Query 027572
Match_columns 221
No_of_seqs 29 out of 31
Neff 3.7
Searched_HMMs 46136
Date Fri Mar 29 11:56:18 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/027572.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/027572hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF13563 2_5_RNA_ligase2: 2'-5 96.8 0.00071 1.5E-08 52.5 2.3 95 111-214 26-123 (153)
2 PRK13679 hypothetical protein; 96.4 0.03 6.6E-07 46.0 9.3 122 73-213 3-126 (168)
3 TIGR02258 2_5_ligase 2'-5' RNA 96.1 0.036 7.9E-07 45.1 8.2 123 76-212 6-134 (179)
4 COG1514 LigT 2'-5' RNA ligase 94.2 0.33 7.2E-06 41.4 8.6 122 75-210 5-132 (180)
5 PRK15124 2'-5' RNA ligase; Pro 94.1 0.47 1E-05 39.4 9.1 122 72-210 5-133 (176)
6 PF10469 AKAP7_NLS: AKAP7 2'5' 92.5 0.76 1.7E-05 38.8 8.0 129 74-210 4-152 (209)
7 PF02834 LigT_PEase: LigT like 91.9 0.62 1.3E-05 33.7 5.9 77 77-160 1-78 (87)
8 PF08975 2H-phosphodiest: Doma 83.3 5 0.00011 32.8 6.6 63 101-165 44-118 (118)
9 KOG1502 Flavonol reductase/cin 66.3 8 0.00017 36.6 4.1 52 114-166 81-134 (327)
10 PHA02574 57B hypothetical prot 58.3 48 0.001 27.9 6.9 120 68-216 5-127 (149)
11 PF09749 HVSL: Uncharacterised 55.9 74 0.0016 27.8 8.1 100 107-213 86-194 (239)
12 PF11713 Peptidase_C80: Peptid 50.5 43 0.00092 28.1 5.4 80 86-171 16-115 (157)
13 PF12321 DUF3634: Protein of u 41.4 60 0.0013 26.4 4.8 55 129-192 43-97 (108)
14 PLN00108 unknown protein; Prov 41.4 1.8E+02 0.0038 26.9 8.3 129 71-209 36-198 (257)
15 COG3064 TolA Membrane protein 41.0 24 0.00052 34.1 2.8 48 143-196 324-375 (387)
16 cd06150 YjgF_YER057c_UK114_lik 35.3 53 0.0011 24.9 3.5 38 2-39 12-50 (105)
17 PF06519 TolA: TolA C-terminal 35.1 29 0.00064 27.0 2.0 47 143-196 35-86 (96)
18 COG0309 HypE Hydrogenase matur 33.8 64 0.0014 31.0 4.4 65 138-216 257-334 (339)
19 PF13103 TonB_2: TonB C termin 32.7 1.1E+02 0.0024 21.8 4.6 41 151-191 27-72 (85)
20 COG0547 TrpD Anthranilate phos 29.0 1.1E+02 0.0024 29.1 5.1 64 26-94 139-212 (338)
21 PF01042 Ribonuc_L-PSP: Endori 26.1 65 0.0014 24.9 2.6 37 3-39 21-64 (121)
22 PRK09510 tolA cell envelope in 24.7 65 0.0014 31.3 2.8 41 155-197 331-375 (387)
23 cd04925 ACT_ACR_2 ACT domain-c 24.2 20 0.00044 25.7 -0.5 41 18-58 8-48 (74)
24 cd06155 eu_AANH_C_1 A group of 22.8 1.2E+02 0.0025 22.9 3.4 37 3-39 10-47 (101)
25 cd04927 ACT_ACR-like_2 Second 22.0 25 0.00054 25.5 -0.4 42 17-58 7-49 (76)
26 cd08797 Death_NFkB1_p105 Death 21.3 30 0.00065 26.5 -0.1 26 159-185 39-64 (76)
27 PF09164 VitD-bind_III: Vitami 20.4 18 0.0004 27.3 -1.4 30 177-206 16-45 (68)
No 1
>PF13563 2_5_RNA_ligase2: 2'-5' RNA ligase superfamily; PDB: 1IUH_A.
Probab=96.84 E-value=0.00071 Score=52.49 Aligned_cols=95 Identities=20% Similarity=0.150 Sum_probs=62.5
Q ss_pred ceEEEeecCCCCCCCCCChHHHHHHHHHHHHHHhhcCcceEEEeEEEEcC--CcceEEeeeecCCCChHHHHHHHHHhCC
Q 027572 111 YHFSMFHASHHISPVPATEDEIEAEATAVRAVAEDLCPLKIVLDRVILTS--TGVLLGCWQVISGTDPMTIRAKLRTALP 188 (221)
Q Consensus 111 yH~TvFHaShh~dP~pat~~e~~~E~~av~~v~~~~cPi~~~leRVV~ts--sGvlL~cwqv~~g~dp~~iR~~Lr~alP 188 (221)
.|+|++......+.. ++=.++++.++++.-|+++.++++-.-. ++ +|.+ .+........|+++|.++++
T Consensus 26 pHITL~~~~~~~~~~-------~~~~~~l~~~~~~~~~f~l~l~~~~~F~~~~~-vi~l-~~~~~~~L~~L~~~l~~~~~ 96 (153)
T PF13563_consen 26 PHITLAFPFDIDDSL-------DELVEALARLAAGFPPFELRLDGFGSFPGKGR-VIFL-NVEPSPELEALHRALREALR 96 (153)
T ss_dssp -EEEEEEEEE--GGG-------HHHHHHHHHHHHHS--EEEEEEEEEEESSSSS-SEEE-EEEE-HHHHHHHHHHHHHHH
T ss_pred CEeEEEecCcccccH-------HHHHHHHHHHHccCCCeEEEEccEEEcCCCCC-EEEE-EcCCCHHHHHHHHHHHHHHH
Confidence 999999886544322 5556678888889999999999999884 55 3333 46556677999999999988
Q ss_pred CCCccCcc-CceeeeehhhhhcCCCCC
Q 027572 189 NAPEKQLY-DPAILHTSFARLLGHPRA 214 (221)
Q Consensus 189 ~AP~kQ~~-d~~IlHtTlaRlL~Pp~~ 214 (221)
....++-. ++.+-|.|+||-+...+.
T Consensus 97 ~~~~~~~~~~~~~PHiTia~~~~~~~~ 123 (153)
T PF13563_consen 97 PFGFKQDSYRPFRPHITIARRLSPKQA 123 (153)
T ss_dssp HHHGGGGGGS----EEEEEEESS----
T ss_pred HcCCccccCCCcceEEEEeccCCcchh
Confidence 77665533 789999999999988765
No 2
>PRK13679 hypothetical protein; Provisional
Probab=96.41 E-value=0.03 Score=46.04 Aligned_cols=122 Identities=16% Similarity=0.257 Sum_probs=78.6
Q ss_pred EEEEeecCcccchHHHHHHHHhcCCCCCceeeeeCCCcceEEEeecCCCCCCCCCChHHHHHHHHHHHHHHhhcCcceEE
Q 027572 73 RANVLYLSPKYSVPISDAVKRIFSPHFDKVIWFQNSSLYHFSMFHASHHISPVPATEDEIEAEATAVRAVAEDLCPLKIV 152 (221)
Q Consensus 73 Ra~Vl~l~~~~a~~i~~av~~~l~p~~d~~iw~q~~~~yH~TvFHaShh~dP~pat~~e~~~E~~av~~v~~~~cPi~~~ 152 (221)
+.+.+.+|.+..+.+.+ +++.+.+. .-|+ +| |+|+-. |-..++++++.=++++++++....|+++.
T Consensus 3 ~~iai~~p~~~~~~l~~-~~~~~~~~---~~~v-~p---HITL~f------~g~~~~~~~~~l~~~l~~~~~~~~pf~l~ 68 (168)
T PRK13679 3 YGIVLFPSKKIQDFANS-YRKRYDPH---YALI-PP---HITLKE------PFEISDEQLDSIVEELRAIASETKPFTLH 68 (168)
T ss_pred eEEEEcCCHHHHHHHHH-HHHhhCcc---cccC-CC---ceEEec------CCCCCHHHHHHHHHHHHHHHhcCCCEEEE
Confidence 46677777755455533 34445442 2253 44 999976 11234556666677888889899999999
Q ss_pred EeEEEEcC--CcceEEeeeecCCCChHHHHHHHHHhCCCCCccCccCceeeeehhhhhcCCCC
Q 027572 153 LDRVILTS--TGVLLGCWQVISGTDPMTIRAKLRTALPNAPEKQLYDPAILHTSFARLLGHPR 213 (221)
Q Consensus 153 leRVV~ts--sGvlL~cwqv~~g~dp~~iR~~Lr~alP~AP~kQ~~d~~IlHtTlaRlL~Pp~ 213 (221)
++.+-.=+ +|++-+ .+....+...|+++|++.+=+. +.+ .+.+-|.||||.+++.+
T Consensus 69 l~~~~~F~~~~~vl~l--~~~~~~~L~~L~~~l~~~~~~~-~~~--~~f~PHiTlar~~~~~~ 126 (168)
T PRK13679 69 VTKVSSFAPTNNVIYF--KVEKTEELEELHERLHSGDFYG-EAE--YAFVPHITIGQGLSDDE 126 (168)
T ss_pred EeccccCCCCCCEEEE--EccCCHHHHHHHHHHHhccccc-ccC--CCCCCeEEeeCCCCcHH
Confidence 99985532 355533 3555456799999998775322 222 35889999999987643
No 3
>TIGR02258 2_5_ligase 2'-5' RNA ligase. This protein family consists of bacterial and archaeal proteins with two tandem copies of Pfam domain pfam02834. Members for which activity has been measured perform a reversible, ATP-independent 2'-5'-ligation of what is presumably a non-phyiological substrate: half-tRNA splice intermediates from an intron-containing yeast tRNA. The physiological substrate(s) in prokaryotes may include small 2'-5'-link-containing oligonucleotides, perhaps with regulatory or biosynthetic roles.
Probab=96.11 E-value=0.036 Score=45.08 Aligned_cols=123 Identities=20% Similarity=0.283 Sum_probs=72.1
Q ss_pred EeecCcccchHHHHHHHHhcCCCCCceeeeeCCCcceEEEeecCCCCCCCCCChHHHHHHHHHHHHHHhhcCcceEEEeE
Q 027572 76 VLYLSPKYSVPISDAVKRIFSPHFDKVIWFQNSSLYHFSMFHASHHISPVPATEDEIEAEATAVRAVAEDLCPLKIVLDR 155 (221)
Q Consensus 76 Vl~l~~~~a~~i~~av~~~l~p~~d~~iw~q~~~~yH~TvFHaShh~dP~pat~~e~~~E~~av~~v~~~~cPi~~~leR 155 (221)
.+++|++..+.|.+.-+++-.. .......+++.+|+|+.-- ... ++.+++.=.+++++++. .|+++.++.
T Consensus 6 Al~~p~~~~~~l~~~~~~l~~~--~~~~r~~~~~~~HiTL~fl----g~~--~~~~~~~l~~~l~~~~~--~~f~l~l~~ 75 (179)
T TIGR02258 6 AIDLPPEIREQLSRIQRKLKSP--LDGIKWVPPENLHITLKFL----GEV--DEEQVEELEDALAKIAE--PPFTLKLEG 75 (179)
T ss_pred EecCCHHHHHHHHHHHHHhhcc--CCCcEECChHHCEEEEEEc----cCC--CHHHHHHHHHHHHHhcC--CCeEEEEee
Confidence 3466776666665554444312 2234556778899999532 112 23333333334444443 468899999
Q ss_pred EEEcCC----cceEEeeeecCCCChHHHHHHHHHhCCCC--CccCccCceeeeehhhhhcCCC
Q 027572 156 VILTST----GVLLGCWQVISGTDPMTIRAKLRTALPNA--PEKQLYDPAILHTSFARLLGHP 212 (221)
Q Consensus 156 VV~tss----GvlL~cwqv~~g~dp~~iR~~Lr~alP~A--P~kQ~~d~~IlHtTlaRlL~Pp 212 (221)
+-.=+. +++.+ .+....+...|++++++++... +.+. .+..-|.||||...+.
T Consensus 76 ~~~F~~~~~~~vl~l--~~~~~~~L~~L~~~l~~~~~~~g~~~~~--~~f~PHiTlar~~~~~ 134 (179)
T TIGR02258 76 IGVFGNPKRPRVLWA--GVEQSEELTQLHADLERELAKLGFSKEE--RPFTPHITLARKKSGK 134 (179)
T ss_pred eeeCCCCCCCeEEEE--eeCCCHHHHHHHHHHHHHHHHcCCCCCC--CCcCCCEEEEEecCCc
Confidence 877544 44322 2444446788889998887543 2122 3588999999987644
No 4
>COG1514 LigT 2'-5' RNA ligase [Translation, ribosomal structure and biogenesis]
Probab=94.24 E-value=0.33 Score=41.44 Aligned_cols=122 Identities=19% Similarity=0.284 Sum_probs=80.3
Q ss_pred EEeecCcccchHHHHHHHHhcCCCCCcee-eeeCCCcceEEEeecCCCCCCCCCChHHHHHHHHHHHHHHhhcCcceEEE
Q 027572 75 NVLYLSPKYSVPISDAVKRIFSPHFDKVI-WFQNSSLYHFSMFHASHHISPVPATEDEIEAEATAVRAVAEDLCPLKIVL 153 (221)
Q Consensus 75 ~Vl~l~~~~a~~i~~av~~~l~p~~d~~i-w~q~~~~yH~TvFHaShh~dP~pat~~e~~~E~~av~~v~~~~cPi~~~l 153 (221)
+.+.+|+++++.|.++.+.+.... ++ |+ .++.||+|+-+ +--++... ++.=++++++++... |+.+.+
T Consensus 5 iAl~~p~~i~~~i~~~~~~~~~~~---~~k~v-~~en~HiTL~f----lGev~e~~--~~~l~~~l~~i~~~~-~f~i~l 73 (180)
T COG1514 5 IALDPPAEIAERLARIRARLKGAR---AIKWV-EPENLHITLKF----LGEVDEDK--ADELIEALARIAAPE-PFPITL 73 (180)
T ss_pred EEecCCHHHHHHHHHHHHhcCccc---ccccc-cccCceEEEEc----cCCcCchH--HHHHHHHHHHhhcCC-ceEEEE
Confidence 345677788888877777765432 44 55 56679999964 33333332 333337888888888 999999
Q ss_pred eEEEE-cCCcceEEeeeecCCCC-hHHHHHHHHHhCCCC---CccCccCceeeeehhhhhcC
Q 027572 154 DRVIL-TSTGVLLGCWQVISGTD-PMTIRAKLRTALPNA---PEKQLYDPAILHTSFARLLG 210 (221)
Q Consensus 154 eRVV~-tssGvlL~cwqv~~g~d-p~~iR~~Lr~alP~A---P~kQ~~d~~IlHtTlaRlL~ 210 (221)
+.+-. -+.+..--.|.=..+++ ...|.+.+++.+=++ |++. +..=|.|+||+.+
T Consensus 74 ~g~g~F~~~~~~rvi~~~v~~~~~L~~L~~~l~~~~~~~g~~~~~r---~F~PHvTl~r~k~ 132 (180)
T COG1514 74 DGAGSFPNPRRPRVIWVGVEETEELRALAEELERALARLGLRPEER---PFVPHVTLARVKS 132 (180)
T ss_pred eeEcccCCCCCCcEEEEcCCCcHHHHHHHHHHHHHHHhcCCCCCCC---CcCCCEEEEeecc
Confidence 99854 34466666663334433 577777777664444 2233 5788999999997
No 5
>PRK15124 2'-5' RNA ligase; Provisional
Probab=94.10 E-value=0.47 Score=39.37 Aligned_cols=122 Identities=13% Similarity=0.116 Sum_probs=69.0
Q ss_pred eEEEEe-ecCcccchHHHHHHHHhcCCCCCcee-eeeCCCcceEEEeecCCCCCCCCCChHHHHHHHHHHHHHHhhcCcc
Q 027572 72 VRANVL-YLSPKYSVPISDAVKRIFSPHFDKVI-WFQNSSLYHFSMFHASHHISPVPATEDEIEAEATAVRAVAEDLCPL 149 (221)
Q Consensus 72 VRa~Vl-~l~~~~a~~i~~av~~~l~p~~d~~i-w~q~~~~yH~TvFHaShh~dP~pat~~e~~~E~~av~~v~~~~cPi 149 (221)
.|+-+. ++|++..+.+.+..++.... ..+ |+ +++.+|+|+.-=.- .+++.++.-.+++.++ ...|+
T Consensus 5 ~RlFiAl~~p~~~~~~l~~~~~~~~~~---~~~rwv-~~~nlHiTL~FlG~------v~~~~~~~l~~~l~~~--~~~pF 72 (176)
T PRK15124 5 KRLFFAIDLPDEIRQQIIHWRATHFPP---EAGRPV-AAANLHLTLAFLGE------VSAEKQQALSQLAGRI--RQPGF 72 (176)
T ss_pred eEEEEEeCCCHHHHHHHHHHHHHhccc---cCcccc-cccccEEEEEecCC------CCHHHHHHHHHHHHhc--ccCCe
Confidence 455444 67877777777766555421 124 55 47789999853221 2334444444444444 45789
Q ss_pred eEEEeEEEEcCCcceEEeee-ecCCC-ChHHHHHHHHHhCCC---CCccCccCceeeeehhhhhcC
Q 027572 150 KIVLDRVILTSTGVLLGCWQ-VISGT-DPMTIRAKLRTALPN---APEKQLYDPAILHTSFARLLG 210 (221)
Q Consensus 150 ~~~leRVV~tssGvlL~cwq-v~~g~-dp~~iR~~Lr~alP~---AP~kQ~~d~~IlHtTlaRlL~ 210 (221)
.+.++++-.=+..-+| |- +..+. +...|-+.+++++-. .+.+- +..=|-||||..+
T Consensus 73 ~l~l~~~g~Fp~prvl--wlg~~~~~~~L~~L~~~l~~~l~~~G~~~e~r---~f~PHiTLaR~~~ 133 (176)
T PRK15124 73 TLTLDDAGQWPRSRVV--WLGMRQPPRGLLQLANMLRSQAARSGCYQSPQ---PFHPHITLLRDAS 133 (176)
T ss_pred EEEECcccCcCCCCEE--EEEcCCCCHHHHHHHHHHHHHHHHcCCCCCCC---CCCCCEeeccCCC
Confidence 9999988554432232 32 33333 446666666654321 12222 4778999999765
No 6
>PF10469 AKAP7_NLS: AKAP7 2'5' RNA ligase-like domain; InterPro: IPR019510 This entry represents the N-terminal nuclear localisation signal-containing domain found in the cyclic AMP-dependent protein kinase A (PKA) anchor protein, AKAP7. This protein anchors PKA for its role in regulating PKA-mediated gene transcription in both somatic cells and oocytes []. This domain carries the nuclear localisation signal (NLS) KKRKK, that indicates the cellular destiny of this anchor protein []. Binding to the regulatory subunits RI and RII of PKA is mediated via the RI-RII subunit-binding domain at the C terminus.
Probab=92.50 E-value=0.76 Score=38.80 Aligned_cols=129 Identities=19% Similarity=0.135 Sum_probs=77.6
Q ss_pred EEEeec-CcccchHHHHHHHHhcCCCCCc-eeeeeCCCcceEEEeecCCCCCCCCCChHHHHHHHHHHHHHHhh------
Q 027572 74 ANVLYL-SPKYSVPISDAVKRIFSPHFDK-VIWFQNSSLYHFSMFHASHHISPVPATEDEIEAEATAVRAVAED------ 145 (221)
Q Consensus 74 a~Vl~l-~~~~a~~i~~av~~~l~p~~d~-~iw~q~~~~yH~TvFHaShh~dP~pat~~e~~~E~~av~~v~~~------ 145 (221)
.+++|+ .+++...+.+.-.+++....+- .-++++++.+|+|+..-+ =.+++|++.=.++++.+...
T Consensus 4 Fl~ipl~~~~i~~~~~~fq~~v~~~~~~~~~~~~i~~~~lHlTL~vl~------L~~~~~i~~a~~~L~~~~~~i~~~~~ 77 (209)
T PF10469_consen 4 FLCIPLNSPEIQEKFKEFQNEVLSKDPGLDESAFIPPEKLHLTLGVLS------LDTDEEIEKAKEALKSLKQEIKDQLQ 77 (209)
T ss_pred EEEEECCCHHHHHHHHHHHHHHHhhcCCCCHHHcCCcccceEEEEEee------CCCHHHHHHHHHHHHHHHHHHhhhcc
Confidence 467888 3345555555444455333322 346668999999988663 33455666666666666432
Q ss_pred -cCcceEEEeEEEEcCC-----cceEEeeeecC--C-CChHHHHHHHHHhCCCCCccCcc---CceeeeehhhhhcC
Q 027572 146 -LCPLKIVLDRVILTST-----GVLLGCWQVIS--G-TDPMTIRAKLRTALPNAPEKQLY---DPAILHTSFARLLG 210 (221)
Q Consensus 146 -~cPi~~~leRVV~tss-----GvlL~cwqv~~--g-~dp~~iR~~Lr~alP~AP~kQ~~---d~~IlHtTlaRlL~ 210 (221)
.-|+++.+.-+=.=.. -||-+- +.. + .....+.+.|++.|-.+-=...- ....+|.||++.-.
T Consensus 78 ~~~~~~i~l~Gl~~f~~d~~~~~VLya~--v~~~~~~~~L~~l~~~l~~~f~~~Gl~~~~~~~~~~~~H~Tl~n~~~ 152 (209)
T PF10469_consen 78 NPPPLKITLKGLGYFNDDPSKARVLYAK--VSEDSNSERLQELANKLRERFQEAGLLVTDDRRFSFKPHITLMNTSY 152 (209)
T ss_pred CCCCceEEeeechhhCCCCCcceEEEEc--ccccchHHHHHHHHHHHHHHHHHcCCccccccCCCcceEEEEEeccc
Confidence 3788999987765555 566553 433 2 33456666666666554322211 13689999999875
No 7
>PF02834 LigT_PEase: LigT like Phosphoesterase; InterPro: IPR014051 This entry represents a domain found in a number of known and predicted phosphoesterases. These include bacterial and archaeal 2',5' RNA ligases, and a family of predicted phosphoesterases known as the YjcG family. The 2',5' RNA ligases perform a reversible, ATP-independent 2'-5'-ligation of what is presumably a non-phyiological substrate: half-tRNA splice intermediates from an intron-containing yeast tRNA []. The physiological substrate(s) in prokaryotes may include small 2',5'-link-containing oligonucleotides, perhaps with regulatory or biosynthetic roles. This domain contains a conserved HXTX motif which is thought to be important for catalytic activity, as it is in the related enzyme cyclic nucleotide phosphodiesterase (CPDase) []. In 2',5' RNA ligase this domain is duplicated, with the two conserved motifs forming the proposed active site, which is analogous to that of CPDase [].; PDB: 1VGJ_A 1VDX_A 2FYH_A 2D4G_A.
Probab=91.88 E-value=0.62 Score=33.67 Aligned_cols=77 Identities=14% Similarity=0.188 Sum_probs=50.6
Q ss_pred eecCcccchHHHHHHHHhcCCCCCcee-eeeCCCcceEEEeecCCCCCCCCCChHHHHHHHHHHHHHHhhcCcceEEEeE
Q 027572 77 LYLSPKYSVPISDAVKRIFSPHFDKVI-WFQNSSLYHFSMFHASHHISPVPATEDEIEAEATAVRAVAEDLCPLKIVLDR 155 (221)
Q Consensus 77 l~l~~~~a~~i~~av~~~l~p~~d~~i-w~q~~~~yH~TvFHaShh~dP~pat~~e~~~E~~av~~v~~~~cPi~~~leR 155 (221)
+.+|++..+.+.+..+++-.-..+-++ |. ++..+|+|+--=.-- ++.++.+=.++++.++...-|+.+.+++
T Consensus 1 i~~p~~~~~~L~~l~~~l~~~~~~~~~r~~-~~~~~HiTL~flg~~------~~~~~~~l~~~l~~~~~~~~~f~~~~~~ 73 (87)
T PF02834_consen 1 IDLPEEIKEQLNQLQERLRQALPPLGIRWV-RPFNPHITLAFLGEV------PPDQLPELIEALANIASRFPPFTLTVDG 73 (87)
T ss_dssp EE-THHHHHHHHHHHHHHHHHCCSCTEEEG-SCGGSEEEEEEEEEE------SHHHHHHHHHHHHHHHCCCB-EEEEEEE
T ss_pred CCCCHHHHHHHHHHHHHHhhhccccCCccc-CCCCCeEEEEeCCCC------CHHHHHHHHHHHHhhhccCCCeEEEEeE
Confidence 356777677666655555422223445 77 999999999654411 1455666667888888888899999999
Q ss_pred EEEcC
Q 027572 156 VILTS 160 (221)
Q Consensus 156 VV~ts 160 (221)
+.+=+
T Consensus 74 ~~~f~ 78 (87)
T PF02834_consen 74 FGLFP 78 (87)
T ss_dssp EEEEE
T ss_pred EEEeC
Confidence 97653
No 8
>PF08975 2H-phosphodiest: Domain of unknown function (DUF1868); InterPro: IPR015069 This family consist of hypothetical bacterial proteins. ; PDB: 2FSQ_A.
Probab=83.31 E-value=5 Score=32.79 Aligned_cols=63 Identities=17% Similarity=0.268 Sum_probs=29.1
Q ss_pred ceeeeeCCCcceEEEeecCCCCCCCCC----------ChHHHHHHHHHHHHHHh--hcCcceEEEeEEEEcCCcceE
Q 027572 101 KVIWFQNSSLYHFSMFHASHHISPVPA----------TEDEIEAEATAVRAVAE--DLCPLKIVLDRVILTSTGVLL 165 (221)
Q Consensus 101 ~~iw~q~~~~yH~TvFHaShh~dP~pa----------t~~e~~~E~~av~~v~~--~~cPi~~~leRVV~tssGvlL 165 (221)
...=+.++++||.|+|---...+=.+. +-+++.+- ..+++.+ -.-|+++.+.+.-+.++|.+|
T Consensus 44 ~k~a~lP~sS~HMTVf~Gv~e~~R~~~~WP~~l~~d~~l~~~t~~--~~~rL~~f~~~~~f~m~v~~~~~~p~g~~l 118 (118)
T PF08975_consen 44 DKLAFLPPSSYHMTVFEGVIESRREPGFWPADLPLDAPLQECTRY--FAERLKGFPLPGPFRMRVTRTGMRPQGIVL 118 (118)
T ss_dssp GGEEE--GGG-EEEEEEEEETT--STTSS-TTS-TT--HHHHHHH--HHHHGGG--------EEE--EEEETTEEEE
T ss_pred cceEecCcchhhhhhhccccccccCCCCCCCCCCCCCCHHHHHHH--HHHHHhcCCCCCCeEEEEEecccccccccC
Confidence 445568999999999987655443322 11122211 1122222 155889999888999988775
No 9
>KOG1502 consensus Flavonol reductase/cinnamoyl-CoA reductase [Defense mechanisms]
Probab=66.28 E-value=8 Score=36.56 Aligned_cols=52 Identities=19% Similarity=0.264 Sum_probs=32.3
Q ss_pred EEeecCCCCCCCCCC--hHHHHHHHHHHHHHHhhcCcceEEEeEEEEcCCcceEE
Q 027572 114 SMFHASHHISPVPAT--EDEIEAEATAVRAVAEDLCPLKIVLDRVILTSTGVLLG 166 (221)
Q Consensus 114 TvFHaShh~dP~pat--~~e~~~E~~av~~v~~~~cPi~~~leRVV~tssGvlL~ 166 (221)
.|||+..+.++.... .+-++-++.-.+.|-..+-=-+ .++|||+|||=+-+.
T Consensus 81 gVfH~Asp~~~~~~~~e~~li~pav~Gt~nVL~ac~~~~-sVkrvV~TSS~aAv~ 134 (327)
T KOG1502|consen 81 GVFHTASPVDFDLEDPEKELIDPAVKGTKNVLEACKKTK-SVKRVVYTSSTAAVR 134 (327)
T ss_pred EEEEeCccCCCCCCCcHHhhhhHHHHHHHHHHHHHhccC-CcceEEEeccHHHhc
Confidence 689999887776664 2335555554444433322122 799999999866554
No 10
>PHA02574 57B hypothetical protein; Provisional
Probab=58.30 E-value=48 Score=27.91 Aligned_cols=120 Identities=8% Similarity=-0.110 Sum_probs=69.7
Q ss_pred CCCCeEEEEe-ecCcccchHHHHHHHHhcCCCCCceeeeeCCCcceEEEeecCCCCCCCCCChHHHHHHHHHHHHHHhhc
Q 027572 68 ANPPVRANVL-YLSPKYSVPISDAVKRIFSPHFDKVIWFQNSSLYHFSMFHASHHISPVPATEDEIEAEATAVRAVAEDL 146 (221)
Q Consensus 68 ~~~pVRa~Vl-~l~~~~a~~i~~av~~~l~p~~d~~iw~q~~~~yH~TvFHaShh~dP~pat~~e~~~E~~av~~v~~~~ 146 (221)
++.++|+-+. .+|+++.++|.+.-++ +.+ .=..+++.+|.|+-= + +..++.+ +.+.
T Consensus 5 ~~~~~RlF~Al~~~~~~r~~L~~lq~~-l~~-----~r~V~~enLHlTL~F-~-------------~~~v~~l---~~~~ 61 (149)
T PHA02574 5 LEFSQGTYVAAKFSEATLDALERLQRT-LRI-----PNPVPRDKLHSTIVY-S-------------RVYVPFI---PASG 61 (149)
T ss_pred ccccceEEEEEcCCHHHHHHHHHHHHh-ccC-----CcccCHHHCEEEEec-C-------------HHHhHHH---hccC
Confidence 3457888765 4677777788766666 322 323478889999855 1 2222223 2356
Q ss_pred CcceEEEeEEEEcC--CcceEEeeeecCCCChHHHHHHHHHhCCCCCccCccCceeeeehhhhhcCCCCCCC
Q 027572 147 CPLKIVLDRVILTS--TGVLLGCWQVISGTDPMTIRAKLRTALPNAPEKQLYDPAILHTSFARLLGHPRASP 216 (221)
Q Consensus 147 cPi~~~leRVV~ts--sGvlL~cwqv~~g~dp~~iR~~Lr~alP~AP~kQ~~d~~IlHtTlaRlL~Pp~~~~ 216 (221)
-|+.+.++++=.=+ .|-+ +|--........+.++++.++=. ... .+..=|.||||=-++..+++
T Consensus 62 ~~F~l~l~glG~F~~~~~rv--lWlg~~~~~L~~L~~~l~~~l~~-~~~---r~F~PHITLaR~~~~~~~~~ 127 (149)
T PHA02574 62 STEVASSGHLEVWETQDKNA--LVLVLESEYLQCRHKYARALGAT-HDF---DDYTPHITLSYDVGPLSFSG 127 (149)
T ss_pred CCeEEEeccccccCCCCCCE--EEEEeCCHHHHHHHHHHHHHhhc-CCC---CCcCCcEEEeecCCCccccc
Confidence 78999999883333 2322 23111222335666667766544 221 35777999999555555553
No 11
>PF09749 HVSL: Uncharacterised conserved protein; InterPro: IPR019146 This entry is of proteins of approximately 300 residues conserved from plants to humans. It contains two conserved motifs, HxSL and FHVSL. The function is unknown.
Probab=55.91 E-value=74 Score=27.85 Aligned_cols=100 Identities=18% Similarity=0.331 Sum_probs=70.5
Q ss_pred CCCcceEEEeecCCCCCCCCCChHHHHHHHHHHHHHH--hhcCcceEEEeEEEE----cCCcceEEeeeecCCCC--hHH
Q 027572 107 NSSLYHFSMFHASHHISPVPATEDEIEAEATAVRAVA--EDLCPLKIVLDRVIL----TSTGVLLGCWQVISGTD--PMT 178 (221)
Q Consensus 107 ~~~~yH~TvFHaShh~dP~pat~~e~~~E~~av~~v~--~~~cPi~~~leRVV~----tssGvlL~cwqv~~g~d--p~~ 178 (221)
.+.-+|+|+ ..|.+-....++.=++.+|+.. .+..|+.+.++++-+ -.|-..|++ .|..|.. ...
T Consensus 86 ~~~~lHISL------Sr~~~lr~~~id~f~~~lr~~l~~~~~~~F~v~f~~~~~~~N~e~TR~FL~l-~V~~~~~~~l~~ 158 (239)
T PF09749_consen 86 SPDPLHISL------SRTFPLRTHQIDPFVDSLRQALRSSNIRPFYVSFSGLDVYTNDEKTRSFLAL-RVSEGSNNELKR 158 (239)
T ss_pred CCCCeEEEe------CCCccccHHHHHHHHHHHHHHHhhcCCceEEEEeCceEEEecCCCCeEEEEE-EecccccHHHHH
Confidence 566789987 4566666778888888999988 889999999988543 234455555 7887764 344
Q ss_pred HHHHHHHhCCCCCccCcc-CceeeeehhhhhcCCCC
Q 027572 179 IRAKLRTALPNAPEKQLY-DPAILHTSFARLLGHPR 213 (221)
Q Consensus 179 iR~~Lr~alP~AP~kQ~~-d~~IlHtTlaRlL~Pp~ 213 (221)
|=+++-+++-.-=....| +.-..|.|+|--++.+.
T Consensus 159 l~~~i~~~l~~~~lp~~Y~~~~~fHvSIAw~~~~~~ 194 (239)
T PF09749_consen 159 LLDRINEVLKEFGLPPFYDEDPSFHVSIAWTLGDPS 194 (239)
T ss_pred HHHHHHHHHHHhCCCcccCCCCCCEEEEEEECCCch
Confidence 444454444443344578 89999999999998664
No 12
>PF11713 Peptidase_C80: Peptidase C80 family; InterPro: IPR020974 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Cysteine peptidases have characteristic molecular topologies, which can be seen not only in their three-dimensional structures, but commonly also in the two-dimensional structures. These are peptidases in which the nucleophile is the sulphydryl group of a cysteine residue. Cysteine proteases are divided into clans (proteins which are evolutionary related), and further sub-divided into families, on the basis of the architecture of their catalytic dyad or triad []. This entry identifies a domain that functions as a cysteine peptidase that belongs to MEROPS peptidase family C80 (RTX self-cleaving toxin, clan CD). This domain is found in bacterial toxins that self-process by a cysteine peptidase mechanism. These include Vibrio cholerae RTX toxin [], and Clostridium difficile toxins A and B []. Some pathogenic bacteria produce unrelated toxins that also require activation and processing, the processing often being autolytic as it is in anthrax lethal factor, tentoxilysin (the tetanus neurotoxin) and bontoxilysin (the botulinum neurotoxin), all of which are metallopeptidases.; PDB: 3GCD_C 3EEB_B 3FZY_A 3PEE_A 3PA8_B 3HO6_A.
Probab=50.54 E-value=43 Score=28.10 Aligned_cols=80 Identities=15% Similarity=0.182 Sum_probs=51.9
Q ss_pred HHHHHHHHhcCCCCCceeeee--CCCcceEEEeec-----------CCCCCC-------CCCChHHHHHHHHHHHHHHhh
Q 027572 86 PISDAVKRIFSPHFDKVIWFQ--NSSLYHFSMFHA-----------SHHISP-------VPATEDEIEAEATAVRAVAED 145 (221)
Q Consensus 86 ~i~~av~~~l~p~~d~~iw~q--~~~~yH~TvFHa-----------Shh~dP-------~pat~~e~~~E~~av~~v~~~ 145 (221)
.+.++..+++.-+.++++|+| ..+.||+=-.=. .-|..+ .--++.++...+..+++--..
T Consensus 16 ~~~~aA~~La~Khp~~SvviQlD~~g~~rvv~g~~~~l~g~~rw~lVGHG~~~~~~~~l~g~~a~~La~~l~~~~~~l~~ 95 (157)
T PF11713_consen 16 IVREAAANLAGKHPDNSVVIQLDIDGEYRVVYGDPSKLQGKVRWQLVGHGRDEFNNQTLAGYSADELANKLIKFKQQLKQ 95 (157)
T ss_dssp HHHHHHHHHHHHCCCGEEEEECCCTCGEEEEEEEGGGC-SEEEEEEE--EESSTSSSEETTEEHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHhCCCCcEEEEEcCCCCEEEEEeChHHcCCCceEEEEEeCCCcCCCceeCCCCHHHHHHHHHHHHHHHHH
Confidence 567889999999999999999 235555421111 124444 222688999999888877777
Q ss_pred cCcceEEEeEEEEcCCcceEEeeeec
Q 027572 146 LCPLKIVLDRVILTSTGVLLGCWQVI 171 (221)
Q Consensus 146 ~cPi~~~leRVV~tssGvlL~cwqv~ 171 (221)
.-++.+.+++| +|++|-...
T Consensus 96 ~~~~~~~P~~I------sLvGC~l~~ 115 (157)
T PF11713_consen 96 KYGINISPKKI------SLVGCSLAD 115 (157)
T ss_dssp HHTTT--ESEE------EEESSS-S-
T ss_pred hccCCCCCCEE------EEEEecccC
Confidence 77777888998 577885333
No 13
>PF12321 DUF3634: Protein of unknown function (DUF3634); InterPro: IPR022090 This family of proteins is found in bacteria. Proteins in this family are typically between 103 and 114 amino acids in length.
Probab=41.44 E-value=60 Score=26.40 Aligned_cols=55 Identities=15% Similarity=0.152 Sum_probs=42.5
Q ss_pred hHHHHHHHHHHHHHHhhcCcceEEEeEEEEcCCcceEEeeeecCCCChHHHHHHHHHhCCCCCc
Q 027572 129 EDEIEAEATAVRAVAEDLCPLKIVLDRVILTSTGVLLGCWQVISGTDPMTIRAKLRTALPNAPE 192 (221)
Q Consensus 129 ~~e~~~E~~av~~v~~~~cPi~~~leRVV~tssGvlL~cwqv~~g~dp~~iR~~Lr~alP~AP~ 192 (221)
+..+..+.++|.....-.|-| ||+-+.+|+=|-+ +..-|+..++++|+.||+.--
T Consensus 43 P~~F~~~c~dIa~~~~~~G~i-----k~~r~~~g~rL~f----S~~ip~~v~QriRNvfP~~~~ 97 (108)
T PF12321_consen 43 PPGFLHNCRDIARRYPFRGTI-----KVYRQRGGVRLHF----SRSIPKKVQQRIRNVFPHQGF 97 (108)
T ss_pred ChHHHHHHHHHHHhCCCcEEE-----EEEEeCCceEEEE----eCCCCHHHhhhhhhcCCCcCc
Confidence 456777877776666555655 6778889998877 477899999999999987644
No 14
>PLN00108 unknown protein; Provisional
Probab=41.39 E-value=1.8e+02 Score=26.88 Aligned_cols=129 Identities=16% Similarity=0.181 Sum_probs=72.4
Q ss_pred CeEEEEeec--CcccchHHHHHHHHhcC-----CC--------CC-ceeeeeCCCcceEEEeecCCCCCCCCCChHHHHH
Q 027572 71 PVRANVLYL--SPKYSVPISDAVKRIFS-----PH--------FD-KVIWFQNSSLYHFSMFHASHHISPVPATEDEIEA 134 (221)
Q Consensus 71 pVRa~Vl~l--~~~~a~~i~~av~~~l~-----p~--------~d-~~iw~q~~~~yH~TvFHaShh~dP~pat~~e~~~ 134 (221)
+--.+.+|| .+++.+.+.+-=+.++. |. ++ ..-+||+|+..|.|+=+-+=. +++|++.
T Consensus 36 ~THFlavPL~~~p~i~~~~~~Fk~~Vl~~~~~~~~~f~~~l~~~gid~siF~~p~~LHLTLgmL~L~------~~eev~k 109 (257)
T PLN00108 36 FTHFVSLPLAIYPDLKKNIEAFQNSVLGNNDKDPLKFQSTLAEMGIEKSIFVSPKTFHLTVVMLKLE------NNESVVK 109 (257)
T ss_pred CCeEEEEEcCCCHHHHHHHHHHHHHHHhccccccccccccccccCCCHHHcCCCCceEEEEEEEEcC------CHHHHHH
Confidence 345677888 35566544333333331 11 11 223789999999999888744 3344444
Q ss_pred HHHHHHHHHh----h--cCcceEEEeEEEEcC-----CcceEEeeeecC-CCC--h----HHHHHHHHHhCCCCCccCcc
Q 027572 135 EATAVRAVAE----D--LCPLKIVLDRVILTS-----TGVLLGCWQVIS-GTD--P----MTIRAKLRTALPNAPEKQLY 196 (221)
Q Consensus 135 E~~av~~v~~----~--~cPi~~~leRVV~ts-----sGvlL~cwqv~~-g~d--p----~~iR~~Lr~alP~AP~kQ~~ 196 (221)
=.+.++++-. . --|+.|.|.=+=.-. +=||-| .|.. +.. . +.|+.+..++ +-=.++-.
T Consensus 110 A~~~L~s~~~~i~~~l~~~pl~I~lkGL~~Mnddps~~~VLYA--~Ve~~~~~~rLq~~ad~i~~~F~~a--GL~~~d~~ 185 (257)
T PLN00108 110 AQNILKSICSNVRQALKDRPVFIRLRGLDCMNGSLDKTRVLYA--PVEEVGHEGRLLNACHVIIDAFENA--GFAGKDAK 185 (257)
T ss_pred HHHHHHHHHHHHHHhhCCCCeEEEEEeehhcCCCcccceEEEE--eccccCchhHHHHHHHHHHHHHHHc--CCcccccC
Confidence 4444444322 1 278888888765442 445555 4653 222 2 3555555555 11123323
Q ss_pred Cceeeeehhhhhc
Q 027572 197 DPAILHTSFARLL 209 (221)
Q Consensus 197 d~~IlHtTlaRlL 209 (221)
|++.+|.|++...
T Consensus 186 ~~vKLH~TlmNt~ 198 (257)
T PLN00108 186 SRLKLHATLMNAS 198 (257)
T ss_pred cceeeEeEEechh
Confidence 6899999999875
No 15
>COG3064 TolA Membrane protein involved in colicin uptake [Cell envelope biogenesis, outer membrane]
Probab=40.99 E-value=24 Score=34.06 Aligned_cols=48 Identities=31% Similarity=0.574 Sum_probs=35.2
Q ss_pred HhhcCcceEEEeEEEEcCCcceEEeeeecCCCC---hHHHHHHHHHh-CCCCCccCcc
Q 027572 143 AEDLCPLKIVLDRVILTSTGVLLGCWQVISGTD---PMTIRAKLRTA-LPNAPEKQLY 196 (221)
Q Consensus 143 ~~~~cPi~~~leRVV~tssGvlL~cwqv~~g~d---p~~iR~~Lr~a-lP~AP~kQ~~ 196 (221)
.+.+|-|+| =+.+.|+|+.. +..+|.+ -+.||+..|.+ +|.+|...+|
T Consensus 324 ~gK~C~l~i-----kL~pdGtl~~~-~~~~Gd~~lCqAalsAvAk~~kiP~ppsqdVy 375 (387)
T COG3064 324 AGKTCRLRI-----KLAPDGTLLDI-KPEGGDPALCQAALSAVAKTAKIPKPPSQDVY 375 (387)
T ss_pred CCceeEEEE-----EEcCCcceeec-cccCCChHHHHHHHHHHHHhccCCCCCchHHH
Confidence 467888754 57899997766 5555543 16788888877 9999988776
No 16
>cd06150 YjgF_YER057c_UK114_like_2 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no functional connection. Members of this family have been implicated in isoleucine (Yeo7, Ibm1, aldR) and purine (YjgF) biosynthesis, as well as threonine anaerobic degradation (tdcF) and mitochondrial DNA maintenance (Ibm1). This domain homotrimerizes forming a distinct intersubunit cavity that may serve as a small molecule binding site.
Probab=35.33 E-value=53 Score=24.88 Aligned_cols=38 Identities=16% Similarity=0.196 Sum_probs=31.7
Q ss_pred eeecCCCCC-CCCCchhHHHHHHHHHHHhhhhccccccc
Q 027572 2 TINLGGITS-HSHIPNGERRARLYDKMARDLDDHGAAFL 39 (221)
Q Consensus 2 ~~~l~~~~s-~~~~~~~~~r~~lY~~M~~~l~~~G~~~l 39 (221)
++-+||.++ +..+...+|-...++++..-|++.|..+-
T Consensus 12 ~v~iSGq~~~~~~~~~~~Q~~~~~~nl~~~L~~~G~~~~ 50 (105)
T cd06150 12 TVYLAGQVADDTSADITGQTRQVLAKIDALLAEAGSDKS 50 (105)
T ss_pred EEEEeCcCCcCCCCCHHHHHHHHHHHHHHHHHHcCCCHH
Confidence 356788888 66688999999999999999999887643
No 17
>PF06519 TolA: TolA C-terminal; InterPro: IPR014161 TolA couples the inner membrane complex of itself with TolQ and TolR to the outer membrane complex of TolB and OprL (also called Pal). Most of the length of the protein consists of low-complexity sequence that may differ in both length and composition from one species to another, complicating efforts to discriminate TolA (the most divergent gene in the tol-pal system) from paralogs such as TonB. Selection of members of the seed alignment and criteria for setting scoring cut-offs are based largely on conserved operon structure. The Tol-Pal complex is required for maintaining outer membrane integrity, and is also involved in transport (uptake) of colicins and filamentous DNA, and implicated in pathogenesis. Transport is energized by the proton motive force. TolA is an inner membrane protein that interacts with periplasmic TolB and with outer membrane porins OmpC, PhoE and LamB.; GO: 0005215 transporter activity, 0006810 transport, 0016020 membrane; PDB: 2X9A_D 3QDP_A 3QDR_A 1TOL_A 1S62_A.
Probab=35.13 E-value=29 Score=27.03 Aligned_cols=47 Identities=32% Similarity=0.608 Sum_probs=25.4
Q ss_pred HhhcCcceEEEeEEEEcCCcceEEeeeecCCCChHHHHHHHHH-----hCCCCCccCcc
Q 027572 143 AEDLCPLKIVLDRVILTSTGVLLGCWQVISGTDPMTIRAKLRT-----ALPNAPEKQLY 196 (221)
Q Consensus 143 ~~~~cPi~~~leRVV~tssGvlL~cwqv~~g~dp~~iR~~Lr~-----alP~AP~kQ~~ 196 (221)
.++.|=++|. +++.|.|+.. ++.+| |++.=|+.+.. .||-+|.+++|
T Consensus 35 ~GK~C~v~i~-----l~~dG~v~~v-~~~~G-D~~lC~aa~~Ai~k~~~~P~ppd~~vy 86 (96)
T PF06519_consen 35 KGKECRVRIR-----LAPDGLVLSV-TVESG-DPALCRAAKSAIAKAAKFPPPPDPDVY 86 (96)
T ss_dssp TT--EEEEEE-----EETTSEEEEE-EEEEE--HHHHHHHHHH-HCCS-----SSHHHH
T ss_pred CCCEEEEEEE-----ECCCCcEEEe-eecCC-CHHHHHHHHHHHHHhcCCCCCcCHHHH
Confidence 3557877554 7899998876 45555 66555544444 49999988776
No 18
>COG0309 HypE Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]
Probab=33.82 E-value=64 Score=30.96 Aligned_cols=65 Identities=29% Similarity=0.373 Sum_probs=42.3
Q ss_pred HHHHHHh--hcCcceEEEeEEEEcCCcceEEeeeecCCCChHHHHHHHHHhCCCCCccC------ccCc---eeeeehhh
Q 027572 138 AVRAVAE--DLCPLKIVLDRVILTSTGVLLGCWQVISGTDPMTIRAKLRTALPNAPEKQ------LYDP---AILHTSFA 206 (221)
Q Consensus 138 av~~v~~--~~cPi~~~leRVV~tssGvlL~cwqv~~g~dp~~iR~~Lr~alP~AP~kQ------~~d~---~IlHtTla 206 (221)
++|.+|. ++.|++ ++|+|++|++- ..+ .-...+.+||+. ++++ +.+. +++-+..+
T Consensus 257 eVr~vce~lGiDPl~-------~anEG~lv~~V--~~~-~a~~~l~~L~~~----~~~~A~iIGeV~~~~~~v~l~~~~G 322 (339)
T COG0309 257 EVRGVCELLGLDPLE-------LANEGKLVIAV--PPE-HAEEVLEALRSH----GLKDAAIIGEVVEEKGGVGLETAGG 322 (339)
T ss_pred HHHHHHHHhCCCHHH-------hhcCceEEEEE--CHH-HHHHHHHHHHhc----CCccceeEEEEeccCCcEEEEecCC
Confidence 4566777 566875 68999999983 221 123455555554 3232 1222 89999998
Q ss_pred --hhcCCCCCCC
Q 027572 207 --RLLGHPRASP 216 (221)
Q Consensus 207 --RlL~Pp~~~~ 216 (221)
|+|.+|..++
T Consensus 323 ~~r~l~~P~~Dp 334 (339)
T COG0309 323 GKRILEPPEGDP 334 (339)
T ss_pred ceEecCCCCcCc
Confidence 9999998765
No 19
>PF13103 TonB_2: TonB C terminal; PDB: 1LR0_A.
Probab=32.65 E-value=1.1e+02 Score=21.78 Aligned_cols=41 Identities=27% Similarity=0.485 Sum_probs=25.9
Q ss_pred EEEeEEEEcCCcceEEeeeecCCCCh---HHHHHHHHHh--CCCCC
Q 027572 151 IVLDRVILTSTGVLLGCWQVISGTDP---MTIRAKLRTA--LPNAP 191 (221)
Q Consensus 151 ~~leRVV~tssGvlL~cwqv~~g~dp---~~iR~~Lr~a--lP~AP 191 (221)
-+.-+|.+.++|.|+...-+.+.+++ +.+++.++.+ ||..|
T Consensus 27 ~~~V~i~i~~dG~v~~~~i~~sSG~~~~D~av~~ai~~~~p~p~pP 72 (85)
T PF13103_consen 27 SVTVRITIDPDGRVISVRIVKSSGNPAFDAAVRRAIRRASPFPPPP 72 (85)
T ss_dssp -EEEEEEE-TTSBEEEEEEEE--S-HHHHHHHHHHHHHH-B-GGGG
T ss_pred EEEEEEEECCCCCEEEEEEecCCCCHHHHHHHHHHHHHcCCCCcCC
Confidence 45668999999999977644455554 5677777766 66666
No 20
>COG0547 TrpD Anthranilate phosphoribosyltransferase [Amino acid transport and metabolism]
Probab=28.96 E-value=1.1e+02 Score=29.10 Aligned_cols=64 Identities=22% Similarity=0.373 Sum_probs=48.0
Q ss_pred HHHhhhhccccccccccc----------cccccccccceeccCCeeeeecccCCCCeEEEEeecCcccchHHHHHHHHh
Q 027572 26 KMARDLDDHGAAFLKQGE----------TSQSLLLSDIFTLKDGSVTPVHKAANPPVRANVLYLSPKYSVPISDAVKRI 94 (221)
Q Consensus 26 ~M~~~l~~~G~~~l~~~~----------~tQ~l~~~DlF~~~~g~~~P~l~~~~~pVRa~Vl~l~~~~a~~i~~av~~~ 94 (221)
+..+.+++.|+.|+.... .++-|.++.+|.+ +-|++.|+.+..+++=.+-|+ +.+.+.++.+++
T Consensus 139 ~~~~~l~~~g~~FlfAp~~hp~~k~v~~vR~~LG~RTifN~----LGPL~NPa~~~~qliGV~~p~-~~~~~A~~l~~L 212 (338)
T COG0547 139 QAARALEETGIGFLFAPAYHPAMKHVAPVRKELGVRTIFNL----LGPLLNPARAKLQLIGVYHPE-LVELLAEALRLL 212 (338)
T ss_pred HHHHHHHhcCeEEEEccccCHHHHHHHHHHHHcCCCchHHh----hccccCCCCCCceEEEEeCHH-HHHHHHHHHHHh
Confidence 345677889999986554 5667777888776 668888887777777666666 888888888877
No 21
>PF01042 Ribonuc_L-PSP: Endoribonuclease L-PSP; InterPro: IPR006175 This domain is found in endoribonuclease, that is active on single-stranded mRNA and inhibits protein synthesis by cleavage of mRNA []. Previously it was thought to inhibit protein synthesis initiation []. This endoribonuclease may also be involved in the regulation of purine biosynthesis []. ; PDB: 3GTZ_B 3V4D_E 1J7H_A 3R0P_D 2IG8_A 1QD9_B 3L7Q_E 3VCZ_A 3QUW_A 2EWC_K ....
Probab=26.10 E-value=65 Score=24.88 Aligned_cols=37 Identities=19% Similarity=0.213 Sum_probs=28.4
Q ss_pred eecCCCCC-CC------CCchhHHHHHHHHHHHhhhhccccccc
Q 027572 3 INLGGITS-HS------HIPNGERRARLYDKMARDLDDHGAAFL 39 (221)
Q Consensus 3 ~~l~~~~s-~~------~~~~~~~r~~lY~~M~~~l~~~G~~~l 39 (221)
+-+||.++ +. .++...|-..+++++.+-|++.|..+.
T Consensus 21 v~isGq~~~d~~~~~~~~~~~~~Q~~~~l~ni~~~L~~~G~~~~ 64 (121)
T PF01042_consen 21 VFISGQVGIDPATGQVVPGDIEEQTRQALDNIERILAAAGASLD 64 (121)
T ss_dssp EEEEEEESBCTTTSSBSSSSHHHHHHHHHHHHHHHHHHTTS-GG
T ss_pred EEEeeeCCcCCCCCcCCCCCHHHHHHHHHHhhhhhhhcCCCcce
Confidence 44566666 32 678899999999999999999887654
No 22
>PRK09510 tolA cell envelope integrity inner membrane protein TolA; Provisional
Probab=24.67 E-value=65 Score=31.26 Aligned_cols=41 Identities=29% Similarity=0.618 Sum_probs=28.4
Q ss_pred EEEEcCCcceEEeeeecCCCCh----HHHHHHHHHhCCCCCccCccC
Q 027572 155 RVILTSTGVLLGCWQVISGTDP----MTIRAKLRTALPNAPEKQLYD 197 (221)
Q Consensus 155 RVV~tssGvlL~cwqv~~g~dp----~~iR~~Lr~alP~AP~kQ~~d 197 (221)
||-|.++|.|+.. +.. ++|+ +.+++.-...||..|...+|+
T Consensus 331 rI~LapDG~V~sV-~~s-SGd~aldrAA~~Aar~a~lP~pP~~~vye 375 (387)
T PRK09510 331 RIKLAPDGTLLDI-KKE-GGDPALCQAALAAAKTAKIPKPPSQEVYE 375 (387)
T ss_pred EEEEcCCCcEEee-eeC-CCCHHHHHHHHHHHHcCCCCCCCchHHHH
Confidence 8889999999976 444 4455 555663344499988776664
No 23
>cd04925 ACT_ACR_2 ACT domain-containing protein which is composed almost entirely of four ACT domain repeats (the "ACR" protein). This CD includes the second ACT domain, of a novel type of ACT domain-containing protein which is composed almost entirely of four ACT domain repeats (the "ACR" protein). ACR proteins, found only in Arabidopsis and Oryza, as yet, are proposed to function as novel regulatory or sensor proteins in plants. Nine ACR gene products have been described (ACR1-8 in Arabidopsis and OsARC1-9 in Oryza) and are represented in this CD. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=24.19 E-value=20 Score=25.68 Aligned_cols=41 Identities=15% Similarity=0.157 Sum_probs=32.4
Q ss_pred HHHHHHHHHHHhhhhccccccccccccccccccccceeccC
Q 027572 18 ERRARLYDKMARDLDDHGAAFLKQGETSQSLLLSDIFTLKD 58 (221)
Q Consensus 18 ~~r~~lY~~M~~~l~~~G~~~l~~~~~tQ~l~~~DlF~~~~ 58 (221)
.+|-.|..++++-|.+.|+++...+-.|.|-..-|.|.+.|
T Consensus 8 ~Dr~gLl~~i~~~l~~~~lnI~~A~i~t~~~~~~d~f~V~d 48 (74)
T cd04925 8 TDRPGLLSEVFAVLADLHCNVVEARAWTHNGRLACVIYVRD 48 (74)
T ss_pred CCCCCHHHHHHHHHHHCCCcEEEEEEEEECCEEEEEEEEEc
Confidence 35778899999999999999886666566666778888764
No 24
>cd06155 eu_AANH_C_1 A group of hypothetical eukaryotic proteins, characterized by the presence of an adenine nucleotide alpha hydrolase (AANH)-like domain located N-terminal to two distinctly different YjgF-YER057c-UK114-like domains. This CD contains the first of these domains. The YjgF-YER057c-UK114 protein family is a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no functional connection. Members of this family have been implicated in isoleucine (Yeo7, Ibm1, aldR) and purine (YjgF) biosynthesis, as well as threonine anaerobic degradation (tdcF) and mitochondrial DNA maintenance (Ibm1). This domain homotrimerizes forming a distinct intersubunit cavity that may serve as a small molecule binding site.
Probab=22.81 E-value=1.2e+02 Score=22.95 Aligned_cols=37 Identities=16% Similarity=0.303 Sum_probs=30.6
Q ss_pred eecCCCCC-CCCCchhHHHHHHHHHHHhhhhccccccc
Q 027572 3 INLGGITS-HSHIPNGERRARLYDKMARDLDDHGAAFL 39 (221)
Q Consensus 3 ~~l~~~~s-~~~~~~~~~r~~lY~~M~~~l~~~G~~~l 39 (221)
+-+||..+ +.++....|=.++++++..-|++.|+.+-
T Consensus 10 v~vSG~~~~~~~~d~~~Q~~~v~~ni~~~L~~aG~~~~ 47 (101)
T cd06155 10 LWISNVTASESDETVEEQMESIFSKLREILQSNGLSLS 47 (101)
T ss_pred EEEecCCCCCCCCCHHHHHHHHHHHHHHHHHHcCCCHH
Confidence 55788777 55678899999999999999999997654
No 25
>cd04927 ACT_ACR-like_2 Second ACT domain, of a novel type of ACT domain-containing protein which is composed almost entirely of four ACT domain repeats (the "ACR" protein). This CD includes the second ACT domain, of a novel type of ACT domain-containing protein which is composed almost entirely of four ACT domain repeats (the "ACR" protein). ACR proteins, found only in Arabidopsis and Oryza, as yet, are proposed to function as novel regulatory or sensor proteins in plants. Nine ACR gene products (ACR1-8 in Arabidopsis and OsARC1-9 in Oryza) have been described, however, the ACR-like sequences in this CD are distinct from those characterized. This CD includes the Oryza sativa ACR-like protein (Os05g0113000) encoded on chromosome 5 and the Arabidopsis thaliana predicted gene product, At2g39570. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=21.99 E-value=25 Score=25.51 Aligned_cols=42 Identities=14% Similarity=0.154 Sum_probs=31.8
Q ss_pred hHHHHHHHHHHHhhhhcccccccccccc-ccccccccceeccC
Q 027572 17 GERRARLYDKMARDLDDHGAAFLKQGET-SQSLLLSDIFTLKD 58 (221)
Q Consensus 17 ~~~r~~lY~~M~~~l~~~G~~~l~~~~~-tQ~l~~~DlF~~~~ 58 (221)
..+|..|+.++++-|.++|+++....-. |.+-..-|.|-+.|
T Consensus 7 ~~Dr~gLfa~i~~~l~~~~l~I~~A~I~Tt~~~~v~D~F~V~d 49 (76)
T cd04927 7 CSDRKGLLHDVTEVLYELELTIERVKVSTTPDGRVLDLFFITD 49 (76)
T ss_pred ECCCCCHHHHHHHHHHHCCCeEEEEEEEECCCCEEEEEEEEeC
Confidence 3467889999999999999998854443 46666777777764
No 26
>cd08797 Death_NFkB1_p105 Death domain of the Nuclear Factor-KappaB1 precursor protein p105. Death Domain (DD) of the Nuclear Factor-KappaB1 (NF-kB1) precursor protein p105. The NF-kB family of transcription factors play a central role in cardiovascular growth, stress response, and inflammation by controlling the expression of a network of different genes. There are five NF-kB proteins, all containing an N-terminal REL Homology Domain (RHD). NF-kB1 (or p50) is produced from the processing of the precursor protein p105, which contains ANK repeats and a C-terminal DD in addition to the RHD. It is regulated by the classical (or canonical) NF-kB pathway. In the cytosol, p50 forms an inactive complex with RelA (or p65) and the Inhibitor of NF-kB (IkB). Activation is triggered by the phosphorylation and degradation of IkB, resulting in the active DNA-binding p50-RelA dimer to migrate to the nucleus. The classical pathway regulates the majority of genes activated by NF-kB including those encod
Probab=21.28 E-value=30 Score=26.49 Aligned_cols=26 Identities=27% Similarity=0.399 Sum_probs=22.4
Q ss_pred cCCcceEEeeeecCCCChHHHHHHHHH
Q 027572 159 TSTGVLLGCWQVISGTDPMTIRAKLRT 185 (221)
Q Consensus 159 tssGvlL~cwqv~~g~dp~~iR~~Lr~ 185 (221)
.||++||=.|.+ .|++...++++|++
T Consensus 39 SPt~~LLd~~E~-~~G~l~~L~~aL~~ 64 (76)
T cd08797 39 SPSKTLLDNYEV-SGGTVRELLAALKR 64 (76)
T ss_pred CcHHHHHHHHhc-CCCCHHHHHHHHHH
Confidence 478999999966 88899999999876
No 27
>PF09164 VitD-bind_III: Vitamin D binding protein, domain III; InterPro: IPR015247 This domain is predominantly found in Vitamin D binding proteins, and adopts a multihelical structure. It is required for formation of an actin 'clamp', allowing the protein to bind to actin []. ; PDB: 1MA9_A 1KW2_A 1KXP_D 1J7E_A 1J78_A 1LOT_A.
Probab=20.40 E-value=18 Score=27.34 Aligned_cols=30 Identities=27% Similarity=0.439 Sum_probs=18.8
Q ss_pred HHHHHHHHHhCCCCCccCccCceeeeehhh
Q 027572 177 MTIRAKLRTALPNAPEKQLYDPAILHTSFA 206 (221)
Q Consensus 177 ~~iR~~Lr~alP~AP~kQ~~d~~IlHtTla 206 (221)
-.|+.+||+.||.|.++++-+-+==|+.||
T Consensus 16 KrL~e~l~~k~P~at~~~l~~lve~RsdFA 45 (68)
T PF09164_consen 16 KRLAERLRAKLPDATPTELKELVEKRSDFA 45 (68)
T ss_dssp HHHHHHHHHH-TTS-HHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHCCCCCHHHHHHHHHHHhhHH
Confidence 357889999999999987643333344443
Done!