Query 025008
Match_columns 259
No_of_seqs 168 out of 374
Neff 5.0
Searched_HMMs 29240
Date Mon Mar 25 18:23:24 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/025008.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/025008hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 1zso_A Hypothetical protein; s 89.5 0.27 9.1E-06 41.6 3.7 61 3-66 36-99 (164)
2 3a43_A HYPD, hydrogenase nicke 68.6 1.1 3.8E-05 36.4 0.2 11 2-12 68-78 (139)
3 1a7i_A QCRP2 (LIM1); LIM domai 68.3 1.9 6.4E-05 30.7 1.4 41 1-50 1-45 (81)
4 1nyp_A Pinch protein; LIM doma 63.2 2.5 8.4E-05 28.8 1.1 48 2-65 3-51 (66)
5 2iyb_E Testin, TESS, TES; LIM 61.7 6.5 0.00022 26.7 3.1 50 3-65 1-52 (65)
6 2k5c_A Uncharacterized protein 59.0 3.3 0.00011 31.6 1.2 24 34-57 46-69 (95)
7 1twf_J DNA-directed RNA polyme 58.4 3.5 0.00012 30.3 1.2 15 1-15 1-15 (70)
8 1pft_A TFIIB, PFTFIIBN; N-term 54.5 3.9 0.00013 27.1 0.9 26 40-66 6-31 (50)
9 2cu8_A Cysteine-rich protein 2 52.4 11 0.00039 26.1 3.1 39 3-50 8-47 (76)
10 1x61_A Thyroid receptor intera 50.5 6.5 0.00022 27.0 1.6 49 2-65 3-53 (72)
11 1x68_A FHL5 protein; four-and- 48.2 8 0.00027 27.0 1.7 49 3-65 4-55 (76)
12 1tot_A CREB-binding protein; z 46.3 7.1 0.00024 26.6 1.2 17 2-20 4-20 (52)
13 2l9z_A PR domain zinc finger p 45.8 4.7 0.00016 26.4 0.2 11 3-13 10-20 (39)
14 2ehe_A Four and A half LIM dom 45.7 9.3 0.00032 26.9 1.8 48 3-65 14-63 (82)
15 2kdx_A HYPA, hydrogenase/ureas 41.6 7.7 0.00026 30.2 0.9 11 2-12 71-81 (119)
16 1dl6_A Transcription factor II 40.6 9.2 0.00031 26.5 1.0 24 40-64 12-35 (58)
17 2k4x_A 30S ribosomal protein S 40.3 16 0.00054 25.2 2.2 27 5-48 19-45 (55)
18 3flo_B DNA polymerase alpha ca 40.2 17 0.00059 31.4 2.9 29 37-65 20-49 (206)
19 2cur_A Skeletal muscle LIM-pro 39.0 10 0.00034 25.8 1.0 47 3-65 4-51 (69)
20 1ef4_A Subunit N, DNA-directed 36.8 8.9 0.0003 26.9 0.4 13 3-15 2-14 (55)
21 1x0t_A Ribonuclease P protein 34.1 48 0.0017 25.9 4.5 45 5-56 66-111 (120)
22 2k3r_A Ribonuclease P protein 34.0 50 0.0017 26.0 4.6 46 5-57 61-107 (123)
23 1x64_A Alpha-actinin-2 associa 33.1 16 0.00055 26.2 1.4 40 2-50 23-62 (89)
24 1twf_L ABC10-alpha, DNA-direct 32.4 11 0.00038 27.3 0.4 15 41-55 47-61 (70)
25 4ayb_N DNA-directed RNA polyme 31.9 15 0.00051 26.6 1.0 15 1-15 1-15 (66)
26 2d8z_A Four and A half LIM dom 30.4 17 0.00058 24.6 1.1 38 2-49 3-41 (70)
27 1x3h_A Leupaxin; paxillin fami 29.1 23 0.00079 24.6 1.6 38 3-50 14-52 (80)
28 2l4z_A DNA endonuclease RBBP8, 28.4 13 0.00044 28.9 0.2 39 3-50 60-99 (123)
29 3lti_A DNA-directed RNA polyme 26.1 55 0.0019 29.9 3.9 55 12-68 2-56 (296)
30 1ltl_A DNA replication initiat 25.9 20 0.0007 31.6 1.0 43 5-61 135-177 (279)
31 2i5o_A DNA polymerase ETA; zin 25.3 5.4 0.00018 25.9 -2.1 23 38-60 8-30 (39)
32 1iml_A CRIP, cysteine rich int 25.1 20 0.00067 24.9 0.6 36 6-50 2-38 (76)
33 2czr_A TBP-interacting protein 23.5 39 0.0013 29.3 2.3 19 34-53 150-168 (226)
34 2dar_A PDZ and LIM domain prot 23.3 32 0.0011 24.6 1.5 38 3-50 24-62 (90)
35 1v9x_A Poly (ADP-ribose) polym 22.7 35 0.0012 26.8 1.7 13 6-18 22-34 (114)
36 3k7a_M Transcription initiatio 22.6 23 0.00079 32.2 0.7 28 39-66 21-49 (345)
37 3k1f_M Transcription initiatio 22.3 17 0.00059 31.3 -0.2 29 38-66 20-49 (197)
38 3o9x_A Uncharacterized HTH-typ 22.1 15 0.00052 28.0 -0.5 15 39-53 2-17 (133)
39 3mp2_A Non-structural protein 21.8 49 0.0017 28.8 2.6 38 3-50 90-130 (211)
40 2k2d_A Ring finger and CHY zin 21.6 27 0.00092 25.7 0.8 18 37-54 53-70 (79)
41 1wg2_A Zinc finger (AN1-like) 21.5 56 0.0019 23.4 2.4 13 2-14 13-25 (64)
42 1faq_A RAF-1; transferase, ser 21.3 34 0.0012 22.2 1.2 15 4-18 14-28 (52)
43 4bbr_M Transcription initiatio 20.7 20 0.00067 32.9 -0.2 29 36-64 18-47 (345)
44 2fc7_A ZZZ3 protein; structure 20.5 30 0.001 25.5 0.8 24 4-47 21-44 (82)
45 2d8y_A Eplin protein; LIM doma 20.3 41 0.0014 24.1 1.5 41 1-50 12-53 (91)
46 1x6a_A LIMK-2, LIM domain kina 20.1 39 0.0013 23.5 1.4 38 3-50 14-52 (81)
No 1
>1zso_A Hypothetical protein; structural genomics, PSI, protein structure initiative, STRU genomics of pathogenic protozoa consortium, SGPP; 2.17A {Plasmodium falciparum} SCOP: b.166.1.1
Probab=89.49 E-value=0.27 Score=41.57 Aligned_cols=61 Identities=18% Similarity=0.243 Sum_probs=40.1
Q ss_pred cceecCCCCccccccccccc-eeeccCceeeeeeEEEEEEcCCCCceeEE--ecCCCCCCeeeecCc
Q 025008 3 FNIWCGGCNSMIAKGVRFNA-EKKQVGNYYSTKIWSFTMKSPCCKHQIVI--QTDPKNCEYVIISGA 66 (259)
Q Consensus 3 F~iwC~~C~~~I~kGvRFNA-eKk~vg~Y~st~I~~F~mkC~~C~~~i~i--kTDPkn~dYvv~~Ga 66 (259)
|.|.|+.|++---+ |-+|. ++..+..==|+ -.|.|||..|..+.+| ...|.-+.|......
T Consensus 36 fkvkC~~C~E~~~k-v~v~~~e~~ei~gsRG~--aNfv~KCk~C~re~Si~i~~~~~~~~y~~~d~~ 99 (164)
T 1zso_A 36 FNIRDSTSSLTRDN-IQFRKTDILEIPNSRGT--ANFMIKWTEYPKYSTINFVNTKNSCSYEEVNNN 99 (164)
T ss_dssp EEEEETTSSCEEEE-EEECTTCBEECTTSSCE--ESEEECCSSSSCCEEEEEECCTTTTEEEGGGTT
T ss_pred EEEEECCCCcccCC-EEEcchheeecCCCCcc--eeEEEeccccCCcceEEEEeCCCCcccccccCC
Confidence 78999999998777 88887 33333221122 4899999999876554 455521267664443
No 2
>3a43_A HYPD, hydrogenase nickel incorporation protein HYPA; [NIFE] hydrogenase maturation, zinc-finger, nickel binding, metal-binding; HET: FME; 2.30A {Pyrococcus kodakaraensis} PDB: 3a44_A*
Probab=68.58 E-value=1.1 Score=36.36 Aligned_cols=11 Identities=27% Similarity=0.510 Sum_probs=8.6
Q ss_pred CcceecCCCCc
Q 025008 2 PFNIWCGGCNS 12 (259)
Q Consensus 2 PF~iwC~~C~~ 12 (259)
|-..||..||.
T Consensus 68 p~~~~C~~CG~ 78 (139)
T 3a43_A 68 EAVFKCRNCNY 78 (139)
T ss_dssp CCEEEETTTCC
T ss_pred CCcEECCCCCC
Confidence 56789999974
No 3
>1a7i_A QCRP2 (LIM1); LIM domain containing proteins, metal-binding protein, zinc finger; NMR {Coturnix japonica} SCOP: g.39.1.3 g.39.1.3 PDB: 2o10_A
Probab=68.27 E-value=1.9 Score=30.72 Aligned_cols=41 Identities=17% Similarity=0.434 Sum_probs=26.1
Q ss_pred CCc---ceecCCCCccccccccccceeeccC-ceeeeeeEEEEEEcCCCCceeE
Q 025008 1 MPF---NIWCGGCNSMIAKGVRFNAEKKQVG-NYYSTKIWSFTMKSPCCKHQIV 50 (259)
Q Consensus 1 mPF---~iwC~~C~~~I~kGvRFNAeKk~vg-~Y~st~I~~F~mkC~~C~~~i~ 50 (259)
||| .-.|..|+..|+.|....| .| .||.. -++|..|...|.
T Consensus 1 m~~~~~~~~C~~C~~~I~~~~~~~a----~~~~~H~~-----CF~C~~C~~~L~ 45 (81)
T 1a7i_A 1 MPNWGGGNKCGACGRTVYHAEEVQC----DGRSFHRC-----CFLCMVCRKNLD 45 (81)
T ss_dssp -------CBCSSSCCBCSSTTEEEE----TTEEEESS-----SEECSSSCCEEC
T ss_pred CCCCCCCCcCcCcCccccCceeEEe----CCcccccc-----cCccCCCCCCCC
Confidence 677 5679999999987765544 23 33322 367999998874
No 4
>1nyp_A Pinch protein; LIM domain, protein recognition, cell adhesion; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3 PDB: 1u5s_B
Probab=63.24 E-value=2.5 Score=28.80 Aligned_cols=48 Identities=21% Similarity=0.328 Sum_probs=30.9
Q ss_pred CcceecCCCCccccccccccceeeccC-ceeeeeeEEEEEEcCCCCceeEEecCCCCCCeeeecC
Q 025008 2 PFNIWCGGCNSMIAKGVRFNAEKKQVG-NYYSTKIWSFTMKSPCCKHQIVIQTDPKNCEYVIISG 65 (259)
Q Consensus 2 PF~iwC~~C~~~I~kGvRFNAeKk~vg-~Y~st~I~~F~mkC~~C~~~i~ikTDPkn~dYvv~~G 65 (259)
-|...|.+|+..|+ |...+| .| .|+.. -++|..|...|. ...|....|
T Consensus 3 ~~~~~C~~C~~~I~-~~~~~a----~~~~~H~~-----CF~C~~C~~~L~------~~~~~~~~g 51 (66)
T 1nyp_A 3 MGVPICGACRRPIE-GRVVNA----MGKQWHVE-----HFVCAKCEKPFL------GHRHYERKG 51 (66)
T ss_dssp CCCCEETTTTEECC-SCEECC----TTSBEETT-----TCBCTTTCCBCS------SSCCEEETT
T ss_pred cCCCCCcccCCEec-ceEEEE----CccccccC-----cCEECCCCCCCC------CCceEeECC
Confidence 36789999999998 654433 24 33322 357899988884 245665544
No 5
>2iyb_E Testin, TESS, TES; LIM domain, SH3-binding, tumour supressor LIM domain EVH1 DO cell motility, phosphorylation, cytoskeleton; 2.35A {Homo sapiens}
Probab=61.72 E-value=6.5 Score=26.75 Aligned_cols=50 Identities=16% Similarity=0.492 Sum_probs=28.8
Q ss_pred cceecCCCCcccccc-ccccceeeccC-ceeeeeeEEEEEEcCCCCceeEEecCCCCCCeeeecC
Q 025008 3 FNIWCGGCNSMIAKG-VRFNAEKKQVG-NYYSTKIWSFTMKSPCCKHQIVIQTDPKNCEYVIISG 65 (259)
Q Consensus 3 F~iwC~~C~~~I~kG-vRFNAeKk~vg-~Y~st~I~~F~mkC~~C~~~i~ikTDPkn~dYvv~~G 65 (259)
|.-.|.+|+..|+-+ ....| .| .||.++ =-++|..|...|. +..|....|
T Consensus 1 fa~~C~~C~~~I~~~~~~v~a----~~~~wH~~~---~CF~C~~C~~~L~------~~~f~~~~g 52 (65)
T 2iyb_E 1 HAVVCQGCHNAIDPEVQRVTY----NNFSWHAST---ECFLCSCCSKCLI------GQKFMPVEG 52 (65)
T ss_dssp -CEECTTTSSEECTTSCEEEE----TTEEEETTT---TTSBCTTTCCBCT------TSCCEEETT
T ss_pred CcCCCcCCCCeeccCceEEEE----CCCccCCCC---CCEECCCCCCcCC------CCceEEECC
Confidence 678999999999964 32222 13 222000 1168999998883 344555444
No 6
>2k5c_A Uncharacterized protein PF0385; structural genomics, PSI-2, protein structure initiative, northeast structural genomics consortium, NESG; NMR {Pyrococcus furiosus}
Probab=59.03 E-value=3.3 Score=31.59 Aligned_cols=24 Identities=25% Similarity=0.535 Sum_probs=18.5
Q ss_pred eeEEEEEEcCCCCceeEEecCCCC
Q 025008 34 KIWSFTMKSPCCKHQIVIQTDPKN 57 (259)
Q Consensus 34 ~I~~F~mkC~~C~~~i~ikTDPkn 57 (259)
.+=+|.+|||.|+-+|.=++=|.+
T Consensus 46 ~~e~F~FkCP~CgEEFyG~~Lp~~ 69 (95)
T 2k5c_A 46 QVEEFVFKCPVCGEEFYGKTLPRR 69 (95)
T ss_dssp HHHHSEEECTTTCCEEETTSSCTT
T ss_pred HHHHHhhcCCCccHHHhcccCChH
Confidence 355799999999999986655543
No 7
>1twf_J DNA-directed RNA polymerases I, II, and III 8.3 K polypeptide; transcription, mRNA, multiprotein complex; HET: UTP; 2.30A {Saccharomyces cerevisiae} SCOP: a.4.11.1 PDB: 1i3q_J 1i6h_J 1k83_J* 1nik_J 1nt9_J 1pqv_J 1r5u_J 1r9s_J* 1r9t_J* 1sfo_J* 1twa_J* 1twc_J* 1i50_J* 1twg_J* 1twh_J* 1wcm_J 1y1v_J 1y1w_J 1y1y_J 1y77_J* ...
Probab=58.44 E-value=3.5 Score=30.30 Aligned_cols=15 Identities=20% Similarity=0.585 Sum_probs=12.7
Q ss_pred CCcceecCCCCcccc
Q 025008 1 MPFNIWCGGCNSMIA 15 (259)
Q Consensus 1 mPF~iwC~~C~~~I~ 15 (259)
|=|.|+|-+||..|+
T Consensus 1 MiiPVRCFTCGkvi~ 15 (70)
T 1twf_J 1 MIVPVRCFSCGKVVG 15 (70)
T ss_dssp CCCCSBCTTTCCBCT
T ss_pred CCCCeecCCCCCChH
Confidence 668899999998875
No 8
>1pft_A TFIIB, PFTFIIBN; N-terminal domain, transcription initiation factor; NMR {Pyrococcus furiosus} SCOP: g.41.3.1
Probab=54.53 E-value=3.9 Score=27.10 Aligned_cols=26 Identities=23% Similarity=0.377 Sum_probs=18.9
Q ss_pred EEcCCCCceeEEecCCCCCCeeeecCc
Q 025008 40 MKSPCCKHQIVIQTDPKNCEYVIISGA 66 (259)
Q Consensus 40 mkC~~C~~~i~ikTDPkn~dYvv~~Ga 66 (259)
++||.|++. .+..||...++|+..=+
T Consensus 6 ~~CP~C~~~-~l~~d~~~gelvC~~CG 31 (50)
T 1pft_A 6 KVCPACESA-ELIYDPERGEIVCAKCG 31 (50)
T ss_dssp CSCTTTSCC-CEEEETTTTEEEESSSC
T ss_pred EeCcCCCCc-ceEEcCCCCeEECcccC
Confidence 379999883 45568998888876543
No 9
>2cu8_A Cysteine-rich protein 2; CRP2, CRIP2, ESP1 protein, zinc-binding, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3
Probab=52.36 E-value=11 Score=26.12 Aligned_cols=39 Identities=13% Similarity=0.405 Sum_probs=26.6
Q ss_pred cceecCCCCccccccccccceeeccC-ceeeeeeEEEEEEcCCCCceeE
Q 025008 3 FNIWCGGCNSMIAKGVRFNAEKKQVG-NYYSTKIWSFTMKSPCCKHQIV 50 (259)
Q Consensus 3 F~iwC~~C~~~I~kGvRFNAeKk~vg-~Y~st~I~~F~mkC~~C~~~i~ 50 (259)
|...|.+|+..|+-|...+| .| .||.. -++|..|...|.
T Consensus 8 ~~~~C~~C~~~I~~~~~v~a----~~~~~H~~-----CF~C~~C~~~L~ 47 (76)
T 2cu8_A 8 MASKCPKCDKTVYFAEKVSS----LGKDWHKF-----CLKCERCSKTLT 47 (76)
T ss_dssp CCCBCTTTCCBCCTTTEEEE----TTEEEETT-----TCBCSSSCCBCC
T ss_pred CCCCCcCCCCEeECCeEEEE----CCeEeeCC-----CCCCCCCCCccC
Confidence 56789999999997765443 23 23321 357889988875
No 10
>1x61_A Thyroid receptor interacting protein 6; LIM domain, OPA-interacting protein 1, zyxin related protein 1 (ZRP-1), structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3
Probab=50.49 E-value=6.5 Score=26.98 Aligned_cols=49 Identities=16% Similarity=0.361 Sum_probs=30.7
Q ss_pred CcceecCCCCccccc-cccccceeeccC-ceeeeeeEEEEEEcCCCCceeEEecCCCCCCeeeecC
Q 025008 2 PFNIWCGGCNSMIAK-GVRFNAEKKQVG-NYYSTKIWSFTMKSPCCKHQIVIQTDPKNCEYVIISG 65 (259)
Q Consensus 2 PF~iwC~~C~~~I~k-GvRFNAeKk~vg-~Y~st~I~~F~mkC~~C~~~i~ikTDPkn~dYvv~~G 65 (259)
+|...|.+|+..|+- +....| .| .||.. -++|..|...|. ...|....|
T Consensus 3 ~~~~~C~~C~~~I~~~~~~~~a----~~~~~H~~-----CF~C~~C~~~L~------~~~~~~~~~ 53 (72)
T 1x61_A 3 SGSSGCGGCGEDVVGDGAGVVA----LDRVFHVG-----CFVCSTCRAQLR------GQHFYAVER 53 (72)
T ss_dssp SCCCCCSSSCSCCCSSSCCEEC----SSSEECTT-----TCBCSSSCCBCT------TSCEEESSS
T ss_pred CCCCCCccCCCccCCCceEEEE----CCCeEccc-----CCcccccCCcCC------cCcCEeeCC
Confidence 577899999999985 333333 23 33322 357899998883 344655544
No 11
>1x68_A FHL5 protein; four-and-A-half LIM protein 5, zinc finger domain, AN actin- interacting protein, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3
Probab=48.15 E-value=8 Score=27.01 Aligned_cols=49 Identities=14% Similarity=0.177 Sum_probs=29.3
Q ss_pred cceecCCCCccccc-cccccceeec-cC-ceeeeeeEEEEEEcCCCCceeEEecCCCCCCeeeecC
Q 025008 3 FNIWCGGCNSMIAK-GVRFNAEKKQ-VG-NYYSTKIWSFTMKSPCCKHQIVIQTDPKNCEYVIISG 65 (259)
Q Consensus 3 F~iwC~~C~~~I~k-GvRFNAeKk~-vg-~Y~st~I~~F~mkC~~C~~~i~ikTDPkn~dYvv~~G 65 (259)
|...|.+|+..|+- | .++.-. .| .||.. -++|..|...|. +..|.+..|
T Consensus 4 ~~~~C~~C~~~I~~~g---~~~~~~a~~~~wH~~-----CF~C~~C~~~L~------~~~f~~~~g 55 (76)
T 1x68_A 4 GSSGCVACSKPISGLT---GAKFICFQDSQWHSE-----CFNCGKCSVSLV------GKGFLTQNK 55 (76)
T ss_dssp CCCCCTTTCCCCCTTT---TCCEEEETTEEEEGG-----GCBCTTTCCBCS------SSCEEEETT
T ss_pred cCCCCccCCCcccCCC---CceeEEECCcccCcc-----cCChhhCCCcCC------CCceEeECC
Confidence 67899999999983 2 111111 13 23321 367899988874 445665554
No 12
>1tot_A CREB-binding protein; zinc binding, CBP, TAZ2, transferase; NMR {Mus musculus} SCOP: g.44.1.6
Probab=46.34 E-value=7.1 Score=26.57 Aligned_cols=17 Identities=24% Similarity=0.632 Sum_probs=12.2
Q ss_pred CcceecCCCCccccccccc
Q 025008 2 PFNIWCGGCNSMIAKGVRF 20 (259)
Q Consensus 2 PF~iwC~~C~~~I~kGvRF 20 (259)
.|.+.|++|+..| |+||
T Consensus 4 ~~~~~Cd~C~~~i--g~R~ 20 (52)
T 1tot_A 4 RFVYTCNECKHHV--ETRW 20 (52)
T ss_dssp SSCEEETTTTEEE--SSEE
T ss_pred cCEEECCCCCCCC--cceE
Confidence 4678899999775 5443
No 13
>2l9z_A PR domain zinc finger protein 4; zinc-binding domain, transcription; NMR {Homo sapiens}
Probab=45.80 E-value=4.7 Score=26.44 Aligned_cols=11 Identities=45% Similarity=1.346 Sum_probs=9.5
Q ss_pred cceecCCCCcc
Q 025008 3 FNIWCGGCNSM 13 (259)
Q Consensus 3 F~iwC~~C~~~ 13 (259)
|.+||.-|+++
T Consensus 10 ~yl~CE~C~~~ 20 (39)
T 2l9z_A 10 FTIWCTLCDRA 20 (39)
T ss_dssp CSEEEGGGTEE
T ss_pred hhhHHHHHhhh
Confidence 67999999976
No 14
>2ehe_A Four and A half LIM domains 3; FHL-3, skeletal muscle LIM- protein 2, SLIM 2, FHL3, SLIM2, structural genomics, NPPSFA; NMR {Homo sapiens}
Probab=45.65 E-value=9.3 Score=26.92 Aligned_cols=48 Identities=10% Similarity=0.319 Sum_probs=29.3
Q ss_pred cceecCCCCccccc-cccccceeeccC-ceeeeeeEEEEEEcCCCCceeEEecCCCCCCeeeecC
Q 025008 3 FNIWCGGCNSMIAK-GVRFNAEKKQVG-NYYSTKIWSFTMKSPCCKHQIVIQTDPKNCEYVIISG 65 (259)
Q Consensus 3 F~iwC~~C~~~I~k-GvRFNAeKk~vg-~Y~st~I~~F~mkC~~C~~~i~ikTDPkn~dYvv~~G 65 (259)
|...|.+|+..|+- |....| .| .||.. -++|..|...|. +..|.+..|
T Consensus 14 ~~~~C~~C~~~I~~~~~~~~a----~~~~~H~~-----CF~C~~C~~~L~------~~~f~~~~~ 63 (82)
T 2ehe_A 14 FANTCAECQQLIGHDSRELFY----EDRHFHEG-----CFRCCRCQRSLA------DEPFTCQDS 63 (82)
T ss_dssp CSCBCTTTCCBCCSSCCBCCC----SSCCCBTT-----TSBCTTTCCBCS------SCCEEEETT
T ss_pred cCCcCccCCCccccCcEEEEe----CCcccccc-----CCeecCCCCccC------CCccEeeCC
Confidence 67799999999983 322222 23 34432 357888988875 334655544
No 15
>2kdx_A HYPA, hydrogenase/urease nickel incorporation protein HYPA; metallochaperone, metal-binding, metal- binding protein; NMR {Helicobacter pylori}
Probab=41.65 E-value=7.7 Score=30.15 Aligned_cols=11 Identities=18% Similarity=0.655 Sum_probs=6.5
Q ss_pred CcceecCCCCc
Q 025008 2 PFNIWCGGCNS 12 (259)
Q Consensus 2 PF~iwC~~C~~ 12 (259)
|--.||..||.
T Consensus 71 p~~~~C~~CG~ 81 (119)
T 2kdx_A 71 KVELECKDCSH 81 (119)
T ss_dssp CCEEECSSSSC
T ss_pred cceEEcCCCCC
Confidence 44566666654
No 16
>1dl6_A Transcription factor II B (TFIIB); zinc ribbon, gene regulation; NMR {Homo sapiens} SCOP: g.41.3.1 PDB: 1rly_A 1ro4_A
Probab=40.57 E-value=9.2 Score=26.50 Aligned_cols=24 Identities=13% Similarity=0.213 Sum_probs=18.0
Q ss_pred EEcCCCCceeEEecCCCCCCeeeec
Q 025008 40 MKSPCCKHQIVIQTDPKNCEYVIIS 64 (259)
Q Consensus 40 mkC~~C~~~i~ikTDPkn~dYvv~~ 64 (259)
++||.|++.= |-+|+...++|+..
T Consensus 12 ~~Cp~C~~~~-lv~D~~~ge~vC~~ 35 (58)
T 1dl6_A 12 VTCPNHPDAI-LVEDYRAGDMICPE 35 (58)
T ss_dssp CSBTTBSSSC-CEECSSSCCEECTT
T ss_pred ccCcCCCCCc-eeEeCCCCeEEeCC
Confidence 4799998832 55699988888764
No 17
>2k4x_A 30S ribosomal protein S27AE; metal-binding, ribonucleoprotein, zinc, zinc-finger, structural genomics, PSI-2; NMR {Thermoplasma acidophilum} SCOP: g.41.8.8
Probab=40.27 E-value=16 Score=25.18 Aligned_cols=27 Identities=11% Similarity=0.260 Sum_probs=19.3
Q ss_pred eecCCCCccccccccccceeeccCceeeeeeEEEEEEcCCCCce
Q 025008 5 IWCGGCNSMIAKGVRFNAEKKQVGNYYSTKIWSFTMKSPCCKHQ 48 (259)
Q Consensus 5 iwC~~C~~~I~kGvRFNAeKk~vg~Y~st~I~~F~mkC~~C~~~ 48 (259)
-.|..||+.+.+...|| ++.|..|+-.
T Consensus 19 ~fCPkCG~~~~ma~~~d-----------------r~~C~kCgyt 45 (55)
T 2k4x_A 19 RFCPRCGPGVFLAEHAD-----------------RYSCGRCGYT 45 (55)
T ss_dssp CCCTTTTTTCCCEECSS-----------------EEECTTTCCC
T ss_pred ccCcCCCCceeEeccCC-----------------EEECCCCCCE
Confidence 45888988776665554 6788888655
No 18
>3flo_B DNA polymerase alpha catalytic subunit A; protein-protein complex, phosphoesterase fold, OB fold, zinc motif, DNA replication, nucleus; HET: DNA; 2.50A {Saccharomyces cerevisiae}
Probab=40.17 E-value=17 Score=31.38 Aligned_cols=29 Identities=17% Similarity=0.385 Sum_probs=16.1
Q ss_pred EEEEEcCCCCceeEEecCCCCCCe-eeecC
Q 025008 37 SFTMKSPCCKHQIVIQTDPKNCEY-VIISG 65 (259)
Q Consensus 37 ~F~mkC~~C~~~i~ikTDPkn~dY-vv~~G 65 (259)
.|.++|+.|+.+++|.......++ +..+|
T Consensus 20 ~l~l~Cp~C~~~~~F~gv~~~~~~~~~~sg 49 (206)
T 3flo_B 20 TLELSCPSCDKRFPFGGIVSSNYYRVSYNG 49 (206)
T ss_dssp CEEEECTTTCCEEEECSSSCCSSEEEETTE
T ss_pred eeEEECCCCCCccCCCCcccCCCccccccc
Confidence 466666666666666655444444 33344
No 19
>2cur_A Skeletal muscle LIM-protein 1; four and A half LIM domains protein 1, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3
Probab=38.96 E-value=10 Score=25.85 Aligned_cols=47 Identities=11% Similarity=0.231 Sum_probs=28.4
Q ss_pred cceecCCCCccccccccccceeeccC-ceeeeeeEEEEEEcCCCCceeEEecCCCCCCeeeecC
Q 025008 3 FNIWCGGCNSMIAKGVRFNAEKKQVG-NYYSTKIWSFTMKSPCCKHQIVIQTDPKNCEYVIISG 65 (259)
Q Consensus 3 F~iwC~~C~~~I~kGvRFNAeKk~vg-~Y~st~I~~F~mkC~~C~~~i~ikTDPkn~dYvv~~G 65 (259)
|...|.+|+..|+ |....| .| .|+.. -++|..|...|. ...|.+..|
T Consensus 4 ~~~~C~~C~~~I~-~~~~~a----~~~~~H~~-----CF~C~~C~~~L~------~~~~~~~~~ 51 (69)
T 2cur_A 4 GSSGCVKCNKAIT-SGGITY----QDQPWHAD-----CFVCVTCSKKLA------GQRFTAVED 51 (69)
T ss_dssp CCCCCSSSCCCCC-TTCEEE----TTEEECTT-----TTBCTTTCCBCT------TSCEEECSS
T ss_pred CcCCCcccCCEeC-cceEEE----CccccccC-----cCEECCCCCCCC------CCccEeECC
Confidence 5678999999997 422222 23 23321 357899988875 334655444
No 20
>1ef4_A Subunit N, DNA-directed RNA polymerase; three helix bundle, zinc binding, structural genomics, PSI; NMR {Methanothermobacterthermautotrophicus} SCOP: a.4.11.1
Probab=36.80 E-value=8.9 Score=26.87 Aligned_cols=13 Identities=15% Similarity=0.588 Sum_probs=9.2
Q ss_pred cceecCCCCcccc
Q 025008 3 FNIWCGGCNSMIA 15 (259)
Q Consensus 3 F~iwC~~C~~~I~ 15 (259)
+.|+|-+||..|+
T Consensus 2 iPVRCFTCGkvi~ 14 (55)
T 1ef4_A 2 IPVRCLSCGKPVS 14 (55)
T ss_dssp CSSSCSCTTSCCH
T ss_pred CCeecCCCCCChh
Confidence 4678888887664
No 21
>1x0t_A Ribonuclease P protein component 4; pyrococcus horikoshii OT3, hydrolase; 1.60A {Pyrococcus horikoshii} PDB: 2zae_B
Probab=34.12 E-value=48 Score=25.93 Aligned_cols=45 Identities=16% Similarity=0.285 Sum_probs=29.5
Q ss_pred eecCCCCccccccccccceeeccC-ceeeeeeEEEEEEcCCCCceeEEecCCC
Q 025008 5 IWCGGCNSMIAKGVRFNAEKKQVG-NYYSTKIWSFTMKSPCCKHQIVIQTDPK 56 (259)
Q Consensus 5 iwC~~C~~~I~kGvRFNAeKk~vg-~Y~st~I~~F~mkC~~C~~~i~ikTDPk 56 (259)
.+|..|+.++-=|+ |+.-+..+ .+ | ...+.|..|++.-.|..+++
T Consensus 66 ~~Ck~C~s~LiPG~--t~~vri~~~~~---~--~vv~tCl~Cg~~kR~p~~~~ 111 (120)
T 1x0t_A 66 RYCKRCHTFLIPGV--NARVRLRTKRM---P--HVVITCLECGYIMRYPYLRE 111 (120)
T ss_dssp SBCTTTCCBCCBTT--TEEEEEECSSS---C--EEEEEETTTCCEEEEECC--
T ss_pred HhccCCCCEeECCC--ceEEEEecCCc---c--EEEEECCCCCCEEEEccCcc
Confidence 37999999877775 55332222 11 2 36779999999888876653
No 22
>2k3r_A Ribonuclease P protein component 4; PFU RPP21, RNAse P, hydrolase, tRNA processing; NMR {Pyrococcus furiosus} PDB: 2ki7_B
Probab=34.03 E-value=50 Score=26.03 Aligned_cols=46 Identities=17% Similarity=0.330 Sum_probs=30.2
Q ss_pred eecCCCCccccccccccceeeccC-ceeeeeeEEEEEEcCCCCceeEEecCCCC
Q 025008 5 IWCGGCNSMIAKGVRFNAEKKQVG-NYYSTKIWSFTMKSPCCKHQIVIQTDPKN 57 (259)
Q Consensus 5 iwC~~C~~~I~kGvRFNAeKk~vg-~Y~st~I~~F~mkC~~C~~~i~ikTDPkn 57 (259)
.+|..|+.++-=| .|+.-+..+ .+ + ...++|..|++.-.|..+|+-
T Consensus 61 ~~Ck~C~s~LIPG--~t~~vri~~~~k---~--~vv~tCl~Cg~~kR~p~~~~~ 107 (123)
T 2k3r_A 61 RYCKKCHAFLVPG--INARVRLRQKRM---P--HIVVKCLECGHIMRYPYIKEI 107 (123)
T ss_dssp SBCTTTCCBCCBT--TTEEEEEECSSS---C--EEEEEETTTTEEEEEECCC--
T ss_pred HhccCCCCEeECC--CceEEEEecCCc---c--EEEEECCCCCCEEEEecCccH
Confidence 3799999987767 344332222 11 2 267799999999888887653
No 23
>1x64_A Alpha-actinin-2 associated LIM protein; LIM domain, PDZ and LIM domain 3, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: g.39.1.3 g.39.1.3
Probab=33.09 E-value=16 Score=26.22 Aligned_cols=40 Identities=20% Similarity=0.327 Sum_probs=24.2
Q ss_pred CcceecCCCCccccccccccceeeccCceeeeeeEEEEEEcCCCCceeE
Q 025008 2 PFNIWCGGCNSMIAKGVRFNAEKKQVGNYYSTKIWSFTMKSPCCKHQIV 50 (259)
Q Consensus 2 PF~iwC~~C~~~I~kGvRFNAeKk~vg~Y~st~I~~F~mkC~~C~~~i~ 50 (259)
+..-.|.+|+..|+ |....| .|.+|-.. -++|..|...|.
T Consensus 23 ~~~~~C~~C~~~I~-~~~~~a----~~~~~H~~----CF~C~~C~~~L~ 62 (89)
T 1x64_A 23 QRMPLCDKCGSGIV-GAVVKA----RDKYRHPE----CFVCADCNLNLK 62 (89)
T ss_dssp CSCCBCTTTCCBCC-SCCEES----SSCEECTT----TCCCSSSCCCTT
T ss_pred CcCCCcccCCCEec-ccEEEE----CCceECcc----CCEecCCCCCCC
Confidence 45678999999998 422222 23322211 357888888774
No 24
>1twf_L ABC10-alpha, DNA-directed RNA polymerases I, II, and III 7.7 K polypeptide; transcription, mRNA, multiprotein complex; HET: UTP; 2.30A {Saccharomyces cerevisiae} SCOP: g.41.9.2 PDB: 1i3q_L 1i6h_L 1k83_L* 1nik_L 1nt9_L 1pqv_L 1r5u_L 1r9s_L* 1r9t_L* 1sfo_L* 1twa_L* 1twc_L* 1i50_L* 1twg_L* 1twh_L* 1wcm_L 1y1v_L 1y1w_L 1y1y_L 1y77_L* ...
Probab=32.42 E-value=11 Score=27.33 Aligned_cols=15 Identities=20% Similarity=0.609 Sum_probs=6.8
Q ss_pred EcCCCCceeEEecCC
Q 025008 41 KSPCCKHQIVIQTDP 55 (259)
Q Consensus 41 kC~~C~~~i~ikTDP 55 (259)
+|+.|+..|-++.-|
T Consensus 47 rCp~CG~RILyK~R~ 61 (70)
T 1twf_L 47 RCKDCGHRILLKART 61 (70)
T ss_dssp CCSSSCCCCCBCCCC
T ss_pred cCCCCCceEeEecCC
Confidence 444444444444433
No 25
>4ayb_N DNA-directed RNA polymerase; transferase, multi-subunit, transcription; 3.20A {Sulfolobus shibatae} PDB: 2wb1_N 2y0s_N 2waq_N 4b1o_N 4b1p_O 2pmz_N 3hkz_N
Probab=31.90 E-value=15 Score=26.60 Aligned_cols=15 Identities=47% Similarity=0.731 Sum_probs=12.0
Q ss_pred CCcceecCCCCcccc
Q 025008 1 MPFNIWCGGCNSMIA 15 (259)
Q Consensus 1 mPF~iwC~~C~~~I~ 15 (259)
|=..|+|-+||..||
T Consensus 1 MiIPVRCFTCGkvi~ 15 (66)
T 4ayb_N 1 MMIPIRCFTCGSLIA 15 (66)
T ss_dssp CCCCSBCTTTCCBCH
T ss_pred CCCCcccCCCcHhHH
Confidence 456799999998884
No 26
>2d8z_A Four and A half LIM domains 2; skeletal muscle LIM-protein 3, LIM-domain protein DRAL, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3
Probab=30.38 E-value=17 Score=24.62 Aligned_cols=38 Identities=13% Similarity=0.224 Sum_probs=23.9
Q ss_pred CcceecCCCCccccccccccceeeccCc-eeeeeeEEEEEEcCCCCcee
Q 025008 2 PFNIWCGGCNSMIAKGVRFNAEKKQVGN-YYSTKIWSFTMKSPCCKHQI 49 (259)
Q Consensus 2 PF~iwC~~C~~~I~kGvRFNAeKk~vg~-Y~st~I~~F~mkC~~C~~~i 49 (259)
.|...|.+|+..|. +....| .|. ||.. -++|..|...|
T Consensus 3 ~~~~~C~~C~~~I~-~~~~~a----~~~~~H~~-----CF~C~~C~~~L 41 (70)
T 2d8z_A 3 SGSSGCVQCKKPIT-TGGVTY----REQPWHKE-----CFVCTACRKQL 41 (70)
T ss_dssp CCCCBCSSSCCBCC-SSEEES----SSSEEETT-----TSBCSSSCCBC
T ss_pred CCCCCCcccCCeec-cceEEE----CccccCCC-----CCccCCCCCcC
Confidence 36778999999997 322222 232 3321 35788898887
No 27
>1x3h_A Leupaxin; paxillin family, protein-protein interaction, LIM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3
Probab=29.08 E-value=23 Score=24.60 Aligned_cols=38 Identities=18% Similarity=0.393 Sum_probs=23.1
Q ss_pred cceecCCCCccccccccccceeeccC-ceeeeeeEEEEEEcCCCCceeE
Q 025008 3 FNIWCGGCNSMIAKGVRFNAEKKQVG-NYYSTKIWSFTMKSPCCKHQIV 50 (259)
Q Consensus 3 F~iwC~~C~~~I~kGvRFNAeKk~vg-~Y~st~I~~F~mkC~~C~~~i~ 50 (259)
|...|.+|+..|+- ... ...| .||.. -++|..|...|.
T Consensus 14 ~~~~C~~C~~~I~~-~~v----~a~~~~~H~~-----CF~C~~C~~~L~ 52 (80)
T 1x3h_A 14 FSPKCGGCNRPVLE-NYL----SAMDTVWHPE-----CFVCGDCFTSFS 52 (80)
T ss_dssp CSCBCTTTCCBCCS-SCE----EETTEEECTT-----TCBCSSSCCBSC
T ss_pred cCCccccCCCeecc-eeE----EECCCeEecC-----cCChhhCCCCCC
Confidence 56789999999973 111 1123 23321 357888888874
No 28
>2l4z_A DNA endonuclease RBBP8, LIM domain transcription LMO4; protein-protein interaction, LIM-interaction DOM LMO4, RBBP8/CTIP, LIM-only protein; HET: DNA; NMR {Homo sapiens}
Probab=28.38 E-value=13 Score=28.95 Aligned_cols=39 Identities=26% Similarity=0.430 Sum_probs=25.4
Q ss_pred cceecCCCCccccccccccceeeccCc-eeeeeeEEEEEEcCCCCceeE
Q 025008 3 FNIWCGGCNSMIAKGVRFNAEKKQVGN-YYSTKIWSFTMKSPCCKHQIV 50 (259)
Q Consensus 3 F~iwC~~C~~~I~kGvRFNAeKk~vg~-Y~st~I~~F~mkC~~C~~~i~ 50 (259)
|.-.|.+|+..|+-+....| .|. ||. =-++|..|...|.
T Consensus 60 ~~~~C~~C~~~I~~~~~v~a----~~~~wH~-----~CF~C~~C~~~L~ 99 (123)
T 2l4z_A 60 SWKRCAGCGGKIADRFLLYA----MDSYWHS-----RCLKCSSCQAQLG 99 (123)
T ss_dssp SCSBBSSSSSBCCSSSEEEE----TTEEEET-----TTSBCTTTCCBGG
T ss_pred cCCcCcCCCCCcCCcEEEEe----CCcEEcc-----cccCcCcCCCccc
Confidence 56789999999985433333 232 222 1368899988875
No 29
>3lti_A DNA-directed RNA polymerase subunit beta; BBM2, nucleotidyltransferase, transcription, transferase; HET: MLY MSE; 1.60A {Escherichia coli} PDB: 3e7h_A
Probab=26.08 E-value=55 Score=29.86 Aligned_cols=55 Identities=18% Similarity=0.309 Sum_probs=34.1
Q ss_pred ccccccccccceeeccCceeeeeeEEEEEEcCCCCceeEEecCCCCCCeeeecCccc
Q 025008 12 SMIAKGVRFNAEKKQVGNYYSTKIWSFTMKSPCCKHQIVIQTDPKNCEYVIISGAQR 68 (259)
Q Consensus 12 ~~I~kGvRFNAeKk~vg~Y~st~I~~F~mkC~~C~~~i~ikTDPkn~dYvv~~GarR 68 (259)
..+.=||=|+.++.+.. --+.++|+.++- |..++|++|.||+++.-||-+..-|+
T Consensus 2 ~~~SPGv~f~~~~~~th-s~g~~~y~~~iI-P~RGsWlefe~d~~d~~~vrIdr~rK 56 (296)
T 3lti_A 2 HPMSPGVFFDSDKGKTH-SSGKVLYNARII-PYRGSWLDFEFDPKDNLFVRIDRRRK 56 (296)
T ss_dssp --CCCEEEEEEC----------CCEEEEEE-CSBSCCEEEEECTTSCEEEEETTCCC
T ss_pred CCCCCEEEEecccCCcC-CCCcEEEEEEEe-cCCCceEEEEEcCCCeEEEEEcCccc
Confidence 34556888888765420 002345665554 66899999999999999999975443
No 30
>1ltl_A DNA replication initiator (CDC21/CDC54); HET: DNA; 3.00A {Methanothermobacterthermautotrophicus} SCOP: b.40.4.11
Probab=25.90 E-value=20 Score=31.57 Aligned_cols=43 Identities=16% Similarity=0.247 Sum_probs=24.8
Q ss_pred eecCCCCccccccccccceeeccCceeeeeeEEEEEEcCCCCceeEEecCCCCCCee
Q 025008 5 IWCGGCNSMIAKGVRFNAEKKQVGNYYSTKIWSFTMKSPCCKHQIVIQTDPKNCEYV 61 (259)
Q Consensus 5 iwC~~C~~~I~kGvRFNAeKk~vg~Y~st~I~~F~mkC~~C~~~i~ikTDPkn~dYv 61 (259)
..|..|+..++.-.. +.-|+.| ..|+.|.+.= |.+++..+.|+
T Consensus 135 f~C~~C~~~~~v~~~--------~~~~~~P-----~~Cp~C~~~~-f~l~~~~s~f~ 177 (279)
T 1ltl_A 135 FECRGCMRHHAVTQS--------TNMITEP-----SLCSECGGRS-FRLLQDESEFL 177 (279)
T ss_dssp EEETTTCCEEEEECS--------SSSCCCC-----SCCTTTCCCC-EEECGGGCEEE
T ss_pred EEcCCCCCEEEEEec--------CCcccCC-----CcCCCCCCCC-cEEeccccEEE
Confidence 479999854322111 2223445 3799999864 55666555554
No 31
>2i5o_A DNA polymerase ETA; zinc finger, DNA polymerase,POL ETA, UBZ, ubiquitin-binding zinc finger, translesion synthesis, ubiquitin-binding domain; HET: DNA; NMR {Homo sapiens}
Probab=25.30 E-value=5.4 Score=25.93 Aligned_cols=23 Identities=13% Similarity=0.294 Sum_probs=14.5
Q ss_pred EEEEcCCCCceeEEecCCCCCCe
Q 025008 38 FTMKSPCCKHQIVIQTDPKNCEY 60 (259)
Q Consensus 38 F~mkC~~C~~~i~ikTDPkn~dY 60 (259)
+...|+.|+..|.+.-=+++.||
T Consensus 8 ~~~~C~~C~~~i~~~~~~EH~D~ 30 (39)
T 2i5o_A 8 DQVPCEKCGSLVPVWDMPEHMDY 30 (39)
T ss_dssp CEEECTTTCCEEEGGGHHHHHHH
T ss_pred CCcccccccCcCCcccccchhhH
Confidence 34579999988886433444444
No 32
>1iml_A CRIP, cysteine rich intestinal protein; metal-binding protein, LIM domain protein; NMR {Rattus rattus} SCOP: g.39.1.3 g.39.1.3
Probab=25.11 E-value=20 Score=24.85 Aligned_cols=36 Identities=17% Similarity=0.405 Sum_probs=24.2
Q ss_pred ecCCCCccccccccccceeeccC-ceeeeeeEEEEEEcCCCCceeE
Q 025008 6 WCGGCNSMIAKGVRFNAEKKQVG-NYYSTKIWSFTMKSPCCKHQIV 50 (259)
Q Consensus 6 wC~~C~~~I~kGvRFNAeKk~vg-~Y~st~I~~F~mkC~~C~~~i~ 50 (259)
.|.+|+..|+-|....|. | .|+.. -++|..|...|.
T Consensus 2 ~C~~C~~~I~~~~~v~a~----~~~~H~~-----CF~C~~C~~~L~ 38 (76)
T 1iml_A 2 KCPKCDKEVYFAERVTSL----GKDWHRP-----CLKCEKCGKTLT 38 (76)
T ss_dssp BCTTTSSBCCGGGEEEET----TEEEETT-----TCBCTTTCCBCC
T ss_pred cCCCCCCEEECceEEEEC----CccccCC-----CCCccccCccCC
Confidence 599999999877655442 4 23321 357888888775
No 33
>2czr_A TBP-interacting protein; tata-binding protein (TBP), hyperthermophilic archaeon, Zn-finger motif, transcription; 2.30A {Thermococcus kodakarensis} SCOP: c.52.4.1
Probab=23.50 E-value=39 Score=29.30 Aligned_cols=19 Identities=26% Similarity=0.595 Sum_probs=15.2
Q ss_pred eeEEEEEEcCCCCceeEEec
Q 025008 34 KIWSFTMKSPCCKHQIVIQT 53 (259)
Q Consensus 34 ~I~~F~mkC~~C~~~i~ikT 53 (259)
-.|.|| ||-.|+..+-|..
T Consensus 150 vFWQFY-KCe~CgKYvDId~ 168 (226)
T 2czr_A 150 IFWQFY-KCEECGKYVDIEN 168 (226)
T ss_dssp EEEEEE-ECTTTCCEEEGGG
T ss_pred EEEEEE-ehhhcCceecHHH
Confidence 368887 8999999887754
No 34
>2dar_A PDZ and LIM domain protein 5; enigma homolog protein, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3
Probab=23.31 E-value=32 Score=24.61 Aligned_cols=38 Identities=24% Similarity=0.526 Sum_probs=23.7
Q ss_pred cceecCCCCccccccccccceeeccCc-eeeeeeEEEEEEcCCCCceeE
Q 025008 3 FNIWCGGCNSMIAKGVRFNAEKKQVGN-YYSTKIWSFTMKSPCCKHQIV 50 (259)
Q Consensus 3 F~iwC~~C~~~I~kGvRFNAeKk~vg~-Y~st~I~~F~mkC~~C~~~i~ 50 (259)
+...|.+|+..|. |....| .|. ||-. -++|..|...|.
T Consensus 24 ~~~~C~~C~~~I~-~~~v~a----~~~~~H~~-----CF~C~~C~~~L~ 62 (90)
T 2dar_A 24 RTPMCAHCNQVIR-GPFLVA----LGKSWHPE-----EFNCAHCKNTMA 62 (90)
T ss_dssp CCCBBSSSCCBCC-SCEEEE----TTEEECTT-----TCBCSSSCCBCS
T ss_pred CCCCCccCCCEec-ceEEEE----CCcccccc-----CCccCCCCCCCC
Confidence 4567999999994 433322 232 3221 367888888876
No 35
>1v9x_A Poly (ADP-ribose) polymerase; PARP, DNA repair, inflammation, cell death, structural genomics; NMR {Arabidopsis thaliana}
Probab=22.70 E-value=35 Score=26.76 Aligned_cols=13 Identities=38% Similarity=0.667 Sum_probs=11.8
Q ss_pred ecCCCCccccccc
Q 025008 6 WCGGCNSMIAKGV 18 (259)
Q Consensus 6 wC~~C~~~I~kGv 18 (259)
-|.+|+..|.||.
T Consensus 22 ~Ck~Ck~kI~Kge 34 (114)
T 1v9x_A 22 SCKTCKSVINKEN 34 (114)
T ss_dssp BCSSSCCBCCSSS
T ss_pred CchhhCCccCCCC
Confidence 7999999999985
No 36
>3k7a_M Transcription initiation factor IIB; RNA polymerase II, TFIIB, DNA-binding, DNA- directed RNA polymerase, isopeptide bond, magnesium; 3.80A {Saccharomyces cerevisiae}
Probab=22.61 E-value=23 Score=32.23 Aligned_cols=28 Identities=18% Similarity=0.134 Sum_probs=21.3
Q ss_pred EEEcCCCCcee-EEecCCCCCCeeeecCc
Q 025008 39 TMKSPCCKHQI-VIQTDPKNCEYVIISGA 66 (259)
Q Consensus 39 ~mkC~~C~~~i-~ikTDPkn~dYvv~~Ga 66 (259)
.++||.|+..= .|-+|+.+.++||..=+
T Consensus 21 ~~~Cp~Cg~~~~~iv~D~~~G~~vC~~CG 49 (345)
T 3k7a_M 21 VLTCPECKVYPPKIVERFSEGDVVCALCG 49 (345)
T ss_dssp CCCCSTTCCSCCCCCCCSSSCSCCCSSSC
T ss_pred CCcCcCCCCCCCceEEECCCCCEecCCCC
Confidence 57899998852 46679999998887533
No 37
>3k1f_M Transcription initiation factor IIB; RNA polymerase II, TFIIB, transcription factor, DNA-binding, DNA-directed RNA polymerase; 4.30A {Saccharomyces cerevisiae}
Probab=22.28 E-value=17 Score=31.30 Aligned_cols=29 Identities=17% Similarity=0.141 Sum_probs=23.2
Q ss_pred EEEEcCCCCce-eEEecCCCCCCeeeecCc
Q 025008 38 FTMKSPCCKHQ-IVIQTDPKNCEYVIISGA 66 (259)
Q Consensus 38 F~mkC~~C~~~-i~ikTDPkn~dYvv~~Ga 66 (259)
..++|+.|+.. -.|-+|+...++||.+=+
T Consensus 20 ~~~~CPECGs~~t~IV~D~erGE~VCsdCG 49 (197)
T 3k1f_M 20 IVLTCPECKVYPPKIVERFSEGDVVCALCG 49 (197)
T ss_dssp CCCCCTTTCCSSCCEEEEGGGTEEEETTTC
T ss_pred cCeECcCCCCcCCeEEEeCCCCEEEEcCCC
Confidence 34589999984 458899999999998743
No 38
>3o9x_A Uncharacterized HTH-type transcriptional regulato; HTH-XRE DNA binding motif, transcriptional regulator, bacter antitoxin, Zn binding protein, transcription regulator-DNA; HET: DNA; 2.10A {Escherichia coli} PDB: 3gn5_A* 3gn5_B* 2kz8_A
Probab=22.07 E-value=15 Score=28.03 Aligned_cols=15 Identities=33% Similarity=0.660 Sum_probs=10.4
Q ss_pred EEEcCCCCce-eEEec
Q 025008 39 TMKSPCCKHQ-IVIQT 53 (259)
Q Consensus 39 ~mkC~~C~~~-i~ikT 53 (259)
.|+|+.|++. ++..+
T Consensus 2 ~M~Cp~Cg~~~~~~~~ 17 (133)
T 3o9x_A 2 HMKCPVCHQGEMVSGI 17 (133)
T ss_dssp CCBCTTTSSSBEEEEE
T ss_pred CcCCCcCCCCceeece
Confidence 4899999875 44433
No 39
>3mp2_A Non-structural protein 3; papain-like protease, TGEV, hydrolase; 2.50A {Porcine transmissible gastroenteritiscoronavirus}
Probab=21.82 E-value=49 Score=28.80 Aligned_cols=38 Identities=16% Similarity=0.370 Sum_probs=27.4
Q ss_pred cceecCCCC--ccccccccccceeeccCceeeeeeEEEEE-EcCCCCceeE
Q 025008 3 FNIWCGGCN--SMIAKGVRFNAEKKQVGNYYSTKIWSFTM-KSPCCKHQIV 50 (259)
Q Consensus 3 F~iwC~~C~--~~I~kGvRFNAeKk~vg~Y~st~I~~F~m-kC~~C~~~i~ 50 (259)
+.++|+ |+ .+...|..|++.=-+.+ |-. -|..|..+.+
T Consensus 90 ~~~~C~-Cg~~~~~~~G~v~~~~~~~~~---------~~~g~C~~c~~~~~ 130 (211)
T 3mp2_A 90 LAAKCG-CGEKEIVLERAVFKLTPLKES---------FNYGVCGDCMQVNT 130 (211)
T ss_dssp EEEEET-TEEEEEEEEESEEESCCBSSC---------EEEEECTTTCCEEE
T ss_pred EEEEEc-CCCceEEEeeeEEEEEeeecC---------CCceECCCCCceeE
Confidence 467898 97 47888988888432211 665 7999998877
No 40
>2k2d_A Ring finger and CHY zinc finger domain- containing protein 1; zinc-binding protein, cytoplasm, metal-binding, nucleus, metal binding protein; NMR {Homo sapiens}
Probab=21.60 E-value=27 Score=25.69 Aligned_cols=18 Identities=22% Similarity=0.290 Sum_probs=10.5
Q ss_pred EEEEEcCCCCceeEEecC
Q 025008 37 SFTMKSPCCKHQIVIQTD 54 (259)
Q Consensus 37 ~F~mkC~~C~~~i~ikTD 54 (259)
-|+.||+.|+.+=+-.|+
T Consensus 53 ~lg~kC~~C~SyNTr~~~ 70 (79)
T 2k2d_A 53 ILGMKCKICESYNTAQAG 70 (79)
T ss_dssp TTCCCCTTTSCCCEEESC
T ss_pred eecccCcCCCCcCeEecC
Confidence 345567777766554443
No 41
>1wg2_A Zinc finger (AN1-like) family protein; riken structural genomics/proteomics initiative, RSGI, structural genomics, DNA binding protein; NMR {Arabidopsis thaliana} SCOP: g.80.1.1
Probab=21.50 E-value=56 Score=23.38 Aligned_cols=13 Identities=31% Similarity=0.475 Sum_probs=8.6
Q ss_pred CcceecCCCCccc
Q 025008 2 PFNIWCGGCNSMI 14 (259)
Q Consensus 2 PF~iwC~~C~~~I 14 (259)
++..+|..|+..+
T Consensus 13 ~~~~rC~~C~kkv 25 (64)
T 1wg2_A 13 RPNNRCFSCNKKV 25 (64)
T ss_dssp CCSCSCTTTCCCC
T ss_pred CcCCcChhhCCcc
Confidence 3567888886543
No 42
>1faq_A RAF-1; transferase, serine/threonine-protein kinase, proto- oncogene, zinc, ATP-binding, phorbol-ester binding; NMR {Homo sapiens} SCOP: g.49.1.1 PDB: 1far_A
Probab=21.34 E-value=34 Score=22.19 Aligned_cols=15 Identities=20% Similarity=0.665 Sum_probs=12.1
Q ss_pred ceecCCCCccccccc
Q 025008 4 NIWCGGCNSMIAKGV 18 (259)
Q Consensus 4 ~iwC~~C~~~I~kGv 18 (259)
..+|..|+..|.+|.
T Consensus 14 pt~C~~C~~~l~qG~ 28 (52)
T 1faq_A 14 LAFCDICQKFLLNGF 28 (52)
T ss_dssp CEECTTSSSEECSEE
T ss_pred CcCCCCcccccccCC
Confidence 579999999987653
No 43
>4bbr_M Transcription initiation factor IIB; RNA polymerase, TFIIB; 3.40A {Saccharomyces cerevisiae} PDB: 3k7a_M 4bbs_M
Probab=20.73 E-value=20 Score=32.92 Aligned_cols=29 Identities=17% Similarity=0.178 Sum_probs=20.7
Q ss_pred EEEEEEcCCCCc-eeEEecCCCCCCeeeec
Q 025008 36 WSFTMKSPCCKH-QIVIQTDPKNCEYVIIS 64 (259)
Q Consensus 36 ~~F~mkC~~C~~-~i~ikTDPkn~dYvv~~ 64 (259)
....+.||.|++ .-.|-+|+.+.++||.+
T Consensus 18 l~~~~~Cp~C~~~~~~lv~D~~~G~~vC~~ 47 (345)
T 4bbr_M 18 LNIVLTCPECKVYPPKIVERFSEGDVVCAL 47 (345)
T ss_dssp ----CCCSSCCCSSCCEEEEGGGTEEEETT
T ss_pred cccCCcCCCCCCCCCceeEECCCCcEEeCC
Confidence 345668999997 45577899999998876
No 44
>2fc7_A ZZZ3 protein; structure genomics, ZZ domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: g.44.1.6
Probab=20.49 E-value=30 Score=25.50 Aligned_cols=24 Identities=17% Similarity=0.350 Sum_probs=17.0
Q ss_pred ceecCCCCccccccccccceeeccCceeeeeeEEEEEEcCCCCc
Q 025008 4 NIWCGGCNSMIAKGVRFNAEKKQVGNYYSTKIWSFTMKSPCCKH 47 (259)
Q Consensus 4 ~iwC~~C~~~I~kGvRFNAeKk~vg~Y~st~I~~F~mkC~~C~~ 47 (259)
.+.|.+|+.. ||.-++++|..|.+
T Consensus 21 ~~~Cd~C~~~--------------------pI~G~RykC~~C~d 44 (82)
T 2fc7_A 21 GFKCDNCGIE--------------------PIQGVRWHCQDCPP 44 (82)
T ss_dssp SCCCSSSCCS--------------------SEESCEEEESSSCS
T ss_pred cCCCCCCCCC--------------------cceeceEECCcCCC
Confidence 5678999753 56666678888865
No 45
>2d8y_A Eplin protein; LIM domain, epithelial protein LOST in neoplasm, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3
Probab=20.31 E-value=41 Score=24.10 Aligned_cols=41 Identities=15% Similarity=0.323 Sum_probs=26.2
Q ss_pred CCcceecCCCCccccccccccceeeccCc-eeeeeeEEEEEEcCCCCceeE
Q 025008 1 MPFNIWCGGCNSMIAKGVRFNAEKKQVGN-YYSTKIWSFTMKSPCCKHQIV 50 (259)
Q Consensus 1 mPF~iwC~~C~~~I~kGvRFNAeKk~vg~-Y~st~I~~F~mkC~~C~~~i~ 50 (259)
||+...|..|+..|+-+....| .|. ||.. -++|..|...|.
T Consensus 12 ~~~~~~C~~C~~~I~~~~~v~a----~~~~~H~~-----CF~C~~C~~~L~ 53 (91)
T 2d8y_A 12 APARETCVECQKTVYPMERLLA----NQQVFHIS-----CFRCSYCNNKLS 53 (91)
T ss_dssp SSSSCBCTTTCCBCCTTSEEEC----SSSEEETT-----TCBCTTTCCBCC
T ss_pred CCCCCcCccCCCccCCceeEEE----CCCEECCC-----CCeeCCCCCCCC
Confidence 4567899999999986543322 232 3221 357888888774
No 46
>1x6a_A LIMK-2, LIM domain kinase 2; LIM-kinase 2, zinc finger domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3
Probab=20.12 E-value=39 Score=23.46 Aligned_cols=38 Identities=26% Similarity=0.515 Sum_probs=25.6
Q ss_pred cceecCCCCccccccccccceeeccC-ceeeeeeEEEEEEcCCCCceeE
Q 025008 3 FNIWCGGCNSMIAKGVRFNAEKKQVG-NYYSTKIWSFTMKSPCCKHQIV 50 (259)
Q Consensus 3 F~iwC~~C~~~I~kGvRFNAeKk~vg-~Y~st~I~~F~mkC~~C~~~i~ 50 (259)
|...|.+|+..|+ |....| .| .|+.. -++|..|...|.
T Consensus 14 ~~~~C~~C~~~I~-~~~~~a----~~~~~H~~-----CF~C~~C~~~L~ 52 (81)
T 1x6a_A 14 FGEFCHGCSLLMT-GPFMVA----GEFKYHPE-----CFACMSCKVIIE 52 (81)
T ss_dssp SSCBCTTTCCBCC-SCCBCC----TTCCBCTT-----SCBCTTTCCBCC
T ss_pred cCCcCccCCCCcC-ceEEEE----CCceeccc-----cCCccCCCCccC
Confidence 6678999999999 654443 23 34422 357888988774
Done!