ac~~sv~~~~~k~~~I~iQGd~~~~i~~~L~~ 76 (83)
T PF01253_consen 2 KEPPKIHIRVEKRRGRKFVTIVSGLELFGIDLKELAKELKKKFACGGSVTKDPGKGEEIQIQGDHRDEIKDLLVE 76 (83)
T ss_dssp S-TTCEEEEEEESSSSEEEEEEES--STTSHHHHHHHHHHHHHTS-EEEEE-TTTSSEEEEESS-HHHHHHHHHH
T ss_pred CCCCEEEEEEEeCcCCeEEEEEECCcccccCHHHHHHHHHHhccCceEEeecCCCCCEEEECCcHHHHHHHHHHH
Confidence 35789999999999999999999999 579999999999999999999987653 33456666654
No 6
>PRK06824 translation initiation factor Sui1; Validated
Probab=99.65 E-value=1.8e-16 Score=111.30 Aligned_cols=73 Identities=26% Similarity=0.415 Sum_probs=61.7
Q ss_pred CcCeEEEEEEee-eCCeeEEEEecCC-CCcchHHHHHHHhhhhccccEEEec-----CCCCcchhhhhhccCCCCCCCCC
Q psy14757 14 QDGLVHIRIQQR-NGRKTLTTVQGLS-SEYDLKKIVRACKKEFACNGTVIEV-----SRDTFPLCDFYRATPSRGKNRVG 86 (90)
Q Consensus 14 ~~~~IhIRiqqR-ngrK~vTtVeGL~-~~~dlKki~K~lKkkfaCgGtV~e~-----~e~~~~I~~~lr~~~~~~~~~~~ 86 (90)
.++.|||+++++ +++|.||+|+||+ .+.||++|+|.||++|+|||||+++ -++.+.|.+||.+.--+=| ++|
T Consensus 39 ~~~~vri~~~~kgr~gK~VTvI~Gl~~~~~dlk~l~K~LKkk~gcGGtvkd~~IeiQGD~r~~v~~~L~~~G~~~k-~~g 117 (118)
T PRK06824 39 GDGIVRVRRETKGRGGKTVTVITGVPLAEDALKELAKELKRRCGTGGTLKDGVIEIQGDHVELLLAELLKRGFKAK-KAG 117 (118)
T ss_pred cCceEEEEEEEccCCCceEEEEeCCcCCHHHHHHHHHHHHHHhcCCceEecCEEEEcCcHHHHHHHHHHHCCCeEe-ecc
Confidence 466999988866 8999999999999 5799999999999999999999875 2477889999998765555 555
Q ss_pred C
Q psy14757 87 G 87 (90)
Q Consensus 87 ~ 87 (90)
|
T Consensus 118 g 118 (118)
T PRK06824 118 G 118 (118)
T ss_pred C
Confidence 4
No 7
>PRK00939 translation initiation factor Sui1; Reviewed
Probab=99.64 E-value=3.4e-16 Score=106.50 Aligned_cols=66 Identities=21% Similarity=0.406 Sum_probs=58.2
Q ss_pred CCCcCeEEEEEEeeeCCeeEEEEecCC-CCcchHHHHHHHhhhhccccEEEec-----CCCCcchhhhhhcc
Q psy14757 12 DVQDGLVHIRIQQRNGRKTLTTVQGLS-SEYDLKKIVRACKKEFACNGTVIEV-----SRDTFPLCDFYRAT 77 (90)
Q Consensus 12 ~~~~~~IhIRiqqRngrK~vTtVeGL~-~~~dlKki~K~lKkkfaCgGtV~e~-----~e~~~~I~~~lr~~ 77 (90)
..+++.|||++++|+++|.||+|+||+ .++|+++++|.||++|+|||||+++ -++.+.|.+||.+.
T Consensus 20 ~~~~~~i~I~~ekr~~gK~VTiI~Gl~~~~~~lk~l~k~lKk~~gcGgsvk~~~I~iQGD~r~~v~~~L~~~ 91 (99)
T PRK00939 20 AKEQQRIKIKVDKRRYGKEVTIIEGIDPKDIDLKELAKKLKSKLACGGTVKDGRIELQGDHRERVKELLIKM 91 (99)
T ss_pred CccCceEEEEEEecCCCceEEEEeCCCCcchhHHHHHHHHHHHhCCCceEECCEEEEeCcHHHHHHHHHHHc
Confidence 345789999999999999999999999 5799999999999999999999865 24778888998863
No 8
>PRK07451 translation initiation factor Sui1; Validated
Probab=99.62 E-value=7.9e-16 Score=107.73 Aligned_cols=71 Identities=23% Similarity=0.338 Sum_probs=55.3
Q ss_pred CeEEEEEE-eee--CCeeEEEEecCCC-CcchHHHHHHHhhhhccccEEEec-----CCCCcchhhhhhccCCCCCCCCC
Q psy14757 16 GLVHIRIQ-QRN--GRKTLTTVQGLSS-EYDLKKIVRACKKEFACNGTVIEV-----SRDTFPLCDFYRATPSRGKNRVG 86 (90)
Q Consensus 16 ~~IhIRiq-qRn--grK~vTtVeGL~~-~~dlKki~K~lKkkfaCgGtV~e~-----~e~~~~I~~~lr~~~~~~~~~~~ 86 (90)
...||||+ +|+ ++|.||+|+||+. ++||++|+|.||++|+|||||+++ -++.++|.+||.+..-+=| ++|
T Consensus 36 ~~~~irI~~~r~gR~GK~VTvV~Gl~~~~~dlk~LaK~LK~k~gcGGtvkd~~IelQGD~r~~v~~~L~~~Gf~~k-~~g 114 (115)
T PRK07451 36 QQQNLRVQATRSGRKGKTVTVITGFQHKPETLAKLLKQLKTQCGSGGTVKDNTIEIQGDHRQKILEILIKLGYKAK-ISG 114 (115)
T ss_pred cceeEEEEEEecCCCCCeEEEEeCCCCCHHHHHHHHHHHHHHhcCCceEcCCEEEEcCcHHHHHHHHHHHCCCeEe-ecc
Confidence 34455555 344 4589999999996 599999999999999999999876 2578899999998765544 444
Q ss_pred C
Q psy14757 87 G 87 (90)
Q Consensus 87 ~ 87 (90)
|
T Consensus 115 g 115 (115)
T PRK07451 115 G 115 (115)
T ss_pred C
Confidence 4
No 9
>TIGR01159 DRP1 density-regulated protein DRP1. This protein family shows weak but suggestive similarity to translation initiation factor SUI1 and its prokaryotic homologs.
Probab=99.61 E-value=8.4e-16 Score=113.50 Aligned_cols=64 Identities=25% Similarity=0.359 Sum_probs=54.8
Q ss_pred CcCeEEEEEEeeeCCeeEEEEecCCC-CcchHHHHHHHhhhhccccEEEecCCCC----------cchhhhhhcc
Q psy14757 14 QDGLVHIRIQQRNGRKTLTTVQGLSS-EYDLKKIVRACKKEFACNGTVIEVSRDT----------FPLCDFYRAT 77 (90)
Q Consensus 14 ~~~~IhIRiqqRngrK~vTtVeGL~~-~~dlKki~K~lKkkfaCgGtV~e~~e~~----------~~I~~~lr~~ 77 (90)
..+.|+|++++|++||.||+|+||+. ++|+++++|.||++||||+||++++... +.|.+||.+.
T Consensus 87 ~~~~V~I~~~~R~krK~VT~V~GLe~f~idlk~laK~lkkkfacG~SV~k~~~~~~eI~IQGD~~~~v~e~L~~~ 161 (173)
T TIGR01159 87 LPQKVTIKREPRTKRKFVTVIKGLETFDIDLKKASKTFAQKFATGCSVSKSVTGKEEIVIQGDVMDDIEDYIHEK 161 (173)
T ss_pred CCCeEEEEEEecCCCceEEEEeCCcCCCcCHHHHHHHHHHHhCCCCccccCCCCCCEEEecCCHHHHHHHHHHHH
Confidence 46799999999999999999999997 8999999999999999999998766433 4455666554
No 10
>PRK09019 translation initiation factor Sui1; Validated
Probab=99.60 E-value=1.2e-15 Score=105.79 Aligned_cols=73 Identities=29% Similarity=0.398 Sum_probs=56.4
Q ss_pred CCcCeEEEEEEeee--CCeeEEEEecCC-CCcchHHHHHHHhhhhccccEEEec-C----CCCcchhhhhhccCCCCCCC
Q psy14757 13 VQDGLVHIRIQQRN--GRKTLTTVQGLS-SEYDLKKIVRACKKEFACNGTVIEV-S----RDTFPLCDFYRATPSRGKNR 84 (90)
Q Consensus 13 ~~~~~IhIRiqqRn--grK~vTtVeGL~-~~~dlKki~K~lKkkfaCgGtV~e~-~----e~~~~I~~~lr~~~~~~~~~ 84 (90)
.+.+.|.|+.+ |+ ++|.||+|+||+ .++||++|+|.||++|+|||||+++ . ++.++|.+||.+.--+=| +
T Consensus 28 ~~~~~vri~~~-r~gRkGK~VTiI~Gl~~~~~dlk~l~K~lKkk~gcGGtvk~~~IelQGD~r~~v~~~L~~~Gf~~k-~ 105 (108)
T PRK09019 28 KGDGIVRIQRQ-TSGRKGKGVCLITGLDLDDAELKKLAAELKKKCGCGGAVKDGVIEIQGDKRDLLKSLLEAKGMKVK-L 105 (108)
T ss_pred CcCceEEEEEe-cCCCCCCeEEEEeCCcCCHHHHHHHHHHHHHHhcCCCeEEcCEEEEcCcHHHHHHHHHHHCCCeEE-e
Confidence 34555655555 44 566999999999 5799999999999999999999976 2 477899999987655444 4
Q ss_pred CCC
Q psy14757 85 VGG 87 (90)
Q Consensus 85 ~~~ 87 (90)
+||
T Consensus 106 ~gG 108 (108)
T PRK09019 106 AGG 108 (108)
T ss_pred ccC
Confidence 443
No 11
>TIGR01158 SUI1_rel translation initation factor SUI1, putative, prokaryotic. This family of archaeal and bacterial proteins is homologous to the eukaryotic translation intiation factor SUI1 involved in directing the ribosome to the proper start site of translation by functioning in concert with eIF-2 and the initiator tRNA-Met.
Probab=99.60 E-value=2e-15 Score=102.75 Aligned_cols=66 Identities=26% Similarity=0.410 Sum_probs=58.8
Q ss_pred CCcCeEEEEEEee-eCCeeEEEEecCCC-CcchHHHHHHHhhhhccccEEEec-----CCCCcchhhhhhccC
Q psy14757 13 VQDGLVHIRIQQR-NGRKTLTTVQGLSS-EYDLKKIVRACKKEFACNGTVIEV-----SRDTFPLCDFYRATP 78 (90)
Q Consensus 13 ~~~~~IhIRiqqR-ngrK~vTtVeGL~~-~~dlKki~K~lKkkfaCgGtV~e~-----~e~~~~I~~~lr~~~ 78 (90)
.+++.|+|++++| +++|.||+|+||+. .+|+++++|.||++|+|||||+++ -++.+.|.+||.+--
T Consensus 21 ~~~~~i~i~~e~rgr~gK~VTvV~Gl~~~~~~l~~l~k~LKk~~gcGgtvk~~~IeiQGD~~~~v~~~L~~~G 93 (101)
T TIGR01158 21 KEDQVVRIQRETRGRKGKGVTIIEGLDLSDIDLKELAKELKSKCGCGGTVKDGVIEIQGDHRDRVKDLLEKKG 93 (101)
T ss_pred CCCceEEEEEEEecCCCCEEEEEeCCcCchhhHHHHHHHHHHHhcCCeeEeCCEEEEeCcHHHHHHHHHHHcC
Confidence 3789999999999 99999999999995 699999999999999999999764 257788999998853
No 12
>KOG3239|consensus
Probab=99.22 E-value=1.2e-11 Score=92.96 Aligned_cols=56 Identities=29% Similarity=0.415 Sum_probs=51.1
Q ss_pred cCeEEEEEEeeeCCeeEEEEecCCC-CcchHHHHHHHhhhhccccEEEecCCCCcch
Q psy14757 15 DGLVHIRIQQRNGRKTLTTVQGLSS-EYDLKKIVRACKKEFACNGTVIEVSRDTFPL 70 (90)
Q Consensus 15 ~~~IhIRiqqRngrK~vTtVeGL~~-~~dlKki~K~lKkkfaCgGtV~e~~e~~~~I 70 (90)
.++|.|....|+.||+||+|+||.- +||||+++|.|.++||||.||..+++..++|
T Consensus 100 pqkV~I~r~~R~KrK~VT~V~GL~~FdIdlk~aaK~fa~KFAtGaSVtk~a~kkdEI 156 (193)
T KOG3239|consen 100 PQKVIIKREARTKRKSVTVVKGLETFDIDLKKAAKFFAQKFATGASVTKNAEKKDEI 156 (193)
T ss_pred CceeEeeecccCCceeEEEEechhhccccHHHHHHHHHHhhccCccccCCCCccceE
Confidence 5789999999999999999999997 8999999999999999999999977655544
No 13
>KOG2522|consensus
Probab=96.08 E-value=0.0064 Score=51.98 Aligned_cols=62 Identities=21% Similarity=0.245 Sum_probs=52.2
Q ss_pred cCeEEEEEEeeeCCeeEEEEecCCC-CcchHHHHHHHhhhhccccEEEecCC-----------CCcchhhhhhc
Q psy14757 15 DGLVHIRIQQRNGRKTLTTVQGLSS-EYDLKKIVRACKKEFACNGTVIEVSR-----------DTFPLCDFYRA 76 (90)
Q Consensus 15 ~~~IhIRiqqRngrK~vTtVeGL~~-~~dlKki~K~lKkkfaCgGtV~e~~e-----------~~~~I~~~lr~ 76 (90)
--.|.|.+++|-|+|.||.|.||.. .+|...++..|.+.|+|.-||-+.|- +...|.|+|.+
T Consensus 466 ~ppi~i~te~RagnKkVT~V~nle~fgiDp~S~aa~Lqk~c~aSTtv~e~pg~kg~eVqvQGnqih~iadlL~k 539 (560)
T KOG2522|consen 466 LPPIKIITEMRAGNKKVTRVSNLEVFGIDPESLAADLQKICSASTTVSESPGFKGAEVQVQGNQIHSIADLLNK 539 (560)
T ss_pred CCceEEeehhhccCceEEEEccceeeccCHHHHHHHHHHHeeeeeecccCCCCCCceEEEecchhhHHHHHHHH
Confidence 4579999999999999999999997 79999999999999999998877653 33555666554
No 14
>KOG1548|consensus
Probab=76.62 E-value=2.4 Score=35.39 Aligned_cols=43 Identities=16% Similarity=0.302 Sum_probs=33.5
Q ss_pred EEEecCCCCcchHHHHHHHhhhhccccEEEecCCCCcchhhhhhccC
Q psy14757 32 TTVQGLSSEYDLKKIVRACKKEFACNGTVIEVSRDTFPLCDFYRATP 78 (90)
Q Consensus 32 TtVeGL~~~~dlKki~K~lKkkfaCgGtV~e~~e~~~~I~~~lr~~~ 78 (90)
..|+|||.++-.+.++..|+ |-|.|..++.-++--|-|+|+.-
T Consensus 137 VYVsgLP~DiT~dE~~~~~s----KcGiI~~d~~t~epk~KlYrd~~ 179 (382)
T KOG1548|consen 137 VYVSGLPLDITVDEFAEVMS----KCGIIMRDPQTGEPKVKLYRDNQ 179 (382)
T ss_pred EEecCCCCcccHHHHHHHHH----hcceEeccCCCCCeeEEEEecCC
Confidence 57999999987777766654 45558889888888888888764
No 15
>COG2080 CoxS Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]
Probab=72.50 E-value=3.6 Score=30.44 Aligned_cols=28 Identities=25% Similarity=0.332 Sum_probs=23.1
Q ss_pred CeeEEEEecCC-CCcchHHHHHHHhhhhc
Q psy14757 28 RKTLTTVQGLS-SEYDLKKIVRACKKEFA 55 (90)
Q Consensus 28 rK~vTtVeGL~-~~~dlKki~K~lKkkfa 55 (90)
++.|||||||. .+..|.-+-++|...++
T Consensus 69 G~~ItTiEGl~~~~~~l~~vQ~Af~e~~~ 97 (156)
T COG2080 69 GAEITTIEGLAKKDGGLHPVQQAFLEHDA 97 (156)
T ss_pred CCeEEEeecccCCCCCcCHHHHHHHHcCC
Confidence 35699999999 55778999999998765
No 16
>PF11608 Limkain-b1: Limkain b1; InterPro: IPR024582 This entry represents a conserved domain found in limkain b1, which is a novel human autoantigen, localised to a subset of ABCD3 and PXF marked peroxisomes. Limkain b1 may be a relatively common target of human autoantibodies reactive to cytoplasmic vesicle-like structures [].; PDB: 2DIU_A.
Probab=72.20 E-value=7.7 Score=26.58 Aligned_cols=34 Identities=26% Similarity=0.401 Sum_probs=24.2
Q ss_pred eEEEEecCCCCcchHHHHHHHhhhh-ccccEEEec
Q psy14757 30 TLTTVQGLSSEYDLKKIVRACKKEF-ACNGTVIEV 63 (90)
Q Consensus 30 ~vTtVeGL~~~~dlKki~K~lKkkf-aCgGtV~e~ 63 (90)
++-.|-+||.+.|.+.|-.-|++.+ .|||-|..-
T Consensus 3 s~L~V~NLP~~~d~~~I~~RL~qLsdNCGGkVl~v 37 (90)
T PF11608_consen 3 SLLYVSNLPTNKDPSSIKNRLRQLSDNCGGKVLSV 37 (90)
T ss_dssp EEEEEES--TTS-HHHHHHHHHHHHHTTT--EEE-
T ss_pred cEEEEecCCCCCCHHHHHHHHHHHhhccCCEEEEE
Confidence 4668999999999999999999888 799999864
No 17
>PF05046 Img2: Mitochondrial large subunit ribosomal protein (Img2); InterPro: IPR007740 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This family of proteins has been identified as part of the mitochondrial large ribosomal subunit in Saccharomyces cerevisiae [].; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome
Probab=61.62 E-value=39 Score=22.07 Aligned_cols=58 Identities=9% Similarity=0.186 Sum_probs=35.3
Q ss_pred eEEEEEEeee-CCeeEEEEecCCCCcchHHHHHHHhhhhc-------------cccEEEecCCCCcchhhhhhc
Q psy14757 17 LVHIRIQQRN-GRKTLTTVQGLSSEYDLKKIVRACKKEFA-------------CNGTVIEVSRDTFPLCDFYRA 76 (90)
Q Consensus 17 ~IhIRiqqRn-grK~vTtVeGL~~~~dlKki~K~lKkkfa-------------CgGtV~e~~e~~~~I~~~lr~ 76 (90)
.+=|+..-++ |.+.+|+|.-+..++ ..|.+.|++.|. -+|.|.-.-++.++|-.||.+
T Consensus 13 ~LPVY~~~k~~g~~~~T~IrkI~GD~--~aL~~dL~~~l~~~~~~~~~~~V~~~~g~i~IkG~~~~~Vk~wL~~ 84 (87)
T PF05046_consen 13 NLPVYLDIKNGGNRKITVIRKIEGDI--WALKKDLRKFLGEKPKKKIDVRVNELTGHIEIKGDHVEEVKKWLLE 84 (87)
T ss_pred cccEEEEEeCCCcEeEEEEEeecCCH--HHHHHHHHHHhhhhcCCCcceEEeecCCEEEEcCccHHHHHHHHHH
Confidence 4445555555 678999999999874 333344433331 134443334577888888865
No 18
>PF03477 ATP-cone: ATP cone domain; InterPro: IPR005144 The ATP-cone is an evolutionarily mobile, ATP-binding regulatory domain which is found in a variety of proteins including ribonucleotide reductases, phosphoglycerate kinases and transcriptional regulators []. In ribonucleotide reductase protein R1 (P28903 from SWISSPROT) from Escherichia coli this domain is located at the N terminus, and is composed mostly of helices []. It forms part of the allosteric effector region and contains the general allosteric activity site in a cleft located at the tip of the N-terminal region []. This site binds either ATP (activating) or dATP (inhibitory), with the base bound in a hydrophobic pocket and the phosphates bound to basic residues. Substrate binding to this site is thought to affect enzyme activity by altering the relative positions of the two subunits of ribonucleotide reductase.; PDB: 2XO4_A 1RLR_A 7R1R_B 5R1R_A 2XO5_B 2XAW_A 2R1R_C 2XAY_B 2X0X_C 2XAZ_A ....
Probab=59.45 E-value=8.4 Score=24.11 Aligned_cols=26 Identities=42% Similarity=0.700 Sum_probs=20.6
Q ss_pred EEEEeeeCCeeEEEEecCCCCcchHHHHHHHhhhh
Q psy14757 20 IRIQQRNGRKTLTTVQGLSSEYDLKKIVRACKKEF 54 (90)
Q Consensus 20 IRiqqRngrK~vTtVeGL~~~~dlKki~K~lKkkf 54 (90)
|.|.+|+|++ ..||..||.+++.+.+
T Consensus 1 i~ViKrdG~~---------e~F~~~KI~~~i~~a~ 26 (90)
T PF03477_consen 1 IKVIKRDGRV---------EPFDREKIVRAIEKAC 26 (90)
T ss_dssp -EEEESSSSE---------EES-HHHHHHHHHTTC
T ss_pred CEEEeCCCcE---------eeecHHHHHHHHHHHH
Confidence 5678888887 4699999999999987
No 19
>TIGR03193 4hydroxCoAred 4-hydroxybenzoyl-CoA reductase, gamma subunit. 4-hydroxybenzoyl-CoA reductase converts 4-hydroxybenzoyl-CoA to benzoyl-CoA, a common intermediate in the degradation of aromatic compounds. This protein family represents the gamma chain of this three-subunit enzyme.
Probab=57.83 E-value=9.1 Score=27.88 Aligned_cols=28 Identities=21% Similarity=0.439 Sum_probs=20.9
Q ss_pred CeeEEEEecCCCCcchHHHHHHHhhhhc
Q psy14757 28 RKTLTTVQGLSSEYDLKKIVRACKKEFA 55 (90)
Q Consensus 28 rK~vTtVeGL~~~~dlKki~K~lKkkfa 55 (90)
+|.|||||||...-.+.-|-++|-...+
T Consensus 67 G~~V~TiEgl~~~~~l~pvq~af~~~~a 94 (148)
T TIGR03193 67 GRKVETVEGLATNGRLSRLQQAFHERLG 94 (148)
T ss_pred CCcEEEeCCCCCCCCCCHHHHHHHHcCC
Confidence 5679999999864456777777766544
No 20
>PRK09908 xanthine dehydrogenase subunit XdhC; Provisional
Probab=56.81 E-value=9.9 Score=28.01 Aligned_cols=28 Identities=25% Similarity=0.255 Sum_probs=20.6
Q ss_pred CeeEEEEecCCCCcchHHHHHHHhhhhc
Q psy14757 28 RKTLTTVQGLSSEYDLKKIVRACKKEFA 55 (90)
Q Consensus 28 rK~vTtVeGL~~~~dlKki~K~lKkkfa 55 (90)
++.|||||||...-.+.-|-++|-...+
T Consensus 73 G~~V~TiEGl~~~~~l~pvQ~Af~~~~a 100 (159)
T PRK09908 73 GKEIRTLEGEAKGGKLSHVQQAYAKSGA 100 (159)
T ss_pred CCEEEeecCCCCCCCCCHHHHHHHHcCC
Confidence 4689999999865456667777765543
No 21
>PRK03988 translation initiation factor IF-2 subunit beta; Validated
Probab=51.99 E-value=15 Score=26.25 Aligned_cols=34 Identities=21% Similarity=0.406 Sum_probs=27.7
Q ss_pred eeCCeeEEEEecCCC-----CcchHHHHHHHhhhhccccEE
Q psy14757 25 RNGRKTLTTVQGLSS-----EYDLKKIVRACKKEFACNGTV 60 (90)
Q Consensus 25 RngrK~vTtVeGL~~-----~~dlKki~K~lKkkfaCgGtV 60 (90)
+-|+| |+|.++.+ .=+-.-++|+|-++|++.|++
T Consensus 37 ~eG~k--Tvi~Nf~~I~~~L~R~~~hv~ky~~~ELgt~g~i 75 (138)
T PRK03988 37 IEGNR--TIIRNFKEIADRLNRDPKHVAKFLLKELGTAGNI 75 (138)
T ss_pred EEcCc--EEEecHHHHHHHHCCCHHHHHHHHHHHhCCceee
Confidence 44555 89999886 245788999999999999999
No 22
>PF11388 DotA: Phagosome trafficking protein DotA; InterPro: IPR021528 DotA is essential for intracellular growth in Legionella []. DotA is thought to play an important role in regulating initial phagosome trafficking decisions either upon or immediately after macrophage uptake [].
Probab=51.91 E-value=8.6 Score=26.92 Aligned_cols=26 Identities=23% Similarity=0.579 Sum_probs=22.0
Q ss_pred EEecCCC-CcchHHHHHHHhhhhccccEE
Q psy14757 33 TVQGLSS-EYDLKKIVRACKKEFACNGTV 60 (90)
Q Consensus 33 tVeGL~~-~~dlKki~K~lKkkfaCgGtV 60 (90)
.+.||++ .||-.+|.|.|++ .|+++.
T Consensus 3 s~tgle~s~fd~~ql~k~f~~--tc~~~~ 29 (105)
T PF11388_consen 3 SNTGLEKSNFDPAQLTKPFGK--TCQGDY 29 (105)
T ss_pred cccccccccCCHHHhhhhhhc--cccCch
Confidence 4679996 6999999999999 788764
No 23
>TIGR03198 pucE xanthine dehydrogenase E subunit. This gene has been characterized in B. subtilis as the Iron-sulfur cluster binding-subunit of xanthine dehydrogenase (pucE), acting in conjunction with pucC, the FAD-binding subunit and pucD, the molybdopterin binding subunit. The more common XDH complex (GenProp0640) includes the xdhA gene as the Fe-S cluster binding component.
Probab=45.88 E-value=17 Score=26.34 Aligned_cols=27 Identities=22% Similarity=0.336 Sum_probs=19.4
Q ss_pred CeeEEEEecCCCCcchHHHHHHHhhhhc
Q psy14757 28 RKTLTTVQGLSSEYDLKKIVRACKKEFA 55 (90)
Q Consensus 28 rK~vTtVeGL~~~~dlKki~K~lKkkfa 55 (90)
++.|||||||..+ .|.-|-++|-...+
T Consensus 69 G~~v~TiEgl~~~-~l~pvQ~af~~~~a 95 (151)
T TIGR03198 69 GHEITTIEGIAEN-ELDPCQTAFLEEGG 95 (151)
T ss_pred CCEEEecCCcCCC-CCCHHHHHHHHcCC
Confidence 4689999999753 46667777766544
No 24
>KOG4616|consensus
Probab=42.84 E-value=10 Score=27.44 Aligned_cols=31 Identities=16% Similarity=0.424 Sum_probs=27.7
Q ss_pred EEEeeeCCeeEEEEecCCCCcchHHHHHHHh
Q psy14757 21 RIQQRNGRKTLTTVQGLSSEYDLKKIVRACK 51 (90)
Q Consensus 21 RiqqRngrK~vTtVeGL~~~~dlKki~K~lK 51 (90)
|+.-|+-++.+|+.|-+++.||-++-.|++|
T Consensus 98 rlaarkpkaki~~~e~idd~fd~~eymkf~~ 128 (137)
T KOG4616|consen 98 RLAARKPKAKIKIMEEIDDNFDAKEYMKFIK 128 (137)
T ss_pred HHhhcCccccceehhhhhcccCHHHHHHHHh
Confidence 5567888899999999999999999999887
No 25
>TIGR00311 aIF-2beta translation initiation factor aIF-2, beta subunit, putative.
Probab=41.79 E-value=26 Score=24.92 Aligned_cols=32 Identities=22% Similarity=0.435 Sum_probs=26.6
Q ss_pred CCeeEEEEecCCC-----CcchHHHHHHHhhhhccccEE
Q psy14757 27 GRKTLTTVQGLSS-----EYDLKKIVRACKKEFACNGTV 60 (90)
Q Consensus 27 grK~vTtVeGL~~-----~~dlKki~K~lKkkfaCgGtV 60 (90)
|+| |+|.++.+ .=+-.-+.|+|-++|++.|++
T Consensus 34 G~k--Tvi~Nf~~Ia~~L~R~~~~v~ky~~~ELgt~g~i 70 (133)
T TIGR00311 34 GNR--TIIQNFREVAKALNRDEQHLLKYLLKELGTAGNL 70 (133)
T ss_pred cCc--EEEecHHHHHHHHCCCHHHHHHHHHHHhCCCcee
Confidence 555 99999886 245688999999999999997
No 26
>KOG4034|consensus
Probab=39.39 E-value=64 Score=24.40 Aligned_cols=58 Identities=17% Similarity=0.387 Sum_probs=34.8
Q ss_pred EEEEEeee-CCeeEEEEecCCCC-----cchHHHHHHH-hhhhc-----cccEEEecCCCCcchhhhhhc
Q psy14757 19 HIRIQQRN-GRKTLTTVQGLSSE-----YDLKKIVRAC-KKEFA-----CNGTVIEVSRDTFPLCDFYRA 76 (90)
Q Consensus 19 hIRiqqRn-grK~vTtVeGL~~~-----~dlKki~K~l-Kkkfa-----CgGtV~e~~e~~~~I~~~lr~ 76 (90)
-++..-++ |.|.+|+|.-+..+ -||...++.. |+..| -.|.|+-...+-+.|.++|-+
T Consensus 97 PVYl~~k~~G~k~lT~IRkVeGDi~aLe~DL~s~L~~~~~~s~~t~VnelsgqI~~~g~~v~~vr~~L~e 166 (169)
T KOG4034|consen 97 PVYLDYKQRGNKILTVIRKVEGDIWALENDLRSTLEMSPKKSYATHVNELSGQIVLKGNHVDTVREWLQE 166 (169)
T ss_pred ceEEeeecCCcEEEEEEEeecccHHHHHHHHHHHHhhccCCChhhhhhhhcceEEEeCChHHHHHHHHHH
Confidence 34444444 99999999999976 4555555553 33333 145555444555566666644
No 27
>PRK11433 aldehyde oxidoreductase 2Fe-2S subunit; Provisional
Probab=39.27 E-value=27 Score=26.93 Aligned_cols=27 Identities=30% Similarity=0.330 Sum_probs=19.4
Q ss_pred CeeEEEEecCCCCcchHHHHHHHhhhh
Q psy14757 28 RKTLTTVQGLSSEYDLKKIVRACKKEF 54 (90)
Q Consensus 28 rK~vTtVeGL~~~~dlKki~K~lKkkf 54 (90)
++.|||||||...-.|.-|-++|-+..
T Consensus 117 G~~ItTiEGL~~~~~lhpvQ~Af~~~~ 143 (217)
T PRK11433 117 GAEITTIEGLGSPDNLHPMQAAFVKHD 143 (217)
T ss_pred CCEEEEeCCcCCCCCCCHHHHHHHHcC
Confidence 468999999986545666777775543
No 28
>KOG1372|consensus
Probab=35.74 E-value=20 Score=29.56 Aligned_cols=23 Identities=43% Similarity=0.790 Sum_probs=15.6
Q ss_pred hhhhccccEEEecCCCCcchhhhhhccCCCCCCCC
Q psy14757 51 KKEFACNGTVIEVSRDTFPLCDFYRATPSRGKNRV 85 (90)
Q Consensus 51 KkkfaCgGtV~e~~e~~~~I~~~lr~~~~~~~~~~ 85 (90)
=..|||||.+..| +.|.||.|-|
T Consensus 202 YnmfAcNGILFNH------------ESPRRGenFV 224 (376)
T KOG1372|consen 202 YNMFACNGILFNH------------ESPRRGENFV 224 (376)
T ss_pred hcceeeccEeecC------------CCCccccchh
Confidence 3679999977655 4566666644
No 29
>PRK12336 translation initiation factor IF-2 subunit beta; Provisional
Probab=32.95 E-value=46 Score=24.82 Aligned_cols=35 Identities=14% Similarity=0.355 Sum_probs=27.7
Q ss_pred eeCCeeEEEEecCCC-----CcchHHHHHHHhhhhccccEEE
Q psy14757 25 RNGRKTLTTVQGLSS-----EYDLKKIVRACKKEFACNGTVI 61 (90)
Q Consensus 25 RngrK~vTtVeGL~~-----~~dlKki~K~lKkkfaCgGtV~ 61 (90)
+-|+| |+|.++.+ .=+-.-++|+|-.+|++.|++.
T Consensus 33 ~eG~k--T~i~N~~~i~~~l~R~~~~~~ky~~~ELgt~~~~~ 72 (201)
T PRK12336 33 IEGKT--TILTNFGEIADALNRDPDHLMKFLQRELGTAGKIE 72 (201)
T ss_pred EEcCc--EEEecHHHHHHHHCCCHHHHHHHHHHHhCCcceec
Confidence 34544 89999886 2456889999999999999984
No 30
>PF09776 Mitoc_L55: Mitochondrial ribosomal protein L55; InterPro: IPR018615 Members of this family are involved in mitochondrial biogenesis and G2/M phase cell cycle progression. They form a component of the mitochondrial ribosome large subunit (39S) which comprises a 16S rRNA and about 50 distinct proteins.
Probab=32.90 E-value=13 Score=26.43 Aligned_cols=31 Identities=23% Similarity=0.440 Sum_probs=24.8
Q ss_pred EEeeeCCeeEEEEecCCCCcchHHHHHHHhh
Q psy14757 22 IQQRNGRKTLTTVQGLSSEYDLKKIVRACKK 52 (90)
Q Consensus 22 iqqRngrK~vTtVeGL~~~~dlKki~K~lKk 52 (90)
+..|..++.++..+-++++||..+-.+.|||
T Consensus 86 l~kR~pk~k~~~~~e~eD~Fd~~~Y~~fwkK 116 (116)
T PF09776_consen 86 LRKRKPKKKIKIEEELEDDFDAEKYKKFWKK 116 (116)
T ss_pred HHHhCCccccccchhhcccCCHHHHHHHhhC
Confidence 4456667778888888899999998888876
No 31
>smart00653 eIF2B_5 domain present in translation initiation factor eIF2B and eIF5.
Probab=32.51 E-value=54 Score=22.56 Aligned_cols=37 Identities=14% Similarity=0.283 Sum_probs=29.1
Q ss_pred eeCCeeEEEEecCCC-----CcchHHHHHHHhhhhccccEEEe
Q psy14757 25 RNGRKTLTTVQGLSS-----EYDLKKIVRACKKEFACNGTVIE 62 (90)
Q Consensus 25 RngrK~vTtVeGL~~-----~~dlKki~K~lKkkfaCgGtV~e 62 (90)
+-|+| -|+|.++.+ .=+..-++|+|-++|++.|++-.
T Consensus 13 ~eG~~-kTvi~Nf~~I~~~L~R~p~hv~kyl~~ELgt~g~id~ 54 (110)
T smart00653 13 REGKG-KTVIVNFADIAKALNRPPDHVLKFLLAELGTQGSIDG 54 (110)
T ss_pred EEcCC-eEEEEcHHHHHHHHCCCHHHHHHHHHHHhCCceeECC
Confidence 34554 688999886 24578899999999999999854
No 32
>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=27.64 E-value=69 Score=17.79 Aligned_cols=20 Identities=10% Similarity=0.101 Sum_probs=16.7
Q ss_pred EEecCCCCcchHHHHHHHhh
Q psy14757 33 TVQGLSSEYDLKKIVRACKK 52 (90)
Q Consensus 33 tVeGL~~~~dlKki~K~lKk 52 (90)
.|.|||.++....|.+.|++
T Consensus 2 ~v~nlp~~~t~~~l~~~f~~ 21 (70)
T PF00076_consen 2 YVGNLPPDVTEEELRDFFSQ 21 (70)
T ss_dssp EEESETTTSSHHHHHHHHHT
T ss_pred EEcCCCCcCCHHHHHHHHHH
Confidence 58899999888888887776
No 33
>PF04461 DUF520: Protein of unknown function (DUF520); InterPro: IPR007551 This entry represents the UPF0234 family of uncharacterised proteins.; PDB: 1IN0_A.
Probab=26.87 E-value=34 Score=25.47 Aligned_cols=26 Identities=31% Similarity=0.432 Sum_probs=15.6
Q ss_pred eCCeeEEEEecCCCCcchHHHHHHHhh
Q psy14757 26 NGRKTLTTVQGLSSEYDLKKIVRACKK 52 (90)
Q Consensus 26 ngrK~vTtVeGL~~~~dlKki~K~lKk 52 (90)
+.|..+|+.+||+.+. -|+|+|.+|.
T Consensus 89 ~vrq~i~lk~GI~~d~-AKkIvK~IKd 114 (160)
T PF04461_consen 89 TVRQVIKLKQGIDQDT-AKKIVKLIKD 114 (160)
T ss_dssp EEEEEEEE--S--HHH-HHHHHHHHHH
T ss_pred EEEEEEEeecccCHHH-HHHHHHHHHh
Confidence 3467899999999763 5777777664
No 34
>PF02946 GTF2I: GTF2I-like repeat; InterPro: IPR004212 This region of sequence similarity is found up to six times in a variety of proteins including general transcription factor II-I (GTF2I). It has been suggested that this may be a DNA binding domain [, ].; PDB: 2E3L_A 2D99_A 2DN4_A 2D9B_A 2EJE_A 1Q60_A 2DZR_A 2DN5_A 2DZQ_A 2ED2_A.
Probab=26.05 E-value=75 Score=21.02 Aligned_cols=20 Identities=25% Similarity=0.499 Sum_probs=10.9
Q ss_pred EEEecCCCC--------cchHHHHHHHh
Q psy14757 32 TTVQGLSSE--------YDLKKIVRACK 51 (90)
Q Consensus 32 TtVeGL~~~--------~dlKki~K~lK 51 (90)
-.|+|||++ ||+.+|-+.|.
T Consensus 37 v~V~GLPegi~fr~P~~Y~i~~L~~IL~ 64 (76)
T PF02946_consen 37 VYVQGLPEGIPFRRPSNYGIPRLEKILE 64 (76)
T ss_dssp EEEES--TT--SS-TTTS-HHHHHHHHH
T ss_pred EEEEeCCCCCcCCCCCcCCHHHHHHHHH
Confidence 479999985 66655555543
No 35
>TIGR03313 Se_sel_red_Mo probable selenate reductase, molybdenum-binding subunit. Our comparative genomics suggests this protein family to be a subunit of a selenium-dependent molybdenum hydroxylase, although the substrate is not specified. This protein is suggested by Bebien, et al., to be the molybdenum-binding subunit of a molydbopterin-containing selenate reductase. Xi, et al, however, show that mutation of this gene in E. coli conferred sensitivity to adenine, suggesting a defect in purine interconversion. This finding, plus homology of nearby genes in a 23-gene purine catabolism region in E. coli to xanthine dehydrogase subunits suggests xanthine dehydrogenase activity.
Probab=25.56 E-value=51 Score=30.09 Aligned_cols=28 Identities=14% Similarity=0.038 Sum_probs=21.8
Q ss_pred CeeEEEEecCCCCcchHHHHHHHhhhhc
Q psy14757 28 RKTLTTVQGLSSEYDLKKIVRACKKEFA 55 (90)
Q Consensus 28 rK~vTtVeGL~~~~dlKki~K~lKkkfa 55 (90)
++.|||||||...-.|.-|-.+|-...+
T Consensus 64 g~~i~Tiegl~~~~~~~~~q~af~~~~a 91 (951)
T TIGR03313 64 GAEVRTAESLGQWNQLSLVQQAMVDVGV 91 (951)
T ss_pred CCEEEecCcCCCCCCCCHHHHHHHHcCC
Confidence 4689999999976567788888866544
No 36
>PRK05412 putative nucleotide-binding protein; Reviewed
Probab=25.40 E-value=39 Score=25.20 Aligned_cols=51 Identities=20% Similarity=0.277 Sum_probs=30.8
Q ss_pred eCCeeEEEEecCCCCcchHHHHHHHhhh-hccccEEEecC--------CCCcchhhhhhcc
Q psy14757 26 NGRKTLTTVQGLSSEYDLKKIVRACKKE-FACNGTVIEVS--------RDTFPLCDFYRAT 77 (90)
Q Consensus 26 ngrK~vTtVeGL~~~~dlKki~K~lKkk-faCgGtV~e~~--------e~~~~I~~~lr~~ 77 (90)
+.|..+++.+||+.+. -|+|+|.+|-. +=...+|.-+. +-=++++.+||+.
T Consensus 89 ~vrq~i~lk~GI~~e~-AKkIvK~IKd~klKVqa~IQGd~vRVtgKkrDDLQ~viallk~~ 148 (161)
T PRK05412 89 TVKQEVKLKQGIDQEL-AKKIVKLIKDSKLKVQAQIQGDQVRVTGKKRDDLQAVIALLRKA 148 (161)
T ss_pred EEEEEEehhhccCHHH-HHHHHHHHHhcCCceeEEecCcEEEEecCCHhHHHHHHHHHHhc
Confidence 3467899999999873 58888887743 33444443221 1113666666653
No 37
>KOG3438|consensus
Probab=24.92 E-value=17 Score=25.54 Aligned_cols=39 Identities=23% Similarity=0.371 Sum_probs=22.5
Q ss_pred CCcCeEEEEEEeeeCCeeEEEEecCCCC-cchHHHHHHHhhhh
Q psy14757 13 VQDGLVHIRIQQRNGRKTLTTVQGLSSE-YDLKKIVRACKKEF 54 (90)
Q Consensus 13 ~~~~~IhIRiqqRngrK~vTtVeGL~~~-~dlKki~K~lKkkf 54 (90)
..+++|+||||.|- ..+.|+-|-+. -||-.+..+...+|
T Consensus 53 Pse~k~niRIQt~~---~~~A~evl~kgl~el~~~c~~v~~kF 92 (105)
T KOG3438|consen 53 PSEDKINIRIQTRD---GDPAVEVLKKGLEELMQLCDHVRSKF 92 (105)
T ss_pred CchhhheEEEEecC---CCcchHHHHHHHHHHHHHHHHHHHHH
Confidence 45789999999775 44555554443 23444444444444
No 38
>PF11543 UN_NPL4: Nuclear pore localisation protein NPL4; InterPro: IPR024682 Npl4, along with Ufd1, forms the heterodimer adaptor complex UN, which is involved in the recruitment of p97, an AAA ATPase, for tasks involving the ubiquitin pathway. Npl4 has a N-terminal ubiquitin-like domain which has within its structure a beta-grasp fold with a helical insert []. This entry represents the ubiquitin-like domain.; PDB: 2PJH_A 1WF9_A.
Probab=24.18 E-value=1.3e+02 Score=19.30 Aligned_cols=36 Identities=11% Similarity=0.314 Sum_probs=19.9
Q ss_pred cCeEEEEEEeeeCCeeEEEEecCCCCcchHHHHHHHhhhh
Q psy14757 15 DGLVHIRIQQRNGRKTLTTVQGLSSEYDLKKIVRACKKEF 54 (90)
Q Consensus 15 ~~~IhIRiqqRngrK~vTtVeGL~~~~dlKki~K~lKkkf 54 (90)
.+.+.||++.+.|-+.|++ + ..-.+..|...+...|
T Consensus 2 ~~~milRvrS~dG~~Rie~-~---~~~t~~~L~~kI~~~l 37 (80)
T PF11543_consen 2 ASSMILRVRSKDGMKRIEV-S---PSSTLSDLKEKISEQL 37 (80)
T ss_dssp ----EEEEE-SSEEEEEEE-----TTSBHHHHHHHHHHHS
T ss_pred CccEEEEEECCCCCEEEEc-C---CcccHHHHHHHHHHHc
Confidence 3578999999999999973 3 3334444444444444
No 39
>PF01799 Fer2_2: [2Fe-2S] binding domain; InterPro: IPR002888 The [2Fe-2S] binding domain is found in a range of enzymes including dehydrogenases, oxidases and oxidoreductases. The aldehyde oxido-reductase (Mop) from the sulphate reducing anaerobic Gram-negative bacterium Desulfovibrio gigas is a homodimer of 907 amino acid residues subunits and is a member of the xanthine oxidase family. The protein contains a molybdopterin cofactor (Mo-co) and two different [2Fe-2S] centres. It is folded into four domains of which the first two bind the iron sulphur centres and the last two are involved in Mo-co binding. Mo-co is a molybdenum molybdopterin cytosine dinucleotide. Molybdopterin forms a tricyclic system with the pterin bicycle annealed to a pyran ring. The molybdopterin dinucleotide is deeply buried in the protein. The cis-dithiolene group of the pyran ring binds the molybdenum, which is coordinated by three more (oxygen) ligands [].; GO: 0016491 oxidoreductase activity, 0046872 metal ion binding, 0055114 oxidation-reduction process; PDB: 2E3T_A 1WYG_A 3AN1_B 2E1Q_C 2CKJ_A 3B9J_I 3NVY_J 1FO4_B 3NRZ_J 3AM9_A ....
Probab=23.99 E-value=40 Score=21.70 Aligned_cols=22 Identities=36% Similarity=0.413 Sum_probs=15.4
Q ss_pred EEecCCCCcchHHHHHHHhhhh
Q psy14757 33 TVQGLSSEYDLKKIVRACKKEF 54 (90)
Q Consensus 33 tVeGL~~~~dlKki~K~lKkkf 54 (90)
|||||..+-.+..|.++|.+.-
T Consensus 1 TvEGl~~~~~~~~iq~af~~~~ 22 (75)
T PF01799_consen 1 TVEGLASDGELHPIQQAFVEHG 22 (75)
T ss_dssp -GGGSSBTTB--HHHHHHHHTT
T ss_pred CcCcCCCCCCcCHHHHHHHHhC
Confidence 6899977777889999987763
No 40
>smart00362 RRM_2 RNA recognition motif.
Probab=20.38 E-value=1.2e+02 Score=16.01 Aligned_cols=19 Identities=11% Similarity=0.099 Sum_probs=14.7
Q ss_pred EEecCCCCcchHHHHHHHh
Q psy14757 33 TVQGLSSEYDLKKIVRACK 51 (90)
Q Consensus 33 tVeGL~~~~dlKki~K~lK 51 (90)
.|.||+...+...|...|.
T Consensus 3 ~i~~l~~~~~~~~l~~~~~ 21 (72)
T smart00362 3 FVGNLPPDVTEEDLKELFS 21 (72)
T ss_pred EEcCCCCcCCHHHHHHHHH
Confidence 5889998877777777665
Done!