Query psy11729
Match_columns 281
No_of_seqs 150 out of 735
Neff 3.9
Searched_HMMs 29240
Date Fri Aug 16 17:24:31 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy11729.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/11729hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 3uby_A DNA-3-methyladenine gly 100.0 4.2E-88 1.4E-92 606.5 20.1 215 14-279 3-218 (219)
2 1d3b_A Protein (small nuclear 77.5 4.4 0.00015 29.8 5.4 35 27-61 6-40 (75)
3 1th7_A SnRNP-2, small nuclear 59.6 13 0.00044 27.4 4.6 37 25-61 8-44 (81)
4 2y9a_D Small nuclear ribonucle 57.8 12 0.0004 30.6 4.4 34 28-61 7-40 (126)
5 4emk_B U6 snRNA-associated SM- 55.4 23 0.00077 25.7 5.3 35 27-61 5-39 (75)
6 1h64_1 SnRNP SM-like protein; 54.1 24 0.00083 25.4 5.2 35 27-61 5-39 (75)
7 1i4k_A Putative snRNP SM-like 52.7 26 0.0009 25.2 5.2 36 26-61 4-39 (77)
8 4emh_A Probable U6 snRNA-assoc 51.3 16 0.00056 28.8 4.2 35 27-61 17-51 (105)
9 3s6n_F Small nuclear ribonucle 50.1 29 0.00099 26.1 5.3 36 26-61 6-41 (86)
10 1ljo_A Archaeal SM-like protei 43.9 46 0.0016 24.0 5.4 35 27-61 6-41 (77)
11 3s6n_G Small nuclear ribonucle 41.4 32 0.0011 25.0 4.2 31 31-61 9-39 (76)
12 1mgq_A SM-like protein; LSM, R 40.4 38 0.0013 25.0 4.5 36 26-61 15-50 (83)
13 1i8f_A Putative snRNP SM-like 39.7 41 0.0014 24.7 4.6 36 26-61 11-46 (81)
14 1b34_A Protein (small nuclear 38.6 50 0.0017 26.2 5.3 34 28-61 4-37 (119)
15 4emk_A U6 snRNA-associated SM- 38.1 57 0.002 25.1 5.3 36 26-61 20-55 (94)
16 4emg_A Probable U6 snRNA-assoc 37.1 39 0.0013 25.7 4.2 34 27-60 10-43 (93)
17 1n9r_A SMF, small nuclear ribo 31.5 44 0.0015 25.5 3.7 36 26-61 21-57 (93)
18 3bmb_A Regulator of nucleoside 25.4 80 0.0027 25.3 4.4 31 29-60 93-127 (136)
19 2pn0_A Prokaryotic transcripti 24.9 68 0.0023 26.0 3.9 31 29-60 96-130 (141)
20 3j21_c 50S ribosomal protein L 23.6 58 0.002 25.3 3.1 33 25-57 29-61 (87)
21 2xzm_4 40S ribosomal protein S 21.9 24 0.00083 32.5 0.7 50 20-71 29-85 (265)
22 2fwk_A U6 snRNA-associated SM- 21.1 88 0.003 24.8 3.8 35 26-60 28-62 (121)
23 1d3b_B Protein (small nuclear 20.3 1.3E+02 0.0043 22.3 4.3 29 32-60 10-38 (91)
No 1
>3uby_A DNA-3-methyladenine glycosylase; alkyladenine DNA glycosylase fold, AAG, DNA repair, DNA BIND nucleus, hydrolase-DNA complex; HET: DNA EDC; 2.00A {Homo sapiens} SCOP: b.46.1.2 PDB: 3qi5_A* 1f4r_A* 1f6o_A* 1ewn_A* 1bnk_A*
Probab=100.00 E-value=4.2e-88 Score=606.51 Aligned_cols=215 Identities=47% Similarity=0.848 Sum_probs=188.0
Q ss_pred ccccCChhhhCCCHHHHHHhccCCeEEEEecCCcEEEEEEEEecccCCCCCCccccCCCCCCCccccccCCCceEEEEEc
Q psy11729 14 QANCLDQAFFDQPCIDLANALLGKYLVRRLSCGTLLIGKIVETESYLGVEDRASHSYNNRRTPRNEPMYMKPGTIYVYFT 93 (281)
Q Consensus 14 ~~~~L~~~Ff~r~~~~vA~~LLGk~Lvr~~~~G~~l~grIVETEAY~G~~D~AsHay~gkrT~Rn~~MFg~~G~~YVY~~ 93 (281)
.+.+|+++||++|+++||++||||+|||++++|..++|||||||||+|++|+|||||+||+|+||++|||+|||+|||+|
T Consensus 3 ~~~~L~~~Ff~r~~~~vA~~LLG~~Lv~~~~~g~~~~grIVEtEAY~G~~D~AsHa~~GrrT~Rn~~MFg~pG~~YVY~~ 82 (219)
T 3uby_A 3 HMTRLGLEFFDQPAVPLARAFLGQVLVRRLPNGTELRGRIVETEAYLGPEDEAAHSRGGRQTPRNRGMFMKPGTLYVYII 82 (219)
T ss_dssp CCCBCCHHHHCSCHHHHHHHTTTCEEEEECTTSCEEEEEEEEEEEECSTTCTTSTTGGGCCCSGGGGGGSSTTBEEEEEE
T ss_pred CcccCCHHHHCCCHHHHHHHhCCCEEEEEcCCCCEEEEEEEEEeeccCCCCccccccCCCCCcccHHhcCCCcEEEEEEe
Confidence 45689999999999999999999999999988877899999999999999999999999889999999999999999999
Q ss_pred cCceeeeeeeecCCCcEEEEcccccCCChHHHHHhhccccccccccccCCCCCCCCCCcccccccCCCChhhHHHhhhhh
Q psy11729 94 YGMYHCFNLSSQESGGAVLIRSLEPVHGLDIMNRLRNQFNENQNKSKRNNHLPNSQNNEETHSQSNRNSPAKKQKLIKSK 173 (281)
Q Consensus 94 YGmh~clNIvt~~~g~AVLIRAlEP~~G~~~M~~~R~~~~~~~~~~k~~~~~~~~~~~~~~~~q~~~~~~~~~~~~~~~~ 173 (281)
|||||||||||+++|+||||||+||++|++.|+++|+. +++++
T Consensus 83 YGmh~clNvv~~~~g~aVLIRA~EP~~G~e~m~~rR~~------~~~~~------------------------------- 125 (219)
T 3uby_A 83 YGMYFCMNISSQGDGACVLLRALEPLEGLETMRQLRST------LRKGT------------------------------- 125 (219)
T ss_dssp TTTEEEEEEECSSTTCEEEEEEEEEEECHHHHHHHHHH------C-----------------------------------
T ss_pred cCcEEEEEEEecCCCCEEEEeccccCccHHHHHHhccc------ccccc-------------------------------
Confidence 99999999999999999999999999999999999975 11100
Q ss_pred cccCCCCCCCCCccccCCCCcccCChhHHHHHhcCCcccccCcCCCCCCceEEecCCCC-CCCcEeeeccccccCccccc
Q psy11729 174 QTLSSNDWDQPNKKSKLQDRDLCNGPSKLCISMDITIEYLNKRHICESEEMWVQDLDCE-SNITIVESSRIGIGDFAKEW 252 (281)
Q Consensus 174 ~~~~~~~~~~~~~~~~~~~~~L~nGPGKLc~ALgI~~~~~ng~~L~~~~~l~i~~~~~~-~~~~I~~s~RIGI~~~~~ew 252 (281)
.++..++++|||||||||||||||++ +||.||+.++.|||+++... .+.+|+++|||||++++ ||
T Consensus 126 ------------~~~~~~~~~L~~GPGkL~~ALgI~~~-~ng~dL~~~~~l~l~~~~~~~~~~~I~~~pRIGI~~ag-e~ 191 (219)
T 3uby_A 126 ------------ASRVLKDRELCSGPSKLCQALAINKS-FDQRDLAQDEAVWLERGPLEPSEPAVVAAARVGVGHAG-EW 191 (219)
T ss_dssp ----------------CCGGGTSSSHHHHHHHTTCCGG-GTTCBTTTCSSEEEECCSCCBCGGGEEEECCSCC--CT-TT
T ss_pred ------------cccccccchhcCCHHHHHHHhCCCHH-HCCCccCCCCceEEecCCCCCCCCCEEEeCcccCCCCc-cc
Confidence 00012467899999999999999999 99999997667999987532 24589999999999998 99
Q ss_pred cccceeeEECCCeeecCCchhhhhhhh
Q psy11729 253 KAKLLRFYILGNKCVSKTDKKMESQML 279 (281)
Q Consensus 253 ~~~p~RFyi~gn~~VS~~~k~~~~~~~ 279 (281)
+++||||||+||||||+.+|++|+++.
T Consensus 192 ~~~PwRF~i~g~p~VS~~r~~~~~~~~ 218 (219)
T 3uby_A 192 ARKPLRFYVRGSPWVSVVDRVAEQDTQ 218 (219)
T ss_dssp TTSCCEEEETTCTTCSCCCTTTC----
T ss_pred ccCCceeEeCCCCeECCCcccchhhhc
Confidence 999999999999999999999999874
No 2
>1d3b_A Protein (small nuclear ribonucleoprotein SM D3); snRNP, splicing, core snRNP domain, systemic lupus eryth SLE, RNA binding protein; HET: CIT; 2.00A {Homo sapiens} SCOP: b.38.1.1
Probab=77.53 E-value=4.4 Score=29.80 Aligned_cols=35 Identities=20% Similarity=0.349 Sum_probs=32.0
Q ss_pred HHHHHHhccCCeEEEEecCCcEEEEEEEEecccCC
Q psy11729 27 CIDLANALLGKYLVRRLSCGTLLIGKIVETESYLG 61 (281)
Q Consensus 27 ~~~vA~~LLGk~Lvr~~~~G~~l~grIVETEAY~G 61 (281)
+..+-+.++|+.+..++.+|..+.|.++..+.|.-
T Consensus 6 P~~~L~~~~g~~V~VeLk~g~~~~G~L~~~D~~MN 40 (75)
T 1d3b_A 6 PIKVLHEAEGHIVTCETNTGEVYRGKLIEAEDNMN 40 (75)
T ss_dssp HHHHHHHTTTSEEEEEETTSCEEEEEEEEECTTCC
T ss_pred HHHHHHHhCCCEEEEEECCCcEEEEEEEEEcccee
Confidence 56788899999999999999999999999999984
No 3
>1th7_A SnRNP-2, small nuclear riboprotein protein; archaea, SM protein, SM fold, SS-SM1, RNA binding protein; 1.68A {Sulfolobus solfataricus} SCOP: b.38.1.1
Probab=59.56 E-value=13 Score=27.37 Aligned_cols=37 Identities=8% Similarity=0.144 Sum_probs=32.1
Q ss_pred CCHHHHHHhccCCeEEEEecCCcEEEEEEEEecccCC
Q psy11729 25 QPCIDLANALLGKYLVRRLSCGTLLIGKIVETESYLG 61 (281)
Q Consensus 25 r~~~~vA~~LLGk~Lvr~~~~G~~l~grIVETEAY~G 61 (281)
..+..+-+.++|+.+...+.+|..+.|.++..+.|.-
T Consensus 8 ~~P~~~L~~~~~~~V~V~l~~g~~~~G~L~~~D~~mN 44 (81)
T 1th7_A 8 ETAHKVLAESLNNLVLVKLKGNKEVRGMLRSYDQHMN 44 (81)
T ss_dssp HHHHHHHHHHTTSEEEEEETTTEEEEEEEEEECTTCC
T ss_pred cchHHHHHHhCCCeEEEEEcCCcEEEEEEEEEcCCCC
Confidence 3466777889999999999999999999999988874
No 4
>2y9a_D Small nuclear ribonucleoprotein SM D3; splicing-RNA complex, PRE-mRNA splicing, spliceosome, snRNP biogenesis, SM site, SM fold, heteromeric heptameric ring; 3.60A {Homo sapiens} PDB: 2y9b_D 2y9c_D 2y9d_D 3pgw_Z* 3cw1_D
Probab=57.84 E-value=12 Score=30.60 Aligned_cols=34 Identities=21% Similarity=0.389 Sum_probs=30.4
Q ss_pred HHHHHhccCCeEEEEecCCcEEEEEEEEecccCC
Q psy11729 28 IDLANALLGKYLVRRLSCGTLLIGKIVETESYLG 61 (281)
Q Consensus 28 ~~vA~~LLGk~Lvr~~~~G~~l~grIVETEAY~G 61 (281)
+.+-+.++|+.+..++.+|..+.|.+++++.|+-
T Consensus 7 ~~~L~~~~gk~V~VeLknG~~~~G~L~~~D~~MN 40 (126)
T 2y9a_D 7 IKVLHEAEGHIVTCETNTGEVYRGKLIEAEDNMN 40 (126)
T ss_dssp HHHHHSCSSCEEEEEESSCCEEEEEEEEECTTSC
T ss_pred HHHHHHhCCCEEEEEECCCcEEEEEEEEEcCceE
Confidence 4566789999999999999999999999999984
No 5
>4emk_B U6 snRNA-associated SM-like protein LSM6; SM fold, mRNA decay and PRE-mRNA splicing, LSM proteins, RNA protein; 2.30A {Schizosaccharomyces pombe} PDB: 3swn_B
Probab=55.41 E-value=23 Score=25.72 Aligned_cols=35 Identities=26% Similarity=0.402 Sum_probs=30.5
Q ss_pred HHHHHHhccCCeEEEEecCCcEEEEEEEEecccCC
Q psy11729 27 CIDLANALLGKYLVRRLSCGTLLIGKIVETESYLG 61 (281)
Q Consensus 27 ~~~vA~~LLGk~Lvr~~~~G~~l~grIVETEAY~G 61 (281)
+..+=+.++|+.+...+.+|..+.|.++..+.|.-
T Consensus 5 P~~~L~~~~~k~V~V~Lk~g~~~~G~L~~~D~~mN 39 (75)
T 4emk_B 5 PNEFLNKVIGKKVLIRLSSGVDYKGILSCLDGYMN 39 (75)
T ss_dssp HHHHHHHTTTSEEEEECTTSCEEEEEEEEECTTCE
T ss_pred hHHHHHHhCCCeEEEEEcCCcEEEEEEEEEcCcce
Confidence 55677889999999999999999999999888863
No 6
>1h64_1 SnRNP SM-like protein; SM fold, spliceosome, snRNP core; 1.9A {Pyrococcus abyssi} SCOP: b.38.1.1 PDB: 1m8v_A*
Probab=54.05 E-value=24 Score=25.36 Aligned_cols=35 Identities=20% Similarity=0.246 Sum_probs=30.6
Q ss_pred HHHHHHhccCCeEEEEecCCcEEEEEEEEecccCC
Q psy11729 27 CIDLANALLGKYLVRRLSCGTLLIGKIVETESYLG 61 (281)
Q Consensus 27 ~~~vA~~LLGk~Lvr~~~~G~~l~grIVETEAY~G 61 (281)
+...-+.++|+.+...+.+|..+.|.++..+.|.-
T Consensus 5 P~~~L~~~~~~~V~V~l~~g~~~~G~L~~~D~~mN 39 (75)
T 1h64_1 5 PLDVIHRSLDKDVLVILKKGFEFRGRLIGYDIHLN 39 (75)
T ss_dssp HHHHHHTTTTSEEEEEETTSEEEEEEEEEECTTCC
T ss_pred HHHHHHHHCCCEEEEEECCCCEEEEEEEEEeCCCC
Confidence 55667789999999999999999999999988874
No 7
>1i4k_A Putative snRNP SM-like protein; core snRNP domain, RNA binding protein; HET: CIT; 2.50A {Archaeoglobus fulgidus} SCOP: b.38.1.1 PDB: 1i5l_A*
Probab=52.73 E-value=26 Score=25.24 Aligned_cols=36 Identities=19% Similarity=0.222 Sum_probs=30.8
Q ss_pred CHHHHHHhccCCeEEEEecCCcEEEEEEEEecccCC
Q psy11729 26 PCIDLANALLGKYLVRRLSCGTLLIGKIVETESYLG 61 (281)
Q Consensus 26 ~~~~vA~~LLGk~Lvr~~~~G~~l~grIVETEAY~G 61 (281)
.+..+-+.++|+.+...+.+|..+.|.++..+.|.-
T Consensus 4 ~P~~~L~~~~~~~V~V~L~~g~~~~G~L~~~D~~mN 39 (77)
T 1i4k_A 4 RPLDVLNRSLKSPVIVRLKGGREFRGTLDGYDIHMN 39 (77)
T ss_dssp CHHHHHHTTTTSEEEEEETTSCEEEEEEEEECTTCC
T ss_pred cHHHHHHHhCCCEEEEEEcCCCEEEEEEEEEcCCCC
Confidence 355667788999999999999999999999888874
No 8
>4emh_A Probable U6 snRNA-associated SM-like protein LSM4; SM fold, mRNA decay, PRE-mRNA splicing, LSM proteins, RNA BI protein; 2.20A {Schizosaccharomyces pombe}
Probab=51.27 E-value=16 Score=28.80 Aligned_cols=35 Identities=23% Similarity=0.428 Sum_probs=24.3
Q ss_pred HHHHHHhccCCeEEEEecCCcEEEEEEEEecccCC
Q psy11729 27 CIDLANALLGKYLVRRLSCGTLLIGKIVETESYLG 61 (281)
Q Consensus 27 ~~~vA~~LLGk~Lvr~~~~G~~l~grIVETEAY~G 61 (281)
+..+-+.++|+.+...+.+|..+.|.++..+.|.-
T Consensus 17 p~~lL~~~igk~V~V~Lk~G~~~~G~L~~~D~~MN 51 (105)
T 4emh_A 17 PLTLLNATQGRPILVELKNGETFNGHLENCDNYMN 51 (105)
T ss_dssp ---------CCEEEEEETTSCEEEEEEEEECTTCC
T ss_pred HHHHHHHhCCCEEEEEECCCCEEEEEEEEEcCCce
Confidence 56777889999999999999999999999999974
No 9
>3s6n_F Small nuclear ribonucleoprotein F; SMN complex, SMN-gemin2 complex, U-rich snRNA, SM fold, SM C SNRNPS, snRNP biogenesis, PRE-mRNA splicing; 2.50A {Homo sapiens} PDB: 2y9b_F 2y9c_F 2y9d_F 3cw1_F 3pgw_F* 2y9a_F
Probab=50.08 E-value=29 Score=26.05 Aligned_cols=36 Identities=25% Similarity=0.381 Sum_probs=31.4
Q ss_pred CHHHHHHhccCCeEEEEecCCcEEEEEEEEecccCC
Q psy11729 26 PCIDLANALLGKYLVRRLSCGTLLIGKIVETESYLG 61 (281)
Q Consensus 26 ~~~~vA~~LLGk~Lvr~~~~G~~l~grIVETEAY~G 61 (281)
.+..+-+.++|+.+...+.+|..+.|.++....|.-
T Consensus 6 ~P~~~L~~~~~k~V~V~Lk~g~~~~G~L~~~D~~mN 41 (86)
T 3s6n_F 6 NPKPFLNGLTGKPVMVKLKWGMEYKGYLVSVDGYMN 41 (86)
T ss_dssp CHHHHHHHHTTSEEEEEETTSCEEEEEEEEECTTCC
T ss_pred CcHHHHHHhCCCeEEEEEcCCeEEEEEEEEEcCceE
Confidence 356777889999999999999999999999988873
No 10
>1ljo_A Archaeal SM-like protein AF-SM2; snRNP, core snRNP domain, RNA binding protein, unknown F; 1.95A {Archaeoglobus fulgidus} SCOP: b.38.1.1
Probab=43.90 E-value=46 Score=24.01 Aligned_cols=35 Identities=17% Similarity=0.410 Sum_probs=30.3
Q ss_pred HHHHHHhccCCeEEEEecCC-cEEEEEEEEecccCC
Q psy11729 27 CIDLANALLGKYLVRRLSCG-TLLIGKIVETESYLG 61 (281)
Q Consensus 27 ~~~vA~~LLGk~Lvr~~~~G-~~l~grIVETEAY~G 61 (281)
+..+-..++|+.+...+.+| ..+.|.++....|.-
T Consensus 6 P~~~L~~~~~~~v~V~lk~g~~~~~G~L~~~D~~mN 41 (77)
T 1ljo_A 6 PNQMVKSMVGKIIRVEMKGEENQLVGKLEGVDDYMN 41 (77)
T ss_dssp HHHHHHHTTTSEEEEEETTCSSEEEEEEEEECTTCC
T ss_pred hHHHHHHHCCCEEEEEEeCCCEEEEEEEEEECCcce
Confidence 45666789999999999999 899999999998874
No 11
>3s6n_G Small nuclear ribonucleoprotein G; SMN complex, SMN-gemin2 complex, U-rich snRNA, SM fold, SM C SNRNPS, snRNP biogenesis, PRE-mRNA splicing; 2.50A {Homo sapiens} PDB: 2y9b_G 2y9c_G 2y9d_G 3cw1_G 3pgw_G* 2y9a_G
Probab=41.41 E-value=32 Score=25.02 Aligned_cols=31 Identities=16% Similarity=0.321 Sum_probs=23.5
Q ss_pred HHhccCCeEEEEecCCcEEEEEEEEecccCC
Q psy11729 31 ANALLGKYLVRRLSCGTLLIGKIVETESYLG 61 (281)
Q Consensus 31 A~~LLGk~Lvr~~~~G~~l~grIVETEAY~G 61 (281)
=.+++|+.+...+.+|..+.|.++-...|.-
T Consensus 9 L~~~~~k~V~V~Lk~gr~~~G~L~~~D~~mN 39 (76)
T 3s6n_G 9 LKKFMDKKLSLKLNGGRHVQGILRGFDPFMN 39 (76)
T ss_dssp -----CCEEEEEETTTEEEEEEEEEECTTCC
T ss_pred HHHhCCCeEEEEECCCcEEEEEEEEECCcce
Confidence 3568899999999999999999998888763
No 12
>1mgq_A SM-like protein; LSM, RNA-binding, archea, RNA binding protein; 1.70A {Methanothermobacterthermautotrophicus} SCOP: b.38.1.1 PDB: 1i81_A 1loj_A* 1jbm_A 1jri_A
Probab=40.37 E-value=38 Score=25.01 Aligned_cols=36 Identities=11% Similarity=0.096 Sum_probs=30.6
Q ss_pred CHHHHHHhccCCeEEEEecCCcEEEEEEEEecccCC
Q psy11729 26 PCIDLANALLGKYLVRRLSCGTLLIGKIVETESYLG 61 (281)
Q Consensus 26 ~~~~vA~~LLGk~Lvr~~~~G~~l~grIVETEAY~G 61 (281)
.+..+-..++|+.+...+.+|..+.|.++..+.|.-
T Consensus 15 ~P~~~L~~~~~~~V~V~Lk~g~~~~G~L~~~D~~mN 50 (83)
T 1mgq_A 15 RPLDALGNSLNSPVIIKLKGDREFRGVLKSFDLHMN 50 (83)
T ss_dssp CTTHHHHHTTTSEEEEEETTTEEEEEEEEEECTTCC
T ss_pred ChHHHHHHhCCCEEEEEEcCCcEEEEEEEEECCCce
Confidence 345667788899999999999999999999888874
No 13
>1i8f_A Putative snRNP SM-like protein; beta barrel-like SMAP monomers form 35-stranded beta-sheet I heptamer, structural genomics; 1.75A {Pyrobaculum aerophilum} SCOP: b.38.1.1 PDB: 1lnx_A*
Probab=39.68 E-value=41 Score=24.65 Aligned_cols=36 Identities=11% Similarity=0.088 Sum_probs=30.3
Q ss_pred CHHHHHHhccCCeEEEEecCCcEEEEEEEEecccCC
Q psy11729 26 PCIDLANALLGKYLVRRLSCGTLLIGKIVETESYLG 61 (281)
Q Consensus 26 ~~~~vA~~LLGk~Lvr~~~~G~~l~grIVETEAY~G 61 (281)
.+..+-..++|+.+...+.+|..+.|.++....|.-
T Consensus 11 ~P~~~L~~~~~~~V~V~l~~g~~~~G~L~~~D~~mN 46 (81)
T 1i8f_A 11 TLGATLQDSIGKQVLVKLRDSHEIRGILRSFDQHVN 46 (81)
T ss_dssp CHHHHHHTTTTSEEEEEEGGGEEEEEEEEEECTTCC
T ss_pred chHHHHHHHCCCeEEEEEcCCcEEEEEEEEEcCCCe
Confidence 345666788999999999999999999998888864
No 14
>1b34_A Protein (small nuclear ribonucleoprotein SM D1); snRNP, splicing, spliceosome, core snRNP domain, systemi erythematosus, SLE, RNA binding protein; 2.50A {Homo sapiens} SCOP: b.38.1.1 PDB: 2y9a_B 2y9b_B 2y9c_B 2y9d_B 3cw1_B 3pgw_X* 3s6n_A
Probab=38.56 E-value=50 Score=26.20 Aligned_cols=34 Identities=18% Similarity=0.226 Sum_probs=29.7
Q ss_pred HHHHHhccCCeEEEEecCCcEEEEEEEEecccCC
Q psy11729 28 IDLANALLGKYLVRRLSCGTLLIGKIVETESYLG 61 (281)
Q Consensus 28 ~~vA~~LLGk~Lvr~~~~G~~l~grIVETEAY~G 61 (281)
..+-+.++|+.+...+.+|..+.|.++..+.|.-
T Consensus 4 ~~~L~~~~gk~V~V~Lk~g~~~~G~L~~~D~~MN 37 (119)
T 1b34_A 4 VRFLMKLSHETVTIELKNGTQVHGTITGVDVSMN 37 (119)
T ss_dssp HHHHHTCTTCEEEEEETTCCEEEEEEEEECTTCC
T ss_pred HHHHHHhCCCEEEEEEcCCCEEEEEEEEEcccce
Confidence 4556778999999999999999999999999984
No 15
>4emk_A U6 snRNA-associated SM-like protein LSM5; SM fold, mRNA decay and PRE-mRNA splicing, LSM proteins, RNA protein; 2.30A {Schizosaccharomyces pombe} PDB: 3swn_A
Probab=38.07 E-value=57 Score=25.11 Aligned_cols=36 Identities=17% Similarity=0.300 Sum_probs=30.9
Q ss_pred CHHHHHHhccCCeEEEEecCCcEEEEEEEEecccCC
Q psy11729 26 PCIDLANALLGKYLVRRLSCGTLLIGKIVETESYLG 61 (281)
Q Consensus 26 ~~~~vA~~LLGk~Lvr~~~~G~~l~grIVETEAY~G 61 (281)
.++.+-..++|+.++.++.+|..+.|.++....|.-
T Consensus 20 ~Pl~lL~~~l~k~V~V~Lk~gr~~~G~L~gfD~~mN 55 (94)
T 4emk_A 20 LPLELIDKCIGSNLWVIMKSEREFAGTLVGFDDYVN 55 (94)
T ss_dssp CHHHHHHHTTTSEEEEEESSSEEEEEEEEEECTTCC
T ss_pred cCHHHHHHHcCCeEEEEECCCcEEEEEEEEEcccCC
Confidence 356788899999999999999999999988887763
No 16
>4emg_A Probable U6 snRNA-associated SM-like protein LSM3; SM fold, mRNA decay, LSM proteins, RNA binding protein; 2.70A {Schizosaccharomyces pombe}
Probab=37.13 E-value=39 Score=25.73 Aligned_cols=34 Identities=21% Similarity=0.242 Sum_probs=29.7
Q ss_pred HHHHHHhccCCeEEEEecCCcEEEEEEEEecccC
Q psy11729 27 CIDLANALLGKYLVRRLSCGTLLIGKIVETESYL 60 (281)
Q Consensus 27 ~~~vA~~LLGk~Lvr~~~~G~~l~grIVETEAY~ 60 (281)
+.++-+.++|+.+...+.+|..+.|+++....|.
T Consensus 10 Pl~lL~~~~~~~V~V~l~~gr~~~G~L~~~D~~m 43 (93)
T 4emg_A 10 PLDLVRLSLDEIVYVKLRGDRELNGRLHAYDEHL 43 (93)
T ss_dssp TTHHHHTTTTSEEEEEETTTEEEEEEEEEECTTC
T ss_pred CHHHHHHhCCCEEEEEECCCcEEEEEEEEECCcc
Confidence 4678889999999999999999999998777775
No 17
>1n9r_A SMF, small nuclear ribonucleoprotein F, snRNP-F, SM protein F; heptamer, translation; 2.80A {Saccharomyces cerevisiae} SCOP: b.38.1.1 PDB: 1n9s_A
Probab=31.49 E-value=44 Score=25.53 Aligned_cols=36 Identities=19% Similarity=0.278 Sum_probs=27.8
Q ss_pred CHHHHHHhccCCeEEEEecCC-cEEEEEEEEecccCC
Q psy11729 26 PCIDLANALLGKYLVRRLSCG-TLLIGKIVETESYLG 61 (281)
Q Consensus 26 ~~~~vA~~LLGk~Lvr~~~~G-~~l~grIVETEAY~G 61 (281)
.+..+-+.++|+.+...+.+| ..+.|+++..+.|.-
T Consensus 21 ~P~~~L~~~i~k~V~V~Lk~g~~~~~G~L~~~D~~MN 57 (93)
T 1n9r_A 21 NPKPFLKGLVNHRVGVKLKFNSTEYRGTLVSTDNYFN 57 (93)
T ss_dssp -----CGGGTTSEEEEEESSTTEEEEEEEEECCTTTC
T ss_pred ChHHHHHHhCCCEEEEEEcCCCEEEEEEEEEEccccE
Confidence 345556778999999999999 899999999888874
No 18
>3bmb_A Regulator of nucleoside diphosphate kinase; RNA polymerase, elongation factor, anti-GRE factor, RNA binding protein; 1.91A {Escherichia coli}
Probab=25.45 E-value=80 Score=25.29 Aligned_cols=31 Identities=29% Similarity=0.346 Sum_probs=24.4
Q ss_pred HHHHhccCC----eEEEEecCCcEEEEEEEEecccC
Q psy11729 29 DLANALLGK----YLVRRLSCGTLLIGKIVETESYL 60 (281)
Q Consensus 29 ~vA~~LLGk----~Lvr~~~~G~~l~grIVETEAY~ 60 (281)
-||++|||| .+....++|....-.|++++ |.
T Consensus 93 PlG~ALlGk~~GD~v~v~~p~G~~~~~~I~~I~-~~ 127 (136)
T 3bmb_A 93 PVGAALLGLRVGDSIHWELPGGVATHLEVLELE-YQ 127 (136)
T ss_dssp HHHHHHTTCBTTCEEEEEETTTEEEEEEEEEEE-EC
T ss_pred HHHHHHcCCCCCCEEEEEcCCCCEEEEEEEEEE-ec
Confidence 599999998 45667788844567899999 75
No 19
>2pn0_A Prokaryotic transcription elongation factor GREA/GREB; structural genomics, APC6349, PSI-2, protein structure initiative; HET: MSE; 1.70A {Nitrosomonas europaea}
Probab=24.90 E-value=68 Score=25.98 Aligned_cols=31 Identities=32% Similarity=0.376 Sum_probs=24.0
Q ss_pred HHHHhccCC----eEEEEecCCcEEEEEEEEecccC
Q psy11729 29 DLANALLGK----YLVRRLSCGTLLIGKIVETESYL 60 (281)
Q Consensus 29 ~vA~~LLGk----~Lvr~~~~G~~l~grIVETEAY~ 60 (281)
-|++.|||| .+....++|....-+|++++ |.
T Consensus 96 PlG~ALlGk~vGD~v~v~~P~G~~~~~~I~~I~-~~ 130 (141)
T 2pn0_A 96 PVGSALLGLAQGDEIEWPKPGGGVLRVRIVEVT-YQ 130 (141)
T ss_dssp TTHHHHTTCBTTCEEEEECTTSSEEEEEEEEEE-C-
T ss_pred HHHHHHcCCCCCCEEEEEcCCCCEEEEEEEEEE-eC
Confidence 489999998 56777788844667899999 75
No 20
>3j21_c 50S ribosomal protein L35AE; archaea, archaeal, KINK-turn, protein synthe ribosome; 6.60A {Pyrococcus furiosus} PDB: 1sqr_A 2lp6_A
Probab=23.56 E-value=58 Score=25.32 Aligned_cols=33 Identities=27% Similarity=0.473 Sum_probs=27.2
Q ss_pred CCHHHHHHhccCCeEEEEecCCcEEEEEEEEec
Q psy11729 25 QPCIDLANALLGKYLVRRLSCGTLLIGKIVETE 57 (281)
Q Consensus 25 r~~~~vA~~LLGk~Lvr~~~~G~~l~grIVETE 57 (281)
-++.+-|..+|||..+...+.|.++.|+|+-+-
T Consensus 29 V~~~~~a~fylGKrvayv~~~g~~iwGKVtr~H 61 (87)
T 3j21_c 29 VNSREEASKLIGRLVLWKSPSGKILKGKIVRVH 61 (87)
T ss_dssp CCSHHHHGGGTTCEEEECCSSSCCEEEEEEEEC
T ss_pred cCCHHHHHhhcCceEEEEeCCCCEEEEEEEeee
Confidence 355678999999999888888888899998653
No 21
>2xzm_4 40S ribosomal protein S3A; ribosome, translation; 3.93A {Tetrahymena thermophila} PDB: 2xzn_4
Probab=21.91 E-value=24 Score=32.46 Aligned_cols=50 Identities=20% Similarity=0.323 Sum_probs=34.9
Q ss_pred hhhhCCC-HHHHHHhccCCeEEEE------ecCCcEEEEEEEEecccCCCCCCccccCC
Q psy11729 20 QAFFDQP-CIDLANALLGKYLVRR------LSCGTLLIGKIVETESYLGVEDRASHSYN 71 (281)
Q Consensus 20 ~~Ff~r~-~~~vA~~LLGk~Lvr~------~~~G~~l~grIVETEAY~G~~D~AsHay~ 71 (281)
.+||+-- +......-+|++|+-+ .+++ +.||++|+=-+.=..|..+|+|+
T Consensus 29 K~WY~VkAP~~F~~r~iGkTlv~rt~gtkia~d~--L~GRv~EvsLaDL~~d~~~~~~r 85 (265)
T 2xzm_4 29 KEWYDFRAPIPFSSKSFGKTLVTKSSGNRIASEE--IKGRVVESTLADLKDNSNDKAWR 85 (265)
T ss_dssp EEEEEEECCTTSCSSCCSEEEEECCCSSSCSTTS--GGGCEEEEESCSSSSTTTTSCCC
T ss_pred cceEEEECCcccCCceeEEEecccccCcccCchh--cCCcEEEEEHHHhcCChhhhcce
Confidence 4566422 2234556699999997 4454 57999999999767776578775
No 22
>2fwk_A U6 snRNA-associated SM-like protein LSM5; structural genomics, structural genomics consortium, SGC, DNA binding protein; 2.14A {Cryptosporidium parvum} SCOP: b.38.1.1 PDB: 3pgg_A
Probab=21.12 E-value=88 Score=24.80 Aligned_cols=35 Identities=11% Similarity=0.196 Sum_probs=29.3
Q ss_pred CHHHHHHhccCCeEEEEecCCcEEEEEEEEecccC
Q psy11729 26 PCIDLANALLGKYLVRRLSCGTLLIGKIVETESYL 60 (281)
Q Consensus 26 ~~~~vA~~LLGk~Lvr~~~~G~~l~grIVETEAY~ 60 (281)
.++.+-..++|+.++..+.+|..+.|+++-...|.
T Consensus 28 ~Pl~lL~~~l~k~V~V~Lk~Gr~~~G~L~~fD~~m 62 (121)
T 2fwk_A 28 LPLALIDKCIGNRIYVVMKGDKEFSGVLRGFDEYV 62 (121)
T ss_dssp CHHHHHHHTBTSBCEEEETTTEEECCEEEEECTTC
T ss_pred CcHHHHHHHcCCeEEEEECCCcEEEEEEEEEcccC
Confidence 35677788999999999999999999988766665
No 23
>1d3b_B Protein (small nuclear ribonucleoprotein associat B); snRNP, splicing, core snRNP domain, systemic lupus eryth SLE, RNA binding protein; HET: CIT; 2.00A {Homo sapiens} SCOP: b.38.1.1 PDB: 2y9a_A 2y9b_A 2y9c_A 2y9d_A
Probab=20.33 E-value=1.3e+02 Score=22.26 Aligned_cols=29 Identities=14% Similarity=0.157 Sum_probs=23.3
Q ss_pred HhccCCeEEEEecCCcEEEEEEEEecccC
Q psy11729 32 NALLGKYLVRRLSCGTLLIGKIVETESYL 60 (281)
Q Consensus 32 ~~LLGk~Lvr~~~~G~~l~grIVETEAY~ 60 (281)
..++|+.+...+.+|..+.|.++-...|.
T Consensus 10 ~~~~~k~V~V~l~~gr~~~G~L~~~D~~m 38 (91)
T 1d3b_B 10 LQHIDYRMRCILQDGRIFIGTFKAFDKHM 38 (91)
T ss_dssp GGGTTSEEEEEETTCCEEEEEEEECCTTC
T ss_pred HHHcCCcEEEEECCCeEEEEEEEEECCCC
Confidence 35889999999999999999987555544
Done!