Query 045896
Match_columns 520
No_of_seqs 133 out of 246
Neff 4.2
Searched_HMMs 29240
Date Mon Mar 25 11:17:18 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/045896.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/045896hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 1d3b_A Protein (small nuclear 97.1 0.0016 5.6E-08 52.9 8.0 69 66-147 6-74 (75)
2 1h64_1 SnRNP SM-like protein; 97.0 0.0013 4.3E-08 53.1 6.6 68 66-146 5-72 (75)
3 1th7_A SnRNP-2, small nuclear 97.0 0.0025 8.4E-08 52.3 8.1 72 63-147 7-78 (81)
4 1i4k_A Putative snRNP SM-like 97.0 0.0018 6E-08 52.4 7.1 68 67-147 6-73 (77)
5 3s6n_G Small nuclear ribonucle 97.0 0.0026 9E-08 51.7 8.0 65 69-146 8-72 (76)
6 3s6n_F Small nuclear ribonucle 97.0 0.0022 7.5E-08 53.6 7.6 69 67-148 8-76 (86)
7 1b34_A Protein (small nuclear 96.9 0.0024 8.3E-08 56.3 8.1 71 66-149 3-73 (119)
8 1y96_A Gemin6, SIP2, GEM-assoc 96.9 0.0011 3.8E-08 56.1 5.5 61 69-147 11-71 (86)
9 2y9a_D Small nuclear ribonucle 96.9 0.0028 9.6E-08 56.8 7.9 70 67-149 7-76 (126)
10 1ljo_A Archaeal SM-like protei 96.7 0.0042 1.5E-07 50.3 7.2 68 67-147 7-75 (77)
11 1i8f_A Putative snRNP SM-like 96.6 0.0041 1.4E-07 51.0 6.6 68 66-147 12-79 (81)
12 4emk_B U6 snRNA-associated SM- 96.6 0.0042 1.4E-07 50.3 6.2 67 67-146 6-72 (75)
13 2fb7_A SM-like protein, LSM-14 96.5 0.0092 3.2E-07 51.4 8.4 75 70-148 14-89 (95)
14 2vxe_A CG10686-PA; EDC3, CAR-1 96.5 0.012 4.1E-07 50.1 8.7 72 72-147 10-82 (88)
15 4emh_A Probable U6 snRNA-assoc 96.4 0.0045 1.5E-07 53.8 6.1 72 66-149 17-88 (105)
16 1n9r_A SMF, small nuclear ribo 96.4 0.0061 2.1E-07 51.7 6.4 68 66-146 22-90 (93)
17 1mgq_A SM-like protein; LSM, R 96.3 0.0067 2.3E-07 50.0 6.1 66 67-145 17-82 (83)
18 4emk_A U6 snRNA-associated SM- 96.2 0.017 5.7E-07 49.3 8.3 67 67-146 22-89 (94)
19 1d3b_B Protein (small nuclear 96.1 0.011 3.6E-07 49.3 6.6 74 70-148 9-84 (91)
20 3pgw_B SM B; protein-RNA compl 96.0 0.017 5.7E-07 56.8 8.2 75 70-149 9-85 (231)
21 3bw1_A SMX4 protein, U6 snRNA- 95.9 0.028 9.7E-07 47.6 8.2 74 66-146 11-85 (96)
22 4emk_C U6 snRNA-associated SM- 95.9 0.028 9.5E-07 49.4 8.3 81 59-148 18-100 (113)
23 1y96_B Gemin7, SIP3, GEM-assoc 95.5 0.047 1.6E-06 46.2 8.0 69 61-146 15-83 (85)
24 1m5q_A SMAP3, small nuclear ri 95.5 0.029 1E-06 50.4 7.1 65 68-149 3-67 (130)
25 4emg_A Probable U6 snRNA-assoc 94.8 0.071 2.4E-06 45.0 7.1 45 67-113 11-55 (93)
26 2fwk_A U6 snRNA-associated SM- 94.7 0.041 1.4E-06 48.5 5.6 79 66-146 29-111 (121)
27 3s6n_E Small nuclear ribonucle 92.8 0.15 5.3E-06 43.1 5.6 67 68-146 19-89 (92)
28 2vc8_A Enhancer of mRNA-decapp 92.7 0.21 7.1E-06 42.2 6.0 60 72-146 6-66 (84)
29 1b34_B Protein (small nuclear 92.7 0.35 1.2E-05 42.4 7.8 78 67-146 29-111 (118)
30 4a53_A EDC3; RNA binding prote 85.3 0.74 2.5E-05 41.4 4.2 56 70-149 7-64 (125)
31 2rm4_A CG6311-PB, DM EDC3; enh 47.2 86 0.003 27.2 8.2 60 72-146 9-69 (103)
32 1kq1_A HFQ, HOST factor for Q 43.2 32 0.0011 28.4 4.8 30 75-107 19-48 (77)
33 2eqj_A Metal-response element- 42.5 26 0.0009 28.3 4.1 29 73-101 15-43 (66)
34 2ylb_A Protein HFQ; RNA-bindin 42.2 31 0.001 28.2 4.5 29 75-106 21-49 (74)
35 1sg5_A ORF, hypothetical prote 40.3 16 0.00054 30.6 2.6 26 70-95 20-45 (86)
36 2qtx_A Uncharacterized protein 40.2 39 0.0013 27.6 4.8 32 73-107 23-54 (71)
37 3sb2_A Protein HFQ; SM-like, R 36.2 43 0.0015 27.8 4.5 31 73-106 18-48 (79)
38 1u1s_A HFQ protein; SM-like ba 36.1 42 0.0015 28.1 4.5 31 73-106 17-47 (82)
39 2y90_A Protein HFQ; RNA-bindin 35.6 38 0.0013 29.5 4.3 31 73-106 19-49 (104)
40 3ahu_A Protein HFQ; SM-like mo 34.3 48 0.0016 27.5 4.5 31 73-106 21-51 (78)
41 2xdp_A Lysine-specific demethy 34.0 18 0.00063 32.3 2.1 30 68-97 61-90 (123)
42 1ib8_A Conserved protein SP14. 32.3 45 0.0015 30.5 4.5 35 70-107 99-137 (164)
43 3hfo_A SSR3341 protein; HFQ, S 31.6 62 0.0021 26.3 4.7 30 75-107 21-50 (70)
44 2qqr_A JMJC domain-containing 30.5 27 0.00091 31.0 2.6 28 70-97 62-89 (118)
45 3rux_A BIRA bifunctional prote 27.8 53 0.0018 32.1 4.4 33 73-107 222-254 (270)
46 3hfn_A ASL2047 protein; HFQ, S 24.3 99 0.0034 25.2 4.7 30 75-107 23-52 (72)
47 2e12_A SM-like motif, hypothet 21.8 1E+02 0.0035 26.4 4.4 31 64-94 16-47 (101)
No 1
>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=97.10 E-value=0.0016 Score=52.89 Aligned_cols=69 Identities=16% Similarity=0.214 Sum_probs=53.3
Q ss_pred HHHHHHhccCceEEEEEecCCEEEEEEeecCCCCCeeEEEeeeEeecCCCCCCCCcccccccCCCCCceeEeCCCcEEEE
Q 045896 66 LLYLASCLIGLSVEVQVKGGSVYAGIFHATSDEKDFGVILKMARLIKDGNFRGQKTVAEFVSKPPSKNFIIPSSELVQVI 145 (520)
Q Consensus 66 Llyl~t~LIG~~VeVtvkdGsvYeGIF~t~S~~~dfgVVLK~Ar~vk~~s~~g~k~~~e~vsk~~~eTLII~~kDIVqV~ 145 (520)
-+-++..++|++|.|.+++|..|.|++.+++.-. -++|+-|..+... ++. .. + ..++|....|..|.
T Consensus 6 P~~~L~~~~g~~V~VeLk~g~~~~G~L~~~D~~M--Nl~L~~~~e~~~~---~~~--~~-l-----g~v~IRG~nI~~i~ 72 (75)
T 1d3b_A 6 PIKVLHEAEGHIVTCETNTGEVYRGKLIEAEDNM--NCQMSNITVTYRD---GRV--AQ-L-----EQVYIRGCKIRFLI 72 (75)
T ss_dssp HHHHHHHTTTSEEEEEETTSCEEEEEEEEECTTC--CEEEEEEEEECTT---SCE--EE-E-----EEEEECGGGEEEEE
T ss_pred HHHHHHHhCCCEEEEEECCCcEEEEEEEEEccce--eEEEEeEEEECCC---CcE--EE-c-----CeEEEeCCEEEEEE
Confidence 4667889999999999999999999999998764 4999999987531 111 11 1 46788888888876
Q ss_pred Ec
Q 045896 146 AK 147 (520)
Q Consensus 146 Ak 147 (520)
+.
T Consensus 73 lP 74 (75)
T 1d3b_A 73 LP 74 (75)
T ss_dssp EC
T ss_pred cC
Confidence 54
No 2
>1h64_1 SnRNP SM-like protein; SM fold, spliceosome, snRNP core; 1.9A {Pyrococcus abyssi} SCOP: b.38.1.1 PDB: 1m8v_A*
Probab=97.03 E-value=0.0013 Score=53.10 Aligned_cols=68 Identities=19% Similarity=0.239 Sum_probs=52.7
Q ss_pred HHHHHHhccCceEEEEEecCCEEEEEEeecCCCCCeeEEEeeeEeecCCCCCCCCcccccccCCCCCceeEeCCCcEEEE
Q 045896 66 LLYLASCLIGLSVEVQVKGGSVYAGIFHATSDEKDFGVILKMARLIKDGNFRGQKTVAEFVSKPPSKNFIIPSSELVQVI 145 (520)
Q Consensus 66 Llyl~t~LIG~~VeVtvkdGsvYeGIF~t~S~~~dfgVVLK~Ar~vk~~s~~g~k~~~e~vsk~~~eTLII~~kDIVqV~ 145 (520)
-+-++..++|++|.|.++||..|.|+|.+++.-.. ++|+-|.....+. . .-.+ ..++|....|+.|.
T Consensus 5 P~~~L~~~~~~~V~V~l~~g~~~~G~L~~~D~~mN--lvL~d~~e~~~~~---~---~~~l-----g~v~iRG~~I~~i~ 71 (75)
T 1h64_1 5 PLDVIHRSLDKDVLVILKKGFEFRGRLIGYDIHLN--VVLADAEMIQDGE---V---VKRY-----GKIVIRGDNVLAIS 71 (75)
T ss_dssp HHHHHHTTTTSEEEEEETTSEEEEEEEEEECTTCC--EEEEEEEEEETTE---E---EEEE-----EEEEECGGGEEEEE
T ss_pred HHHHHHHHCCCEEEEEECCCCEEEEEEEEEeCCCC--eEEeeEEEEeeCC---c---eeEC-----CEEEECCCEEEEEE
Confidence 45678889999999999999999999999997644 9999998875421 1 1111 45788888888876
Q ss_pred E
Q 045896 146 A 146 (520)
Q Consensus 146 A 146 (520)
.
T Consensus 72 ~ 72 (75)
T 1h64_1 72 P 72 (75)
T ss_dssp E
T ss_pred e
Confidence 5
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=96.99 E-value=0.0025 Score=52.29 Aligned_cols=72 Identities=11% Similarity=0.188 Sum_probs=55.2
Q ss_pred chhHHHHHHhccCceEEEEEecCCEEEEEEeecCCCCCeeEEEeeeEeecCCCCCCCCcccccccCCCCCceeEeCCCcE
Q 045896 63 HDKLLYLASCLIGLSVEVQVKGGSVYAGIFHATSDEKDFGVILKMARLIKDGNFRGQKTVAEFVSKPPSKNFIIPSSELV 142 (520)
Q Consensus 63 ~dRLlyl~t~LIG~~VeVtvkdGsvYeGIF~t~S~~~dfgVVLK~Ar~vk~~s~~g~k~~~e~vsk~~~eTLII~~kDIV 142 (520)
...-+-++..++|++|.|.++||..|.|+|.+++.-.. ++|+.|.....+. .. -.+ ..++|....|+
T Consensus 7 ~~~P~~~L~~~~~~~V~V~l~~g~~~~G~L~~~D~~mN--lvL~d~~e~~~~~---~~---~~l-----g~v~iRG~~I~ 73 (81)
T 1th7_A 7 AETAHKVLAESLNNLVLVKLKGNKEVRGMLRSYDQHMN--LVLSDSEEIQSDG---SG---KKL-----GTIVIRGDNVI 73 (81)
T ss_dssp CHHHHHHHHHHTTSEEEEEETTTEEEEEEEEEECTTCC--EEEEEEEEECSSS---CE---EEE-----EEEEECGGGEE
T ss_pred ccchHHHHHHhCCCeEEEEEcCCcEEEEEEEEEcCCCC--EEEccEEEEecCC---ce---eEC-----CEEEECCCEEE
Confidence 34556778899999999999999999999999997644 9999999876421 11 112 45788888888
Q ss_pred EEEEc
Q 045896 143 QVIAK 147 (520)
Q Consensus 143 qV~Ak 147 (520)
.|...
T Consensus 74 ~i~~~ 78 (81)
T 1th7_A 74 LISPL 78 (81)
T ss_dssp EEEEC
T ss_pred EEEec
Confidence 88653
No 4
>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=96.98 E-value=0.0018 Score=52.42 Aligned_cols=68 Identities=22% Similarity=0.289 Sum_probs=52.5
Q ss_pred HHHHHhccCceEEEEEecCCEEEEEEeecCCCCCeeEEEeeeEeecCCCCCCCCcccccccCCCCCceeEeCCCcEEEEE
Q 045896 67 LYLASCLIGLSVEVQVKGGSVYAGIFHATSDEKDFGVILKMARLIKDGNFRGQKTVAEFVSKPPSKNFIIPSSELVQVIA 146 (520)
Q Consensus 67 lyl~t~LIG~~VeVtvkdGsvYeGIF~t~S~~~dfgVVLK~Ar~vk~~s~~g~k~~~e~vsk~~~eTLII~~kDIVqV~A 146 (520)
+-++..++|++|.|.++||..|.|+|.+++.-.. ++|+.|.....+. . .-.+ ..++|....|+.|..
T Consensus 6 ~~~L~~~~~~~V~V~L~~g~~~~G~L~~~D~~mN--lvL~d~~e~~~~~---~---~~~l-----g~v~iRG~~I~~i~~ 72 (77)
T 1i4k_A 6 LDVLNRSLKSPVIVRLKGGREFRGTLDGYDIHMN--LVLLDAEEIQNGE---V---VRKV-----GSVVIRGDTVVFVSP 72 (77)
T ss_dssp HHHHHTTTTSEEEEEETTSCEEEEEEEEECTTCC--EEEEEEEEEETTE---E---EEEE-----EEEEECGGGEEEEEE
T ss_pred HHHHHHhCCCEEEEEEcCCCEEEEEEEEEcCCCC--eEEeeEEEEecCC---c---EeEC-----CEEEECCCEEEEEEe
Confidence 4567889999999999999999999999997644 9999998875421 1 1111 467888888888865
Q ss_pred c
Q 045896 147 K 147 (520)
Q Consensus 147 k 147 (520)
.
T Consensus 73 ~ 73 (77)
T 1i4k_A 73 A 73 (77)
T ss_dssp C
T ss_pred C
Confidence 3
No 5
>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=96.97 E-value=0.0026 Score=51.66 Aligned_cols=65 Identities=11% Similarity=0.197 Sum_probs=45.8
Q ss_pred HHHhccCceEEEEEecCCEEEEEEeecCCCCCeeEEEeeeEeecCCCCCCCCcccccccCCCCCceeEeCCCcEEEEE
Q 045896 69 LASCLIGLSVEVQVKGGSVYAGIFHATSDEKDFGVILKMARLIKDGNFRGQKTVAEFVSKPPSKNFIIPSSELVQVIA 146 (520)
Q Consensus 69 l~t~LIG~~VeVtvkdGsvYeGIF~t~S~~~dfgVVLK~Ar~vk~~s~~g~k~~~e~vsk~~~eTLII~~kDIVqV~A 146 (520)
++..++|++|.|.++||..|.|+|.+++.-. -++|..|....... .. - .-..++|....|+.|..
T Consensus 8 ~L~~~~~k~V~V~Lk~gr~~~G~L~~~D~~m--NlvL~~~~e~~~~~---~~---~-----~lg~v~iRG~~I~~i~~ 72 (76)
T 3s6n_G 8 ELKKFMDKKLSLKLNGGRHVQGILRGFDPFM--NLVIDECVEMATSG---QQ---N-----NIGMVVIRGNSIIMLEA 72 (76)
T ss_dssp ------CCEEEEEETTTEEEEEEEEEECTTC--CEEEEEEEECCCC---------------CBSSEEECSSSEEEEEC
T ss_pred HHHHhCCCeEEEEECCCcEEEEEEEEECCcc--eEEEeceEEEccCC---cE---e-----EcCEEEECCCeEEEEEe
Confidence 4678999999999999999999999998754 49999998865421 11 0 11568899999988864
No 6
>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=96.95 E-value=0.0022 Score=53.56 Aligned_cols=69 Identities=17% Similarity=0.214 Sum_probs=53.7
Q ss_pred HHHHHhccCceEEEEEecCCEEEEEEeecCCCCCeeEEEeeeEeecCCCCCCCCcccccccCCCCCceeEeCCCcEEEEE
Q 045896 67 LYLASCLIGLSVEVQVKGGSVYAGIFHATSDEKDFGVILKMARLIKDGNFRGQKTVAEFVSKPPSKNFIIPSSELVQVIA 146 (520)
Q Consensus 67 lyl~t~LIG~~VeVtvkdGsvYeGIF~t~S~~~dfgVVLK~Ar~vk~~s~~g~k~~~e~vsk~~~eTLII~~kDIVqV~A 146 (520)
+-++..++|++|.|.+++|..|.|+|.+++.-. -++|+-|....++. . ...+ ..++|....|+.|..
T Consensus 8 ~~~L~~~~~k~V~V~Lk~g~~~~G~L~~~D~~m--NlvL~d~~e~~~g~----~--~~~l-----g~v~IRG~nI~~i~~ 74 (86)
T 3s6n_F 8 KPFLNGLTGKPVMVKLKWGMEYKGYLVSVDGYM--NMQLANTEEYIDGA----L--SGHL-----GEVLIRCNNVLYIRG 74 (86)
T ss_dssp HHHHHHHTTSEEEEEETTSCEEEEEEEEECTTC--CEEEEEEEEEETTE----E--EEEE-----SSEEECGGGEEEEEE
T ss_pred HHHHHHhCCCeEEEEEcCCeEEEEEEEEEcCce--EEEEeeEEEEcCCc----e--eeEc-----cEEEEeCCeEEEEEe
Confidence 456788999999999999999999999998864 49999998765421 0 0112 568899999998876
Q ss_pred cc
Q 045896 147 KD 148 (520)
Q Consensus 147 kd 148 (520)
.|
T Consensus 75 ~d 76 (86)
T 3s6n_F 75 VE 76 (86)
T ss_dssp CC
T ss_pred CC
Confidence 54
No 7
>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=96.93 E-value=0.0024 Score=56.34 Aligned_cols=71 Identities=15% Similarity=0.199 Sum_probs=55.1
Q ss_pred HHHHHHhccCceEEEEEecCCEEEEEEeecCCCCCeeEEEeeeEeecCCCCCCCCcccccccCCCCCceeEeCCCcEEEE
Q 045896 66 LLYLASCLIGLSVEVQVKGGSVYAGIFHATSDEKDFGVILKMARLIKDGNFRGQKTVAEFVSKPPSKNFIIPSSELVQVI 145 (520)
Q Consensus 66 Llyl~t~LIG~~VeVtvkdGsvYeGIF~t~S~~~dfgVVLK~Ar~vk~~s~~g~k~~~e~vsk~~~eTLII~~kDIVqV~ 145 (520)
++-++..++|++|.|.++||.+|.|+|.+++.-.. ++|+.|.++... +.. -.+ ..++|....|+.|.
T Consensus 3 p~~~L~~~~gk~V~V~Lk~g~~~~G~L~~~D~~MN--lvL~d~~e~~~~---~~~---~~l-----g~v~IRG~nI~~I~ 69 (119)
T 1b34_A 3 LVRFLMKLSHETVTIELKNGTQVHGTITGVDVSMN--THLKAVKMTLKN---REP---VQL-----ETLSIRGNNIRYFI 69 (119)
T ss_dssp HHHHHHTCTTCEEEEEETTCCEEEEEEEEECTTCC--EEEEEEEEECTT---SCC---EEE-----EEEEECGGGEEEEE
T ss_pred hHHHHHHhCCCEEEEEEcCCCEEEEEEEEEcccce--EEeccEEEecCC---Cce---eEc-----ceEEEcCCeEEEEE
Confidence 45678889999999999999999999999997644 999999987542 111 111 56888999999888
Q ss_pred Eccc
Q 045896 146 AKDV 149 (520)
Q Consensus 146 AkdV 149 (520)
..|-
T Consensus 70 ~pd~ 73 (119)
T 1b34_A 70 LPDS 73 (119)
T ss_dssp CCTT
T ss_pred eccc
Confidence 6543
No 8
>1y96_A Gemin6, SIP2, GEM-associated protein 6; SM fold, protein complex, RNA binding protein; 2.00A {Homo sapiens}
Probab=96.91 E-value=0.0011 Score=56.13 Aligned_cols=61 Identities=16% Similarity=0.050 Sum_probs=46.8
Q ss_pred HHHhccCceEEEEEecCCEEEEEEeecCCCCCeeEEEeeeEeecCCCCCCCCcccccccCCCCCceeEeCCCcEEEEEc
Q 045896 69 LASCLIGLSVEVQVKGGSVYAGIFHATSDEKDFGVILKMARLIKDGNFRGQKTVAEFVSKPPSKNFIIPSSELVQVIAK 147 (520)
Q Consensus 69 l~t~LIG~~VeVtvkdGsvYeGIF~t~S~~~dfgVVLK~Ar~vk~~s~~g~k~~~e~vsk~~~eTLII~~kDIVqV~Ak 147 (520)
-+..+||++|.|++.||..|.|++++++|.. |.|||-.| .. .+. + ...+|...=|..|.+.
T Consensus 11 el~~li~KeV~V~l~dg~~y~G~l~tvDp~s-~sIvL~n~---~~---~~~-----~------~~~iI~G~aI~eI~v~ 71 (86)
T 1y96_A 11 EWQDYIYKEVRVTASEKNEYKGWVLTTDPVS-ANIVLVNF---LE---DGS-----M------SVTGIMGHAVQTVETM 71 (86)
T ss_dssp HHHHTTTCEEEEEETTTEEEEEEEEEECTTT-CCEEEEEE---CT---TSC-----E------EEEEECGGGEEEEEEE
T ss_pred HHHhhcCCEEEEEEcCCCEEEEEEEEECCCc-eEEEEeec---cc---CCe-----E------EEEEEecceEEEEEEe
Confidence 3678999999999999999999999999864 77999877 11 111 1 3467777777777654
No 9
>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=96.85 E-value=0.0028 Score=56.80 Aligned_cols=70 Identities=19% Similarity=0.241 Sum_probs=55.2
Q ss_pred HHHHHhccCceEEEEEecCCEEEEEEeecCCCCCeeEEEeeeEeecCCCCCCCCcccccccCCCCCceeEeCCCcEEEEE
Q 045896 67 LYLASCLIGLSVEVQVKGGSVYAGIFHATSDEKDFGVILKMARLIKDGNFRGQKTVAEFVSKPPSKNFIIPSSELVQVIA 146 (520)
Q Consensus 67 lyl~t~LIG~~VeVtvkdGsvYeGIF~t~S~~~dfgVVLK~Ar~vk~~s~~g~k~~~e~vsk~~~eTLII~~kDIVqV~A 146 (520)
+-++..++|++|.|.+++|..|.|+|.+++.-. -|+|+.|..+... ++. . .+ ..++|....|..|.+
T Consensus 7 ~~~L~~~~gk~V~VeLknG~~~~G~L~~~D~~M--Ni~L~dv~e~~~~---g~~--~-~l-----~~v~IRGnnI~~I~l 73 (126)
T 2y9a_D 7 IKVLHEAEGHIVTCETNTGEVYRGKLIEAEDNM--NCQMSNITVTYRD---GRV--A-QL-----EQVYIRGSKIRFLIL 73 (126)
T ss_dssp HHHHHSCSSCEEEEEESSCCEEEEEEEEECTTS--CEEEEEEEEECTT---SCC--E-EE-----EEEEECGGGEEEEEC
T ss_pred HHHHHHhCCCEEEEEECCCcEEEEEEEEEcCce--EEEEeeEEEEcCC---CcE--e-ec-----ccEEEeCCEEEEEEc
Confidence 567889999999999999999999999999764 4999999887531 111 1 11 568999999999987
Q ss_pred ccc
Q 045896 147 KDV 149 (520)
Q Consensus 147 kdV 149 (520)
.+.
T Consensus 74 pd~ 76 (126)
T 2y9a_D 74 PDM 76 (126)
T ss_dssp CSS
T ss_pred ccc
Confidence 654
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=96.69 E-value=0.0042 Score=50.32 Aligned_cols=68 Identities=15% Similarity=0.272 Sum_probs=52.1
Q ss_pred HHHHHhccCceEEEEEecC-CEEEEEEeecCCCCCeeEEEeeeEeecCCCCCCCCcccccccCCCCCceeEeCCCcEEEE
Q 045896 67 LYLASCLIGLSVEVQVKGG-SVYAGIFHATSDEKDFGVILKMARLIKDGNFRGQKTVAEFVSKPPSKNFIIPSSELVQVI 145 (520)
Q Consensus 67 lyl~t~LIG~~VeVtvkdG-svYeGIF~t~S~~~dfgVVLK~Ar~vk~~s~~g~k~~~e~vsk~~~eTLII~~kDIVqV~ 145 (520)
+-++..++|++|.|.+++| ..|.|+|.+++.-.. ++|+-|.....+. . .-.+ ..++|....|+.|.
T Consensus 7 ~~~L~~~~~~~v~V~lk~g~~~~~G~L~~~D~~mN--lvL~d~~e~~~~~---~---~~~l-----g~v~iRG~nI~~i~ 73 (77)
T 1ljo_A 7 NQMVKSMVGKIIRVEMKGEENQLVGKLEGVDDYMN--LYLTNAMECKGEE---K---VRSL-----GEIVLRGNNVVLIQ 73 (77)
T ss_dssp HHHHHHTTTSEEEEEETTCSSEEEEEEEEECTTCC--EEEEEEEEEETTE---E---EEEE-----EEEEECGGGEEEEE
T ss_pred HHHHHHHCCCEEEEEEeCCCEEEEEEEEEECCcce--EEEeeEEEEecCC---c---EeEC-----CeEEEeCCeEEEEE
Confidence 4567889999999999999 999999999997644 9999998876421 1 1111 45788888888876
Q ss_pred Ec
Q 045896 146 AK 147 (520)
Q Consensus 146 Ak 147 (520)
..
T Consensus 74 ~~ 75 (77)
T 1ljo_A 74 PQ 75 (77)
T ss_dssp EC
T ss_pred eC
Confidence 53
No 11
>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=96.61 E-value=0.0041 Score=51.04 Aligned_cols=68 Identities=16% Similarity=0.175 Sum_probs=52.2
Q ss_pred HHHHHHhccCceEEEEEecCCEEEEEEeecCCCCCeeEEEeeeEeecCCCCCCCCcccccccCCCCCceeEeCCCcEEEE
Q 045896 66 LLYLASCLIGLSVEVQVKGGSVYAGIFHATSDEKDFGVILKMARLIKDGNFRGQKTVAEFVSKPPSKNFIIPSSELVQVI 145 (520)
Q Consensus 66 Llyl~t~LIG~~VeVtvkdGsvYeGIF~t~S~~~dfgVVLK~Ar~vk~~s~~g~k~~~e~vsk~~~eTLII~~kDIVqV~ 145 (520)
-+-++..++|++|.|.++||..|.|+|.+++.-.. ++|+.|... ++ .. .-.+ ..++|....|+.|.
T Consensus 12 P~~~L~~~~~~~V~V~l~~g~~~~G~L~~~D~~mN--lvL~d~~e~-~~---~~---~~~l-----g~v~iRG~~I~~i~ 77 (81)
T 1i8f_A 12 LGATLQDSIGKQVLVKLRDSHEIRGILRSFDQHVN--LLLEDAEEI-ID---GN---VYKR-----GTMVVRGENVLFIS 77 (81)
T ss_dssp HHHHHHTTTTSEEEEEEGGGEEEEEEEEEECTTCC--EEEEEEEEE-ET---TE---EEEE-----EEEEECGGGEEEEE
T ss_pred hHHHHHHHCCCeEEEEEcCCcEEEEEEEEEcCCCe--eEEccEEEE-cC---Cc---ccCC-----CEEEECCCEEEEEE
Confidence 45567889999999999999999999999997644 999999988 31 11 1112 46888888888886
Q ss_pred Ec
Q 045896 146 AK 147 (520)
Q Consensus 146 Ak 147 (520)
..
T Consensus 78 ~~ 79 (81)
T 1i8f_A 78 PV 79 (81)
T ss_dssp EC
T ss_pred eC
Confidence 53
No 12
>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=96.56 E-value=0.0042 Score=50.28 Aligned_cols=67 Identities=18% Similarity=0.276 Sum_probs=50.5
Q ss_pred HHHHHhccCceEEEEEecCCEEEEEEeecCCCCCeeEEEeeeEeecCCCCCCCCcccccccCCCCCceeEeCCCcEEEEE
Q 045896 67 LYLASCLIGLSVEVQVKGGSVYAGIFHATSDEKDFGVILKMARLIKDGNFRGQKTVAEFVSKPPSKNFIIPSSELVQVIA 146 (520)
Q Consensus 67 lyl~t~LIG~~VeVtvkdGsvYeGIF~t~S~~~dfgVVLK~Ar~vk~~s~~g~k~~~e~vsk~~~eTLII~~kDIVqV~A 146 (520)
+-++..++|++|.|.++||..|.|+|.+++.- +-++|+.|....++. .+ ..+ ..++|....|+.|..
T Consensus 6 ~~~L~~~~~k~V~V~Lk~g~~~~G~L~~~D~~--mNlvL~d~~e~~~~~---~~---~~l-----g~v~iRG~~I~~i~~ 72 (75)
T 4emk_B 6 NEFLNKVIGKKVLIRLSSGVDYKGILSCLDGY--MNLALERTEEYVNGK---KT---NVY-----GDAFIRGNNVLYVSA 72 (75)
T ss_dssp HHHHHHTTTSEEEEECTTSCEEEEEEEEECTT--CEEEEEEEEEEETTE---EE---EEE-----EEEEEEGGGSSEEEE
T ss_pred HHHHHHhCCCeEEEEEcCCcEEEEEEEEEcCc--ceEEEccEEEEecCC---cc---cEe-----cEEEEcCCeEEEEEe
Confidence 45678899999999999999999999999875 449999998765421 00 111 457777777777754
No 13
>2fb7_A SM-like protein, LSM-14_N (RAP55); DR.13312, BC055387, AAH55387, stronGly BENT five-stranded antiparallel beta- sheet, structural genomics, PSI; NMR {Danio rerio} SCOP: b.38.1.5 PDB: 2vxf_A
Probab=96.51 E-value=0.0092 Score=51.39 Aligned_cols=75 Identities=16% Similarity=0.185 Sum_probs=53.6
Q ss_pred HHhccCceEEEEEecCCEEEEEEeecCCCCCeeEEEeeeEeecCCCCCCCCccccc-ccCCCCCceeEeCCCcEEEEEcc
Q 045896 70 ASCLIGLSVEVQVKGGSVYAGIFHATSDEKDFGVILKMARLIKDGNFRGQKTVAEF-VSKPPSKNFIIPSSELVQVIAKD 148 (520)
Q Consensus 70 ~t~LIG~~VeVtvkdGsvYeGIF~t~S~~~dfgVVLK~Ar~vk~~s~~g~k~~~e~-vsk~~~eTLII~~kDIVqV~Akd 148 (520)
.+..||..+.+..+..-+|+|||++++++. -.|.|+.+|.--...-... ..+ .+....+.++|.+.||-++.+.+
T Consensus 14 ~~~~IGs~ISLISk~dIRYeGiL~~In~~~-sTiaL~nVRsfGTEgR~~~---~~ipp~~~vyeyIvFrGsDIKDL~V~e 89 (95)
T 2fb7_A 14 GTPYIGSKISLISKAEIRYEGILYTIDTEN-STVALAKVRSFGTEDRPTD---RPIAPRDETFEYIIFRGSDIKDLTVCE 89 (95)
T ss_dssp --CCSSEEEEEEETTTEEEEEEEEEEETTT-TEEEEESCCCCSCCSSSCS---SCCCSCCCCSSCEEECSTTEEEEEESC
T ss_pred cCcccCCeEEEEECCCceEEEEEecccCcc-CEEEEEeeeEecccCCCCC---CccCCCCcceeEEEEcCCCcceEEEec
Confidence 456899999999999999999999999974 4599999987644211111 111 11112367999999999998754
No 14
>2vxe_A CG10686-PA; EDC3, CAR-1, P-bodies, decapping, mRNA decay, LSM proteins, translational repression, transcription; NMR {Drosophila melanogaster}
Probab=96.47 E-value=0.012 Score=50.06 Aligned_cols=72 Identities=11% Similarity=0.130 Sum_probs=52.0
Q ss_pred hccCceEEEEEecCCEEEEEEeecCCCCCeeEEEeeeEeecCCCCCCCCccccc-ccCCCCCceeEeCCCcEEEEEc
Q 045896 72 CLIGLSVEVQVKGGSVYAGIFHATSDEKDFGVILKMARLIKDGNFRGQKTVAEF-VSKPPSKNFIIPSSELVQVIAK 147 (520)
Q Consensus 72 ~LIG~~VeVtvkdGsvYeGIF~t~S~~~dfgVVLK~Ar~vk~~s~~g~k~~~e~-vsk~~~eTLII~~kDIVqV~Ak 147 (520)
-.||+.+.+..+..-+|+|||++++++. -.|.|+.+|.--...-..+ .++ .+....+.++|...||-++.+.
T Consensus 10 ~yIGs~iSLISk~dIRYeGiL~~In~~~-sTi~L~nVrsfGTEgR~~~---~~ipp~~~vy~yIvFrgsDIKdL~V~ 82 (88)
T 2vxe_A 10 PELGSKISLISKADIRYEGRLYTVDPQE-CTIALSSVRSFGTEDRDTQ---FQIAPQSQIYDYILFRGSDIKDIRVV 82 (88)
T ss_dssp CCTTCEEEEEETTTEEEEEEEEEEETTT-TEEEEEEEEECCCTTTCCS---SCCCCCCSCEEEEEEETTTEEEEEEC
T ss_pred cccCCeEEEEECCCceEEEEEeeecCcc-cEEEEEeeeEecCcCCCCC---cccCCCCceeeEEEEccCCccEEEEe
Confidence 4699999999999999999999999974 4599999998654221111 111 0111125699999999998763
No 15
>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=96.43 E-value=0.0045 Score=53.81 Aligned_cols=72 Identities=17% Similarity=0.193 Sum_probs=46.0
Q ss_pred HHHHHHhccCceEEEEEecCCEEEEEEeecCCCCCeeEEEeeeEeecCCCCCCCCcccccccCCCCCceeEeCCCcEEEE
Q 045896 66 LLYLASCLIGLSVEVQVKGGSVYAGIFHATSDEKDFGVILKMARLIKDGNFRGQKTVAEFVSKPPSKNFIIPSSELVQVI 145 (520)
Q Consensus 66 Llyl~t~LIG~~VeVtvkdGsvYeGIF~t~S~~~dfgVVLK~Ar~vk~~s~~g~k~~~e~vsk~~~eTLII~~kDIVqV~ 145 (520)
.+.++..++|++|.|.+++|..|.|+|.+++.-. -++|+-|..+... ++. ...+ ..++|....|+.|.
T Consensus 17 p~~lL~~~igk~V~V~Lk~G~~~~G~L~~~D~~M--NlvL~d~~e~~~d---g~~--~~~l-----g~v~IRG~nI~~I~ 84 (105)
T 4emh_A 17 PLTLLNATQGRPILVELKNGETFNGHLENCDNYM--NLTLREVIRTMPD---GDK--FFRL-----PECYIRGNNIKYLR 84 (105)
T ss_dssp ---------CCEEEEEETTSCEEEEEEEEECTTC--CEEEEEEEEECTT---SCE--EEEE-----EEEEECGGGEEEEE
T ss_pred HHHHHHHhCCCEEEEEECCCCEEEEEEEEEcCCc--eEEEEEEEEEccC---Cce--eeEc-----CeEEEeCCeEEEEe
Confidence 6677899999999999999999999999998754 4999999876431 111 0111 56888888888887
Q ss_pred Eccc
Q 045896 146 AKDV 149 (520)
Q Consensus 146 AkdV 149 (520)
..|-
T Consensus 85 ~pd~ 88 (105)
T 4emh_A 85 IQDE 88 (105)
T ss_dssp C---
T ss_pred cCHH
Confidence 6554
No 16
>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=96.37 E-value=0.0061 Score=51.74 Aligned_cols=68 Identities=16% Similarity=0.164 Sum_probs=50.1
Q ss_pred HHHHHHhccCceEEEEEecC-CEEEEEEeecCCCCCeeEEEeeeEeecCCCCCCCCcccccccCCCCCceeEeCCCcEEE
Q 045896 66 LLYLASCLIGLSVEVQVKGG-SVYAGIFHATSDEKDFGVILKMARLIKDGNFRGQKTVAEFVSKPPSKNFIIPSSELVQV 144 (520)
Q Consensus 66 Llyl~t~LIG~~VeVtvkdG-svYeGIF~t~S~~~dfgVVLK~Ar~vk~~s~~g~k~~~e~vsk~~~eTLII~~kDIVqV 144 (520)
.+-++..++|++|.|.+++| ..|.|+|.+++.-. -++|+-|....++. .+ ..+ ..++|....|+.|
T Consensus 22 P~~~L~~~i~k~V~V~Lk~g~~~~~G~L~~~D~~M--NlvL~d~~E~~~~~---~~---~~l-----g~v~IRG~nI~~I 88 (93)
T 1n9r_A 22 PKPFLKGLVNHRVGVKLKFNSTEYRGTLVSTDNYF--NLQLNEAEEFVAGV---SH---GTL-----GEIFIRCNNVLYI 88 (93)
T ss_dssp ----CGGGTTSEEEEEESSTTEEEEEEEEECCTTT--CEEEEEEEEEETTE---EE---EEC-----CSEEECGGGEEEE
T ss_pred hHHHHHHhCCCEEEEEEcCCCEEEEEEEEEEcccc--EEEEeeEEEEcCCC---eE---eEc-----CEEEEcCCeEEEE
Confidence 45567889999999999999 99999999998764 49999998875321 11 112 5688888888887
Q ss_pred EE
Q 045896 145 IA 146 (520)
Q Consensus 145 ~A 146 (520)
..
T Consensus 89 ~~ 90 (93)
T 1n9r_A 89 RE 90 (93)
T ss_dssp EE
T ss_pred Ee
Confidence 64
No 17
>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=96.30 E-value=0.0067 Score=50.03 Aligned_cols=66 Identities=17% Similarity=0.300 Sum_probs=49.1
Q ss_pred HHHHHhccCceEEEEEecCCEEEEEEeecCCCCCeeEEEeeeEeecCCCCCCCCcccccccCCCCCceeEeCCCcEEEE
Q 045896 67 LYLASCLIGLSVEVQVKGGSVYAGIFHATSDEKDFGVILKMARLIKDGNFRGQKTVAEFVSKPPSKNFIIPSSELVQVI 145 (520)
Q Consensus 67 lyl~t~LIG~~VeVtvkdGsvYeGIF~t~S~~~dfgVVLK~Ar~vk~~s~~g~k~~~e~vsk~~~eTLII~~kDIVqV~ 145 (520)
+-++..++|++|.|.++||..|.|+|.+++.-.. ++|+.|.+...+. . .-.+ ..++|....|+.|.
T Consensus 17 ~~~L~~~~~~~V~V~Lk~g~~~~G~L~~~D~~mN--lvL~d~~e~~~~~---~---~~~l-----g~v~IRG~~I~~i~ 82 (83)
T 1mgq_A 17 LDALGNSLNSPVIIKLKGDREFRGVLKSFDLHMN--LVLNDAEELEDGE---V---TRRL-----GTVLIRGDNIVYIS 82 (83)
T ss_dssp THHHHHTTTSEEEEEETTTEEEEEEEEEECTTCC--EEEEEEEEEETTE---E---EEEE-----EEEEECGGGEEEEE
T ss_pred HHHHHHhCCCEEEEEEcCCcEEEEEEEEECCCce--eEEccEEEEecCC---c---ccCC-----CEEEECCCEEEEEE
Confidence 3467788999999999999999999999997644 9999998875421 0 0111 45677777776653
No 18
>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=96.22 E-value=0.017 Score=49.30 Aligned_cols=67 Identities=21% Similarity=0.235 Sum_probs=51.8
Q ss_pred HHHHHhccCceEEEEEecCCEEEEEEeecCCCCCeeEEEeeeEeec-CCCCCCCCcccccccCCCCCceeEeCCCcEEEE
Q 045896 67 LYLASCLIGLSVEVQVKGGSVYAGIFHATSDEKDFGVILKMARLIK-DGNFRGQKTVAEFVSKPPSKNFIIPSSELVQVI 145 (520)
Q Consensus 67 lyl~t~LIG~~VeVtvkdGsvYeGIF~t~S~~~dfgVVLK~Ar~vk-~~s~~g~k~~~e~vsk~~~eTLII~~kDIVqV~ 145 (520)
+.++..++|++|.|.+++|..|.|+|.+++.-. -+||.-|.+.. ++ +.+ -.+ ..++|....|+.|.
T Consensus 22 l~lL~~~l~k~V~V~Lk~gr~~~G~L~gfD~~m--NlvL~d~~E~~~~~---~~~---~~l-----g~v~IRG~nI~~i~ 88 (94)
T 4emk_A 22 LELIDKCIGSNLWVIMKSEREFAGTLVGFDDYV--NIVLKDVTEYDTVT---GVT---EKH-----SEMLLNGNGMCMLI 88 (94)
T ss_dssp HHHHHHTTTSEEEEEESSSEEEEEEEEEECTTC--CEEEEEEEEEETTT---CCE---EEE-----EEEEECSTTEEEEE
T ss_pred HHHHHHHcCCeEEEEECCCcEEEEEEEEEcccC--CeEeeeEEEEecCC---CcE---eEc-----CEEEEcCCEEEEEE
Confidence 567889999999999999999999999998754 49999998876 21 111 112 46788888888876
Q ss_pred E
Q 045896 146 A 146 (520)
Q Consensus 146 A 146 (520)
.
T Consensus 89 p 89 (94)
T 4emk_A 89 P 89 (94)
T ss_dssp E
T ss_pred e
Confidence 4
No 19
>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=96.14 E-value=0.011 Score=49.33 Aligned_cols=74 Identities=14% Similarity=0.157 Sum_probs=50.4
Q ss_pred HHhccCceEEEEEecCCEEEEEEeecCCCCCeeEEEeeeEeecCC-CCCCC-CcccccccCCCCCceeEeCCCcEEEEEc
Q 045896 70 ASCLIGLSVEVQVKGGSVYAGIFHATSDEKDFGVILKMARLIKDG-NFRGQ-KTVAEFVSKPPSKNFIIPSSELVQVIAK 147 (520)
Q Consensus 70 ~t~LIG~~VeVtvkdGsvYeGIF~t~S~~~dfgVVLK~Ar~vk~~-s~~g~-k~~~e~vsk~~~eTLII~~kDIVqV~Ak 147 (520)
+..+||++|.|.++||..|.|+|.+++.... +||.-|.+.... ...+. ...... ..-..++|....|+.|.+.
T Consensus 9 L~~~~~k~V~V~l~~gr~~~G~L~~~D~~mN--lvL~d~~E~~~~~~~~~~~~~~~~~---~~lg~v~iRG~~I~~i~~~ 83 (91)
T 1d3b_B 9 MLQHIDYRMRCILQDGRIFIGTFKAFDKHMN--LILCDCDEFRKIKPKNSKQAEREEK---RVLGLVLLRGENLVSMTVE 83 (91)
T ss_dssp CGGGTTSEEEEEETTCCEEEEEEEECCTTCC--EEEEEEEEEEEECCSSTTSCCEEEE---EEEEEEEECGGGEEEEEEE
T ss_pred HHHHcCCcEEEEECCCeEEEEEEEEECCCCe--EEecCEEEEeeccccccccccCccE---eECCEEEECCCeEEEEEcC
Confidence 4679999999999999999999999997644 999999874210 00000 000000 0014588899999988765
Q ss_pred c
Q 045896 148 D 148 (520)
Q Consensus 148 d 148 (520)
+
T Consensus 84 ~ 84 (91)
T 1d3b_B 84 G 84 (91)
T ss_dssp E
T ss_pred C
Confidence 4
No 20
>3pgw_B SM B; protein-RNA complex, U1 snRNA, SM fold, SM core, RRM, splici SNRNPS, splicing factors; HET: DNA; 4.40A {Homo sapiens} PDB: 3cw1_A
Probab=95.99 E-value=0.017 Score=56.76 Aligned_cols=75 Identities=16% Similarity=0.201 Sum_probs=52.9
Q ss_pred HHhccCceEEEEEecCCEEEEEEeecCCCCCeeEEEeeeEeecC--CCCCCCCcccccccCCCCCceeEeCCCcEEEEEc
Q 045896 70 ASCLIGLSVEVQVKGGSVYAGIFHATSDEKDFGVILKMARLIKD--GNFRGQKTVAEFVSKPPSKNFIIPSSELVQVIAK 147 (520)
Q Consensus 70 ~t~LIG~~VeVtvkdGsvYeGIF~t~S~~~dfgVVLK~Ar~vk~--~s~~g~k~~~e~vsk~~~eTLII~~kDIVqV~Ak 147 (520)
+..+|+++|.|+++||.+|.|+|.+++...+ |||..|.+... .+...... .+ .+..-..++|....|+.|.+.
T Consensus 9 L~klIdKrV~V~LkdGRel~GtLkgFDq~MN--LVL~Da~E~~~ik~k~~k~~~-~~--~~R~LGlV~IRGdnIV~Isve 83 (231)
T 3pgw_B 9 MLQHIDYRMRCILQDGRIFIGTFKAFDKHMN--LILCDCDEFRKIKPKNSKQAE-RE--EKRVLGLVLLRGENLVSMTVE 83 (231)
T ss_pred HHHhcCCeEEEEECCCcEEEEEEEEEccccc--EEecCEEEEEeccCccccccc-cc--ceeEeceEEECCCcEEEEEec
Confidence 5678999999999999999999999987644 99999988532 11100000 00 111125689999999999876
Q ss_pred cc
Q 045896 148 DV 149 (520)
Q Consensus 148 dV 149 (520)
+-
T Consensus 84 ~p 85 (231)
T 3pgw_B 84 GP 85 (231)
T ss_pred CC
Confidence 54
No 21
>3bw1_A SMX4 protein, U6 snRNA-associated SM-like protein LSM3; RNA-binding protein, SM protein, ring, HOMO octamer, mRNA processing; 2.50A {Saccharomyces cerevisiae}
Probab=95.87 E-value=0.028 Score=47.64 Aligned_cols=74 Identities=12% Similarity=0.092 Sum_probs=52.3
Q ss_pred HHHHHHhccCceEEEEEecCCEEEEEEeecCCCCCeeEEEeeeEeecCCCCCCC-CcccccccCCCCCceeEeCCCcEEE
Q 045896 66 LLYLASCLIGLSVEVQVKGGSVYAGIFHATSDEKDFGVILKMARLIKDGNFRGQ-KTVAEFVSKPPSKNFIIPSSELVQV 144 (520)
Q Consensus 66 Llyl~t~LIG~~VeVtvkdGsvYeGIF~t~S~~~dfgVVLK~Ar~vk~~s~~g~-k~~~e~vsk~~~eTLII~~kDIVqV 144 (520)
.+-++..++|++|.|.+++|..|.|+|.+++.-.. +||.-|.........+. ....-.+ ..++|....|+.|
T Consensus 11 p~~~L~~~i~k~V~V~Lk~gr~~~G~L~~fD~~mN--lVL~d~~E~~~~~~~~~~~~~~r~l-----G~v~IRG~nVv~I 83 (96)
T 3bw1_A 11 PLDLLKLNLDERVYIKLRGARTLVGTLQAFDSHCN--IVLSDAVETIYQLNNEELSESERRC-----EMVFIRGDTVTLI 83 (96)
T ss_dssp HHHHHGGGTTSEEEEEEGGGCEEEEEEEEECTTCC--EEEEEEEEEEECCSTTCCCEEEEEE-----EEEEECGGGEEEE
T ss_pred HHHHHHHHCCCeEEEEECCCcEEEEEEEEECCCCc--EEEcCEEEEeccccccccCcceeEc-----CEEEECCCEEEEE
Confidence 45568889999999999999999999999997644 99999987643111100 0000011 3578888888888
Q ss_pred EE
Q 045896 145 IA 146 (520)
Q Consensus 145 ~A 146 (520)
..
T Consensus 84 ~~ 85 (96)
T 3bw1_A 84 ST 85 (96)
T ss_dssp EC
T ss_pred Ee
Confidence 64
No 22
>4emk_C U6 snRNA-associated SM-like protein LSM7; SM fold, mRNA decay and PRE-mRNA splicing, LSM proteins, RNA protein; 2.30A {Schizosaccharomyces pombe} PDB: 3swn_C
Probab=95.87 E-value=0.028 Score=49.36 Aligned_cols=81 Identities=14% Similarity=0.158 Sum_probs=47.6
Q ss_pred cCccchhHHHHHHhccCceEEEEEecCCEEEEEEeecCCCCCeeEEEeeeEeecCCCCCCCC--cccccccCCCCCceeE
Q 045896 59 AVSSHDKLLYLASCLIGLSVEVQVKGGSVYAGIFHATSDEKDFGVILKMARLIKDGNFRGQK--TVAEFVSKPPSKNFII 136 (520)
Q Consensus 59 ~s~~~dRLlyl~t~LIG~~VeVtvkdGsvYeGIF~t~S~~~dfgVVLK~Ar~vk~~s~~g~k--~~~e~vsk~~~eTLII 136 (520)
+.|.++-++. +..+||++|.|.++||..|.|+|.+++.-.. +||.-|........ +.. ...-.+ ..++|
T Consensus 18 ~~~kke~i~~-L~~~l~k~V~V~L~dGr~~~G~L~~fD~~mN--LVL~d~~E~~~~~~-~~~~~~~~r~l-----G~v~I 88 (113)
T 4emk_C 18 ERPRKESILD-LSRYQDQRIQATFTGGRQITGILKGFDQLMN--LVLDDVEEQLRNPE-DGKLTGAIRKL-----GLVVV 88 (113)
T ss_dssp ---------------CCSEEEEEETTSCEEEEEEEEECTTCC--EEEEEEEEEC----------CCEEEE-----EEEEE
T ss_pred cCCccchHHH-HHHHcCCcEEEEEeCCeEEEEEEEEEcCccc--EEEeeEEEEEcCCC-CcccccceeEc-----cEEEE
Confidence 5555655555 5667999999999999999999999987644 99999988654211 100 000111 45888
Q ss_pred eCCCcEEEEEcc
Q 045896 137 PSSELVQVIAKD 148 (520)
Q Consensus 137 ~~kDIVqV~Akd 148 (520)
....|+.|..-|
T Consensus 89 RG~nIv~I~~~d 100 (113)
T 4emk_C 89 RGTTLVLIAPMD 100 (113)
T ss_dssp CTTTEEEEEECC
T ss_pred CCCeEEEEEecC
Confidence 999999887643
No 23
>1y96_B Gemin7, SIP3, GEM-associated protein 7; SM fold, protein complex, RNA binding protein; 2.00A {Homo sapiens}
Probab=95.54 E-value=0.047 Score=46.20 Aligned_cols=69 Identities=13% Similarity=0.137 Sum_probs=51.8
Q ss_pred ccchhHHHHHHhccCceEEEEEecCCEEEEEEeecCCCCCeeEEEeeeEeecCCCCCCCCcccccccCCCCCceeEeCCC
Q 045896 61 SSHDKLLYLASCLIGLSVEVQVKGGSVYAGIFHATSDEKDFGVILKMARLIKDGNFRGQKTVAEFVSKPPSKNFIIPSSE 140 (520)
Q Consensus 61 ~~~dRLlyl~t~LIG~~VeVtvkdGsvYeGIF~t~S~~~dfgVVLK~Ar~vk~~s~~g~k~~~e~vsk~~~eTLII~~kD 140 (520)
-+++|+|++++.|+|++|++++..+....|.|.+++.+...-+ +..+..+ ..++ +.=++...|
T Consensus 15 ~LReRfLr~l~~m~~~~v~f~m~E~t~V~a~F~a~d~d~~~f~----Vs~L~TP--------iGv~-----~eAlLR~~D 77 (85)
T 1y96_B 15 ALRERYLRSLLAMVGHQVSFTLHEGVRVAAHFGATDLDVANFY----VSQLQTP--------IGVQ-----AEALLRCSD 77 (85)
T ss_dssp HHHHHHHHHHHHHTTSEEEEEEGGGCEEEEEEEEECTTCCEEE----EEEECCT--------TCCE-----EEEEEEGGG
T ss_pred HHHHHHHHHHHHhCCCceEEEEeCCeEEEEEEEecCcccceeE----hhhcCCC--------cccc-----hhhhhhcCC
Confidence 3689999999999999999999999999999999998754222 2333331 1112 346778889
Q ss_pred cEEEEE
Q 045896 141 LVQVIA 146 (520)
Q Consensus 141 IVqV~A 146 (520)
|+.+.+
T Consensus 78 ii~~sF 83 (85)
T 1y96_B 78 IISYTF 83 (85)
T ss_dssp EEEEEE
T ss_pred EEEEEe
Confidence 988875
No 24
>1m5q_A SMAP3, small nuclear ribonucleoprotein homolog, SM-like P; OB-like fold, B-sheet toroid, 14-MER, cadmium-binding site, translation; 2.00A {Pyrobaculum aerophilum} SCOP: b.38.1.1
Probab=95.49 E-value=0.029 Score=50.44 Aligned_cols=65 Identities=22% Similarity=0.355 Sum_probs=51.9
Q ss_pred HHHHhccCceEEEEEecCCEEEEEEeecCCCCCeeEEEeeeEeecCCCCCCCCcccccccCCCCCceeEeCCCcEEEEEc
Q 045896 68 YLASCLIGLSVEVQVKGGSVYAGIFHATSDEKDFGVILKMARLIKDGNFRGQKTVAEFVSKPPSKNFIIPSSELVQVIAK 147 (520)
Q Consensus 68 yl~t~LIG~~VeVtvkdGsvYeGIF~t~S~~~dfgVVLK~Ar~vk~~s~~g~k~~~e~vsk~~~eTLII~~kDIVqV~Ak 147 (520)
-++..++|++|.|.+++|..|.|+|.+++.-. -++|.-|..... . . + ..++|....|+.|...
T Consensus 3 ~~L~~~igk~V~V~Lk~G~~~~G~L~~~D~~M--NlvL~d~~E~~~-----~----~-l-----g~v~IRG~nI~~I~~~ 65 (130)
T 1m5q_A 3 AELNNLLGREVQVVLSNGEVYKGVLHAVDNQL--NIVLANASNKAG-----E----K-F-----NRVFIMYRYIVHIDST 65 (130)
T ss_dssp HHHHHTTTSEEEEEETTSCEEEEEEEEECTTC--CEEEEEEECTTC-----C----E-E-----EEEEECGGGEEEEEEC
T ss_pred hHHHHhCCCeEEEEECCCcEEEEEEEEEcccc--eeEEeeEEEEcC-----C----E-e-----ceEEEeCCeEEEEEcC
Confidence 46788999999999999999999999999764 489999987631 1 1 1 4578888899888876
Q ss_pred cc
Q 045896 148 DV 149 (520)
Q Consensus 148 dV 149 (520)
+-
T Consensus 66 d~ 67 (130)
T 1m5q_A 66 ER 67 (130)
T ss_dssp CC
T ss_pred Cc
Confidence 54
No 25
>4emg_A Probable U6 snRNA-associated SM-like protein LSM3; SM fold, mRNA decay, LSM proteins, RNA binding protein; 2.70A {Schizosaccharomyces pombe}
Probab=94.78 E-value=0.071 Score=45.03 Aligned_cols=45 Identities=24% Similarity=0.266 Sum_probs=38.1
Q ss_pred HHHHHhccCceEEEEEecCCEEEEEEeecCCCCCeeEEEeeeEeecC
Q 045896 67 LYLASCLIGLSVEVQVKGGSVYAGIFHATSDEKDFGVILKMARLIKD 113 (520)
Q Consensus 67 lyl~t~LIG~~VeVtvkdGsvYeGIF~t~S~~~dfgVVLK~Ar~vk~ 113 (520)
+-++..++|++|.|.+++|..|.|+|.+++.-. -+||.-|.....
T Consensus 11 l~lL~~~~~~~V~V~l~~gr~~~G~L~~~D~~m--NlvL~d~~E~~~ 55 (93)
T 4emg_A 11 LDLVRLSLDEIVYVKLRGDRELNGRLHAYDEHL--NMVLGDAEEIVT 55 (93)
T ss_dssp THHHHTTTTSEEEEEETTTEEEEEEEEEECTTC--CEEEEEEEEEEC
T ss_pred HHHHHHhCCCEEEEEECCCcEEEEEEEEECCcc--cEEeecEEEEEe
Confidence 346677899999999999999999999998764 489999987643
No 26
>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=94.69 E-value=0.041 Score=48.55 Aligned_cols=79 Identities=13% Similarity=0.156 Sum_probs=51.9
Q ss_pred HHHHHHhccCceEEEEEecCCEEEEEEeecCCCCCeeEEEeeeEeecCCCCCCCCc-cccc---ccCCCCCceeEeCCCc
Q 045896 66 LLYLASCLIGLSVEVQVKGGSVYAGIFHATSDEKDFGVILKMARLIKDGNFRGQKT-VAEF---VSKPPSKNFIIPSSEL 141 (520)
Q Consensus 66 Llyl~t~LIG~~VeVtvkdGsvYeGIF~t~S~~~dfgVVLK~Ar~vk~~s~~g~k~-~~e~---vsk~~~eTLII~~kDI 141 (520)
=+-++..++|++|.|.+++|..|.|+|++++.-.. +||.-|.+......+.... .... ..+..-..++|....|
T Consensus 29 Pl~lL~~~l~k~V~V~Lk~Gr~~~G~L~~fD~~mN--lVL~d~~E~~~~~~~~~~~~~g~~~~~~~~r~lG~v~IRG~nV 106 (121)
T 2fwk_A 29 PLALIDKCIGNRIYVVMKGDKEFSGVLRGFDEYVN--MVLDDVQEYGFKADEEDISGGNKKLKRVMVNRLETILLSGNNV 106 (121)
T ss_dssp HHHHHHHTBTSBCEEEETTTEEECCEEEEECTTCC--EEEESCCEEEC---------------CEECCCCSEEEECGGGE
T ss_pred cHHHHHHHcCCeEEEEECCCcEEEEEEEEEcccCC--eEeceEEEEEeccccccccccCcccccccceEcceEEECCCEE
Confidence 46678889999999999999999999999997644 8999987754210000000 0000 0011125678888888
Q ss_pred EEEEE
Q 045896 142 VQVIA 146 (520)
Q Consensus 142 VqV~A 146 (520)
+.|..
T Consensus 107 v~I~~ 111 (121)
T 2fwk_A 107 AMLVP 111 (121)
T ss_dssp EEEES
T ss_pred EEEEe
Confidence 88864
No 27
>3s6n_E Small nuclear ribonucleoprotein E; SMN complex, SMN-gemin2 complex, U-rich snRNA, SM fold, SM C SNRNPS, snRNP biogenesis, PRE-mRNA splicing; 2.50A {Homo sapiens} PDB: 2y9b_E 2y9c_E 2y9d_E 3cw1_E 3pgw_E* 2y9a_E
Probab=92.85 E-value=0.15 Score=43.09 Aligned_cols=67 Identities=10% Similarity=0.115 Sum_probs=49.1
Q ss_pred HHHHhccCceEEEEE----ecCCEEEEEEeecCCCCCeeEEEeeeEeecCCCCCCCCcccccccCCCCCceeEeCCCcEE
Q 045896 68 YLASCLIGLSVEVQV----KGGSVYAGIFHATSDEKDFGVILKMARLIKDGNFRGQKTVAEFVSKPPSKNFIIPSSELVQ 143 (520)
Q Consensus 68 yl~t~LIG~~VeVtv----kdGsvYeGIF~t~S~~~dfgVVLK~Ar~vk~~s~~g~k~~~e~vsk~~~eTLII~~kDIVq 143 (520)
-++...+|++|.|++ ++|..|.|+|.+++.-. -+||.-|.+..... ..+ ..+ ..++|....|+.
T Consensus 19 ~lL~~~l~~~v~V~l~~~~~~gr~~~G~L~gfD~~m--NlvL~d~~E~~~~~--~~~---~~l-----g~v~iRG~nV~~ 86 (92)
T 3s6n_E 19 NLIFRYLQNRSRIQVWLYEQVNMRIEGCIIGFDEYM--NLVLDDAEEIHSKT--KSR---KQL-----GRIMLKGDNITL 86 (92)
T ss_dssp HHHHHHHHHTCEEEEEESSSCSSEEEEEEEEECTTC--CEEEEEEEEECSSS--CCE---EEE-----EEEEECGGGEEE
T ss_pred HHHHHHhCCCEEEEEEEEecCCEEEEEEEEEEcCcC--cEEEeeeEEEecCC--Cce---eEc-----CeEEEeCCEEEE
Confidence 457788899999999 99999999999998754 49999998865311 111 111 457777777777
Q ss_pred EEE
Q 045896 144 VIA 146 (520)
Q Consensus 144 V~A 146 (520)
|..
T Consensus 87 i~~ 89 (92)
T 3s6n_E 87 LQS 89 (92)
T ss_dssp EEE
T ss_pred EEe
Confidence 754
No 28
>2vc8_A Enhancer of mRNA-decapping protein 3; P-BODY component, cytoplasm, SM-like protein, protein-binding; 1.31A {Homo sapiens}
Probab=92.70 E-value=0.21 Score=42.18 Aligned_cols=60 Identities=15% Similarity=0.203 Sum_probs=45.9
Q ss_pred hccCceEEEEEecCC-EEEEEEeecCCCCCeeEEEeeeEeecCCCCCCCCcccccccCCCCCceeEeCCCcEEEEE
Q 045896 72 CLIGLSVEVQVKGGS-VYAGIFHATSDEKDFGVILKMARLIKDGNFRGQKTVAEFVSKPPSKNFIIPSSELVQVIA 146 (520)
Q Consensus 72 ~LIG~~VeVtvkdGs-vYeGIF~t~S~~~dfgVVLK~Ar~vk~~s~~g~k~~~e~vsk~~~eTLII~~kDIVqV~A 146 (520)
..||..|.|+.++.- +|+|++..+++.. -.|+|..| .++|- +++...++|..+||-.+.+
T Consensus 6 ~~iGs~VSi~c~d~lGvYQG~i~~vd~~~-~tItL~~~--f~NG~------------~~~s~eVtls~~DI~~L~i 66 (84)
T 2vc8_A 6 DWLGSIVSINCGDSLGVYQGRVSAVDQVS-QTISLTRP--FHNGV------------KCLVPEVTFRAGDITELKI 66 (84)
T ss_dssp TTTTCEEEEECCTTTCEEEEEEEEEETTT-TEEEEEEE--EETTE------------ECSSSEEEEEGGGCSEEEE
T ss_pred cccCCEEEEEECCCceEEEEEEEEeccCC-CeEEEehh--hhCCC------------CCCCcEEEEEecChhheEE
Confidence 479999999999999 9999999999864 34667666 45531 1222458899999988876
No 29
>1b34_B Protein (small nuclear ribonucleoprotein SM D2); snRNP, splicing, spliceosome, core snRNP domain, systemi erythematosus, SLE, RNA binding protein; 2.50A {Homo sapiens} SCOP: b.38.1.1 PDB: 2y9a_C 2y9b_C 2y9c_C 2y9d_C 3cw1_C 3pgw_Y* 3s6n_B
Probab=92.69 E-value=0.35 Score=42.36 Aligned_cols=78 Identities=10% Similarity=0.117 Sum_probs=47.3
Q ss_pred HHHHHhcc--CceEEEEEecCCEEEEEEeecCCCCCeeEEEeeeEeecCCCCCCCCcc--cccc-cCCCCCceeEeCCCc
Q 045896 67 LYLASCLI--GLSVEVQVKGGSVYAGIFHATSDEKDFGVILKMARLIKDGNFRGQKTV--AEFV-SKPPSKNFIIPSSEL 141 (520)
Q Consensus 67 lyl~t~LI--G~~VeVtvkdGsvYeGIF~t~S~~~dfgVVLK~Ar~vk~~s~~g~k~~--~e~v-sk~~~eTLII~~kDI 141 (520)
+-++..++ |++|.|.+++|..|.|+|.+++.-.. +||.-|.........+.+.. ...+ .+..-..++|....|
T Consensus 29 l~lL~~~~~~~k~V~V~Lk~gr~~~G~L~~fD~~mN--lvL~d~~E~~~~~~~~~~~~~~~~~~~~~r~lg~v~IRG~nV 106 (118)
T 1b34_B 29 LSVLTQSVKNNTQVLINCRNNKKLLGRVKAFDRHCN--MVLENVKEMWTEVPKSGKGKKKSKPVNKDRYISKMFLRGDSV 106 (118)
T ss_dssp HHHHHHHHHHTCEEEEEETTSCEEEEEEEEECTTCC--EEEEEEEEC-------------------CEEEEEEEECGGGE
T ss_pred HHHHHHHhcCCcEEEEEECCCcEEEEEEEEeCCceE--EEEeCEEEEEecccccccccccccccccccCcCeEEEcCCEE
Confidence 34555666 69999999999999999999997644 89999987642110000000 0000 000013578888888
Q ss_pred EEEEE
Q 045896 142 VQVIA 146 (520)
Q Consensus 142 VqV~A 146 (520)
+.|..
T Consensus 107 v~I~~ 111 (118)
T 1b34_B 107 IVVLR 111 (118)
T ss_dssp EEEEE
T ss_pred EEEEe
Confidence 87764
No 30
>4a53_A EDC3; RNA binding protein; NMR {Schizosaccharomyces pombe} PDB: 4a54_A
Probab=85.35 E-value=0.74 Score=41.39 Aligned_cols=56 Identities=18% Similarity=0.228 Sum_probs=43.1
Q ss_pred HHhccCceEEEEEecCCEEEEEEeecCCCCCeeEEE--eeeEeecCCCCCCCCcccccccCCCCCceeEeCCCcEEEEEc
Q 045896 70 ASCLIGLSVEVQVKGGSVYAGIFHATSDEKDFGVIL--KMARLIKDGNFRGQKTVAEFVSKPPSKNFIIPSSELVQVIAK 147 (520)
Q Consensus 70 ~t~LIG~~VeVtvkdGsvYeGIF~t~S~~~dfgVVL--K~Ar~vk~~s~~g~k~~~e~vsk~~~eTLII~~kDIVqV~Ak 147 (520)
++-.+|..|.|+++||.+|.|++..++... |+| +.|. . ....|.++||.++.+-
T Consensus 7 ~sqFlGy~V~v~LkDgs~~qG~I~~vd~k~---LtL~~~~a~--~-------------------s~~~I~asdI~DLkVl 62 (125)
T 4a53_A 7 VADFYGSNVEVLLNNDSKARGVITNFDSSN---SILQLRLAN--D-------------------STKSIVTKDIKDLRIL 62 (125)
T ss_dssp HHHHTTCEEEEEETTSCEEEEEEEEEETTT---TEEEEEETT--T-------------------EEEEEEGGGEEEEEEC
T ss_pred HHHhcCceEEEEECCCCEeeEEEEeecCCe---eEEeccccc--c-------------------ccceeecccccceeee
Confidence 566899999999999999999999997653 677 5541 0 1237888999998874
Q ss_pred cc
Q 045896 148 DV 149 (520)
Q Consensus 148 dV 149 (520)
.+
T Consensus 63 ~~ 64 (125)
T 4a53_A 63 PK 64 (125)
T ss_dssp CS
T ss_pred ec
Confidence 43
No 31
>2rm4_A CG6311-PB, DM EDC3; enhancer of mRNA decapping, P-BODY component, SM-like protein,, protein binding; NMR {Drosophila melanogaster}
Probab=47.18 E-value=86 Score=27.16 Aligned_cols=60 Identities=15% Similarity=0.277 Sum_probs=43.2
Q ss_pred hccCceEEEEEecCC-EEEEEEeecCCCCCeeEEEeeeEeecCCCCCCCCcccccccCCCCCceeEeCCCcEEEEE
Q 045896 72 CLIGLSVEVQVKGGS-VYAGIFHATSDEKDFGVILKMARLIKDGNFRGQKTVAEFVSKPPSKNFIIPSSELVQVIA 146 (520)
Q Consensus 72 ~LIG~~VeVtvkdGs-vYeGIF~t~S~~~dfgVVLK~Ar~vk~~s~~g~k~~~e~vsk~~~eTLII~~kDIVqV~A 146 (520)
..||+.|.|+..+-- +|+|....++... |+|+.|-. +| .. .+-.....++..+||..+.+
T Consensus 9 dwiG~~VSI~C~d~LGVyQG~I~~V~~~~---ItL~kaFr--NG--------ip--lk~~~~EVtLsa~DI~~L~I 69 (103)
T 2rm4_A 9 DWIGCAVSIACDEVLGVFQGLIKQISAEE---ITIVRAFR--NG--------VP--LRKQNAEVVLKCTDIRSIDL 69 (103)
T ss_dssp GGTTCEEEEEECTTTCEEEEEEEEEETTE---EEEEEEEE--TT--------EE--CSCSSSCEEEETTTEEEEEE
T ss_pred ceeceEEEEeeCCcceEeeEEEEEcccce---eEEhhhhh--cC--------cC--cCCCCceEEEEecchhheee
Confidence 468999999999887 9999999999642 77777653 21 00 01122457889999988875
No 32
>1kq1_A HFQ, HOST factor for Q beta; hexamer, RNA binding protein, translational regulator, SM motif; 1.55A {Staphylococcus aureus} SCOP: b.38.1.2 PDB: 1kq2_A
Probab=43.24 E-value=32 Score=28.35 Aligned_cols=30 Identities=20% Similarity=0.214 Sum_probs=26.8
Q ss_pred CceEEEEEecCCEEEEEEeecCCCCCeeEEEee
Q 045896 75 GLSVEVQVKGGSVYAGIFHATSDEKDFGVILKM 107 (520)
Q Consensus 75 G~~VeVtvkdGsvYeGIF~t~S~~~dfgVVLK~ 107 (520)
..+|+|.+.||.+..|...+++. |.|.|..
T Consensus 19 k~~VtI~L~nG~~l~G~I~~fD~---f~VlL~~ 48 (77)
T 1kq1_A 19 QTEVTVFFLNGFQMKGVIEEYDK---YVVSLNS 48 (77)
T ss_dssp TCEEEEEETTSCEEEEEEEEECS---SEEEEEE
T ss_pred CCeEEEEEeCCCEEEEEEEEECC---cEEEEEE
Confidence 88999999999999999999987 7777763
No 33
>2eqj_A Metal-response element-binding transcription factor 2; structure genomics,tudor domain, zinc-regulated factor 1, ZIRF1; NMR {Mus musculus}
Probab=42.48 E-value=26 Score=28.30 Aligned_cols=29 Identities=21% Similarity=0.154 Sum_probs=25.8
Q ss_pred ccCceEEEEEecCCEEEEEEeecCCCCCe
Q 045896 73 LIGLSVEVQVKGGSVYAGIFHATSDEKDF 101 (520)
Q Consensus 73 LIG~~VeVtvkdGsvYeGIF~t~S~~~df 101 (520)
-+|..|..+-+||.-|.|+...++...+.
T Consensus 15 ~vGddVLA~wtDGl~Y~gtI~~V~~~~gt 43 (66)
T 2eqj_A 15 EEGQDVLARWSDGLFYLGTIKKINILKQS 43 (66)
T ss_dssp CTTCEEEEECTTSCEEEEEEEEEETTTTE
T ss_pred cCCCEEEEEEccCcEEEeEEEEEccCCcE
Confidence 48999999999999999999999986553
No 34
>2ylb_A Protein HFQ; RNA-binding protein, LSM protein, RNA chaperone; 1.15A {Salmonella enterica subsp} PDB: 2yht_A 1hk9_A 2ylc_A* 3gib_A* 3rer_A* 3qo3_A* 3res_A*
Probab=42.19 E-value=31 Score=28.22 Aligned_cols=29 Identities=21% Similarity=0.378 Sum_probs=26.4
Q ss_pred CceEEEEEecCCEEEEEEeecCCCCCeeEEEe
Q 045896 75 GLSVEVQVKGGSVYAGIFHATSDEKDFGVILK 106 (520)
Q Consensus 75 G~~VeVtvkdGsvYeGIF~t~S~~~dfgVVLK 106 (520)
..+|+|.+.||.+..|....++. |.|.|+
T Consensus 21 k~~Vti~L~nG~~l~G~I~~fD~---f~vlL~ 49 (74)
T 2ylb_A 21 RVPVSIYLVNGIKLQGQIESFDQ---FVILLK 49 (74)
T ss_dssp TCCEEEEETTSCEEEEEEEEECS---SEEEEE
T ss_pred CCcEEEEEeCCCEEEEEEEEECC---cEEEEE
Confidence 88999999999999999999987 677776
No 35
>1sg5_A ORF, hypothetical protein; A+B protein, montreal-kingston bacterial structural genomics initiative, BSGI, structural genomics, transcription; NMR {Escherichia coli} SCOP: b.137.1.2
Probab=40.31 E-value=16 Score=30.61 Aligned_cols=26 Identities=15% Similarity=0.236 Sum_probs=24.0
Q ss_pred HHhccCceEEEEEecCCEEEEEEeec
Q 045896 70 ASCLIGLSVEVQVKGGSVYAGIFHAT 95 (520)
Q Consensus 70 ~t~LIG~~VeVtvkdGsvYeGIF~t~ 95 (520)
++|+-+.+|.|+++||..++|+...+
T Consensus 20 lAc~~~~~l~l~l~dGe~~~g~a~D~ 45 (86)
T 1sg5_A 20 LACQHHLMLTLELKDGEKLQAKASDL 45 (86)
T ss_dssp HHHTTTTCEEEECTTTCCEEESSCEE
T ss_pred HHHHcCCeEEEEEeCCCEEEEEEEee
Confidence 78999999999999999999988775
No 36
>2qtx_A Uncharacterized protein MJ1435; HFQ, SM, RNA-binding protein, sRNA, translational regulation, RNA binding protein; 2.50A {Methanocaldococcus jannaschii}
Probab=40.22 E-value=39 Score=27.55 Aligned_cols=32 Identities=22% Similarity=0.467 Sum_probs=27.5
Q ss_pred ccCceEEEEEecCCEEEEEEeecCCCCCeeEEEee
Q 045896 73 LIGLSVEVQVKGGSVYAGIFHATSDEKDFGVILKM 107 (520)
Q Consensus 73 LIG~~VeVtvkdGsvYeGIF~t~S~~~dfgVVLK~ 107 (520)
--+.+|.|.+.||.+..|...+++. |.|.|+.
T Consensus 23 ~~~~~Vtv~L~NG~~l~G~I~~fD~---ftVll~~ 54 (71)
T 2qtx_A 23 LNGKKVKIFLRNGEVLDAEVTGVSN---YEIMVKV 54 (71)
T ss_dssp GTTCEEEEEETTSCEEEEEEEEECS---SEEEEEE
T ss_pred HcCCcEEEEEeCCeEEEEEEEEEcc---eEEEEEe
Confidence 4578999999999999999999987 7777763
No 37
>3sb2_A Protein HFQ; SM-like, RNA chaperone, chaperone; 2.63A {Herbaspirillum seropedicae} SCOP: b.38.1.2
Probab=36.18 E-value=43 Score=27.82 Aligned_cols=31 Identities=16% Similarity=0.263 Sum_probs=26.5
Q ss_pred ccCceEEEEEecCCEEEEEEeecCCCCCeeEEEe
Q 045896 73 LIGLSVEVQVKGGSVYAGIFHATSDEKDFGVILK 106 (520)
Q Consensus 73 LIG~~VeVtvkdGsvYeGIF~t~S~~~dfgVVLK 106 (520)
--..+|+|.+.||....|...+++. |.|+|+
T Consensus 18 k~k~~VtI~LvnG~~L~G~I~~fD~---f~VlL~ 48 (79)
T 3sb2_A 18 KEHVPVSIYLVNGIKLQGHVESFDQ---YVVLLR 48 (79)
T ss_dssp HTTCCEEEEETTSCEEEEEEEEECS---SEEEEE
T ss_pred hcCCeEEEEEeCCCEEEEEEEEECC---cEEEEE
Confidence 3467899999999999999999987 677773
No 38
>1u1s_A HFQ protein; SM-like bacterial protein, riken structural genomics/proteomics initiative, RSGI, structural genomics, RNA binding protein; 1.60A {Pseudomonas aeruginosa} SCOP: b.38.1.2 PDB: 1u1t_A 3qui_A* 3m4g_A 3inz_A
Probab=36.09 E-value=42 Score=28.07 Aligned_cols=31 Identities=19% Similarity=0.303 Sum_probs=27.4
Q ss_pred ccCceEEEEEecCCEEEEEEeecCCCCCeeEEEe
Q 045896 73 LIGLSVEVQVKGGSVYAGIFHATSDEKDFGVILK 106 (520)
Q Consensus 73 LIG~~VeVtvkdGsvYeGIF~t~S~~~dfgVVLK 106 (520)
--+.+|.|.+.||.+..|+..+++. |.|.|+
T Consensus 17 k~~~~Vtv~L~NG~~l~G~I~~fD~---ftVlL~ 47 (82)
T 1u1s_A 17 KERVPVSIYLVNGIKLQGQIESFDQ---FVILLK 47 (82)
T ss_dssp HTTCCEEEEETTSCEEEEEEEEECS---SEEEEE
T ss_pred HcCCcEEEEEeCCcEEEEEEEEEcc---eEEEEe
Confidence 4578999999999999999999987 778876
No 39
>2y90_A Protein HFQ; RNA-binding protein, SM-like, RNA chaperone; 2.25A {Escherichia coli} PDB: 3qhs_A
Probab=35.57 E-value=38 Score=29.51 Aligned_cols=31 Identities=19% Similarity=0.301 Sum_probs=26.8
Q ss_pred ccCceEEEEEecCCEEEEEEeecCCCCCeeEEEe
Q 045896 73 LIGLSVEVQVKGGSVYAGIFHATSDEKDFGVILK 106 (520)
Q Consensus 73 LIG~~VeVtvkdGsvYeGIF~t~S~~~dfgVVLK 106 (520)
--..+|+|.+.||.+..|+...++. |.|+|+
T Consensus 19 k~k~~VtI~LvNG~~L~G~I~~fD~---f~VlL~ 49 (104)
T 2y90_A 19 RERVPVSIYLVNGIKLQGQIESFDQ---FVILLK 49 (104)
T ss_dssp HTTCCEEEEETTSCEEEEEEEEECS---SEEEEE
T ss_pred hcCCcEEEEEeCCCEEEEEEEEECC---cEEEEE
Confidence 3456999999999999999999987 778886
No 40
>3ahu_A Protein HFQ; SM-like motif, protein-RNA complex, translation-RNA complex; 2.20A {Bacillus subtilis} PDB: 3hsb_A
Probab=34.29 E-value=48 Score=27.46 Aligned_cols=31 Identities=23% Similarity=0.238 Sum_probs=27.2
Q ss_pred ccCceEEEEEecCCEEEEEEeecCCCCCeeEEEe
Q 045896 73 LIGLSVEVQVKGGSVYAGIFHATSDEKDFGVILK 106 (520)
Q Consensus 73 LIG~~VeVtvkdGsvYeGIF~t~S~~~dfgVVLK 106 (520)
--+.+|.|.+.||.+..|+..+++. |.|.|+
T Consensus 21 k~~~~Vtv~L~nG~~l~G~I~~fD~---f~VlL~ 51 (78)
T 3ahu_A 21 KENTYVTVFLLNGFQLRGQVKGFDN---FTVLLE 51 (78)
T ss_dssp HHTCCEEEEETTSCEEEEEEEEECS---SEEEEE
T ss_pred HcCCcEEEEEeCCeEEEEEEEEEcc---eEEEEE
Confidence 4488999999999999999999987 777776
No 41
>2xdp_A Lysine-specific demethylase 4C; oxidoreductase, histone modification; 1.56A {Homo sapiens}
Probab=34.04 E-value=18 Score=32.25 Aligned_cols=30 Identities=20% Similarity=0.277 Sum_probs=25.0
Q ss_pred HHHHhccCceEEEEEecCCEEEEEEeecCC
Q 045896 68 YLASCLIGLSVEVQVKGGSVYAGIFHATSD 97 (520)
Q Consensus 68 yl~t~LIG~~VeVtvkdGsvYeGIF~t~S~ 97 (520)
.+-.=..|..|.|.-.||.+|.|+|.+.+.
T Consensus 61 ~~GpP~~G~~V~V~W~DG~~y~a~f~g~~~ 90 (123)
T 2xdp_A 61 KLGPPAEGEVVQVKWPDGKLYGAKYFGSNI 90 (123)
T ss_dssp HHCCCCTTCEEEEECTTSCEEEEEEEEEEE
T ss_pred ccCCCCCCCEEEEEcCCCCEEeEEEeeeee
Confidence 333447899999999999999999999654
No 42
>1ib8_A Conserved protein SP14.3; nucleic acid binding protein, ribosomal protein, essential gene, structural genomics; NMR {Streptococcus pneumoniae} SCOP: b.38.2.1 d.52.4.1
Probab=32.31 E-value=45 Score=30.53 Aligned_cols=35 Identities=14% Similarity=0.316 Sum_probs=27.3
Q ss_pred HHhccCceEEEEEe---cC-CEEEEEEeecCCCCCeeEEEee
Q 045896 70 ASCLIGLSVEVQVK---GG-SVYAGIFHATSDEKDFGVILKM 107 (520)
Q Consensus 70 ~t~LIG~~VeVtvk---dG-svYeGIF~t~S~~~dfgVVLK~ 107 (520)
+...+|+.|.|++. +| ..|.|++..++.+ .|+|..
T Consensus 99 f~r~~G~~V~V~l~~~~~g~k~~~G~L~~~~~~---~v~l~~ 137 (164)
T 1ib8_A 99 VAGAVGKYIHVGLYQAIDKQKVFEGTLLAFEED---ELTMEY 137 (164)
T ss_dssp HHHHCSEEEEEECSSCSSSCSEEEEEEEEEETT---EEEEEE
T ss_pred HHHhCCcEEEEEEecccCCceEEEEEEEEEeCC---EEEEEE
Confidence 45789999999994 45 8999999998764 366654
No 43
>3hfo_A SSR3341 protein; HFQ, SM, RNA-binding protein, sRNA, translational regulation binding protein; 1.30A {Synechocystis SP}
Probab=31.64 E-value=62 Score=26.29 Aligned_cols=30 Identities=20% Similarity=0.172 Sum_probs=25.5
Q ss_pred CceEEEEEecCCEEEEEEeecCCCCCeeEEEee
Q 045896 75 GLSVEVQVKGGSVYAGIFHATSDEKDFGVILKM 107 (520)
Q Consensus 75 G~~VeVtvkdGsvYeGIF~t~S~~~dfgVVLK~ 107 (520)
..+|+|.+.+|..++|.+.-.++ +.|.|+-
T Consensus 21 k~~V~I~L~tG~~l~G~i~WQD~---~cl~L~~ 50 (70)
T 3hfo_A 21 QTPVEIKLLTGDSLFGTIRWQDT---DGLGLVD 50 (70)
T ss_dssp TCEEEEEETTSCEEEEEEEEECS---SEEEEEC
T ss_pred CceEEEEecCCCEEEEEEEEeCC---CEEEEEc
Confidence 57899999999999999999988 3566653
No 44
>2qqr_A JMJC domain-containing histone demethylation protein 3A; histone lysine demethylase, tandem hybrid tudor domains, metal binding protein; 1.80A {Homo sapiens} SCOP: b.34.9.1 b.34.9.1 PDB: 2qqs_A* 2gfa_A* 2gf7_A*
Probab=30.50 E-value=27 Score=30.99 Aligned_cols=28 Identities=29% Similarity=0.349 Sum_probs=24.0
Q ss_pred HHhccCceEEEEEecCCEEEEEEeecCC
Q 045896 70 ASCLIGLSVEVQVKGGSVYAGIFHATSD 97 (520)
Q Consensus 70 ~t~LIG~~VeVtvkdGsvYeGIF~t~S~ 97 (520)
-.=..|..|.|.-+||.+|.++|.+.+.
T Consensus 62 GpP~~G~~V~V~W~DG~~y~a~f~g~~~ 89 (118)
T 2qqr_A 62 GPPAEGEVVQVRWTDGQVYGAKFVASHP 89 (118)
T ss_dssp CCCCTTCEEEEECTTSCEEEEEEEEEEE
T ss_pred CCCCCCCEEEEEcCCCCEeeeEEeceeE
Confidence 3447899999999999999999998554
No 45
>3rux_A BIRA bifunctional protein; biotin-protein ligase, ligase-ligase inhibitor complex; HET: BS5; 1.70A {Mycobacterium tuberculosis} PDB: 3l1a_A 3l2z_A 2cgh_A
Probab=27.77 E-value=53 Score=32.10 Aligned_cols=33 Identities=30% Similarity=0.475 Sum_probs=27.6
Q ss_pred ccCceEEEEEecCCEEEEEEeecCCCCCeeEEEee
Q 045896 73 LIGLSVEVQVKGGSVYAGIFHATSDEKDFGVILKM 107 (520)
Q Consensus 73 LIG~~VeVtvkdGsvYeGIF~t~S~~~dfgVVLK~ 107 (520)
.+|++|.|...+|..|+|++..++.++. ++|+.
T Consensus 222 ~~g~~V~v~~~~~~~~~G~~~gId~~G~--L~v~~ 254 (270)
T 3rux_A 222 TIGSRVRVELPGGQDVVGIARDIDDQGR--LCLDV 254 (270)
T ss_dssp STTSEEEEECTTSCEEEEEEEEECTTSC--EEEEE
T ss_pred ccCCEEEEEECCCeEEEEEEEEECCCCe--EEEEE
Confidence 6799999998889999999999999865 44543
No 46
>3hfn_A ASL2047 protein; HFQ, SM, RNA-binding protein, sRNA, translational regulation binding protein; 2.31A {Nostoc SP}
Probab=24.35 E-value=99 Score=25.22 Aligned_cols=30 Identities=17% Similarity=0.175 Sum_probs=25.3
Q ss_pred CceEEEEEecCCEEEEEEeecCCCCCeeEEEee
Q 045896 75 GLSVEVQVKGGSVYAGIFHATSDEKDFGVILKM 107 (520)
Q Consensus 75 G~~VeVtvkdGsvYeGIF~t~S~~~dfgVVLK~ 107 (520)
..+|+|.+.+|..++|.+.-.++. .|.|+-
T Consensus 23 k~~V~I~L~tGd~l~G~i~WQD~~---cl~L~~ 52 (72)
T 3hfn_A 23 AAPVEIKLVTGDAITGRVLWQDPT---CVCIAD 52 (72)
T ss_dssp CCEEEEEETTSCEEEEEEEEECSS---EEEEEC
T ss_pred CceEEEEecCCCEEEEEEEEECCC---EEEEEc
Confidence 578999999999999999998884 466654
No 47
>2e12_A SM-like motif, hypothetical protein XCC3642; novel SM-like motif, LSM motif, X- RAY crystallography, translation; 1.70A {Xanthomonas campestris PV}
Probab=21.75 E-value=1e+02 Score=26.41 Aligned_cols=31 Identities=26% Similarity=0.327 Sum_probs=26.8
Q ss_pred hhHHHHHHhccCc-eEEEEEecCCEEEEEEee
Q 045896 64 DKLLYLASCLIGL-SVEVQVKGGSVYAGIFHA 94 (520)
Q Consensus 64 dRLlyl~t~LIG~-~VeVtvkdGsvYeGIF~t 94 (520)
.||-.++.-|=|+ .|++++.||++..|.+.-
T Consensus 16 a~Le~~~~~LdGq~~v~i~l~DGs~l~GTvav 47 (101)
T 2e12_A 16 ATLEHWVKLLDGQERVRIELDDGSMIAGTVAV 47 (101)
T ss_dssp HHHHHHHHTSCTTCEEEEEETTSCEEEEEESS
T ss_pred HHHHHHHHhhCCeeEEEEEEcCCCeEeeeecc
Confidence 6888888888886 689999999999998754
Done!