Query 047133
Match_columns 139
No_of_seqs 128 out of 1038
Neff 7.4
Searched_HMMs 46136
Date Fri Mar 29 07:59:14 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/047133.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/047133hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 cd01061 RNase_T2_euk Ribonucle 100.0 6.2E-37 1.3E-41 230.7 15.0 130 4-137 59-195 (195)
2 KOG1642 Ribonuclease, T2 famil 100.0 1.5E-36 3.4E-41 232.9 11.5 135 2-138 90-238 (263)
3 cd00374 RNase_T2 Ribonuclease 100.0 5.6E-35 1.2E-39 219.2 15.5 130 3-137 59-195 (195)
4 PF00445 Ribonuclease_T2: Ribo 100.0 4.5E-35 9.8E-40 219.3 10.4 113 6-123 65-189 (189)
5 cd01062 RNase_T2_prok Ribonucl 100.0 1.2E-29 2.6E-34 189.6 12.3 113 5-134 63-180 (184)
6 PRK10095 ribonuclease I; Provi 99.9 5.8E-22 1.2E-26 155.8 13.0 120 5-137 129-263 (268)
7 COG3719 Rna Ribonuclease I [Tr 99.8 8.8E-21 1.9E-25 145.7 10.3 103 24-134 131-241 (249)
8 PF01328 Peroxidase_2: Peroxid 62.5 6.1 0.00013 32.2 2.2 36 59-95 50-87 (317)
9 PF10281 Ish1: Putative stress 55.3 28 0.0006 18.9 3.5 29 60-88 8-36 (38)
10 TIGR03595 Obg_CgtA_exten Obg f 55.1 20 0.00044 22.4 3.3 30 44-77 31-60 (69)
11 PF08368 FAST_2: FAST kinase-l 54.6 44 0.00094 21.9 5.0 40 78-119 49-92 (93)
12 PF09269 DUF1967: Domain of un 52.5 20 0.00043 22.4 2.9 29 44-76 31-59 (69)
13 PF00446 GnRH: Gonadotropin-re 47.3 3.7 8E-05 16.3 -0.7 7 28-34 2-8 (10)
14 PF08100 Dimerisation: Dimeris 38.5 33 0.00072 20.2 2.2 32 52-87 2-33 (51)
15 PF13041 PPR_2: PPR repeat fam 37.4 24 0.00052 19.8 1.5 35 50-86 14-48 (50)
16 PF10678 DUF2492: Protein of u 32.8 95 0.0021 20.1 3.8 54 59-119 7-63 (78)
17 PF14053 DUF4248: Domain of un 32.7 80 0.0017 19.8 3.4 32 59-90 36-67 (69)
18 PF08766 DEK_C: DEK C terminal 32.7 49 0.0011 19.4 2.3 26 61-90 9-35 (54)
19 KOG4642 Chaperone-dependent E3 32.6 67 0.0015 25.7 3.6 46 49-94 196-250 (284)
20 TIGR00291 RNA_SBDS rRNA metabo 31.0 74 0.0016 24.8 3.6 31 58-88 100-131 (231)
21 TIGR03853 matur_matur probable 30.3 1.3E+02 0.0027 19.5 4.0 55 59-120 5-62 (77)
22 PRK13760 putative RNA-associat 30.1 74 0.0016 24.8 3.5 31 58-88 100-131 (231)
23 PF09377 SBDS_C: SBDS protein 27.9 38 0.00083 23.6 1.5 29 60-88 5-34 (125)
24 cd07885 RHD-n_RelA N-terminal 25.4 26 0.00056 26.1 0.2 45 65-114 95-146 (169)
25 cd07933 RHD-n_c-Rel N-terminal 24.2 46 0.00099 24.8 1.3 14 102-115 136-149 (172)
26 PF13776 DUF4172: Domain of un 24.0 1.3E+02 0.0028 19.6 3.3 72 13-90 6-81 (82)
27 COG1500 Predicted exosome subu 23.6 1.2E+02 0.0026 23.8 3.5 31 58-88 100-131 (234)
28 PTZ00448 hypothetical protein; 22.0 1.2E+02 0.0027 25.4 3.5 30 59-88 109-139 (373)
29 PF13812 PPR_3: Pentatricopept 20.8 48 0.001 16.4 0.7 12 61-72 23-34 (34)
No 1
>cd01061 RNase_T2_euk Ribonuclease T2 (RNase T2) is a widespread family of secreted RNases found in every organism examined thus far. This family includes RNase Rh, RNase MC1, RNase LE, and self-incompatibility RNases (S-RNases). Plant T2 RNases are expressed during leaf senescence in order to scavenge phosphate from ribonucleotides. They are also expressed in response to wounding or pathogen invasion. S-RNases are thought to prevent self-fertilization by acting as selective cytotoxins of "self" pollen. Generally, RNases have two distinct binding sites: the primary site (B1 site) and the subsite (B2 site), for nucleotides located at the 5'- and 3'- terminal ends of the sessil bond, respectively. This CD includes the eukaryotic RNase T2 family members.
Probab=100.00 E-value=6.2e-37 Score=230.75 Aligned_cols=130 Identities=34% Similarity=0.658 Sum_probs=114.4
Q ss_pred chhHHHHHhccCCCCccCCCCChhhHHHhhhcccccCCC--CChHHHHHHHHHHHHhcCHHHHHHhCCCCCCCCCCCHHH
Q 047133 4 NKSFAAEMNKFWPSLTRDENENEQFWEREWKHHGRGQPT--LPPEEYFRTAITLVKAANLEAAFRGAGINPDGDKLNPRK 81 (139)
Q Consensus 4 ~~~l~~~L~~~Wp~l~~~~~~~~~fw~hEW~KHGt~~~~--~~~~~YF~~al~l~~~~~i~~~L~~~gI~P~~~~y~~~~ 81 (139)
+++|+++|+.+||++.. ..++..||+|||+|||||... .++.+||.+|++|++++|+..+|+++||+|++..|++++
T Consensus 59 ~~~l~~~L~~~Wp~l~~-~~~~~~fw~hEW~KHGTC~~~~~~~~~~YF~~a~~l~~~~~~~~~L~~~~I~P~~~~~~~~~ 137 (195)
T cd01061 59 ISDLLNELNKYWPDLTG-PKNNQSFWEHEWNKHGTCSSTLLYNQYDYFDTALKLKDKLDLLKILAKAGIVPSTQTYTLSD 137 (195)
T ss_pred chhhhHHHhccCCCCcC-CCCcchHHHHHHhhCcEeCCCcccCHHHHHHHHHHHHHHCCHHHHHHHCCcCCCCcEEcHHH
Confidence 56899999999999953 235789999999999997653 699999999999999999999999999999658899999
Q ss_pred HHHHHHH-hCCCCcEEEeccC---CcEEEEEEeeecCCCceeeCCCCCCCCCCCC-Cceee
Q 047133 82 YTRAINT-RYGTTPLYKCLNT---SLLMEVTLCVDAKARNFVSCIARPSSLSSCP-GDIIW 137 (139)
Q Consensus 82 i~~al~~-~g~~~p~l~C~~~---~~L~Ev~~C~~~~~~~~i~Cp~~~~~~~~C~-~~i~~ 137 (139)
|++||++ +| .+|.|+|.+. ++|.||++|+|+++.++++||... ..+|| +.|+|
T Consensus 138 i~~ai~~~~g-~~~~l~C~~~~~~~~L~Ev~iC~~k~~~~~~~C~~~~--~~~C~~~~i~f 195 (195)
T cd01061 138 IQNAIKAATG-VTPVIKCSKDPGKGELNEIWICFDKKGGEFIDCPRPP--KSTCPDDGIKF 195 (195)
T ss_pred HHHHHHHHHC-CCcEEEeCcCCCCcEEEEEEEEEECCCCeEeeCCCCC--CCCCCCCceEC
Confidence 9999999 98 8999999872 799999999999944899999854 46899 55776
No 2
>KOG1642 consensus Ribonuclease, T2 family [RNA processing and modification]
Probab=100.00 E-value=1.5e-36 Score=232.88 Aligned_cols=135 Identities=27% Similarity=0.513 Sum_probs=114.8
Q ss_pred CcchhHHHHHhccCCCCccCCC-C-ChhhHHHhhhcccc-cCCCC---ChHHHHHHHHHHHHhcCHHHHHHhCCCCCCCC
Q 047133 2 ESNKSFAAEMNKFWPSLTRDEN-E-NEQFWEREWKHHGR-GQPTL---PPEEYFRTAITLVKAANLEAAFRGAGINPDGD 75 (139)
Q Consensus 2 ~~~~~l~~~L~~~Wp~l~~~~~-~-~~~fw~hEW~KHGt-~~~~~---~~~~YF~~al~l~~~~~i~~~L~~~gI~P~~~ 75 (139)
++|++|++.|.++||+|.++.. . ..+||+|||+|||| ++..+ +|.+||.++++|++++|+..+|.++||.|+++
T Consensus 90 ~~isdl~~~L~~~Wp~L~~~s~n~g~~~fW~HEweKHGTCa~sv~~~~dq~~YF~~~L~l~~k~~l~~~L~~~gI~p~~~ 169 (263)
T KOG1642|consen 90 SKISDLEDSLEKEWPDLYCPSPNGGHESFWKHEWEKHGTCASSVFPLCDQHKYFETTLKLKQKLDLLSILKKAGIKPDDN 169 (263)
T ss_pred HHccchhhhHHhhccccccCCCCCccchhhhhhhhccCchhhhhhhhhhHHHHHHHHHHHHHHHhHHHHHHHcCCCCCCC
Confidence 5789999999999999987663 3 28999999999999 45555 99999999999999999999999999999889
Q ss_pred CCCHHHHHHHHHH-hCCCCcEEEecc-----CCcEEEEEEeeecCCCceeeCCC-C-CCCCCCCCCceeec
Q 047133 76 KLNPRKYTRAINT-RYGTTPLYKCLN-----TSLLMEVTLCVDAKARNFVSCIA-R-PSSLSSCPGDIIWA 138 (139)
Q Consensus 76 ~y~~~~i~~al~~-~g~~~p~l~C~~-----~~~L~Ev~~C~~~~~~~~i~Cp~-~-~~~~~~C~~~i~~p 138 (139)
.|++++|++||+. .| ..|.|.|.+ ..+|.||++|+.|+. .+++|.. + ......|+..+.||
T Consensus 170 ~y~l~~I~nAi~~~~G-~~p~I~C~rd~~~nv~~l~qI~lCl~kd~-~~~d~~~~~~~~P~g~~~~~~~~p 238 (263)
T KOG1642|consen 170 FYSLADIKNAIKEAIG-KTPGIECLRDSKHNVSQLGQIRLCLLKDF-SPRDCIECPTEFPRGSCPTFIQFP 238 (263)
T ss_pred ceeHHHHHHHHHHHhC-CCCceEeccCcccCceEeeeEEEEeecCc-ccccccCCCCcccCCcccccccCC
Confidence 9999999999999 99 999999988 268999999998776 5566544 1 11234588777765
No 3
>cd00374 RNase_T2 Ribonuclease T2 (RNase T2) is a widespread family of secreted RNases found in every organism examined thus far. This family includes RNase Rh, RNase MC1, RNase LE, and self-incompatibility RNases (S-RNases). Plant T2 RNases are expressed during leaf senescence in order to scavenge phosphate from ribonucleotides. They are also expressed in response to wounding or pathogen invasion. S-RNases are thought to prevent self-fertilization by acting as selective cytotoxins of "self" pollen.
Probab=100.00 E-value=5.6e-35 Score=219.19 Aligned_cols=130 Identities=34% Similarity=0.700 Sum_probs=113.7
Q ss_pred cchhHHHHHhccCCCCccCCCCChhhHHHhhhcccccCC-CCChHHHHHHHHHHHHhcCHHHHHHhCCCCC-CCCCCCHH
Q 047133 3 SNKSFAAEMNKFWPSLTRDENENEQFWEREWKHHGRGQP-TLPPEEYFRTAITLVKAANLEAAFRGAGINP-DGDKLNPR 80 (139)
Q Consensus 3 ~~~~l~~~L~~~Wp~l~~~~~~~~~fw~hEW~KHGt~~~-~~~~~~YF~~al~l~~~~~i~~~L~~~gI~P-~~~~y~~~ 80 (139)
.+.+|.++|+++||++. +.. +..||+|||+|||||.. .+++.+||++|++|++++|++++|+.+||+| ++..|+.+
T Consensus 59 ~~~~l~~~l~~~w~~~~-~~~-~~~fw~hEW~KHGTC~~~~~~~~~YF~~a~~l~~~~ni~~~L~~~~i~p~~~~~~~~~ 136 (195)
T cd00374 59 KDSDLLDELNKYWPDLM-PGK-DSSFWKHEWNKHGTCSGTLLDQDDYFRTALKLLDKLDLLSILAKAGIKPSDGSTYTLA 136 (195)
T ss_pred ccHHHHHHHHhhCcccC-CCC-CchHHHHHHhcCceecCCcCCHHHHHHHHHHHHHhCCHHHHHHHCCCcCCCCceecHH
Confidence 45789999999999994 222 67899999999999653 3699999999999999999999999999999 58999999
Q ss_pred HHHHHHHH-hCCCCcEEEecc---CCcEEEEEEeeecCCCceeeCCCCCCCCCCCC-Cceee
Q 047133 81 KYTRAINT-RYGTTPLYKCLN---TSLLMEVTLCVDAKARNFVSCIARPSSLSSCP-GDIIW 137 (139)
Q Consensus 81 ~i~~al~~-~g~~~p~l~C~~---~~~L~Ev~~C~~~~~~~~i~Cp~~~~~~~~C~-~~i~~ 137 (139)
+|++||++ +| ..|.|.|.+ +++|.||++|+|+++.++++||... ..+|| ..|.|
T Consensus 137 ~i~~ai~~~~g-~~~~l~C~~~~~~~~L~Ev~iC~~~~~~~~~~C~~~~--~~~C~~~~i~~ 195 (195)
T cd00374 137 FIQNAIKAATG-ATPSLKCTKDPGKGLLTEIWICFDKDALKFIDCPTPG--KSTCPADGIKF 195 (195)
T ss_pred HHHHHHHHHHC-CCcEEEeccCCCCcEEEEEEEEEECCCCeEEeCCCCC--CCCCCCCcEEC
Confidence 99999999 98 899999986 2799999999999944899999854 46799 55765
No 4
>PF00445 Ribonuclease_T2: Ribonuclease T2 family; InterPro: IPR001568 The fungal ribonucleases T2 from Aspergillus oryzae, M from Aspergillus saitoi and Rh from Rhizopus niveus are structurally and functionally related 30 Kd glycoproteins [] that cleave the 3'-5' internucleotide linkage of RNA via a nucleotide 2',3'-cyclic phosphate intermediate (3.1.27.1 from EC). Two histidines residues have been shown [, ] to be involved in the catalytic mechanism of RNase T2 and Rh. These residues and the region around them are highly conserved in a number of other RNAses that have been found to be evolutionary related to these fungal enzymes.; GO: 0003723 RNA binding, 0033897 ribonuclease T2 activity; PDB: 1IOO_A 3D3Z_A 1UCG_B 1UCC_A 1J1F_A 1V9H_A 1UCD_A 1J1G_A 1UCA_A 1BK7_A ....
Probab=100.00 E-value=4.5e-35 Score=219.29 Aligned_cols=113 Identities=32% Similarity=0.693 Sum_probs=99.6
Q ss_pred hHHHHHhccCCCCccCCCCC-hhhHHHhhhcccccCC-C-CChHHHHHHHHHHHHhcCHHHHHHhCCCCC-CCCCCCHHH
Q 047133 6 SFAAEMNKFWPSLTRDENEN-EQFWEREWKHHGRGQP-T-LPPEEYFRTAITLVKAANLEAAFRGAGINP-DGDKLNPRK 81 (139)
Q Consensus 6 ~l~~~L~~~Wp~l~~~~~~~-~~fw~hEW~KHGt~~~-~-~~~~~YF~~al~l~~~~~i~~~L~~~gI~P-~~~~y~~~~ 81 (139)
+++++|+.+||++. .++ ..||+|||.|||||.. . .++.+||.+|++|++++|+.++|+++||+| ++..|++++
T Consensus 65 ~~~~~L~~~Wp~~~---~~~~~~fw~hEW~KHGtC~~~~~~~~~~YF~~a~~l~~~~~~~~~L~~~gI~p~~~~~~~~~~ 141 (189)
T PF00445_consen 65 ELKSELDKYWPDLK---NSNSESFWKHEWEKHGTCSGMDFIDQYDYFSTALKLYKKLNLPKILANAGIVPSNGKTYSLSD 141 (189)
T ss_dssp GGHHHHHHHSTBSS---SSHHHHHHHHHHHHTGGGGTTTSSSHHHHHHHHHHHHHHCHHHHHHHHTTHCSCSSEEEEHHH
T ss_pred HHhhhhhhhhhhhc---cchhhhhHHhcceeeeEEcCCchhhHHHHHHHHHHHHHhccchHHHhhcccCCCccccccHHH
Confidence 89999999999994 233 6999999999999653 2 259999999999999999999999999999 567899999
Q ss_pred HHHHHHH-h-CCCCcEEEeccCC------cEEEEEEeeecCCCceeeCCC
Q 047133 82 YTRAINT-R-YGTTPLYKCLNTS------LLMEVTLCVDAKARNFVSCIA 123 (139)
Q Consensus 82 i~~al~~-~-g~~~p~l~C~~~~------~L~Ev~~C~~~~~~~~i~Cp~ 123 (139)
|++||++ + | ..|.|+|.+ . +|.||++|+|+++.++||||.
T Consensus 142 i~~al~~~~~~-~~~~l~C~~-~~~~~~~~L~ei~iC~~~~~~~~idCp~ 189 (189)
T PF00445_consen 142 IRDALKQAFNG-VRPQLRCSR-NQVNGEQYLTEIRICFDKDLFQFIDCPC 189 (189)
T ss_dssp HHHHHHHHHTS-SGEEEEEEC-TETTSEEEEEEEEEEEETTSSSEE--S-
T ss_pred HHHHHHHHcCC-CceEEEEec-CCCCCcEEEEEEEEEEeCCCCeEeCCcC
Confidence 9999999 8 6 899999987 5 999999999999878999983
No 5
>cd01062 RNase_T2_prok Ribonuclease T2 (RNase T2) is a widespread family of secreted RNases found in every organism examined thus far. This family includes RNase Rh, RNase MC1, RNase LE, and self-incompatibility RNases (S-RNases). Plant T2 RNases are expressed during leaf senescence in order to scavenge phosphate from ribonucleotides. They are also expressed in response to wounding or pathogen invasion. S-RNases are thought to prevent self-fertilization by acting as selective cytotoxins of "self" pollen. Generally, RNases have two distinct binding sites: the primary site (B1 site) and the subsite (B2 site), for nucleotides located at the 5'- and 3'- terminal ends of the sessil bond, respectively. This CD includes the prokaryotic RNase T2 family members.
Probab=99.96 E-value=1.2e-29 Score=189.56 Aligned_cols=113 Identities=25% Similarity=0.487 Sum_probs=97.7
Q ss_pred hhHHHHHhccCCCCccCCCCChhhHHHhhhcccccCCCCChHHHHHHHHHHHHhcCHHHHHHhCCCCCCCCCCCHHHHHH
Q 047133 5 KSFAAEMNKFWPSLTRDENENEQFWEREWKHHGRGQPTLPPEEYFRTAITLVKAANLEAAFRGAGINPDGDKLNPRKYTR 84 (139)
Q Consensus 5 ~~l~~~L~~~Wp~l~~~~~~~~~fw~hEW~KHGt~~~~~~~~~YF~~al~l~~~~~i~~~L~~~gI~P~~~~y~~~~i~~ 84 (139)
.+++.+|..+||+ ..||+|||+|||||.. +++.+||++|++|++++|+..+|+..++.+ + |+.++|++
T Consensus 63 ~~~~~~l~~~~p~--------~~~w~hEW~KHGtC~~-~~~~~YF~~a~~l~~~~~~~~~l~~~~~~~-~--~~~~~i~~ 130 (184)
T cd01062 63 EETRSRLLDVMPA--------SGLIRHEWRKHGTCSG-LDPDAYFAKARNLREALKIPPELRLLAGNI-G--VTASEIRQ 130 (184)
T ss_pred HHHHHHHHhhCCc--------hhHhHHHHhcCCcCCC-CCHHHHHHHHHHHHHHcCcchhhhhccccC-C--cCHHHHHH
Confidence 5688899999993 4599999999999653 799999999999999999999999875432 3 99999999
Q ss_pred HHHH-hCCCCc----EEEeccCCcEEEEEEeeecCCCceeeCCCCCCCCCCCCCc
Q 047133 85 AINT-RYGTTP----LYKCLNTSLLMEVTLCVDAKARNFVSCIARPSSLSSCPGD 134 (139)
Q Consensus 85 al~~-~g~~~p----~l~C~~~~~L~Ev~~C~~~~~~~~i~Cp~~~~~~~~C~~~ 134 (139)
||++ +| ..| .|.|.+ ++|.||++|+|+++ ++++||... ..+|++.
T Consensus 131 a~~~~~~-~~~~~~~~~~C~~-~~L~Ei~iC~~~~~-~~~~C~~~~--~~~C~~~ 180 (184)
T cd01062 131 AFIKANP-GLPPDAVSVSCQG-GLLTEVRICLDKDL-KFAACPTAD--RDNCPAG 180 (184)
T ss_pred HHHHHCC-CCCCceEEEEECC-CeEEEEEEEeCccc-CcccCCccc--cCCCCCC
Confidence 9999 88 555 899987 99999999999998 899999843 3569965
No 6
>PRK10095 ribonuclease I; Provisional
Probab=99.88 E-value=5.8e-22 Score=155.77 Aligned_cols=120 Identities=18% Similarity=0.297 Sum_probs=93.5
Q ss_pred hhHHHHHhccCCCCccCCCCChhhHHHhhhcccccCCCCChHHHHHHHHHHHHhcCHHH---HHHhCCCCCCCCCCCHHH
Q 047133 5 KSFAAEMNKFWPSLTRDENENEQFWEREWKHHGRGQPTLPPEEYFRTAITLVKAANLEA---AFRGAGINPDGDKLNPRK 81 (139)
Q Consensus 5 ~~l~~~L~~~Wp~l~~~~~~~~~fw~hEW~KHGt~~~~~~~~~YF~~al~l~~~~~i~~---~L~~~gI~P~~~~y~~~~ 81 (139)
.++...|..+.|+.. ....||+|||+|||||. .+++.+||.++++|++++|++. +|.++ .++.|++++
T Consensus 129 ~~~~~~l~~~mP~~~----~~s~l~~heW~KHGtC~-~~~~~~YF~~al~L~~kvn~s~~~~~L~~~----~Gk~~s~~~ 199 (268)
T PRK10095 129 LETAAKLSEVMPGAG----GRSCLERYEYAKHGACF-GFDPDAYFGTMVRLNQEIKESEAGKFLADN----YGKTVSRRD 199 (268)
T ss_pred HHHHHHHHHhCCCCC----ccchhHHHHHHhCCeec-CCCHHHHHHHHHHHHHHhchhhhhhhhhcC----CCcEEcHHH
Confidence 557778888888882 12479999999999965 2799999999999999999644 56553 378999999
Q ss_pred HHHHHHH-hCC---CCcEEEeccC-CcEEEEEEeeecCC-------CceeeCCCCCCCCCCCCCceee
Q 047133 82 YTRAINT-RYG---TTPLYKCLNT-SLLMEVTLCVDAKA-------RNFVSCIARPSSLSSCPGDIIW 137 (139)
Q Consensus 82 i~~al~~-~g~---~~p~l~C~~~-~~L~Ev~~C~~~~~-------~~~i~Cp~~~~~~~~C~~~i~~ 137 (139)
|++||++ +|. ..|.|+|.++ .+|.||+||++++. ..+++|+. ..+|+..|+.
T Consensus 200 I~~Ai~~a~G~~~~~~~~L~C~~~~~~L~EV~ICl~~~~~~~~l~~~~~~~~~~----~~~C~~~~~i 263 (268)
T PRK10095 200 FDAAFAKSWGKENVKAVKLTCQGNPAYLTEIQISLKADAINAPLSANSFLPQPH----PGNCGKQFVI 263 (268)
T ss_pred HHHHHHHHhCCCCCCcceEEeCCCCcEEEEEEEEcccccccCCchhhhccCCCC----CCCCCCCeee
Confidence 9999999 872 3469999872 38999999999882 13455654 3569988654
No 7
>COG3719 Rna Ribonuclease I [Translation, ribosomal structure and biogenesis]
Probab=99.84 E-value=8.8e-21 Score=145.65 Aligned_cols=103 Identities=22% Similarity=0.414 Sum_probs=86.4
Q ss_pred CChhhHHHhhhcccccCCCCChHHHHHHHHHHHHhcCHHHHHHhCCCCCCCCCCCHHHHHHHHHH-hCCC---CcEEEec
Q 047133 24 ENEQFWEREWKHHGRGQPTLPPEEYFRTAITLVKAANLEAAFRGAGINPDGDKLNPRKYTRAINT-RYGT---TPLYKCL 99 (139)
Q Consensus 24 ~~~~fw~hEW~KHGt~~~~~~~~~YF~~al~l~~~~~i~~~L~~~gI~P~~~~y~~~~i~~al~~-~g~~---~p~l~C~ 99 (139)
++..|-+|||+|||||.. ++|.+||.++++|+++++++..+.... ++++++..+|..||.+ +|+. .+.+.|.
T Consensus 131 Pg~~L~~heW~KHGtC~g-~s~~~YFa~~r~l~~~l~~p~~~~~~a---~~~~ls~~ei~~AF~~~n~~~~~~~v~vsc~ 206 (249)
T COG3719 131 PGAGLERHEWRKHGTCSG-LSQEAYFATTRRLFEELKLPPVRKLLA---DGKTLSRDEIEQAFDKANGGLKGDAVRVSCQ 206 (249)
T ss_pred CchhhhhhhHHhcCccCC-CCHHHHHHHHHHHHHHhcCCccccccc---cccccCHHHHHHHHHHhCCCCCchheEEEee
Confidence 344599999999999753 799999999999999999998765442 3688999999999999 8753 3689999
Q ss_pred cCCcEEEEEEeeecCCCceeeC----CCCCCCCCCCCCc
Q 047133 100 NTSLLMEVTLCVDAKARNFVSC----IARPSSLSSCPGD 134 (139)
Q Consensus 100 ~~~~L~Ev~~C~~~~~~~~i~C----p~~~~~~~~C~~~ 134 (139)
. ++|+||+||+|+++ ++++| |.+. ...|+.+
T Consensus 207 ~-~~LtEl~Icl~~~~-~~~ac~~~~~~~~--~~~C~~~ 241 (249)
T COG3719 207 G-NYLTELRICLDKDL-QNAACLADLPQPD--PGNCRKT 241 (249)
T ss_pred c-cceeeEEEEEcccc-ccchhhccCCCCC--ccccccc
Confidence 8 89999999999999 89999 6533 3469876
No 8
>PF01328 Peroxidase_2: Peroxidase, family 2; InterPro: IPR000028 Chloroperoxidase (CPO), also known as Heme haloperoxidase, is a ~250 residue heme-containing glycoprotein that is secreted by various fungi. Chloroperoxidase was first identified in Caldariomyces fumago where it catalyzes the hydrogen peroxide-dependent chlorination of cyclopentanedione during the biosynthesis of the antibiotic caldarioymcin. Additionally, heme haloperoxidase catalyzes the iodination and bromination of a wide range of substrates. Besides performing H2O2-dependent halogenation reactions, the enzyme catalyzes dehydrogenation reactions. Chloroperoxidase also functions as a catalase, facilitating the decomposition of hydrogen peroxide to oxygen and water. Furthermore, chloroperoxidase catalyzes P450-like oxygen insertion reactions. The capability of chloroperoxidase to perform these diverse reactions makes it one of the most versatile of all known heme proteins [, ]. Despite functional similarities with other heme enzymes, chloroperoxidase folds into a novel tertiary structure dominated by eight helical segments []. Structurally, chloroperoxidase is unique, but it shares features with both peroxidases and P450 enzymes. As in cytochrome P450 enzymes, the proximal heme ligand is a cysteine, but similar to peroxidases, the distal side of the heme is polar. However, unlike other peroxidases, the normally conserved distal arginine is lacking and the catalytic acid base is a glutamic acid and not a histidine [].; GO: 0004601 peroxidase activity; PDB: 2J5M_A 2J19_A 2CIW_A 2CJ0_A 2CIV_A 2CPO_A 1CPO_A 2CJ2_A 2J18_A 2CIZ_A ....
Probab=62.48 E-value=6.1 Score=32.22 Aligned_cols=36 Identities=14% Similarity=0.215 Sum_probs=26.0
Q ss_pred cCHHHHHHhCCCCC-CCCCCCHHHHHHHHHH-hCCCCcE
Q 047133 59 ANLEAAFRGAGINP-DGDKLNPRKYTRAINT-RYGTTPL 95 (139)
Q Consensus 59 ~~i~~~L~~~gI~P-~~~~y~~~~i~~al~~-~g~~~p~ 95 (139)
.--+.+|+++|+.| +|+..+..++..|+.+ ++ ..+.
T Consensus 50 CPgLNtLANHGyLPrnG~~It~~~l~~al~~~~n-~~~~ 87 (317)
T PF01328_consen 50 CPGLNTLANHGYLPRNGRNITVEQLINALQEGYN-LSPD 87 (317)
T ss_dssp -HHHHHHHHTTSS-TT-EEE-HHHHHHHHHHHH--B-HH
T ss_pred CccHHHHHhcCccCCCCccccHHHHHHHHHHHhC-CChH
Confidence 34567899999999 8888999999999999 87 6665
No 9
>PF10281 Ish1: Putative stress-responsive nuclear envelope protein; InterPro: IPR018803 This group of proteins, found primarily in fungi, consists of putative stress-responsive nuclear envelope protein Ish1 and homologues [].
Probab=55.28 E-value=28 Score=18.95 Aligned_cols=29 Identities=10% Similarity=0.164 Sum_probs=21.1
Q ss_pred CHHHHHHhCCCCCCCCCCCHHHHHHHHHH
Q 047133 60 NLEAAFRGAGINPDGDKLNPRKYTRAINT 88 (139)
Q Consensus 60 ~i~~~L~~~gI~P~~~~y~~~~i~~al~~ 88 (139)
++...|...||.+.....+.+++.+.+++
T Consensus 8 ~L~~wL~~~gi~~~~~~~~rd~Ll~~~k~ 36 (38)
T PF10281_consen 8 DLKSWLKSHGIPVPKSAKTRDELLKLAKK 36 (38)
T ss_pred HHHHHHHHcCCCCCCCCCCHHHHHHHHHH
Confidence 45678999999873333589998887764
No 10
>TIGR03595 Obg_CgtA_exten Obg family GTPase CgtA, C-terminal extension. CgtA (see model TIGR02729) is a broadly conserved member of the obg family of GTPases associated with ribosome maturation. This model represents a unique C-terminal domain found in some but not all sequences of CgtA. This region is preceded, and may be followed, by a region of low-complexity sequence.
Probab=55.09 E-value=20 Score=22.37 Aligned_cols=30 Identities=30% Similarity=0.411 Sum_probs=22.4
Q ss_pred ChHHHHHHHHHHHHhcCHHHHHHhCCCCCCCCCC
Q 047133 44 PPEEYFRTAITLVKAANLEAAFRGAGINPDGDKL 77 (139)
Q Consensus 44 ~~~~YF~~al~l~~~~~i~~~L~~~gI~P~~~~y 77 (139)
+...||+ +..++.++.++|.++|+++ |.++
T Consensus 31 e~~~~f~---~~L~~~Gv~~~L~~~G~~~-GD~V 60 (69)
T TIGR03595 31 ENLRRFA---RKLKKLGVEDALRKAGAKD-GDTV 60 (69)
T ss_pred HHHHHHH---HHHHHCCHHHHHHHcCCCC-CCEE
Confidence 4555664 4557899999999999999 4443
No 11
>PF08368 FAST_2: FAST kinase-like protein, subdomain 2; InterPro: IPR013579 This domain represents a conserved region of eukaryotic Fas-activated serine/threonine (FAST) kinases (2.7.1 from EC) that contains several conserved leucine residues. FAST kinase is rapidly activated during Fas-mediated apoptosis, when it phosphorylates TIA-1, a nuclear RNA-binding protein that has been implicated as an effector of apoptosis []. Note that many family members are hypothetical proteins. This subdomain is often found associated with the FAST kinase-like protein, subdomain 2.
Probab=54.59 E-value=44 Score=21.86 Aligned_cols=40 Identities=5% Similarity=0.103 Sum_probs=31.4
Q ss_pred CHHHHHHHHHH-hCCCCcEEEecc---CCcEEEEEEeeecCCCcee
Q 047133 78 NPRKYTRAINT-RYGTTPLYKCLN---TSLLMEVTLCVDAKARNFV 119 (139)
Q Consensus 78 ~~~~i~~al~~-~g~~~p~l~C~~---~~~L~Ev~~C~~~~~~~~i 119 (139)
-...|+++|+. .| ..-.+++.- -++...+.+++|+++ +++
T Consensus 49 ~~~~v~~~L~~lLg-~~~~~~~~v~tp~gy~iD~E~~lD~~~-~pl 92 (93)
T PF08368_consen 49 LQQEVQEALKSLLG-GENYFRSNVITPYGYTIDFEIVLDKNG-KPL 92 (93)
T ss_pred HHHHHHHHHHHHhC-CccceEEccccCCCceEEEEEEECCCC-CcC
Confidence 46889999999 88 565666643 478899999999997 654
No 12
>PF09269 DUF1967: Domain of unknown function (DUF1967); InterPro: IPR015349 The Obg family comprises a group of ancient P-loop small G proteins (GTPases) belonging to the TRAFAC (for translation factors) class and can be subdivided into several distinct protein subfamilies []. OBG GTPases have been found in both prokaryotes and eukaryotes []. The structure of the OBG GTPase from Thermus thermophilus has been determined []. This entry represents a C-terminal domain found in certain OBG GTPases. This domain contains a four-stranded beta sheet and three alpha helices flanked by an additional beta strand. It is predominantly found in the bacterial GTP-binding protein Obg, and is functionally uncharacterised. ; GO: 0000166 nucleotide binding; PDB: 1UDX_A.
Probab=52.46 E-value=20 Score=22.40 Aligned_cols=29 Identities=31% Similarity=0.470 Sum_probs=20.1
Q ss_pred ChHHHHHHHHHHHHhcCHHHHHHhCCCCCCCCC
Q 047133 44 PPEEYFRTAITLVKAANLEAAFRGAGINPDGDK 76 (139)
Q Consensus 44 ~~~~YF~~al~l~~~~~i~~~L~~~gI~P~~~~ 76 (139)
+...||+.. .++.++.+.|+++|+++ |.+
T Consensus 31 e~~~rf~~~---L~~~Gv~~~L~~~G~~~-GD~ 59 (69)
T PF09269_consen 31 ESLRRFQRK---LKKMGVEKALRKAGAKE-GDT 59 (69)
T ss_dssp GGHHHHHHH---HHHTTHHHHHHTTT--T-T-E
T ss_pred HHHHHHHHH---HHHCCHHHHHHHcCCCC-CCE
Confidence 456677654 57899999999999998 443
No 13
>PF00446 GnRH: Gonadotropin-releasing hormone; InterPro: IPR002012 The gonadotropin-releasing hormones (GnRH) (gonadoliberin) [] are a family of peptides that play a pivotal role in reproduction. The main function of GnRH is to act on the pituitary to stimulate the synthesis and secretion of luteinizing and follicle-stimulating hormones, but GnRH also acts on the brain, retina, sympathetic nervous system, gonads and placenta in certain species. There seems to be at least three forms of GnRH. The second form is expressed in midbrain and seems to be widespread. The third form has only been found so far in fish. GnRH is a C-terminal amidated decapeptide processed from a larger precursor protein. Four of the ten residues are perfectly conserved in all species where GnRH has been sequenced.; GO: 0005179 hormone activity, 0007275 multicellular organismal development, 0005576 extracellular region
Probab=47.33 E-value=3.7 Score=16.34 Aligned_cols=7 Identities=43% Similarity=1.498 Sum_probs=4.7
Q ss_pred hHHHhhh
Q 047133 28 FWEREWK 34 (139)
Q Consensus 28 fw~hEW~ 34 (139)
-|+|+|.
T Consensus 2 HwS~~w~ 8 (10)
T PF00446_consen 2 HWSHGWK 8 (10)
T ss_pred ccccccC
Confidence 3777775
No 14
>PF08100 Dimerisation: Dimerisation domain; InterPro: IPR012967 This domain is found at the N terminus of a variety of plant O-methyltransferases. It has been shown to mediate dimerisation of these proteins [].; GO: 0008168 methyltransferase activity, 0046983 protein dimerization activity; PDB: 1ZGJ_A 1ZG3_A 1ZHF_A 1ZGA_A 2QYO_A 1KYW_A 1KYZ_A 3REO_D 1FPX_A 1FP2_A ....
Probab=38.51 E-value=33 Score=20.21 Aligned_cols=32 Identities=16% Similarity=0.251 Sum_probs=25.2
Q ss_pred HHHHHHhcCHHHHHHhCCCCCCCCCCCHHHHHHHHH
Q 047133 52 AITLVKAANLEAAFRGAGINPDGDKLNPRKYTRAIN 87 (139)
Q Consensus 52 al~l~~~~~i~~~L~~~gI~P~~~~y~~~~i~~al~ 87 (139)
+++-.-+++|++++.++| +...+.++|...+.
T Consensus 2 aLk~aveLgI~dii~~~g----~~~ls~~eia~~l~ 33 (51)
T PF08100_consen 2 ALKCAVELGIPDIIHNAG----GGPLSLSEIAARLP 33 (51)
T ss_dssp HHHHHHHTTHHHHHHHHT----TS-BEHHHHHHTST
T ss_pred cHHHHHHcCcHHHHHHcC----CCCCCHHHHHHHcC
Confidence 556667889999999997 36789999988776
No 15
>PF13041 PPR_2: PPR repeat family
Probab=37.43 E-value=24 Score=19.80 Aligned_cols=35 Identities=20% Similarity=0.232 Sum_probs=20.4
Q ss_pred HHHHHHHHhcCHHHHHHhCCCCCCCCCCCHHHHHHHH
Q 047133 50 RTAITLVKAANLEAAFRGAGINPDGDKLNPRKYTRAI 86 (139)
Q Consensus 50 ~~al~l~~~~~i~~~L~~~gI~P~~~~y~~~~i~~al 86 (139)
-..-++.+.+.+.+.+.+.|+.|+. ++..-+.+++
T Consensus 14 ~~~~~~~~a~~l~~~M~~~g~~P~~--~Ty~~li~~~ 48 (50)
T PF13041_consen 14 CKAGKFEEALKLFKEMKKRGIKPDS--YTYNILINGL 48 (50)
T ss_pred HHCcCHHHHHHHHHHHHHcCCCCCH--HHHHHHHHHH
Confidence 3334445555666667788999943 4445444443
No 16
>PF10678 DUF2492: Protein of unknown function (DUF2492); InterPro: IPR019620 This entry describes a family of small cytosolic proteins, about 80 amino acids in length, in which the eight invariant residues include three His residues and two Cys residues. Two pairs of these invariant residues occur in motifs HxH (where x is A or G) and CxH, both of which suggest metal-binding activity. This protein family was identified by searching with a phylogenetic profile based on an anaerobic sulphatase-maturase enzyme, which contains multiple 4Fe-4S clusters. The linkages by phylogenetic profiling and by iron-sulphur cluster-related motifs together suggest this protein may be an accessory protein to certain maturases in sulphatase/maturase systems.
Probab=32.77 E-value=95 Score=20.11 Aligned_cols=54 Identities=11% Similarity=0.147 Sum_probs=34.6
Q ss_pred cCHHHHHHhCCCCCCCCCCCHHHHHHHHHH-hCCCCc-EEEecc-CCcEEEEEEeeecCCCcee
Q 047133 59 ANLEAAFRGAGINPDGDKLNPRKYTRAINT-RYGTTP-LYKCLN-TSLLMEVTLCVDAKARNFV 119 (139)
Q Consensus 59 ~~i~~~L~~~gI~P~~~~y~~~~i~~al~~-~g~~~p-~l~C~~-~~~L~Ev~~C~~~~~~~~i 119 (139)
.+++.++-.. +.+|+..++..|+.+ +| ... --.|+. .-.+.|+.--+-..+ +++
T Consensus 7 HeVL~mmi~~-----~~~~t~~~L~~ai~~~FG-~~arFhTCSae~m~a~eLv~FL~~rg-Kfi 63 (78)
T PF10678_consen 7 HEVLNMMIES-----GNPYTKEELKAAIIEKFG-EDARFHTCSAEGMTADELVDFLEERG-KFI 63 (78)
T ss_pred HHHHHHHHHc-----CCCcCHHHHHHHHHHHhC-CCceEEecCCCCCCHHHHHHHHHHcC-CEe
Confidence 4556666443 678999999999999 99 454 468877 223444443444444 455
No 17
>PF14053 DUF4248: Domain of unknown function (DUF4248)
Probab=32.74 E-value=80 Score=19.78 Aligned_cols=32 Identities=16% Similarity=0.277 Sum_probs=25.5
Q ss_pred cCHHHHHHhCCCCCCCCCCCHHHHHHHHHHhC
Q 047133 59 ANLEAAFRGAGINPDGDKLNPRKYTRAINTRY 90 (139)
Q Consensus 59 ~~i~~~L~~~gI~P~~~~y~~~~i~~al~~~g 90 (139)
-++.+.|...|..|....++..+|.-.++-+|
T Consensus 36 ~~L~~~L~~~Gy~~~~r~~TP~QV~lIv~~LG 67 (69)
T PF14053_consen 36 PELLEELEATGYHPRQRSFTPRQVRLIVRYLG 67 (69)
T ss_pred HHHHHHHHHcCCCCCCEecCHHHHHHHHHHcC
Confidence 34778999999999668899999986665455
No 18
>PF08766 DEK_C: DEK C terminal domain; InterPro: IPR014876 DEK is a chromatin associated protein that is linked with cancers and autoimmune disease. This domain is found at the C-terminal of DEK and is of clinical importance since it can reverse the characteristic abnormal DNA-mutagen sensitivity in fibroblasts from ataxia-telangiectasia (A-T) patients []. The structure of this domain shows it to be homologous to the E2F/DP transcription factor family []. This domain is also found in chitin synthase proteins like Q8TF96 from SWISSPROT, and in protein phosphatases such as Q6NN85 from SWISSPROT. ; PDB: 1Q1V_A.
Probab=32.70 E-value=49 Score=19.37 Aligned_cols=26 Identities=12% Similarity=0.253 Sum_probs=17.4
Q ss_pred HHHHHHhCCCCCCCCCCCHHHHHHHHHH-hC
Q 047133 61 LEAAFRGAGINPDGDKLNPRKYTRAINT-RY 90 (139)
Q Consensus 61 i~~~L~~~gI~P~~~~y~~~~i~~al~~-~g 90 (139)
+..+|+.++. ...|..+|+.++++ +|
T Consensus 9 i~~iL~~~dl----~~vT~k~vr~~Le~~~~ 35 (54)
T PF08766_consen 9 IREILREADL----DTVTKKQVREQLEERFG 35 (54)
T ss_dssp HHHHHTTS-G----GG--HHHHHHHHHHH-S
T ss_pred HHHHHHhCCH----hHhhHHHHHHHHHHHHC
Confidence 4567777754 56899999999999 87
No 19
>KOG4642 consensus Chaperone-dependent E3 ubiquitin protein ligase (contains TPR repeats) [Posttranslational modification, protein turnover, chaperones]
Probab=32.63 E-value=67 Score=25.67 Aligned_cols=46 Identities=15% Similarity=0.156 Sum_probs=34.4
Q ss_pred HHHHHHHHHhcCHHH---------HHHhCCCCCCCCCCCHHHHHHHHHHhCCCCc
Q 047133 49 FRTAITLVKAANLEA---------AFRGAGINPDGDKLNPRKYTRAINTRYGTTP 94 (139)
Q Consensus 49 F~~al~l~~~~~i~~---------~L~~~gI~P~~~~y~~~~i~~al~~~g~~~p 94 (139)
|..+-...++..+++ +++..-|.|+|.+|..++|..-+++.|...|
T Consensus 196 f~~v~e~rk~rEvpd~lcgkIt~el~~~pvi~psgIty~ra~I~Ehl~rvghfdp 250 (284)
T KOG4642|consen 196 FSKVDEKRKKREVPDYLCGKITLELMREPVITPSGITYDRADIEEHLQRVGHFDP 250 (284)
T ss_pred HHHHHHHhccccccchhhhhhhHHhhcCCccCccccchhHHHHHHHHHHhccCCc
Confidence 566666666666664 4567789999999999999999998663344
No 20
>TIGR00291 RNA_SBDS rRNA metabolism protein, SBDS family. This protein family, possibly universal in both archaea and eukaryotes, appears to be involved in (ribosomal) RNA metabolism. Mutations in the human ortholog are associated with Shwachman-Bodian-Diamond syndrome.
Probab=30.99 E-value=74 Score=24.84 Aligned_cols=31 Identities=16% Similarity=0.288 Sum_probs=26.1
Q ss_pred hcCHHHHHHhCCCCC-CCCCCCHHHHHHHHHH
Q 047133 58 AANLEAAFRGAGINP-DGDKLNPRKYTRAINT 88 (139)
Q Consensus 58 ~~~i~~~L~~~gI~P-~~~~y~~~~i~~al~~ 88 (139)
+-+|..++++.-|-| .+..|++..|..|++.
T Consensus 100 ~~~Ii~~Ia~~~VnP~T~~P~p~~rIE~Am~e 131 (231)
T TIGR00291 100 RNQIINIISRNTINPQTKKPHPPTRIEKALEE 131 (231)
T ss_pred HHHHHHHHHHhCcCCCCCCCCCHHHHHHHHHh
Confidence 335778888888999 6788999999999988
No 21
>TIGR03853 matur_matur probable metal-binding protein. This protein family was identified by searching with a phylogenetic profile based on an anaerobic sulfatase-maturase enzyme, which contains multiple 4Fe-4S clusters. The linkages by phylogenetic profiling and by iron-sulfur cluster-related motifs together suggest this protein may be an accessory protein to certain maturases in sulfatase/maturase systems.
Probab=30.32 E-value=1.3e+02 Score=19.53 Aligned_cols=55 Identities=13% Similarity=0.136 Sum_probs=36.0
Q ss_pred cCHHHHHHhCCCCCCCCCCCHHHHHHHHHH-hCCCCc-EEEecc-CCcEEEEEEeeecCCCceee
Q 047133 59 ANLEAAFRGAGINPDGDKLNPRKYTRAINT-RYGTTP-LYKCLN-TSLLMEVTLCVDAKARNFVS 120 (139)
Q Consensus 59 ~~i~~~L~~~gI~P~~~~y~~~~i~~al~~-~g~~~p-~l~C~~-~~~L~Ev~~C~~~~~~~~i~ 120 (139)
.++..++-.. +++|+..++..+|.+ +| ... --.|+. +-.+.|+.--+-+.+ +++.
T Consensus 5 HeVL~mml~~-----~~~~t~~~L~~~i~~~FG-~~arFhTCSa~~m~a~~Li~FL~~kg-Kfi~ 62 (77)
T TIGR03853 5 HEVLNLMLAS-----GEPYTRESLKAAIEQKFG-EDARFHTCSAEGMTADELLQFLLKKG-KFIE 62 (77)
T ss_pred HHHHHHHHHc-----CCCcCHHHHHHHHHHHhC-CCceEeecccccCCHHHHHHHHHHCC-CEee
Confidence 3455555444 678999999999999 99 554 568877 233455544455555 5553
No 22
>PRK13760 putative RNA-associated protein; Provisional
Probab=30.07 E-value=74 Score=24.83 Aligned_cols=31 Identities=19% Similarity=0.305 Sum_probs=26.4
Q ss_pred hcCHHHHHHhCCCCC-CCCCCCHHHHHHHHHH
Q 047133 58 AANLEAAFRGAGINP-DGDKLNPRKYTRAINT 88 (139)
Q Consensus 58 ~~~i~~~L~~~gI~P-~~~~y~~~~i~~al~~ 88 (139)
+-+|..++++.-|-| .+.+|++..|..|++.
T Consensus 100 ~r~Ii~~Ia~~~vnP~T~~P~p~~rIE~Am~e 131 (231)
T PRK13760 100 RRQIINFIARNAINPQTGLPHPPQRIENAMEE 131 (231)
T ss_pred HHHHHHHHHHhccCCCCCCCCCHHHHHHHHHh
Confidence 345778888888999 6788999999999998
No 23
>PF09377 SBDS_C: SBDS protein C-terminal domain; InterPro: IPR018978 This entry represents the C-terminal domain of proteins that are highly conserved in species ranging from archaea to vertebrates and plants []. The family contains several Shwachman-Bodian-Diamond syndrome (SBDS, OMIM 260400) proteins from both mouse and humans. Shwachman-Diamond syndrome is an autosomal recessive disorder with clinical features that include pancreatic exocrine insufficiency, haematological dysfunction and skeletal abnormalities. It is characterised by bone marrow failure and leukemia predisposition. Members of this family play a role in RNA metabolism [, ]. In yeast Sdo1 is involved in the biogenesis of the 60S ribosomal subunit and translational activation of ribosomes. Together with the EF-2-like GTPase RIA1 (EfI1), it triggers the GTP-dependent release of TIF6 from 60S pre-ribosomes in the cytoplasm, thereby activating ribosomes for translation competence by allowing 80S ribosome assembly and facilitating TIF6 recycling to the nucleus, where it is required for 60S rRNA processing and nuclear export. This data links defective late 60S subunit maturation to an inherited bone marrow failure syndrome associated with leukemia predisposition []. A number of uncharacterised hydrophilic proteins of about 30 kDa share regions of similarity. These include, Mouse protein 22A3. Saccharomyces cerevisiae chromosome XII hypothetical protein YLR022c. Caenorhabditis elegans hypothetical protein W06E11.4. Methanocaldococcus jannaschii (Methanococcus jannaschii) hypothetical protein MJ0592. ; GO: 0042254 ribosome biogenesis; PDB: 2KDO_A 2L9N_A 2WBM_B 1P9Q_C 1T95_A.
Probab=27.89 E-value=38 Score=23.60 Aligned_cols=29 Identities=14% Similarity=0.362 Sum_probs=20.7
Q ss_pred CHHHHHHhCCCCC-CCCCCCHHHHHHHHHH
Q 047133 60 NLEAAFRGAGINP-DGDKLNPRKYTRAINT 88 (139)
Q Consensus 60 ~i~~~L~~~gI~P-~~~~y~~~~i~~al~~ 88 (139)
+|..++++.-|-| .+..|+...|+.|++.
T Consensus 5 eI~~~Ia~~~VnP~T~rP~p~~~IE~Am~e 34 (125)
T PF09377_consen 5 EIATIIAEKCVNPRTNRPYPPTRIEKAMKE 34 (125)
T ss_dssp HHHHHHHHHEEBTTTTBTT-HHHHHHHHHH
T ss_pred HHHHHHHHhccCCCCCCCCCHHHHHHHHHh
Confidence 3556666666778 5677888889888877
No 24
>cd07885 RHD-n_RelA N-terminal sub-domain of the Rel homology domain (RHD) of RelA. Proteins containing the Rel homology domain (RHD) are metazoan transcription factors. The RHD is composed of two structural sub-domains; this model characterizes the N-terminal RHD domain of the RelA family of transcription factors, categorized as a class II member of the NF-kappa B family. In class II NF-kappa Bs, the RHD domain co-occurs with a C-terminal transactivation domain (TAD). NF-kappa B proteins are part of a protein complex that acts as a transcription factor, which is responsible for regulating a host of cellular responses to a variety of stimuli. This complex tightly regulates the expression of a large number of genes, and is involved in processes such as adaptive and innate immunity, stress response, inflammation, cell adhesion, proliferation and apoptosis. The cytosolic NF-kappa B complex is activated via phosphorylation of the ankyrin-repeat containing inhibitory protein I-kappa B, which
Probab=25.37 E-value=26 Score=26.07 Aligned_cols=45 Identities=22% Similarity=0.383 Sum_probs=26.1
Q ss_pred HHhCCCCCCCCCCCHHHHHHHHHH---hCCCCcE-EEecc---CCcEEEEEEeeecC
Q 047133 65 FRGAGINPDGDKLNPRKYTRAINT---RYGTTPL-YKCLN---TSLLMEVTLCVDAK 114 (139)
Q Consensus 65 L~~~gI~P~~~~y~~~~i~~al~~---~g~~~p~-l~C~~---~~~L~Ev~~C~~~~ 114 (139)
|.+.|| .-++..+|.++|.. .+ ..|. +.... .--|..||+||..-
T Consensus 95 F~nLGI----qcV~KKdv~e~L~~R~~~~-~~pf~~~~~~~~~~iDLn~VRLcFqaf 146 (169)
T cd07885 95 FQNLGI----QCVKKRDLEQAVSQRIQTN-NNPFNVPIEEQRADYDLNAVRLCFQVT 146 (169)
T ss_pred ecccee----EEEEeccHHHHHHHHHHhc-CCCCccchhHhhcccchhhEEEEEEEE
Confidence 455566 33566677777766 23 3442 11111 35699999999754
No 25
>cd07933 RHD-n_c-Rel N-terminal sub-domain of the Rel homology domain (RHD) of c-Rel. Proteins containing the Rel homology domain (RHD) are metazoan transcription factors. The RHD is composed of two structural sub-domains; this model characterizes the N-terminal RHD sub-domain of the c-Rel family of transcription factors, categorized as a class II member of the NF-kappa B family. In class II NF-kappa Bs, the RHD domain co-occurs with a C-terminal transactivation domain (TAD). NF-kappa B proteins are part of a protein complex that acts as a transcription factor, which is responsible for regulating a host of cellular responses to a variety of stimuli. This complex tightly regulates the expression of a large number of genes, and is involved in processes such as adaptive and innate immunity, stress response, inflammation, cell adhesion, proliferation and apoptosis. The cytosolic NF-kappa B complex is activated via phosphorylation of the ankyrin-repeat containing inhibitory protein I-kappa B
Probab=24.20 E-value=46 Score=24.84 Aligned_cols=14 Identities=29% Similarity=0.202 Sum_probs=11.2
Q ss_pred CcEEEEEEeeecCC
Q 047133 102 SLLMEVTLCVDAKA 115 (139)
Q Consensus 102 ~~L~Ev~~C~~~~~ 115 (139)
--|..||+||..-+
T Consensus 136 iDLn~VRLCFqafl 149 (172)
T cd07933 136 YDLNVVRLCFQIFL 149 (172)
T ss_pred cccceEEEEEEEEE
Confidence 56999999997643
No 26
>PF13776 DUF4172: Domain of unknown function (DUF4172)
Probab=24.04 E-value=1.3e+02 Score=19.56 Aligned_cols=72 Identities=17% Similarity=0.236 Sum_probs=42.5
Q ss_pred ccCCCCccCCCCChhhHHHhhhcccc-cC--CCCChHHHHHHHHHHHHhcCHHHHHHhCCCCCCCCCCCHHHHHHHHHH-
Q 047133 13 KFWPSLTRDENENEQFWEREWKHHGR-GQ--PTLPPEEYFRTAITLVKAANLEAAFRGAGINPDGDKLNPRKYTRAINT- 88 (139)
Q Consensus 13 ~~Wp~l~~~~~~~~~fw~hEW~KHGt-~~--~~~~~~~YF~~al~l~~~~~i~~~L~~~gI~P~~~~y~~~~i~~al~~- 88 (139)
..||++......=..+-..=-.++|. -+ ..++....=+..+++. ..++++...| .|...++..|++-|++
T Consensus 6 ~~WP~F~wd~~~l~~~l~~~~~~~G~LlG~~~~l~~~~~~~~~l~~l----~~e~v~SS~I--EGE~Ln~~sVrSSiarr 79 (82)
T PF13776_consen 6 PDWPNFRWDSSALEPLLAEVRLRQGRLLGKMSHLGFDLRQEAILDTL----TAEIVKSSAI--EGERLNRDSVRSSIARR 79 (82)
T ss_pred CCCCCCEEcHHHHHHHHHHHHHHHHHHHHHHHccCHhHHHHHHHHHH----HHHHHHHHHh--cccccCHHHHHHHHHHH
Confidence 47999854322222344444556666 32 2234434444444332 3456777777 3788999999999998
Q ss_pred hC
Q 047133 89 RY 90 (139)
Q Consensus 89 ~g 90 (139)
+|
T Consensus 80 LG 81 (82)
T PF13776_consen 80 LG 81 (82)
T ss_pred cC
Confidence 77
No 27
>COG1500 Predicted exosome subunit [Translation, ribosomal structure and biogenesis]
Probab=23.60 E-value=1.2e+02 Score=23.78 Aligned_cols=31 Identities=13% Similarity=0.270 Sum_probs=24.7
Q ss_pred hcCHHHHHHhCCCCC-CCCCCCHHHHHHHHHH
Q 047133 58 AANLEAAFRGAGINP-DGDKLNPRKYTRAINT 88 (139)
Q Consensus 58 ~~~i~~~L~~~gI~P-~~~~y~~~~i~~al~~ 88 (139)
+-.|..+...+.|-| .+..++...|..|+..
T Consensus 100 ~rqIi~~IsRn~IdP~t~~P~Pp~rIe~Amee 131 (234)
T COG1500 100 KRQIINIISRNAIDPQTKAPHPPARIEKAMEE 131 (234)
T ss_pred HHHHHHHHHHhccCCCCCCCCCHHHHHHHHHh
Confidence 334666677778999 5668999999999997
No 28
>PTZ00448 hypothetical protein; Provisional
Probab=21.95 E-value=1.2e+02 Score=25.37 Aligned_cols=30 Identities=10% Similarity=0.217 Sum_probs=25.4
Q ss_pred cCHHHHHHhCCCCC-CCCCCCHHHHHHHHHH
Q 047133 59 ANLEAAFRGAGINP-DGDKLNPRKYTRAINT 88 (139)
Q Consensus 59 ~~i~~~L~~~gI~P-~~~~y~~~~i~~al~~ 88 (139)
-+|..+++..-|-| .+.+|++..|+.|++.
T Consensus 109 r~Ii~~Ia~~~InP~T~~P~P~~rIE~Am~e 139 (373)
T PTZ00448 109 TDICHMLNRMTVNPKNNLPLSVKIIESELKD 139 (373)
T ss_pred HHHHHHHHHhccCCCCCCCCCHHHHHHHHHh
Confidence 35777888888999 6788999999999988
No 29
>PF13812 PPR_3: Pentatricopeptide repeat domain
Probab=20.81 E-value=48 Score=16.35 Aligned_cols=12 Identities=25% Similarity=0.589 Sum_probs=6.2
Q ss_pred HHHHHHhCCCCC
Q 047133 61 LEAAFRGAGINP 72 (139)
Q Consensus 61 i~~~L~~~gI~P 72 (139)
+.+.+.+.||+|
T Consensus 23 ~~~~M~~~gv~P 34 (34)
T PF13812_consen 23 LFDEMKEQGVKP 34 (34)
T ss_pred HHHHHHHhCCCC
Confidence 334455556655
Done!