Query psy14758
Match_columns 134
No_of_seqs 152 out of 262
Neff 3.2
Searched_HMMs 46136
Date Fri Aug 16 19:52:20 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy14758.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/14758hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1770|consensus 100.0 7E-35 1.5E-39 217.5 7.8 97 5-131 2-99 (112)
2 TIGR01160 SUI1_MOF2 translatio 100.0 8.3E-31 1.8E-35 194.2 8.6 97 6-132 1-98 (110)
3 COG0023 SUI1 Translation initi 99.9 1.5E-23 3.3E-28 154.8 7.3 90 5-131 3-94 (104)
4 cd00474 SUI1_eIF1 The SUI1/eIF 99.8 1.9E-19 4.1E-24 125.4 6.3 67 31-132 1-68 (77)
5 PRK00939 translation initiatio 99.8 2.7E-18 6E-23 124.8 7.4 71 26-131 20-91 (99)
6 PRK06824 translation initiatio 99.8 2.1E-18 4.5E-23 129.6 6.8 70 27-131 38-109 (118)
7 PRK09019 translation initiatio 99.7 3.7E-18 8E-23 126.7 7.0 72 25-131 26-99 (108)
8 TIGR01158 SUI1_rel translation 99.7 6.8E-18 1.5E-22 122.6 8.1 71 26-131 20-92 (101)
9 PF01253 SUI1: Translation ini 99.7 6E-18 1.3E-22 117.0 6.9 74 28-131 3-77 (83)
10 PRK07451 translation initiatio 99.7 9.6E-18 2.1E-22 125.6 7.6 72 25-131 33-106 (115)
11 TIGR01159 DRP1 density-regulat 99.7 8.4E-17 1.8E-21 127.1 6.8 74 28-131 87-161 (173)
12 KOG3239|consensus 98.6 4.1E-08 8.9E-13 79.6 5.4 72 30-131 101-173 (193)
13 KOG2522|consensus 96.3 0.0052 1.1E-07 56.4 4.7 88 13-129 446-538 (560)
14 PF05046 Img2: Mitochondrial l 93.5 0.37 8E-06 34.1 6.3 73 30-131 12-85 (87)
15 COG2080 CoxS Aerobic-type carb 58.4 9.8 0.00021 30.3 2.7 27 42-68 69-96 (156)
16 PF03477 ATP-cone: ATP cone do 57.5 10 0.00022 25.5 2.3 26 34-68 1-26 (90)
17 PRK05412 putative nucleotide-b 53.1 11 0.00024 30.2 2.3 26 42-68 91-116 (161)
18 PRK09908 xanthine dehydrogenas 52.6 11 0.00025 29.8 2.2 27 42-68 73-99 (159)
19 TIGR03193 4hydroxCoAred 4-hydr 50.4 13 0.00027 29.2 2.1 27 42-68 67-93 (148)
20 PF04461 DUF520: Protein of un 50.1 14 0.0003 29.7 2.3 26 42-68 91-116 (160)
21 KOG4034|consensus 42.7 49 0.0011 27.0 4.4 71 32-132 96-168 (169)
22 TIGR03198 pucE xanthine dehydr 37.8 24 0.00053 27.5 1.9 26 42-68 69-94 (151)
23 PRK03988 translation initiatio 37.2 54 0.0012 25.3 3.7 28 39-68 37-69 (138)
24 TIGR00311 aIF-2beta translatio 36.8 47 0.001 25.4 3.3 26 41-68 34-64 (133)
25 KOG4616|consensus 36.2 16 0.00034 28.6 0.7 32 34-65 97-128 (137)
26 PRK11433 aldehyde oxidoreducta 34.9 32 0.00068 28.7 2.3 27 42-68 117-143 (217)
27 PRK12336 translation initiatio 29.5 88 0.0019 25.1 4.0 27 40-68 34-65 (201)
28 PF00076 RRM_1: RNA recognitio 25.2 87 0.0019 18.6 2.5 21 47-68 2-22 (70)
29 PF09776 Mitoc_L55: Mitochondr 23.5 25 0.00055 26.9 -0.1 32 35-66 85-116 (116)
30 smart00653 eIF2B_5 domain pres 22.2 1.2E+02 0.0027 22.4 3.3 29 39-68 13-46 (110)
No 1
>KOG1770|consensus
Probab=100.00 E-value=7e-35 Score=217.47 Aligned_cols=97 Identities=46% Similarity=0.656 Sum_probs=89.3
Q ss_pred ccccCCCCCCcccccCCC-CCCCCCCCeEEEEEeeeeCceeEEEEecCCCCcCHHHHHHHHHhhccccccccccccCCCC
Q psy14758 5 VWSSDLFMLDPFADAFKG-SEDDVQDGLVHIRIQQRNGRKTLTTVQGLSSEYDLKKIVRACKKKRFSTFYLSALSKCDPQ 83 (134)
Q Consensus 5 ~si~NL~sfDPFada~~~-dd~~~eqq~IHIRiqQRngRK~VTtVEGL~~~~DLKKL~K~LKKkf~~~~~~~~~~~c~~~ 83 (134)
|+|+|+.+|||||++.++ ++...+.++||||||||||||++|||||||.+||+|+|+++|||+| +||
T Consensus 2 ~~iq~~~~~dpfad~~~~~~~~~g~~~~ihIRIQQRnGrKtlTtVQgi~~Eyd~kril~~lKKef----------~Cn-- 69 (112)
T KOG1770|consen 2 HIIQNLEDFDPFADARAGEDDIAGTEKYIHIRIQQRNGRKTLTTVQGIPMEYDLKKILKSLKKEF----------ACN-- 69 (112)
T ss_pred ccccchhhcCcccccccccccccCccceEEEEEEeeCCceEEEEecCChhhhhHHHHHHHHHHhc----------cCC--
Confidence 679999999999999877 3345666799999999999999999999999999999999999999 999
Q ss_pred CccceeeeecceEEeCchhhccCCCeEEEeecCCcccccchhhhhhcc
Q psy14758 84 KVGTYKIFATETLVTSSELKLSLGNLFQASCLGVNRAGMLLKCFLCDK 131 (134)
Q Consensus 84 ~~~~~~~~a~gt~~~~~~~~~~~~~~iq~~~qG~~r~~~~~~~~l~~~ 131 (134)
||++.++| +|++||| |||+|..| ..||...
T Consensus 70 ----------Gtvved~e----~gevIQL--qGDqR~nv--~~fl~~~ 99 (112)
T KOG1770|consen 70 ----------GTVVEDPE----YGEVIQL--QGDQRKNV--CQFLVQV 99 (112)
T ss_pred ----------CeEecCcc----cCceEEe--ccchhhhH--HHHHHHh
Confidence 99999999 5999999 99999999 9998753
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=99.97 E-value=8.3e-31 Score=194.25 Aligned_cols=97 Identities=47% Similarity=0.656 Sum_probs=87.4
Q ss_pred cccCCCCCCcccccCCCCCCC-CCCCeEEEEEeeeeCceeEEEEecCCCCcCHHHHHHHHHhhccccccccccccCCCCC
Q psy14758 6 WSSDLFMLDPFADAFKGSEDD-VQDGLVHIRIQQRNGRKTLTTVQGLSSEYDLKKIVRACKKKRFSTFYLSALSKCDPQK 84 (134)
Q Consensus 6 si~NL~sfDPFada~~~dd~~-~eqq~IHIRiqQRngRK~VTtVEGL~~~~DLKKL~K~LKKkf~~~~~~~~~~~c~~~~ 84 (134)
|++|+.+||||+|+.++++.. ..+++||||++||+|||+||+|+||++++|+|+|+|.||++| +||
T Consensus 1 ~~~~~~~~dpf~d~~~~~~~~~~~~~~I~Iri~qR~grK~VTiI~Gl~~~~dlk~l~K~lKkk~----------~cG--- 67 (110)
T TIGR01160 1 SIQNLKSFDPFADAGDDDSALPGTSNYIHIRIQQRNGRKTLTTVQGLPKEYDLKKIVKALKKEF----------ACN--- 67 (110)
T ss_pred CcccccCCCCccccccccccccCccceEEEEEEEccCCccEEEEeccCChHHHHHHHHHHHHHh----------CCC---
Confidence 578999999999996655433 568899999999999999999999999999999999999999 999
Q ss_pred ccceeeeecceEEeCchhhccCCCeEEEeecCCcccccchhhhhhccc
Q psy14758 85 VGTYKIFATETLVTSSELKLSLGNLFQASCLGVNRAGMLLKCFLCDKR 132 (134)
Q Consensus 85 ~~~~~~~a~gt~~~~~~~~~~~~~~iq~~~qG~~r~~~~~~~~l~~~~ 132 (134)
||++.+++ .|+.||+ |||||+.+ ++||.++.
T Consensus 68 ---------GsVk~~~~----~~~~Iel--QGD~re~v--~~~L~~~g 98 (110)
T TIGR01160 68 ---------GTVIEDPE----MGEVIQL--QGDQRKNV--CEFLISQG 98 (110)
T ss_pred ---------ceEEeCCC----CCCEEEE--eCcHHHHH--HHHHHHcC
Confidence 99998776 3789999 99999999 99998764
No 3
>COG0023 SUI1 Translation initiation factor 1 (eIF-1/SUI1) and related proteins [Translation, ribosomal structure and biogenesis]
Probab=99.89 E-value=1.5e-23 Score=154.78 Aligned_cols=90 Identities=29% Similarity=0.301 Sum_probs=78.4
Q ss_pred ccccCCCCCCcccccCCCCCCCCC-CCeEEEEEeeeeCceeEEEEecCCC-CcCHHHHHHHHHhhccccccccccccCCC
Q psy14758 5 VWSSDLFMLDPFADAFKGSEDDVQ-DGLVHIRIQQRNGRKTLTTVQGLSS-EYDLKKIVRACKKKRFSTFYLSALSKCDP 82 (134)
Q Consensus 5 ~si~NL~sfDPFada~~~dd~~~e-qq~IHIRiqQRngRK~VTtVEGL~~-~~DLKKL~K~LKKkf~~~~~~~~~~~c~~ 82 (134)
||..+....+|++.. -.+..++ ++.|+||+++||+||.||+|+||+. ++|+|+|+++||++| |||
T Consensus 3 ~~~~~~~~~~p~e~~--~~~~~k~~~~~V~I~~e~rr~gK~VTiI~Gld~~~~dlk~Lak~LKk~c----------acG- 69 (104)
T COG0023 3 YSTICGRIGLPKELT--CEEVAKEGDQIVRIRRETRRKGKTVTIIEGLDLKDIDLKKLAKELKKKC----------ACG- 69 (104)
T ss_pred ccccCCCCCCchHHh--hhhcccccCCeEEEEEEeecCCcEEEEEeCcccchhhHHHHHHHHHHHc----------CCC-
Confidence 456666677888765 2234566 8999999999999999999999996 999999999999999 999
Q ss_pred CCccceeeeecceEEeCchhhccCCCeEEEeecCCcccccchhhhhhcc
Q psy14758 83 QKVGTYKIFATETLVTSSELKLSLGNLFQASCLGVNRAGMLLKCFLCDK 131 (134)
Q Consensus 83 ~~~~~~~~~a~gt~~~~~~~~~~~~~~iq~~~qG~~r~~~~~~~~l~~~ 131 (134)
||++ ++.||+ |||||..| ++||.++
T Consensus 70 -----------Gtvk---------~~~Iei--QGdhr~~v--~~~L~~~ 94 (104)
T COG0023 70 -----------GTVK---------DGEIEI--QGDHRDKV--KELLIKK 94 (104)
T ss_pred -----------ceec---------CCEEEE--eChHHHHH--HHHHHHc
Confidence 9999 459999 99999999 9999875
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=99.79 E-value=1.9e-19 Score=125.38 Aligned_cols=67 Identities=46% Similarity=0.603 Sum_probs=61.7
Q ss_pred eEEEEEeeeeCceeEEEEecCCC-CcCHHHHHHHHHhhccccccccccccCCCCCccceeeeecceEEeCchhhccCCCe
Q psy14758 31 LVHIRIQQRNGRKTLTTVQGLSS-EYDLKKIVRACKKKRFSTFYLSALSKCDPQKVGTYKIFATETLVTSSELKLSLGNL 109 (134)
Q Consensus 31 ~IHIRiqQRngRK~VTtVEGL~~-~~DLKKL~K~LKKkf~~~~~~~~~~~c~~~~~~~~~~~a~gt~~~~~~~~~~~~~~ 109 (134)
.||||+++|++||.||+|+||+. ..|+++++|.||++| ||| ||++. +.
T Consensus 1 ~V~I~~e~R~~~K~VT~I~Gl~~~~~dlk~l~k~lKk~~----------~cg------------gtv~~---------~~ 49 (77)
T cd00474 1 VVRIRIQQRNGGKTVTTVQGLDLEYADLKKLAKELKKKC----------ACG------------GTVKD---------EV 49 (77)
T ss_pred CEEEEEEECCCCccEEEEECCCCchHhHHHHHHHHHHHc----------CCC------------cEEec---------CE
Confidence 48999999999999999999987 559999999999999 999 99993 68
Q ss_pred EEEeecCCcccccchhhhhhccc
Q psy14758 110 FQASCLGVNRAGMLLKCFLCDKR 132 (134)
Q Consensus 110 iq~~~qG~~r~~~~~~~~l~~~~ 132 (134)
|++ |||||+.+ ++||.++.
T Consensus 50 I~l--QGD~r~~v--~~~L~~~g 68 (77)
T cd00474 50 IEL--QGDQRKKI--KEFLIKMG 68 (77)
T ss_pred EEE--eCcHHHHH--HHHHHHcC
Confidence 999 99999999 99998763
No 5
>PRK00939 translation initiation factor Sui1; Reviewed
Probab=99.75 E-value=2.7e-18 Score=124.78 Aligned_cols=71 Identities=23% Similarity=0.394 Sum_probs=64.9
Q ss_pred CCCCCeEEEEEeeeeCceeEEEEecCC-CCcCHHHHHHHHHhhccccccccccccCCCCCccceeeeecceEEeCchhhc
Q psy14758 26 DVQDGLVHIRIQQRNGRKTLTTVQGLS-SEYDLKKIVRACKKKRFSTFYLSALSKCDPQKVGTYKIFATETLVTSSELKL 104 (134)
Q Consensus 26 ~~eqq~IHIRiqQRngRK~VTtVEGL~-~~~DLKKL~K~LKKkf~~~~~~~~~~~c~~~~~~~~~~~a~gt~~~~~~~~~ 104 (134)
..+++.|||++++||+||.||+|+||+ .++|+++++|.||++| +|| ||++
T Consensus 20 ~~~~~~i~I~~ekr~~gK~VTiI~Gl~~~~~~lk~l~k~lKk~~----------gcG------------gsvk------- 70 (99)
T PRK00939 20 AKEQQRIKIKVDKRRYGKEVTIIEGIDPKDIDLKELAKKLKSKL----------ACG------------GTVK------- 70 (99)
T ss_pred CccCceEEEEEEecCCCceEEEEeCCCCcchhHHHHHHHHHHHh----------CCC------------ceEE-------
Confidence 345799999999999999999999998 5999999999999999 999 9997
Q ss_pred cCCCeEEEeecCCcccccchhhhhhcc
Q psy14758 105 SLGNLFQASCLGVNRAGMLLKCFLCDK 131 (134)
Q Consensus 105 ~~~~~iq~~~qG~~r~~~~~~~~l~~~ 131 (134)
++.|++ |||||+.+ ++||.++
T Consensus 71 --~~~I~i--QGD~r~~v--~~~L~~~ 91 (99)
T PRK00939 71 --DGRIEL--QGDHRERV--KELLIKM 91 (99)
T ss_pred --CCEEEE--eCcHHHHH--HHHHHHc
Confidence 356999 99999999 9999864
No 6
>PRK06824 translation initiation factor Sui1; Validated
Probab=99.75 E-value=2.1e-18 Score=129.57 Aligned_cols=70 Identities=24% Similarity=0.391 Sum_probs=63.7
Q ss_pred CCCCeEEEEEeee-eCceeEEEEecCC-CCcCHHHHHHHHHhhccccccccccccCCCCCccceeeeecceEEeCchhhc
Q psy14758 27 VQDGLVHIRIQQR-NGRKTLTTVQGLS-SEYDLKKIVRACKKKRFSTFYLSALSKCDPQKVGTYKIFATETLVTSSELKL 104 (134)
Q Consensus 27 ~eqq~IHIRiqQR-ngRK~VTtVEGL~-~~~DLKKL~K~LKKkf~~~~~~~~~~~c~~~~~~~~~~~a~gt~~~~~~~~~ 104 (134)
.+++.||||++++ |+||.||+|+||+ ++.|+++|+|.||++| +|| ||++
T Consensus 38 ~~~~~vri~~~~kgr~gK~VTvI~Gl~~~~~dlk~l~K~LKkk~----------gcG------------Gtvk------- 88 (118)
T PRK06824 38 AGDGIVRVRRETKGRGGKTVTVITGVPLAEDALKELAKELKRRC----------GTG------------GTLK------- 88 (118)
T ss_pred CcCceEEEEEEEccCCCceEEEEeCCcCCHHHHHHHHHHHHHHh----------cCC------------ceEe-------
Confidence 3467999988866 8999999999998 6999999999999999 999 9998
Q ss_pred cCCCeEEEeecCCcccccchhhhhhcc
Q psy14758 105 SLGNLFQASCLGVNRAGMLLKCFLCDK 131 (134)
Q Consensus 105 ~~~~~iq~~~qG~~r~~~~~~~~l~~~ 131 (134)
++.|++ |||||+++ ++||.+.
T Consensus 89 --d~~Iei--QGD~r~~v--~~~L~~~ 109 (118)
T PRK06824 89 --DGVIEI--QGDHVELL--LAELLKR 109 (118)
T ss_pred --cCEEEE--cCcHHHHH--HHHHHHC
Confidence 468999 99999999 9999865
No 7
>PRK09019 translation initiation factor Sui1; Validated
Probab=99.74 E-value=3.7e-18 Score=126.66 Aligned_cols=72 Identities=28% Similarity=0.397 Sum_probs=60.8
Q ss_pred CCCCCCeEEEEEee-eeCceeEEEEecCC-CCcCHHHHHHHHHhhccccccccccccCCCCCccceeeeecceEEeCchh
Q psy14758 25 DDVQDGLVHIRIQQ-RNGRKTLTTVQGLS-SEYDLKKIVRACKKKRFSTFYLSALSKCDPQKVGTYKIFATETLVTSSEL 102 (134)
Q Consensus 25 ~~~eqq~IHIRiqQ-RngRK~VTtVEGL~-~~~DLKKL~K~LKKkf~~~~~~~~~~~c~~~~~~~~~~~a~gt~~~~~~~ 102 (134)
..++.+.|.|+.+. +|++|+||+|+||+ ++.|+++|+|.||++| +|| ||++
T Consensus 26 ~~~~~~~vri~~~r~gRkGK~VTiI~Gl~~~~~dlk~l~K~lKkk~----------gcG------------Gtvk----- 78 (108)
T PRK09019 26 RPKGDGIVRIQRQTSGRKGKGVCLITGLDLDDAELKKLAAELKKKC----------GCG------------GAVK----- 78 (108)
T ss_pred CCCcCceEEEEEecCCCCCCeEEEEeCCcCCHHHHHHHHHHHHHHh----------cCC------------CeEE-----
Confidence 34456666666553 35678999999998 6999999999999999 999 9999
Q ss_pred hccCCCeEEEeecCCcccccchhhhhhcc
Q psy14758 103 KLSLGNLFQASCLGVNRAGMLLKCFLCDK 131 (134)
Q Consensus 103 ~~~~~~~iq~~~qG~~r~~~~~~~~l~~~ 131 (134)
++.||+ |||||+++ ++||.+.
T Consensus 79 ----~~~Iel--QGD~r~~v--~~~L~~~ 99 (108)
T PRK09019 79 ----DGVIEI--QGDKRDLL--KSLLEAK 99 (108)
T ss_pred ----cCEEEE--cCcHHHHH--HHHHHHC
Confidence 468999 99999999 9999865
No 8
>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=99.74 E-value=6.8e-18 Score=122.63 Aligned_cols=71 Identities=28% Similarity=0.429 Sum_probs=65.7
Q ss_pred CCCCCeEEEEEeee-eCceeEEEEecCCC-CcCHHHHHHHHHhhccccccccccccCCCCCccceeeeecceEEeCchhh
Q psy14758 26 DVQDGLVHIRIQQR-NGRKTLTTVQGLSS-EYDLKKIVRACKKKRFSTFYLSALSKCDPQKVGTYKIFATETLVTSSELK 103 (134)
Q Consensus 26 ~~eqq~IHIRiqQR-ngRK~VTtVEGL~~-~~DLKKL~K~LKKkf~~~~~~~~~~~c~~~~~~~~~~~a~gt~~~~~~~~ 103 (134)
.++++.|+|++++| |++|.||+|+||+. ..|+++++|.||++| ||+ ||++
T Consensus 20 ~~~~~~i~i~~e~rgr~gK~VTvV~Gl~~~~~~l~~l~k~LKk~~----------gcG------------gtvk------ 71 (101)
T TIGR01158 20 PKEDQVVRIQRETRGRKGKGVTIIEGLDLSDIDLKELAKELKSKC----------GCG------------GTVK------ 71 (101)
T ss_pred CCCCceEEEEEEEecCCCCEEEEEeCCcCchhhHHHHHHHHHHHh----------cCC------------eeEe------
Confidence 45789999999999 99999999999984 899999999999999 999 9997
Q ss_pred ccCCCeEEEeecCCcccccchhhhhhcc
Q psy14758 104 LSLGNLFQASCLGVNRAGMLLKCFLCDK 131 (134)
Q Consensus 104 ~~~~~~iq~~~qG~~r~~~~~~~~l~~~ 131 (134)
++.|++ |||||+.+ ++||.++
T Consensus 72 ---~~~Iei--QGD~~~~v--~~~L~~~ 92 (101)
T TIGR01158 72 ---DGVIEI--QGDHRDRV--KDLLEKK 92 (101)
T ss_pred ---CCEEEE--eCcHHHHH--HHHHHHc
Confidence 468999 99999999 9999875
No 9
>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=99.74 E-value=6e-18 Score=117.04 Aligned_cols=74 Identities=34% Similarity=0.527 Sum_probs=62.0
Q ss_pred CCCeEEEEEeeeeCceeEEEEecCC-CCcCHHHHHHHHHhhccccccccccccCCCCCccceeeeecceEEeCchhhccC
Q psy14758 28 QDGLVHIRIQQRNGRKTLTTVQGLS-SEYDLKKIVRACKKKRFSTFYLSALSKCDPQKVGTYKIFATETLVTSSELKLSL 106 (134)
Q Consensus 28 eqq~IHIRiqQRngRK~VTtVEGL~-~~~DLKKL~K~LKKkf~~~~~~~~~~~c~~~~~~~~~~~a~gt~~~~~~~~~~~ 106 (134)
+.+.|||++++|+|||.||+|+||+ ..+|+++++|.||++| ||+ ||+..++. .
T Consensus 3 ~~~~I~I~~e~r~~~K~vT~V~gl~~~~~d~~~lak~lkk~~----------ac~------------~sv~~~~~----k 56 (83)
T PF01253_consen 3 EPPKIHIRVEKRRGRKFVTIVSGLELFGIDLKELAKELKKKF----------ACG------------GSVTKDPG----K 56 (83)
T ss_dssp -TTCEEEEEEESSSSEEEEEEES--STTSHHHHHHHHHHHHH----------TS-------------EEEEE-TT----T
T ss_pred CCCEEEEEEEeCcCCeEEEEEECCcccccCHHHHHHHHHHhc----------cCc------------eEEeecCC----C
Confidence 5689999999999999999999999 5999999999999999 999 99987642 2
Q ss_pred CCeEEEeecCCcccccchhhhhhcc
Q psy14758 107 GNLFQASCLGVNRAGMLLKCFLCDK 131 (134)
Q Consensus 107 ~~~iq~~~qG~~r~~~~~~~~l~~~ 131 (134)
+..|++ ||||+..+ .+||.++
T Consensus 57 ~~~I~i--QGd~~~~i--~~~L~~~ 77 (83)
T PF01253_consen 57 GEEIQI--QGDHRDEI--KDLLVEK 77 (83)
T ss_dssp SSEEEE--ESS-HHHH--HHHHHHH
T ss_pred CCEEEE--CCcHHHHH--HHHHHHh
Confidence 788999 99999999 9999764
No 10
>PRK07451 translation initiation factor Sui1; Validated
Probab=99.73 E-value=9.6e-18 Score=125.60 Aligned_cols=72 Identities=18% Similarity=0.202 Sum_probs=60.8
Q ss_pred CCCCCCeEEEEEee-eeCceeEEEEecCCC-CcCHHHHHHHHHhhccccccccccccCCCCCccceeeeecceEEeCchh
Q psy14758 25 DDVQDGLVHIRIQQ-RNGRKTLTTVQGLSS-EYDLKKIVRACKKKRFSTFYLSALSKCDPQKVGTYKIFATETLVTSSEL 102 (134)
Q Consensus 25 ~~~eqq~IHIRiqQ-RngRK~VTtVEGL~~-~~DLKKL~K~LKKkf~~~~~~~~~~~c~~~~~~~~~~~a~gt~~~~~~~ 102 (134)
+.++++.|.|+++. +|++|.||+|+||+. ++|+++|+|.||++| +|| ||++
T Consensus 33 ~~~~~~~irI~~~r~gR~GK~VTvV~Gl~~~~~dlk~LaK~LK~k~----------gcG------------Gtvk----- 85 (115)
T PRK07451 33 LPPQQQNLRVQATRSGRKGKTVTVITGFQHKPETLAKLLKQLKTQC----------GSG------------GTVK----- 85 (115)
T ss_pred CCccceeEEEEEEecCCCCCeEEEEeCCCCCHHHHHHHHHHHHHHh----------cCC------------ceEc-----
Confidence 44556666666543 557799999999985 799999999999999 999 9998
Q ss_pred hccCCCeEEEeecCCcccccchhhhhhcc
Q psy14758 103 KLSLGNLFQASCLGVNRAGMLLKCFLCDK 131 (134)
Q Consensus 103 ~~~~~~~iq~~~qG~~r~~~~~~~~l~~~ 131 (134)
++.|++ |||||+++ ++||.+.
T Consensus 86 ----d~~Iel--QGD~r~~v--~~~L~~~ 106 (115)
T PRK07451 86 ----DNTIEI--QGDHRQKI--LEILIKL 106 (115)
T ss_pred ----CCEEEE--cCcHHHHH--HHHHHHC
Confidence 457999 99999999 9999865
No 11
>TIGR01159 DRP1 density-regulated protein DRP1. This protein family shows weak but suggestive similarity to translation initiation factor SUI1 and its prokaryotic homologs.
Probab=99.67 E-value=8.4e-17 Score=127.09 Aligned_cols=74 Identities=22% Similarity=0.251 Sum_probs=66.7
Q ss_pred CCCeEEEEEeeeeCceeEEEEecCCC-CcCHHHHHHHHHhhccccccccccccCCCCCccceeeeecceEEeCchhhccC
Q psy14758 28 QDGLVHIRIQQRNGRKTLTTVQGLSS-EYDLKKIVRACKKKRFSTFYLSALSKCDPQKVGTYKIFATETLVTSSELKLSL 106 (134)
Q Consensus 28 eqq~IHIRiqQRngRK~VTtVEGL~~-~~DLKKL~K~LKKkf~~~~~~~~~~~c~~~~~~~~~~~a~gt~~~~~~~~~~~ 106 (134)
..+.|+|++++|++||.||+|+||+. ++|+++++|.||++| ||| +||+.++. .
T Consensus 87 ~~~~V~I~~~~R~krK~VT~V~GLe~f~idlk~laK~lkkkf----------acG------------~SV~k~~~----~ 140 (173)
T TIGR01159 87 LPQKVTIKREPRTKRKFVTVIKGLETFDIDLKKASKTFAQKF----------ATG------------CSVSKSVT----G 140 (173)
T ss_pred CCCeEEEEEEecCCCceEEEEeCCcCCCcCHHHHHHHHHHHh----------CCC------------CccccCCC----C
Confidence 35899999999999999999999997 999999999999999 999 88875544 2
Q ss_pred CCeEEEeecCCcccccchhhhhhcc
Q psy14758 107 GNLFQASCLGVNRAGMLLKCFLCDK 131 (134)
Q Consensus 107 ~~~iq~~~qG~~r~~~~~~~~l~~~ 131 (134)
++.|++ |||||..+ .+||.++
T Consensus 141 ~~eI~I--QGD~~~~v--~e~L~~~ 161 (173)
T TIGR01159 141 KEEIVI--QGDVMDDI--EDYIHEK 161 (173)
T ss_pred CCEEEe--cCCHHHHH--HHHHHHH
Confidence 689999 99999999 8999875
No 12
>KOG3239|consensus
Probab=98.65 E-value=4.1e-08 Score=79.55 Aligned_cols=72 Identities=25% Similarity=0.326 Sum_probs=60.4
Q ss_pred CeEEEEEeeeeCceeEEEEecCCC-CcCHHHHHHHHHhhccccccccccccCCCCCccceeeeecceEEeCchhhccCCC
Q psy14758 30 GLVHIRIQQRNGRKTLTTVQGLSS-EYDLKKIVRACKKKRFSTFYLSALSKCDPQKVGTYKIFATETLVTSSELKLSLGN 108 (134)
Q Consensus 30 q~IHIRiqQRngRK~VTtVEGL~~-~~DLKKL~K~LKKkf~~~~~~~~~~~c~~~~~~~~~~~a~gt~~~~~~~~~~~~~ 108 (134)
|+|.|...-|+.||.||+|.||.- +||+|+.+|.|-++| ||| -+|..+++ ..+
T Consensus 101 qkV~I~r~~R~KrK~VT~V~GL~~FdIdlk~aaK~fa~KF----------AtG------------aSVtk~a~----kkd 154 (193)
T KOG3239|consen 101 QKVIIKREARTKRKSVTVVKGLETFDIDLKKAAKFFAQKF----------ATG------------ASVTKNAE----KKD 154 (193)
T ss_pred ceeEeeecccCCceeEEEEechhhccccHHHHHHHHHHhh----------ccC------------ccccCCCC----ccc
Confidence 789999999999999999999997 999999999999999 777 33433333 257
Q ss_pred eEEEeecCCcccccchhhhhhcc
Q psy14758 109 LFQASCLGVNRAGMLLKCFLCDK 131 (134)
Q Consensus 109 ~iq~~~qG~~r~~~~~~~~l~~~ 131 (134)
.|-+ |||-...+ .+|+.++
T Consensus 155 EIvI--QGDv~dDi--~d~I~ek 173 (193)
T KOG3239|consen 155 EIVI--QGDVKDDI--FDFIPEK 173 (193)
T ss_pred eEEE--eccchHHH--HHHHHHh
Confidence 8889 99999988 7877654
No 13
>KOG2522|consensus
Probab=96.34 E-value=0.0052 Score=56.43 Aligned_cols=88 Identities=22% Similarity=0.253 Sum_probs=64.4
Q ss_pred CCcccccCCCCCC----CCCCCeEEEEEeeeeCceeEEEEecCCC-CcCHHHHHHHHHhhccccccccccccCCCCCccc
Q psy14758 13 LDPFADAFKGSED----DVQDGLVHIRIQQRNGRKTLTTVQGLSS-EYDLKKIVRACKKKRFSTFYLSALSKCDPQKVGT 87 (134)
Q Consensus 13 fDPFada~~~dd~----~~eqq~IHIRiqQRngRK~VTtVEGL~~-~~DLKKL~K~LKKkf~~~~~~~~~~~c~~~~~~~ 87 (134)
+-||-.....|+. ...--.|.|.+++|-|+|.||.|.||.- .+|...++..|.+.| +|.
T Consensus 446 mtp~yqi~~pdgepivkKgs~ppi~i~te~RagnKkVT~V~nle~fgiDp~S~aa~Lqk~c----------~aS------ 509 (560)
T KOG2522|consen 446 MTPFYQIFKPDGEPIVKKGSLPPIKIITEMRAGNKKVTRVSNLEVFGIDPESLAADLQKIC----------SAS------ 509 (560)
T ss_pred CCcceEEEcCCCceeeecCCCCceEEeehhhccCceEEEEccceeeccCHHHHHHHHHHHe----------eee------
Confidence 4555555444433 2234679999999999999999999997 999999999999999 666
Q ss_pred eeeeecceEEeCchhhccCCCeEEEeecCCcccccchhhhhh
Q psy14758 88 YKIFATETLVTSSELKLSLGNLFQASCLGVNRAGMLLKCFLC 129 (134)
Q Consensus 88 ~~~~a~gt~~~~~~~~~~~~~~iq~~~qG~~r~~~~~~~~l~ 129 (134)
-|+-..+-- -|-.+|+ ||.|-.-+ .++|.
T Consensus 510 ------Ttv~e~pg~---kg~eVqv--QGnqih~i--adlL~ 538 (560)
T KOG2522|consen 510 ------TTVSESPGF---KGAEVQV--QGNQIHSI--ADLLN 538 (560)
T ss_pred ------eecccCCCC---CCceEEE--ecchhhHH--HHHHH
Confidence 444433332 3677888 99987665 55544
No 14
>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=93.48 E-value=0.37 Score=34.07 Aligned_cols=73 Identities=18% Similarity=0.269 Sum_probs=47.7
Q ss_pred CeEEEEEeeee-CceeEEEEecCCCCcCHHHHHHHHHhhccccccccccccCCCCCccceeeeecceEEeCchhhccCCC
Q psy14758 30 GLVHIRIQQRN-GRKTLTTVQGLSSEYDLKKIVRACKKKRFSTFYLSALSKCDPQKVGTYKIFATETLVTSSELKLSLGN 108 (134)
Q Consensus 30 q~IHIRiqQRn-gRK~VTtVEGL~~~~DLKKL~K~LKKkf~~~~~~~~~~~c~~~~~~~~~~~a~gt~~~~~~~~~~~~~ 108 (134)
..+=|...-++ |.+.+|+|.-+..| +..|.++|++-|. -.. + +-+ .+-+. + ..+
T Consensus 12 ~~LPVY~~~k~~g~~~~T~IrkI~GD--~~aL~~dL~~~l~---------~~~----~--~~~--~~~V~--~----~~g 66 (87)
T PF05046_consen 12 GNLPVYLDIKNGGNRKITVIRKIEGD--IWALKKDLRKFLG---------EKP----K--KKI--DVRVN--E----LTG 66 (87)
T ss_pred CcccEEEEEeCCCcEeEEEEEeecCC--HHHHHHHHHHHhh---------hhc----C--CCc--ceEEe--e----cCC
Confidence 44556666666 67899999999874 5667777777660 000 0 000 11221 1 367
Q ss_pred eEEEeecCCcccccchhhhhhcc
Q psy14758 109 LFQASCLGVNRAGMLLKCFLCDK 131 (134)
Q Consensus 109 ~iq~~~qG~~r~~~~~~~~l~~~ 131 (134)
.|++ .|||...+ +.||.++
T Consensus 67 ~i~I--kG~~~~~V--k~wL~~~ 85 (87)
T PF05046_consen 67 HIEI--KGDHVEEV--KKWLLEK 85 (87)
T ss_pred EEEE--cCccHHHH--HHHHHHC
Confidence 8999 99999999 9999875
No 15
>COG2080 CoxS Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]
Probab=58.40 E-value=9.8 Score=30.34 Aligned_cols=27 Identities=22% Similarity=0.369 Sum_probs=23.5
Q ss_pred ceeEEEEecCC-CCcCHHHHHHHHHhhc
Q psy14758 42 RKTLTTVQGLS-SEYDLKKIVRACKKKR 68 (134)
Q Consensus 42 RK~VTtVEGL~-~~~DLKKL~K~LKKkf 68 (134)
++.|||||||. .+..|+-+-++|....
T Consensus 69 G~~ItTiEGl~~~~~~l~~vQ~Af~e~~ 96 (156)
T COG2080 69 GAEITTIEGLAKKDGGLHPVQQAFLEHD 96 (156)
T ss_pred CCeEEEeecccCCCCCcCHHHHHHHHcC
Confidence 47899999998 5677899999999987
No 16
>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=57.52 E-value=10 Score=25.46 Aligned_cols=26 Identities=42% Similarity=0.677 Sum_probs=20.6
Q ss_pred EEEeeeeCceeEEEEecCCCCcCHHHHHHHHHhhc
Q psy14758 34 IRIQQRNGRKTLTTVQGLSSEYDLKKIVRACKKKR 68 (134)
Q Consensus 34 IRiqQRngRK~VTtVEGL~~~~DLKKL~K~LKKkf 68 (134)
|.+.+|+|++ ..||..||.+.+.+.+
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 5788899876 5799999999999876
No 17
>PRK05412 putative nucleotide-binding protein; Reviewed
Probab=53.13 E-value=11 Score=30.25 Aligned_cols=26 Identities=31% Similarity=0.500 Sum_probs=22.2
Q ss_pred ceeEEEEecCCCCcCHHHHHHHHHhhc
Q psy14758 42 RKTLTTVQGLSSEYDLKKIVRACKKKR 68 (134)
Q Consensus 42 RK~VTtVEGL~~~~DLKKL~K~LKKkf 68 (134)
|..+++.+||+.+. -|+|+|.+|..-
T Consensus 91 rq~i~lk~GI~~e~-AKkIvK~IKd~k 116 (161)
T PRK05412 91 KQEVKLKQGIDQEL-AKKIVKLIKDSK 116 (161)
T ss_pred EEEEehhhccCHHH-HHHHHHHHHhcC
Confidence 56789999999875 899999999766
No 18
>PRK09908 xanthine dehydrogenase subunit XdhC; Provisional
Probab=52.58 E-value=11 Score=29.82 Aligned_cols=27 Identities=22% Similarity=0.286 Sum_probs=21.1
Q ss_pred ceeEEEEecCCCCcCHHHHHHHHHhhc
Q psy14758 42 RKTLTTVQGLSSEYDLKKIVRACKKKR 68 (134)
Q Consensus 42 RK~VTtVEGL~~~~DLKKL~K~LKKkf 68 (134)
++.|||||||.++-.+.-|-++|-..-
T Consensus 73 G~~V~TiEGl~~~~~l~pvQ~Af~~~~ 99 (159)
T PRK09908 73 GKEIRTLEGEAKGGKLSHVQQAYAKSG 99 (159)
T ss_pred CCEEEeecCCCCCCCCCHHHHHHHHcC
Confidence 589999999986546777888887665
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=50.36 E-value=13 Score=29.22 Aligned_cols=27 Identities=22% Similarity=0.426 Sum_probs=21.4
Q ss_pred ceeEEEEecCCCCcCHHHHHHHHHhhc
Q psy14758 42 RKTLTTVQGLSSEYDLKKIVRACKKKR 68 (134)
Q Consensus 42 RK~VTtVEGL~~~~DLKKL~K~LKKkf 68 (134)
+|.|||||||.+.-.+.-|-++|-...
T Consensus 67 G~~V~TiEgl~~~~~l~pvq~af~~~~ 93 (148)
T TIGR03193 67 GRKVETVEGLATNGRLSRLQQAFHERL 93 (148)
T ss_pred CCcEEEeCCCCCCCCCCHHHHHHHHcC
Confidence 688999999986446777888887765
No 20
>PF04461 DUF520: Protein of unknown function (DUF520); InterPro: IPR007551 This entry represents the UPF0234 family of uncharacterised proteins.; PDB: 1IN0_A.
Probab=50.07 E-value=14 Score=29.68 Aligned_cols=26 Identities=31% Similarity=0.503 Sum_probs=17.3
Q ss_pred ceeEEEEecCCCCcCHHHHHHHHHhhc
Q psy14758 42 RKTLTTVQGLSSEYDLKKIVRACKKKR 68 (134)
Q Consensus 42 RK~VTtVEGL~~~~DLKKL~K~LKKkf 68 (134)
|..+|+.+||+.+. -|+|+|.+|..-
T Consensus 91 rq~i~lk~GI~~d~-AKkIvK~IKd~k 116 (160)
T PF04461_consen 91 RQVIKLKQGIDQDT-AKKIVKLIKDSK 116 (160)
T ss_dssp EEEEEE--S--HHH-HHHHHHHHHHH-
T ss_pred EEEEEeecccCHHH-HHHHHHHHHhcC
Confidence 56899999999874 788999998765
No 21
>KOG4034|consensus
Probab=42.68 E-value=49 Score=27.01 Aligned_cols=71 Identities=15% Similarity=0.275 Sum_probs=41.2
Q ss_pred EEEEEeeee-CceeEEEEecCCCCcCHHHHHHHHHhhccccccccccccCCCCCccceeeeecceEEeC-chhhccCCCe
Q psy14758 32 VHIRIQQRN-GRKTLTTVQGLSSEYDLKKIVRACKKKRFSTFYLSALSKCDPQKVGTYKIFATETLVTS-SELKLSLGNL 109 (134)
Q Consensus 32 IHIRiqQRn-gRK~VTtVEGL~~~~DLKKL~K~LKKkf~~~~~~~~~~~c~~~~~~~~~~~a~gt~~~~-~~~~~~~~~~ 109 (134)
+-++..-++ |.|.+|+|.-+..|+- .+-+.|...+ .=-|. +++.+. .| +.+.
T Consensus 96 lPVYl~~k~~G~k~lT~IRkVeGDi~--aLe~DL~s~L----------~~~~~----------~s~~t~Vne----lsgq 149 (169)
T KOG4034|consen 96 LPVYLDYKQRGNKILTVIRKVEGDIW--ALENDLRSTL----------EMSPK----------KSYATHVNE----LSGQ 149 (169)
T ss_pred cceEEeeecCCcEEEEEEEeecccHH--HHHHHHHHHH----------hhccC----------CChhhhhhh----hcce
Confidence 344555555 8999999999986442 2333333333 00000 223211 12 3567
Q ss_pred EEEeecCCcccccchhhhhhccc
Q psy14758 110 FQASCLGVNRAGMLLKCFLCDKR 132 (134)
Q Consensus 110 iq~~~qG~~r~~~~~~~~l~~~~ 132 (134)
|-+ -|+|-..+ ++||.+|-
T Consensus 150 I~~--~g~~v~~v--r~~L~eKG 168 (169)
T KOG4034|consen 150 IVL--KGNHVDTV--REWLQEKG 168 (169)
T ss_pred EEE--eCChHHHH--HHHHHHcc
Confidence 887 89998855 99998873
No 22
>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=37.79 E-value=24 Score=27.55 Aligned_cols=26 Identities=19% Similarity=0.366 Sum_probs=19.9
Q ss_pred ceeEEEEecCCCCcCHHHHHHHHHhhc
Q psy14758 42 RKTLTTVQGLSSEYDLKKIVRACKKKR 68 (134)
Q Consensus 42 RK~VTtVEGL~~~~DLKKL~K~LKKkf 68 (134)
+|.|||||||..+ .+.-|-++|-...
T Consensus 69 G~~v~TiEgl~~~-~l~pvQ~af~~~~ 94 (151)
T TIGR03198 69 GHEITTIEGIAEN-ELDPCQTAFLEEG 94 (151)
T ss_pred CCEEEecCCcCCC-CCCHHHHHHHHcC
Confidence 5899999999742 4666888887665
No 23
>PRK03988 translation initiation factor IF-2 subunit beta; Validated
Probab=37.19 E-value=54 Score=25.26 Aligned_cols=28 Identities=18% Similarity=0.297 Sum_probs=21.6
Q ss_pred eeCceeEEEEecCCC-----CcCHHHHHHHHHhhc
Q psy14758 39 RNGRKTLTTVQGLSS-----EYDLKKIVRACKKKR 68 (134)
Q Consensus 39 RngRK~VTtVEGL~~-----~~DLKKL~K~LKKkf 68 (134)
|-|+| |+|..+.+ .=+..-++|+|-++|
T Consensus 37 ~eG~k--Tvi~Nf~~I~~~L~R~~~hv~ky~~~EL 69 (138)
T PRK03988 37 IEGNR--TIIRNFKEIADRLNRDPKHVAKFLLKEL 69 (138)
T ss_pred EEcCc--EEEecHHHHHHHHCCCHHHHHHHHHHHh
Confidence 44555 89998865 556788899999999
No 24
>TIGR00311 aIF-2beta translation initiation factor aIF-2, beta subunit, putative.
Probab=36.76 E-value=47 Score=25.45 Aligned_cols=26 Identities=19% Similarity=0.341 Sum_probs=20.8
Q ss_pred CceeEEEEecCCC-----CcCHHHHHHHHHhhc
Q psy14758 41 GRKTLTTVQGLSS-----EYDLKKIVRACKKKR 68 (134)
Q Consensus 41 gRK~VTtVEGL~~-----~~DLKKL~K~LKKkf 68 (134)
|+| |+|..+.+ .=+..-+.|+|-++|
T Consensus 34 G~k--Tvi~Nf~~Ia~~L~R~~~~v~ky~~~EL 64 (133)
T TIGR00311 34 GNR--TIIQNFREVAKALNRDEQHLLKYLLKEL 64 (133)
T ss_pred cCc--EEEecHHHHHHHHCCCHHHHHHHHHHHh
Confidence 555 99999865 556788899999999
No 25
>KOG4616|consensus
Probab=36.18 E-value=16 Score=28.62 Aligned_cols=32 Identities=16% Similarity=0.402 Sum_probs=28.2
Q ss_pred EEEeeeeCceeEEEEecCCCCcCHHHHHHHHH
Q psy14758 34 IRIQQRNGRKTLTTVQGLSSEYDLKKIVRACK 65 (134)
Q Consensus 34 IRiqQRngRK~VTtVEGL~~~~DLKKL~K~LK 65 (134)
-|+.-|+-++.+|+.|-+++.+|-++-.|.+|
T Consensus 97 ~rlaarkpkaki~~~e~idd~fd~~eymkf~~ 128 (137)
T KOG4616|consen 97 ARLAARKPKAKIKIMEEIDDNFDAKEYMKFIK 128 (137)
T ss_pred HHHhhcCccccceehhhhhcccCHHHHHHHHh
Confidence 36677888899999999999999999998876
No 26
>PRK11433 aldehyde oxidoreductase 2Fe-2S subunit; Provisional
Probab=34.91 E-value=32 Score=28.65 Aligned_cols=27 Identities=30% Similarity=0.384 Sum_probs=20.7
Q ss_pred ceeEEEEecCCCCcCHHHHHHHHHhhc
Q psy14758 42 RKTLTTVQGLSSEYDLKKIVRACKKKR 68 (134)
Q Consensus 42 RK~VTtVEGL~~~~DLKKL~K~LKKkf 68 (134)
++.|||||||.+.-.+.-+-++|-+.-
T Consensus 117 G~~ItTiEGL~~~~~lhpvQ~Af~~~~ 143 (217)
T PRK11433 117 GAEITTIEGLGSPDNLHPMQAAFVKHD 143 (217)
T ss_pred CCEEEEeCCcCCCCCCCHHHHHHHHcC
Confidence 578999999986445777888877655
No 27
>PRK12336 translation initiation factor IF-2 subunit beta; Provisional
Probab=29.50 E-value=88 Score=25.09 Aligned_cols=27 Identities=11% Similarity=0.324 Sum_probs=20.9
Q ss_pred eCceeEEEEecCCC-----CcCHHHHHHHHHhhc
Q psy14758 40 NGRKTLTTVQGLSS-----EYDLKKIVRACKKKR 68 (134)
Q Consensus 40 ngRK~VTtVEGL~~-----~~DLKKL~K~LKKkf 68 (134)
.|+| |+|..+.+ .=+..-+.|+|-.+|
T Consensus 34 eG~k--T~i~N~~~i~~~l~R~~~~~~ky~~~EL 65 (201)
T PRK12336 34 EGKT--TILTNFGEIADALNRDPDHLMKFLQREL 65 (201)
T ss_pred EcCc--EEEecHHHHHHHHCCCHHHHHHHHHHHh
Confidence 4444 89998865 556788899999999
No 28
>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=25.16 E-value=87 Score=18.64 Aligned_cols=21 Identities=10% Similarity=0.045 Sum_probs=18.3
Q ss_pred EEecCCCCcCHHHHHHHHHhhc
Q psy14758 47 TVQGLSSEYDLKKIVRACKKKR 68 (134)
Q Consensus 47 tVEGL~~~~DLKKL~K~LKKkf 68 (134)
.|.|||.++....|.+.|++ +
T Consensus 2 ~v~nlp~~~t~~~l~~~f~~-~ 22 (70)
T PF00076_consen 2 YVGNLPPDVTEEELRDFFSQ-F 22 (70)
T ss_dssp EEESETTTSSHHHHHHHHHT-T
T ss_pred EEcCCCCcCCHHHHHHHHHH-h
Confidence 57899999999999888887 6
No 29
>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=23.52 E-value=25 Score=26.90 Aligned_cols=32 Identities=25% Similarity=0.475 Sum_probs=26.3
Q ss_pred EEeeeeCceeEEEEecCCCCcCHHHHHHHHHh
Q psy14758 35 RIQQRNGRKTLTTVQGLSSEYDLKKIVRACKK 66 (134)
Q Consensus 35 RiqQRngRK~VTtVEGL~~~~DLKKL~K~LKK 66 (134)
|+..|..++.++..+-+.|+||..+-.+.+||
T Consensus 85 rl~kR~pk~k~~~~~e~eD~Fd~~~Y~~fwkK 116 (116)
T PF09776_consen 85 RLRKRKPKKKIKIEEELEDDFDAEKYKKFWKK 116 (116)
T ss_pred HHHHhCCccccccchhhcccCCHHHHHHHhhC
Confidence 44567777778888999999999999988876
No 30
>smart00653 eIF2B_5 domain present in translation initiation factor eIF2B and eIF5.
Probab=22.23 E-value=1.2e+02 Score=22.38 Aligned_cols=29 Identities=10% Similarity=0.201 Sum_probs=21.9
Q ss_pred eeCceeEEEEecCCC-----CcCHHHHHHHHHhhc
Q psy14758 39 RNGRKTLTTVQGLSS-----EYDLKKIVRACKKKR 68 (134)
Q Consensus 39 RngRK~VTtVEGL~~-----~~DLKKL~K~LKKkf 68 (134)
+-|+| -|+|..+.+ .=+..-++|+|-++|
T Consensus 13 ~eG~~-kTvi~Nf~~I~~~L~R~p~hv~kyl~~EL 46 (110)
T smart00653 13 REGKG-KTVIVNFADIAKALNRPPDHVLKFLLAEL 46 (110)
T ss_pred EEcCC-eEEEEcHHHHHHHHCCCHHHHHHHHHHHh
Confidence 33543 688888865 556888999999999
Done!