Query 032083
Match_columns 147
No_of_seqs 132 out of 307
Neff 4.6
Searched_HMMs 29240
Date Mon Mar 25 15:05:19 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/032083.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/032083hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 3u28_C H/ACA ribonucleoprotein 100.0 1.7E-48 5.8E-53 291.2 9.3 97 41-137 18-114 (114)
2 2ey4_C Small nucleolar RNP sim 100.0 4.5E-30 1.6E-34 181.8 6.6 76 47-126 5-81 (82)
3 2hvy_B GAR1, small nucleolar R 100.0 1.7E-28 5.8E-33 180.7 8.5 76 47-128 5-83 (104)
4 2eqn_A Hypothetical protein LO 99.9 7.7E-26 2.6E-30 165.7 8.0 80 46-125 20-103 (103)
5 2v3m_A NAF1; ribosomal protein 99.9 5.8E-25 2E-29 167.2 7.7 81 47-127 27-114 (131)
6 4df3_A Fibrillarin-like rRNA/T 97.8 2.2E-06 7.4E-11 69.4 -1.0 59 56-121 8-80 (233)
7 3id6_C Fibrillarin-like rRNA/T 93.9 0.0052 1.8E-07 49.1 -1.8 59 57-122 9-80 (232)
8 2pk2_A Cyclin-T1, protein TAT; 59.6 1.9 6.5E-05 36.2 0.0 9 60-68 317-325 (358)
9 2f1l_A 16S rRNA processing pro 59.3 11 0.00039 29.0 4.4 34 76-109 119-152 (187)
10 3h9n_A Ribosome maturation fac 57.8 17 0.00058 27.5 5.1 33 76-108 101-133 (177)
11 2ipx_A RRNA 2'-O-methyltransfe 46.1 7.4 0.00025 29.0 1.4 45 48-98 3-58 (233)
12 3htr_A Uncharacterized PRC-bar 43.1 12 0.00042 26.6 2.1 20 76-95 21-40 (120)
13 2dyi_A Probable 16S rRNA-proce 41.9 20 0.0007 26.7 3.2 34 76-110 95-128 (162)
14 1eys_H Photosynthetic reaction 39.8 14 0.00046 30.5 2.1 33 76-108 152-187 (259)
15 2qgg_A 16S rRNA-processing pro 38.8 29 0.00099 26.3 3.7 32 76-107 110-145 (182)
16 2pk2_A Cyclin-T1, protein TAT; 37.1 7.1 0.00024 32.7 0.0 8 60-67 320-327 (358)
17 1fbn_A MJ fibrillarin homologu 35.4 25 0.00084 26.2 2.8 39 58-98 8-55 (230)
18 1pm3_A MTH1895; unknown functi 32.3 25 0.00085 24.1 2.2 20 76-95 28-47 (97)
19 3l48_A Outer membrane usher pr 30.6 49 0.0017 22.6 3.5 23 70-92 18-40 (94)
20 2f1l_A 16S rRNA processing pro 28.9 1.1E+02 0.0036 23.4 5.5 86 45-132 15-108 (187)
21 2hc8_A PACS, cation-transporti 28.6 33 0.0011 23.9 2.4 24 111-134 25-48 (113)
22 1nt2_A Fibrillarin-like PRE-rR 28.4 7.3 0.00025 29.3 -1.3 34 57-97 2-38 (210)
23 1rzh_H Reaction center protein 28.3 29 0.00099 28.7 2.3 29 77-107 150-183 (260)
24 2wjn_H Reaction center protein 26.8 30 0.001 28.5 2.1 30 77-108 154-188 (258)
25 2xet_A CAF1A usher, F1 capsule 26.6 59 0.002 21.5 3.3 22 71-92 13-35 (89)
26 3mlq_E Transcription-repair co 26.6 57 0.002 21.3 3.1 32 98-138 30-61 (71)
27 2dgy_A MGC11102 protein; EIF-1 26.5 48 0.0017 23.7 2.9 30 80-112 10-39 (111)
28 2a7y_A Hypothetical protein RV 25.6 1.2E+02 0.0042 20.9 4.7 47 54-111 1-49 (83)
29 2kij_A Copper-transporting ATP 23.7 41 0.0014 23.8 2.1 26 111-136 37-62 (124)
No 1
>3u28_C H/ACA ribonucleoprotein complex subunit 1; pseudouridine synthase, pseudouridylation, H/ACA RNA; 1.90A {Saccharomyces cerevisiae} PDB: 3uai_C
Probab=100.00 E-value=1.7e-48 Score=291.17 Aligned_cols=97 Identities=61% Similarity=1.090 Sum_probs=91.3
Q ss_pred CCCCCCCceEEeceeeeeeeCCeEEEeccCCCCCCCCCceeeccccccceeeEeeCCCCcceEEEEecCCccccccCCCC
Q 032083 41 FRDEGPPAEVVEVSSFLHACEGDAVTKLTNEKIPYFNAPIYLQNKTQIGKVDEIFGPINESYFSVKMMEGIVATSYSLGD 120 (147)
Q Consensus 41 ~~~~Gpp~~vielG~f~H~ceg~lV~K~t~~~VP~fNa~Vy~enK~~IGKVdEIFGPi~~~yfsVKl~~gi~a~sfk~gd 120 (147)
++|+|||++|++||+|+|+||++||||+|+++||||||+||+|||++||||||||||||++|||||++++++|+||++||
T Consensus 18 ~~~~gpp~~v~elG~f~H~ceg~lV~k~~~~~VP~fNapVy~enK~~IGKVdEIFGPin~~YfsVK~~~gv~a~Sfk~gd 97 (114)
T 3u28_C 18 GSHMGPPDTVLEMGAFLHPCEGDIVCRSINTKIPYFNAPIYLENKTQVGKVDEILGPLNEVFFTIKCGDGVQATSFKEGD 97 (114)
T ss_dssp -----CCSCEEEEEEEEEEETTEEEEEECSSSEECTTCEEECTTCCEEEEEEEEESBTTSCEEEEEECTTCCGGGCCTTC
T ss_pred CCCCCCCHHHheeeeEEEEeCCeEEEEeCCCCCCCCCCEeEccCCccceeEeEEeCCCCccEEEEEecCCCcccccccCC
Confidence 46999999999999999999999999999889999999999999999999999999999999999999999999999999
Q ss_pred EEEEcCCCcccccccCC
Q 032083 121 KFYIDPSKLLPLARFLP 137 (147)
Q Consensus 121 k~yI~p~klLPl~rFlp 137 (147)
+|||+++|||||+||||
T Consensus 98 k~YId~~kllPl~rFlp 114 (114)
T 3u28_C 98 KFYIAADKLLPIERFLP 114 (114)
T ss_dssp EEEEEGGGEECGGGGCC
T ss_pred EEEECccccCcHHhcCC
Confidence 99999999999999997
No 2
>2ey4_C Small nucleolar RNP similar to GAR1; trimeric complex, structural genomics, PSI, protein structur initiative; 2.11A {Pyrococcus furiosus} SCOP: b.43.3.5 PDB: 3mqk_C 2rfk_C
Probab=99.96 E-value=4.5e-30 Score=181.81 Aligned_cols=76 Identities=21% Similarity=0.450 Sum_probs=69.0
Q ss_pred CceEEeceeeeeee-CCeEEEeccCCCCCCCCCceeeccccccceeeEeeCCCCcceEEEEecCCccccccCCCCEEEEc
Q 032083 47 PAEVVEVSSFLHAC-EGDAVTKLTNEKIPYFNAPIYLQNKTQIGKVDEIFGPINESYFSVKMMEGIVATSYSLGDKFYID 125 (147)
Q Consensus 47 p~~vielG~f~H~c-eg~lV~K~t~~~VP~fNa~Vy~enK~~IGKVdEIFGPi~~~yfsVKl~~gi~a~sfk~gdk~yI~ 125 (147)
-++|++||+|+|.| ++++|||++ ++|+||++||+||+++||||+|||||+|++||+||+++ ..+++| +||+|||+
T Consensus 5 ~~~mk~lG~~~h~~~~g~lV~k~~--~~P~~na~Vy~e~~~~IGkV~dIfGPv~~pY~sVk~~~-~~~~s~-~g~klYi~ 80 (82)
T 2ey4_C 5 GEKMKRLGKVLHYAKQGFLIVRTN--WVPSLNDRVVDKRLQFVGIVKDVFGPVKMPYVAIKPKV-SNPEIY-VGEVLYVD 80 (82)
T ss_dssp ---CBCCCCEEEEETTTEEEEECS--SCCCTTCEEECTTCCCCEEEEEEEEESSSCEEEEEECS-SSCSTT-BTCCCEEC
T ss_pred cceeEEeEEEEEEcCCCCEEEEeC--CCCCCCCEeEcCCCCEeEEEEEEECCCCCcEEEEEeCC-CChhhc-CCCeEEec
Confidence 47899999999999 999999984 79999999999999999999999999999999999998 568888 99999999
Q ss_pred C
Q 032083 126 P 126 (147)
Q Consensus 126 p 126 (147)
|
T Consensus 81 ~ 81 (82)
T 2ey4_C 81 E 81 (82)
T ss_dssp -
T ss_pred C
Confidence 8
No 3
>2hvy_B GAR1, small nucleolar RNP similar to GAR1; H/ACA RNA, RNP, pseudouridine synthase, guide RNA, isomerase biosynthetic protein-RNA complex; HET: ATP; 2.30A {Pyrococcus furiosus} SCOP: b.43.3.5 PDB: 3hay_B*
Probab=99.95 E-value=1.7e-28 Score=180.68 Aligned_cols=76 Identities=21% Similarity=0.446 Sum_probs=67.0
Q ss_pred CceEEeceeeeeee-CCeEEEeccCCCCCCCCCceeeccccccceeeEeeCCCCcceEEEEecCCccccccC--CCCEEE
Q 032083 47 PAEVVEVSSFLHAC-EGDAVTKLTNEKIPYFNAPIYLQNKTQIGKVDEIFGPINESYFSVKMMEGIVATSYS--LGDKFY 123 (147)
Q Consensus 47 p~~vielG~f~H~c-eg~lV~K~t~~~VP~fNa~Vy~enK~~IGKVdEIFGPi~~~yfsVKl~~gi~a~sfk--~gdk~y 123 (147)
-++|++||+|+|.| +++|||+++ ++||||++||+||+++||||||||||+|++||+||+++. +|+ +||+||
T Consensus 5 ~~~mk~lG~~~H~~~~g~lVvk~~--~vP~~na~Vy~enk~~IGKV~DIfGPV~~pY~sVKp~~~----s~~~~~G~klY 78 (104)
T 2hvy_B 5 GEKMKRLGKVLHYAKQGFLIVRTN--WVPSLNDRVVDKRLQFVGIVKDVFGPVKMPYVAIKPKVS----NPEIYVGEVLY 78 (104)
T ss_dssp ---CEEEEEEEEEETTTEEEEECS--SCCCTTCEEECTTCCEEEEEEEEEEESSSCEEEEEECSS----CGGGGTTCEEE
T ss_pred cceeeEeEEEEEEcCCCCEEEEeC--CCCCCCCEeEcCCCCEeEEEEEEECCCCCcEEEEEecCC----CccccCCCEEE
Confidence 47899999999999 999999984 799999999999999999999999999999999999983 455 999999
Q ss_pred EcCCC
Q 032083 124 IDPSK 128 (147)
Q Consensus 124 I~p~k 128 (147)
|++.+
T Consensus 79 I~~~~ 83 (104)
T 2hvy_B 79 VDERK 83 (104)
T ss_dssp ECC--
T ss_pred EcCcc
Confidence 99743
No 4
>2eqn_A Hypothetical protein LOC92345; NAF1 domain, hypothetical protein BC008207 [HOMO sapiens], structural genomics, NPPSFA; NMR {Homo sapiens}
Probab=99.92 E-value=7.7e-26 Score=165.65 Aligned_cols=80 Identities=16% Similarity=0.329 Sum_probs=74.1
Q ss_pred CCc-eEEeceeeeeeeCCeEEEeccCC-CCCCCCCceeeccccccceeeEeeCCCCcceEEEEecC--CccccccCCCCE
Q 032083 46 PPA-EVVEVSSFLHACEGDAVTKLTNE-KIPYFNAPIYLQNKTQIGKVDEIFGPINESYFSVKMME--GIVATSYSLGDK 121 (147)
Q Consensus 46 pp~-~vielG~f~H~ceg~lV~K~t~~-~VP~fNa~Vy~enK~~IGKVdEIFGPi~~~yfsVKl~~--gi~a~sfk~gdk 121 (147)
||+ +|++||+|+|.|++.+|||++.+ .+|+||+.||+|||++||||+|||||++++||+||+.+ +++|.++++||+
T Consensus 20 ~~~~~v~~lG~v~~~~e~~vvik~~~~~~vl~~~s~l~~edk~~IGkV~EiFGpV~~PyysVk~~~~~~i~a~~~~~G~k 99 (103)
T 2eqn_A 20 PEDIELKPLGMVSSIIEQLVIIESMTNLPPVNEETVIFKSDRQAAGKIFEIFGPVAHPFYVLRFNSSDHIESKGIKIKET 99 (103)
T ss_dssp CTTSCCEEEEEEEEECSSSEEEEECSSCCCCCTTCEEECTTSBEEEEEEEEESCSSSCEEEECCSSHHHHHHHTCCTTCE
T ss_pred CCCCeeEEeEEEEEEcCCeEEEEeCCCCcCCcCCCEEEecCCcEEEEEEEEECCCCCCEEEEEeCcccccccccccCCCE
Confidence 444 78899999999999999999866 59999999999999999999999999999999999964 789999999999
Q ss_pred EEEc
Q 032083 122 FYID 125 (147)
Q Consensus 122 ~yI~ 125 (147)
|||+
T Consensus 100 vY~~ 103 (103)
T 2eqn_A 100 MYFA 103 (103)
T ss_dssp EEEC
T ss_pred EEeC
Confidence 9985
No 5
>2v3m_A NAF1; ribosomal protein, GAR1, snoRNP, phosphorylation, hypothetical protein; 2.74A {Saccharomyces cerevisiae}
Probab=99.91 E-value=5.8e-25 Score=167.19 Aligned_cols=81 Identities=20% Similarity=0.389 Sum_probs=74.0
Q ss_pred CceEEeceeeeeeeCCeEEEeccC---CCCCCCCCceeeccccccceeeEeeCCCCcceEEEEec----CCccccccCCC
Q 032083 47 PAEVVEVSSFLHACEGDAVTKLTN---EKIPYFNAPIYLQNKTQIGKVDEIFGPINESYFSVKMM----EGIVATSYSLG 119 (147)
Q Consensus 47 p~~vielG~f~H~ceg~lV~K~t~---~~VP~fNa~Vy~enK~~IGKVdEIFGPi~~~yfsVKl~----~gi~a~sfk~g 119 (147)
-++|++||+|+|.|++++|||++. .++|++|++||+|||++||||+|||||++++||+||+. +++++.++++|
T Consensus 27 ~~~v~~lG~i~~ive~~vVik~~~~g~~~vl~~~s~l~ledr~~IGkV~EiFGpV~~P~ysVk~~~~~~e~i~~~~~~~G 106 (131)
T 2v3m_A 27 KTIITPIGVLKSAFENNIIIHATMSGEKRVLKEGSIFCLEDRTLIGMLTEVFGPLQNPFYRIKLPDSKKNLFDELKVRLG 106 (131)
T ss_dssp TSCEEEEEEEEEEETTEEEEEEC-----CCCCTTCEEEETTCCEEEECCEEESCSSSCEEEEECCGGGHHHHHHHHTTTT
T ss_pred CCEEEEeeeEEEEeCCcEEEEecCCCCccccCCCCEEEecCCcEEEEEEEEeCCCCCcEEEEEeCCcchhhhhhcccCCC
Confidence 367999999999999999999975 37999999999999999999999999999999999998 45899999999
Q ss_pred CEEEEcCC
Q 032083 120 DKFYIDPS 127 (147)
Q Consensus 120 dk~yI~p~ 127 (147)
|+|||++.
T Consensus 107 ~kvY~~~~ 114 (131)
T 2v3m_A 107 EKAFIVTP 114 (131)
T ss_dssp SEEEEEC-
T ss_pred CEEEECcC
Confidence 99999984
No 6
>4df3_A Fibrillarin-like rRNA/TRNA 2'-O-methyltransferase; NADP rossmann superfamily, S-adenosyl-L-M (SAM) binding, nucleolus; HET: SAM; 1.73A {Aeropyrum pernix}
Probab=97.78 E-value=2.2e-06 Score=69.36 Aligned_cols=59 Identities=15% Similarity=0.255 Sum_probs=47.6
Q ss_pred eee-eeCCeEEEe--------ccCCCCCCCCCceeeccccccceee-EeeCCCCcceEEEEecCCccccc----cCCCCE
Q 032083 56 FLH-ACEGDAVTK--------LTNEKIPYFNAPIYLQNKTQIGKVD-EIFGPINESYFSVKMMEGIVATS----YSLGDK 121 (147)
Q Consensus 56 f~H-~ceg~lV~K--------~t~~~VP~fNa~Vy~enK~~IGKVd-EIFGPi~~~yfsVKl~~gi~a~s----fk~gdk 121 (147)
..| .+++.++++ +|.|.+| +.+||.|+..++..++ ++|+| |++||+++|..+. +++||+
T Consensus 8 ~~~~~~~~~~~~~~~~~~~~l~t~n~~~--g~~vyge~~~~~~~~e~r~w~p-----~rsklaa~i~~gl~~l~ikpG~~ 80 (233)
T 4df3_A 8 SRHDRWRGVYVVELEDGSLRIATKNLVP--GQRVYGERIFRYNGEEYREWNA-----YRSKLAAALLKGLIELPVKEGDR 80 (233)
T ss_dssp EECSSSTTEEEEEETTSCEEEEEECSST--TCCSSSCCEEEETTEEEEECCT-----TTCHHHHHHHTTCSCCCCCTTCE
T ss_pred eEecccCCEEEEEccCCceeEEEecCCC--CCcccCceEEEcCCceeeeECC-----CchHHHHHHHhchhhcCCCCCCE
Confidence 468 788999987 3789999 9999999988886666 99999 9999998876543 455554
No 7
>3id6_C Fibrillarin-like rRNA/TRNA 2'-O-methyltransferase; C/D guide RNA, 2'-O-methylation, coiled-coil, methyltransfer binding, rRNA processing; HET: SAM; 2.60A {Sulfolobus solfataricus} SCOP: c.66.1.0 PDB: 3id5_B* 3pla_E*
Probab=93.87 E-value=0.0052 Score=49.15 Aligned_cols=59 Identities=19% Similarity=0.198 Sum_probs=44.5
Q ss_pred eeeeCCeEEEe--------ccCCCCCCCCCceeecccccccee-eEeeCCCCcceEEEEecCCcccc----ccCCCCEE
Q 032083 57 LHACEGDAVTK--------LTNEKIPYFNAPIYLQNKTQIGKV-DEIFGPINESYFSVKMMEGIVAT----SYSLGDKF 122 (147)
Q Consensus 57 ~H~ceg~lV~K--------~t~~~VP~fNa~Vy~enK~~IGKV-dEIFGPi~~~yfsVKl~~gi~a~----sfk~gdk~ 122 (147)
.|.+++.++++ +|.|.+| +..||.|+...+..+ ++.|.| |..|+.+.+... .+++++++
T Consensus 9 ~~~~~~~~~~~~~~~~~~~~t~~~~p--g~~vy~e~~~~~~~~~yr~w~~-----~~skla~~ll~~l~~~~l~~g~~V 80 (232)
T 3id6_C 9 QTNMENIYECEFNDGSFRLCTRNLVP--NFNVYGERLIKYEGVEYREWNA-----FRSKLAGAILKGLKTNPIRKGTKV 80 (232)
T ss_dssp ECSSTTEEEEECTTSCEEEEEECSST--TCCSSSCCEEEETTEEEEECCT-----TTCHHHHHHHTTCSCCSCCTTCEE
T ss_pred eeccCcEEEEEccCCcceEEEecccC--CCCcccceeeeecCcchhhhch-----HHHHHHHHHHhhhhhcCCCCCCEE
Confidence 67889999887 2788999 999999998877555 699999 777777665432 24556653
No 8
>2pk2_A Cyclin-T1, protein TAT; TAR, twinning, transcription regulation P- TEFB, cell cycle; 2.67A {Homo sapiens} SCOP: a.74.1.1 a.74.1.1 PDB: 2w2h_C
Probab=59.56 E-value=1.9 Score=36.22 Aligned_cols=9 Identities=11% Similarity=-0.267 Sum_probs=0.0
Q ss_pred eCCeEEEec
Q 032083 60 CEGDAVTKL 68 (147)
Q Consensus 60 ceg~lV~K~ 68 (147)
|-.-.||-+
T Consensus 317 ~~~~~~~~~ 325 (358)
T 2pk2_A 317 NYHCQLCFL 325 (358)
T ss_dssp ---------
T ss_pred ceecHHHhc
Confidence 333344433
No 9
>2f1l_A 16S rRNA processing protein; structural genomics, joint CENT structural genomics, JCSG, protein structure initiative, PS unknown function; HET: UNL; 2.46A {Pseudomonas aeruginosa} SCOP: b.41.1.4 b.43.3.4
Probab=59.26 E-value=11 Score=28.97 Aligned_cols=34 Identities=15% Similarity=0.166 Sum_probs=27.0
Q ss_pred CCCceeeccccccceeeEeeCCCCcceEEEEecC
Q 032083 76 FNAPIYLQNKTQIGKVDEIFGPINESYFSVKMME 109 (147)
Q Consensus 76 fNa~Vy~enK~~IGKVdEIFGPi~~~yfsVKl~~ 109 (147)
++..||+++...+|+|.+|+-.-.+-.+.|+..+
T Consensus 119 IGl~V~~~~g~~lG~V~~v~~~ganDvlvV~~~~ 152 (187)
T 2f1l_A 119 EGLKVIDQGRQLLGVIDHLLETGANDVMVVKPCA 152 (187)
T ss_dssp TTCEEEETTSCEEEEEEEEECCSSSCEEEEECCT
T ss_pred CCeEEEeCCCCEEEEEEEEccCCCcEEEEEEeCC
Confidence 4889999988899999999976644447788654
No 10
>3h9n_A Ribosome maturation factor RIMM; structural genomics, PSI-2, protein structure initiative, northeast structural genomics consortium, NESG; 2.70A {Haemophilus influenzae}
Probab=57.81 E-value=17 Score=27.54 Aligned_cols=33 Identities=15% Similarity=0.187 Sum_probs=26.5
Q ss_pred CCCceeeccccccceeeEeeCCCCcceEEEEec
Q 032083 76 FNAPIYLQNKTQIGKVDEIFGPINESYFSVKMM 108 (147)
Q Consensus 76 fNa~Vy~enK~~IGKVdEIFGPi~~~yfsVKl~ 108 (147)
++..||+++...+|+|.+|+-.-.+-.+.||..
T Consensus 101 iGl~V~~~~g~~lG~V~~v~~~gandvl~V~~~ 133 (177)
T 3h9n_A 101 IGCTVVNLEGYTMGTVTEMMETGSNDVLVVKAN 133 (177)
T ss_dssp TTCEEEETTCCEEEEEEEEEESSSCEEEEEECC
T ss_pred cCCEEEeCCCCEEEEEEEEeeCCCcEEEEEEec
Confidence 578899999999999999997554555788864
No 11
>2ipx_A RRNA 2'-O-methyltransferase fibrillarin; FBL, structural genomics, structural genomics consortium, SGC; HET: MTA; 1.82A {Homo sapiens}
Probab=46.13 E-value=7.4 Score=29.05 Aligned_cols=45 Identities=24% Similarity=0.484 Sum_probs=30.7
Q ss_pred ceEEeceeeeeeeCCeEEEec------cCCCCCCCCCceeeccccccc----eee-EeeCCC
Q 032083 48 AEVVEVSSFLHACEGDAVTKL------TNEKIPYFNAPIYLQNKTQIG----KVD-EIFGPI 98 (147)
Q Consensus 48 ~~vielG~f~H~ceg~lV~K~------t~~~VP~fNa~Vy~enK~~IG----KVd-EIFGPi 98 (147)
+.+|| .|.+++.++++. |.+..| +..||.|+...+. .++ ++|+|.
T Consensus 3 ~~~~~----~~~~~g~~~~~~~~~~~~~~n~~~--~~~vy~e~~~~~~~~~~~~~~~~~~~~ 58 (233)
T 2ipx_A 3 NVMVE----PHRHEGVFICRGKEDALVTKNLVP--GESVYGEKRVSISEGDDKIEYRAWNPF 58 (233)
T ss_dssp --CCE----ECSSTTEEECC-----CEEECSST--TCCSSSCCEEEEC----CEEEEECCTT
T ss_pred ceEEe----ecccCceEEEecCCceEEEEecCC--CcccccceEEEecCCCCceEEEEeccc
Confidence 44555 499999999873 446666 8899998877664 444 777874
No 12
>3htr_A Uncharacterized PRC-barrel domain protein; beta-barrel, photo-reaction-center domain, structural genomics, PSI-2; HET: MSE; 2.06A {Rhodopseudomonas palustris}
Probab=43.13 E-value=12 Score=26.61 Aligned_cols=20 Identities=15% Similarity=0.486 Sum_probs=18.2
Q ss_pred CCCceeeccccccceeeEee
Q 032083 76 FNAPIYLQNKTQIGKVDEIF 95 (147)
Q Consensus 76 fNa~Vy~enK~~IGKVdEIF 95 (147)
.+..||+.+.++||+|+||+
T Consensus 21 ~G~~V~~~dG~~iG~V~dv~ 40 (120)
T 3htr_A 21 QGTAVYGPDGEKIGSIERVM 40 (120)
T ss_dssp TTCEEECTTSCEEEEEEEEE
T ss_pred cCCEEEcCCCCEEEEEEEEE
Confidence 48899999999999999987
No 13
>2dyi_A Probable 16S rRNA-processing protein RIMM; ribosomal protein S19, PRC-barrel, STRU genomics, NPPSFA; 2.00A {Thermus thermophilus} PDB: 3a1p_A 2dog_A
Probab=41.89 E-value=20 Score=26.75 Aligned_cols=34 Identities=18% Similarity=0.382 Sum_probs=26.4
Q ss_pred CCCceeeccccccceeeEeeCCCCcceEEEEecCC
Q 032083 76 FNAPIYLQNKTQIGKVDEIFGPINESYFSVKMMEG 110 (147)
Q Consensus 76 fNa~Vy~enK~~IGKVdEIFGPi~~~yfsVKl~~g 110 (147)
++..|| ++...+|+|.+|+-.-.+-.+.|+..++
T Consensus 95 iGl~V~-~~g~~lG~V~~v~~~ga~dvl~V~~~~g 128 (162)
T 2dyi_A 95 IGLPVY-VEGRQVGEVVDILDAGAQDVLIIRGVGE 128 (162)
T ss_dssp TTCEEE-ETTEEEEEEEEEEEETTEEEEEEEECCS
T ss_pred CCeEEE-ECCeEEEEEEEEccCCCceEEEEEeCCC
Confidence 588999 8888999999999765444477886653
No 14
>1eys_H Photosynthetic reaction center; membrane protein complex, electron transport; HET: BGL BCL BPH MQ8 HEM CRT LDA PEF; 2.20A {Thermochromatium tepidum} SCOP: b.41.1.1 f.23.10.1
Probab=39.84 E-value=14 Score=30.52 Aligned_cols=33 Identities=12% Similarity=0.186 Sum_probs=25.5
Q ss_pred CCCceeeccccccceeeEeeCCC---CcceEEEEec
Q 032083 76 FNAPIYLQNKTQIGKVDEIFGPI---NESYFSVKMM 108 (147)
Q Consensus 76 fNa~Vy~enK~~IGKVdEIFGPi---~~~yfsVKl~ 108 (147)
.+..||..+.++||+|+|||==. .--|+.|...
T Consensus 152 ~G~~Vya~DGekIG~V~Dv~vD~~sG~VrYlVVdtG 187 (259)
T 1eys_H 152 RGMTVVGLDGEVAGTVSDVWVDRSEPQIRYLEVEVA 187 (259)
T ss_dssp TTCEEECSSSCEEEEEEEEEEETTTTEEEEEEEEET
T ss_pred cCCEEEeCCCCeeEEEEEEEEECCCCeEEEEEEEcC
Confidence 38899999999999999998322 1157788774
No 15
>2qgg_A 16S rRNA-processing protein RIMM; X-RAY, NESG, ASR73, structural genomics, PSI-2, protein structure initiative; 2.40A {Acinetobacter calcoaceticus}
Probab=38.77 E-value=29 Score=26.32 Aligned_cols=32 Identities=13% Similarity=0.255 Sum_probs=25.6
Q ss_pred CCCceeec----cccccceeeEeeCCCCcceEEEEe
Q 032083 76 FNAPIYLQ----NKTQIGKVDEIFGPINESYFSVKM 107 (147)
Q Consensus 76 fNa~Vy~e----nK~~IGKVdEIFGPi~~~yfsVKl 107 (147)
++..||++ +...+|+|.+|+-.-.+-.+.|+.
T Consensus 110 iGl~V~~~~~~~~g~~lG~V~~v~~~gandvl~V~~ 145 (182)
T 2qgg_A 110 KGLTVLGLDDEEQEVNLGQIHELFETGANDVMVVRA 145 (182)
T ss_dssp TTCEEEEECTTSCEEEEEEEEEEEECSSCEEEEEEC
T ss_pred CCcEEEEcccCCCCcEEEEEEEEccCCCcEEEEEEe
Confidence 48899998 788999999999765444467886
No 16
>2pk2_A Cyclin-T1, protein TAT; TAR, twinning, transcription regulation P- TEFB, cell cycle; 2.67A {Homo sapiens} SCOP: a.74.1.1 a.74.1.1 PDB: 2w2h_C
Probab=37.09 E-value=7.1 Score=32.69 Aligned_cols=8 Identities=13% Similarity=0.210 Sum_probs=0.0
Q ss_pred eCCeEEEe
Q 032083 60 CEGDAVTK 67 (147)
Q Consensus 60 ceg~lV~K 67 (147)
|+=-|+-|
T Consensus 320 ~~~~~~~~ 327 (358)
T 2pk2_A 320 CQLCFLRS 327 (358)
T ss_dssp --------
T ss_pred cHHHhccc
Confidence 44333333
No 17
>1fbn_A MJ fibrillarin homologue; MJ proteins, ribosomal RNA processing, snoRNP, structural genomics, BSGC structure funded by NIH; 1.60A {Methanocaldococcus jannaschii} SCOP: c.66.1.3 PDB: 1g8s_A
Probab=35.37 E-value=25 Score=26.18 Aligned_cols=39 Identities=21% Similarity=0.262 Sum_probs=28.8
Q ss_pred eeeCCeEEEec--------cCCCCCCCCCceeeccccccce-eeEeeCCC
Q 032083 58 HACEGDAVTKL--------TNEKIPYFNAPIYLQNKTQIGK-VDEIFGPI 98 (147)
Q Consensus 58 H~ceg~lV~K~--------t~~~VP~fNa~Vy~enK~~IGK-VdEIFGPi 98 (147)
|.+++.++++. |.+..| +..||.|+...+.. -+.+|+|.
T Consensus 8 ~~~~~~~~~~~~~~~~~~~~~~~~~--~~~vyge~~~~~~~~~~~~~~~~ 55 (230)
T 1fbn_A 8 EIFENIYEVDLGDGLKRIATKSIVK--GKKVYDEKIIKIGDEEYRIWNPN 55 (230)
T ss_dssp EETTTEEEEECSSSCCCEEEECSST--TCCSSSCCEEEETTEEEEECCTT
T ss_pred cccCcEEEEecCCCceeeeEEccCC--CCCccCceEEeeccceeeeeCcc
Confidence 88889888873 345556 88999988877644 44788884
No 18
>1pm3_A MTH1895; unknown function, structural genomics, PSI, protein structure initiative; 3.15A {Methanothermobacterthermautotrophicus} SCOP: b.41.1.2
Probab=32.34 E-value=25 Score=24.13 Aligned_cols=20 Identities=20% Similarity=0.295 Sum_probs=17.6
Q ss_pred CCCceeeccccccceeeEee
Q 032083 76 FNAPIYLQNKTQIGKVDEIF 95 (147)
Q Consensus 76 fNa~Vy~enK~~IGKVdEIF 95 (147)
.+-.||+++-+++|+|+||.
T Consensus 28 ~Gk~Vin~dG~~LG~V~Dv~ 47 (97)
T 1pm3_A 28 VGKEVLDSSAKVIGKVKDVE 47 (97)
T ss_dssp SSCEEECTTSCEEEEEEEEE
T ss_pred CCCEeECCCCCEEeEEEEEE
Confidence 48899999999999999764
No 19
>3l48_A Outer membrane usher protein PAPC; IG fold, greek KEY, cell outer membrane, fimbrium, transmembrane, transport, transport protein; 2.10A {Escherichia coli} PDB: 2kt6_A
Probab=30.59 E-value=49 Score=22.64 Aligned_cols=23 Identities=22% Similarity=0.398 Sum_probs=17.0
Q ss_pred CCCCCCCCCceeeccccccceee
Q 032083 70 NEKIPYFNAPIYLQNKTQIGKVD 92 (147)
Q Consensus 70 ~~~VP~fNa~Vy~enK~~IGKVd 92 (147)
..+.+.|+|.|++++...+|-|.
T Consensus 18 dG~plPfGA~V~d~~g~~~giVG 40 (94)
T 3l48_A 18 DGSQPPFGASVTSEKGRELGMVA 40 (94)
T ss_dssp TSCCCCTTCEEECTTCCEEEEBC
T ss_pred CCCcCCCccEEEcCCCceEEEEC
Confidence 34555699999998877776665
No 20
>2f1l_A 16S rRNA processing protein; structural genomics, joint CENT structural genomics, JCSG, protein structure initiative, PS unknown function; HET: UNL; 2.46A {Pseudomonas aeruginosa} SCOP: b.41.1.4 b.43.3.4
Probab=28.89 E-value=1.1e+02 Score=23.39 Aligned_cols=86 Identities=12% Similarity=0.122 Sum_probs=45.8
Q ss_pred CCCceEEeceeeeeee--CCeEEEeccCCCCCCC--CCceeecccc--ccceeeEeeCCCCcceEEEEec--CCcccccc
Q 032083 45 GPPAEVVEVSSFLHAC--EGDAVTKLTNEKIPYF--NAPIYLQNKT--QIGKVDEIFGPINESYFSVKMM--EGIVATSY 116 (147)
Q Consensus 45 Gpp~~vielG~f~H~c--eg~lV~K~t~~~VP~f--Na~Vy~enK~--~IGKVdEIFGPi~~~yfsVKl~--~gi~a~sf 116 (147)
-||++.+.+|++.-++ .+++-+++..+..-.| ...+|.++.. +.=+|.+.- +.++. +-+|+. +.+.+..-
T Consensus 15 ~~~~~~v~VG~I~~~hGikGeVkV~~~Td~pe~~~~~~~~~l~~~~~~~~~~v~~~r-~~~~~-~ivkf~gi~dr~~Ae~ 92 (187)
T 2f1l_A 15 TPADDLVVIGKIVSVYGIRGEVKVYSFTDPLDNLLDYRRWTLRRDGEIRQAELVRGR-LHGKV-LAAKLKGLDDREEART 92 (187)
T ss_dssp ----CEEEEEEEEEEETTTTEEEEEECSSSGGGGGGCCEEEEEETTEEEEEEEEEEE-EETTE-EEEEETTCCSHHHHHT
T ss_pred CCCCCEEEEEEEeCCEeeCEEEEEEECCCCHHHhccCCEEEEecCCcEEEEEEEEEE-EECCE-EEEEEeCCCCHHHHHH
Confidence 4889999999998555 5888887644321112 3456664321 112344332 22222 444543 33344455
Q ss_pred CCCCEEEEcCCCcccc
Q 032083 117 SLGDKFYIDPSKLLPL 132 (147)
Q Consensus 117 k~gdk~yI~p~klLPl 132 (147)
..|..|||+.+.+-+|
T Consensus 93 L~G~~l~v~r~~lp~l 108 (187)
T 2f1l_A 93 FTGYEICIPRSELPSL 108 (187)
T ss_dssp TTTCEEEEEGGGSCC-
T ss_pred hCCCEEEEEHHHCCCC
Confidence 6799999998887444
No 21
>2hc8_A PACS, cation-transporting ATPase, P-type; copper, COPA, COPB, actuator, transport protein; 1.65A {Archaeoglobus fulgidus} PDB: 2voy_F
Probab=28.63 E-value=33 Score=23.92 Aligned_cols=24 Identities=17% Similarity=0.455 Sum_probs=20.3
Q ss_pred ccccccCCCCEEEEcCCCcccccc
Q 032083 111 IVATSYSLGDKFYIDPSKLLPLAR 134 (147)
Q Consensus 111 i~a~sfk~gdk~yI~p~klLPl~r 134 (147)
|.++.+.+||.+.+.+...+|.+=
T Consensus 25 i~~~~l~~GDiv~v~~G~~iPaDg 48 (113)
T 2hc8_A 25 VPVEEVAVGDIVIVRPGEKIPVDG 48 (113)
T ss_dssp EEGGGCCTTCEEEECTTCBCCSEE
T ss_pred EEHHHCCCCCEEEECCCCEEeeeE
Confidence 566788999999999999999864
No 22
>1nt2_A Fibrillarin-like PRE-rRNA processing protein; adeMet, binding motif, RNA binding protein; HET: SAM; 2.90A {Archaeoglobus fulgidus} SCOP: c.66.1.3
Probab=28.40 E-value=7.3 Score=29.32 Aligned_cols=34 Identities=12% Similarity=-0.004 Sum_probs=24.7
Q ss_pred eeeeCCeEEEe---ccCCCCCCCCCceeeccccccceeeEeeCC
Q 032083 57 LHACEGDAVTK---LTNEKIPYFNAPIYLQNKTQIGKVDEIFGP 97 (147)
Q Consensus 57 ~H~ceg~lV~K---~t~~~VP~fNa~Vy~enK~~IGKVdEIFGP 97 (147)
.|.++++++++ +|.+.+| .||+|+-. .-++.|.|
T Consensus 2 ~~~~~~~~~~~~~~~t~~~~~----~~Y~~~~~---~~y~~~~~ 38 (210)
T 1nt2_A 2 KELMRNVYLLDDTLVTKSKYG----SHYGEKVF---DGYREWVP 38 (210)
T ss_dssp CEEETTEEEETTEEEEECSCC----CSSSCCEE---TTEEECCG
T ss_pred CcccCcEEEEeeeEeeccCCc----cccchhhh---hhhhhcCh
Confidence 47888888886 3677888 88887555 34567766
No 23
>1rzh_H Reaction center protein H chain; bacterial photosynthesis, proton TR pathway, revertant, integral membrane protein, photosynthes; HET: BCL BPH U10 HTO SPO LDA CDL; 1.80A {Rhodobacter sphaeroides} SCOP: b.41.1.1 f.23.10.1 PDB: 1e14_H* 1f6n_H* 1fnp_H* 1fnq_H* 1jgw_H* 1jgx_H* 1jgy_H* 1jgz_H* 1jh0_H* 1k6l_H* 1k6n_H* 1kby_H* 1l9b_H* 1l9j_H* 1m3x_H* 1mps_H* 1pcr_H* 1e6d_H* 1rg5_H* 1rgn_H* ...
Probab=28.32 E-value=29 Score=28.66 Aligned_cols=29 Identities=21% Similarity=0.418 Sum_probs=23.8
Q ss_pred CCceeeccccccceeeEeeCCCCc-----ceEEEEe
Q 032083 77 NAPIYLQNKTQIGKVDEIFGPINE-----SYFSVKM 107 (147)
Q Consensus 77 Na~Vy~enK~~IGKVdEIFGPi~~-----~yfsVKl 107 (147)
+-.||..+.++||+|+|+| +++ -|+.|.+
T Consensus 150 G~~Vyg~DGe~iGsV~Dl~--VD~~eg~VRYLVVdt 183 (260)
T 1rzh_H 150 GLPVRGCDLEIAGKVVDIW--VDIPEQMARFLEVEL 183 (260)
T ss_dssp TCEEEETTSCEEEEEEEEE--EETTTTEEEEEEEEC
T ss_pred CCEeEcCCCCeeEEEEEEE--EECCCCEEEEEEEEe
Confidence 7899999999999999999 444 3666665
No 24
>2wjn_H Reaction center protein H chain; bacteriochlorophyll, lipidic-sponge phase, photosynthesis, R center, electron transport, cell membrane; HET: HEM FME BCB BPB MPG MQ7 NS5; 1.86A {Rhodopseudomonas viridis} PDB: 1prc_H* 1r2c_H* 1vrn_H* 1dxr_H* 2jbl_H* 2prc_H* 2i5n_H* 2wjm_H* 2x5u_H* 2x5v_H* 3d38_H* 3prc_H* 3t6e_H* 4ac5_H* 5prc_H* 6prc_H* 7prc_H* 3t6d_H* 3g7f_H*
Probab=26.80 E-value=30 Score=28.52 Aligned_cols=30 Identities=13% Similarity=0.522 Sum_probs=24.4
Q ss_pred CCceeeccccccceeeEeeCCCCc-----ceEEEEec
Q 032083 77 NAPIYLQNKTQIGKVDEIFGPINE-----SYFSVKMM 108 (147)
Q Consensus 77 Na~Vy~enK~~IGKVdEIFGPi~~-----~yfsVKl~ 108 (147)
+-.||..+.++||+|+|+| +++ -|+.|.+.
T Consensus 154 G~~Vyg~DGe~iGsV~Dl~--VD~~eg~VRYLVVdtG 188 (258)
T 2wjn_H 154 GLPVVAADGVEAGTVTDLW--VDRSEHYFRYLELSVA 188 (258)
T ss_dssp TCEEECTTSCEEEEEEEEE--EETTTTEEEEEEEEET
T ss_pred CCEeEcCCCCeeEEEEEEE--EECCCCEEEEEEEEcC
Confidence 7799999999999999999 444 36667664
No 25
>2xet_A CAF1A usher, F1 capsule-anchoring protein; transport protein; 1.60A {Yersinia pestis}
Probab=26.60 E-value=59 Score=21.47 Aligned_cols=22 Identities=18% Similarity=0.150 Sum_probs=15.3
Q ss_pred CCCCCCCCce-eeccccccceee
Q 032083 71 EKIPYFNAPI-YLQNKTQIGKVD 92 (147)
Q Consensus 71 ~~VP~fNa~V-y~enK~~IGKVd 92 (147)
.+.+.|+|.| ++++...+|-|.
T Consensus 13 G~~lPfGa~V~~~~~g~~~giVg 35 (89)
T 2xet_A 13 NKPVPFGSIVTIEGQSSSSGIVG 35 (89)
T ss_dssp SCBCCTTCEEEETTCCSCCEECC
T ss_pred CCcCCCccEEEECCCCCEEEEEc
Confidence 3444599999 988766676554
No 26
>3mlq_E Transcription-repair coupling factor; tudor, transferase-transcription complex; 2.91A {Thermus thermophilus}
Probab=26.56 E-value=57 Score=21.27 Aligned_cols=32 Identities=19% Similarity=0.315 Sum_probs=17.3
Q ss_pred CCcceEEEEecCCccccccCCCCEEEEcCCCcccccccCCC
Q 032083 98 INESYFSVKMMEGIVATSYSLGDKFYIDPSKLLPLARFLPQ 138 (147)
Q Consensus 98 i~~~yfsVKl~~gi~a~sfk~gdk~yI~p~klLPl~rFlp~ 138 (147)
...-|+.++.+ .+|++||.-+++--|+|+.-.
T Consensus 30 ~~~ey~~l~y~---------~~~~l~VPv~~~~~i~ry~g~ 61 (71)
T 3mlq_E 30 VKRDYLVLRYK---------GEGKLYLPVEQLPLLKRHPGT 61 (71)
T ss_dssp EEEEEEEEEET---------TTEEEEEESSSCC--------
T ss_pred eeEEEEEEEEC---------CCCEEEEEhhhhcceeeecCC
Confidence 34456777733 358999999999889999753
No 27
>2dgy_A MGC11102 protein; EIF-1A, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}
Probab=26.49 E-value=48 Score=23.70 Aligned_cols=30 Identities=27% Similarity=0.246 Sum_probs=18.7
Q ss_pred eeeccccccceeeEeeCCCCcceEEEEecCCcc
Q 032083 80 IYLQNKTQIGKVDEIFGPINESYFSVKMMEGIV 112 (147)
Q Consensus 80 Vy~enK~~IGKVdEIFGPi~~~yfsVKl~~gi~ 112 (147)
++.+..+.+|+|.+.+|. -.|.|++.++..
T Consensus 10 ~~p~ege~~g~V~~~lgn---~~f~V~l~nG~~ 39 (111)
T 2dgy_A 10 IVPSNQQQIVRVLRTPGN---NLHEVETAQGQR 39 (111)
T ss_dssp CCCCSSCEEEEEEECCSS---SEEEEECTTSCE
T ss_pred cCCCCCeEEEEEEEeCCC---CEEEEEeCCCCE
Confidence 344456667777777663 346777776654
No 28
>2a7y_A Hypothetical protein RV2302/MT2359; anti-parallel beta sheet, structural genomics, PSI, protein structure initiative; NMR {Mycobacterium tuberculosis} SCOP: b.34.6.3
Probab=25.63 E-value=1.2e+02 Score=20.92 Aligned_cols=47 Identities=23% Similarity=0.217 Sum_probs=32.1
Q ss_pred eeeeeeeCC-eEEEeccCCCCCCCCCceeeccccccceeeEeeCCCCcceEEEEe-cCCc
Q 032083 54 SSFLHACEG-DAVTKLTNEKIPYFNAPIYLQNKTQIGKVDEIFGPINESYFSVKM-MEGI 111 (147)
Q Consensus 54 G~f~H~ceg-~lV~K~t~~~VP~fNa~Vy~enK~~IGKVdEIFGPi~~~yfsVKl-~~gi 111 (147)
|+.||+.-+ .||++......| .+.|.|-||.|+--.+=|.|+- +++-
T Consensus 1 g~~M~A~vGDrlvv~g~~vg~~-----------~R~GeIvEV~g~dG~PPY~VRw~ddGH 49 (83)
T 2a7y_A 1 GSHMHAKVGDYLVVKGTTTERH-----------DQHAEIIEVRSADGSPPYVVRWLVNGH 49 (83)
T ss_dssp ---CCCCTTEEEEESCTTTSCC-----------EEEEEEEECSCSSSCSCEEEEETTTTE
T ss_pred CCccCccCCCEEEEecCcCCCC-----------CcEEEEEEEECCCCCCCEEEEecCCCc
Confidence 466787765 677777443444 5679999999998777789996 5543
No 29
>2kij_A Copper-transporting ATPase 1; actuator, menkes disease, alternative splicing, ATP-binding, cell membrane, cytoplasm, disease mutation; NMR {Homo sapiens}
Probab=23.72 E-value=41 Score=23.77 Aligned_cols=26 Identities=15% Similarity=0.217 Sum_probs=20.8
Q ss_pred ccccccCCCCEEEEcCCCcccccccC
Q 032083 111 IVATSYSLGDKFYIDPSKLLPLARFL 136 (147)
Q Consensus 111 i~a~sfk~gdk~yI~p~klLPl~rFl 136 (147)
|.+..+.+||.+.+.+...+|.+=.+
T Consensus 37 v~~~~l~~GDiv~v~~G~~iPaDg~v 62 (124)
T 2kij_A 37 VDVELVQRGDIIKVVPGGKFPVDGRV 62 (124)
T ss_dssp EETTTCCTTCEEECCTTCBCSSCEEE
T ss_pred EeHHHCCCCCEEEECCCCEEEeeEEE
Confidence 45667888999999999999987443
Done!