Query 020340
Match_columns 327
No_of_seqs 196 out of 392
Neff 3.9
Searched_HMMs 29240
Date Mon Mar 25 15:26:00 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/020340.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/020340hhsearch_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 86.6 0.51 1.7E-05 41.4 3.8 63 35-102 32-97 (164)
2 1a7i_A QCRP2 (LIM1); LIM domai 74.5 1.5 5.2E-05 32.3 2.1 40 39-88 6-45 (81)
3 3a43_A HYPD, hydrogenase nicke 67.7 0.75 2.6E-05 38.8 -1.0 51 30-86 61-116 (139)
4 1nyp_A Pinch protein; LIM doma 60.5 2.3 7.7E-05 30.0 0.5 39 39-88 4-42 (66)
5 2iyb_E Testin, TESS, TES; LIM 60.5 3.8 0.00013 29.0 1.8 38 39-87 1-42 (65)
6 1lko_A Rubrerythrin all-iron(I 57.9 2.8 9.5E-05 36.7 0.7 14 40-54 155-168 (191)
7 1x6a_A LIMK-2, LIM domain kina 55.9 4.8 0.00016 29.4 1.7 39 39-88 14-52 (81)
8 2kdx_A HYPA, hydrogenase/ureas 53.6 5.3 0.00018 32.3 1.7 23 26-49 60-82 (119)
9 4esj_A Type-2 restriction enzy 53.5 5.8 0.0002 37.2 2.1 52 39-106 33-85 (257)
10 1yuz_A Nigerythrin; rubrythrin 51.4 4.6 0.00016 35.8 1.1 13 40-53 171-183 (202)
11 1x68_A FHL5 protein; four-and- 47.4 4.6 0.00016 29.4 0.3 42 39-88 4-46 (76)
12 3fsa_A Azurin; copper, cupredo 46.4 16 0.00054 30.6 3.5 44 8-54 70-121 (125)
13 1wig_A KIAA1808 protein; LIM d 45.9 6.4 0.00022 28.6 0.9 39 39-88 4-42 (73)
14 2d8y_A Eplin protein; LIM doma 45.4 6.4 0.00022 29.6 0.9 44 35-88 10-53 (91)
15 2k5c_A Uncharacterized protein 44.7 7.2 0.00025 31.3 1.1 53 41-94 9-68 (95)
16 2egq_A FHL1 protein; LIM domai 43.9 5.6 0.00019 28.7 0.3 43 39-88 14-57 (77)
17 1dx8_A Rubredoxin; electron tr 43.1 7.8 0.00027 29.4 1.0 31 40-86 7-49 (70)
18 2cu8_A Cysteine-rich protein 2 41.3 7.2 0.00024 28.2 0.6 41 38-88 7-47 (76)
19 2ehe_A Four and A half LIM dom 41.0 10 0.00035 27.7 1.4 40 39-88 14-54 (82)
20 1x61_A Thyroid receptor intera 40.1 9.2 0.00031 27.2 1.0 40 38-87 3-43 (72)
21 1s24_A Rubredoxin 2; electron 39.3 7.6 0.00026 30.9 0.5 30 40-85 35-76 (87)
22 1x63_A Skeletal muscle LIM-pro 37.9 9.6 0.00033 27.8 0.8 41 37-87 12-53 (82)
23 2cor_A Pinch protein; LIM doma 37.8 11 0.00039 27.7 1.2 39 39-88 14-52 (79)
24 2cur_A Skeletal muscle LIM-pro 37.7 6.5 0.00022 27.8 -0.1 39 39-88 4-42 (69)
25 1pqv_S STP-alpha, transcriptio 36.8 18 0.00062 34.0 2.7 41 40-89 268-308 (309)
26 1twf_J DNA-directed RNA polyme 36.7 11 0.00039 28.9 1.1 14 38-51 2-15 (70)
27 1pft_A TFIIB, PFTFIIBN; N-term 36.5 9.7 0.00033 26.2 0.6 23 79-102 7-29 (50)
28 1x4l_A Skeletal muscle LIM-pro 35.4 12 0.00041 26.6 1.0 39 39-87 4-45 (72)
29 1g47_A Pinch protein; LIM doma 35.3 10 0.00034 27.2 0.6 41 37-87 8-49 (77)
30 2kn9_A Rubredoxin; metalloprot 34.7 9.6 0.00033 29.9 0.4 30 40-85 27-68 (81)
31 1qyp_A RNA polymerase II; tran 34.4 38 0.0013 23.9 3.5 40 40-88 15-54 (57)
32 2d8x_A Protein pinch; LIM doma 34.0 9.1 0.00031 27.1 0.1 39 39-88 4-42 (70)
33 2co8_A NEDD9 interacting prote 33.3 16 0.00056 27.0 1.5 39 40-88 15-53 (82)
34 2k3r_A Ribonuclease P protein 32.9 42 0.0014 27.7 4.0 45 42-94 62-106 (123)
35 2xqn_T Testin, TESS; metal-bin 32.4 13 0.00045 29.3 0.8 13 76-88 62-74 (126)
36 1x64_A Alpha-actinin-2 associa 32.0 13 0.00043 27.8 0.7 41 36-87 21-61 (89)
37 2l4z_A DNA endonuclease RBBP8, 31.9 12 0.0004 30.3 0.5 43 36-88 57-99 (123)
38 2dj7_A Actin-binding LIM prote 31.7 13 0.00043 27.6 0.6 38 40-87 15-52 (80)
39 3flo_B DNA polymerase alpha ca 31.1 26 0.0009 31.4 2.7 18 37-54 19-37 (206)
40 3pwf_A Rubrerythrin; non heme 30.9 17 0.00057 31.4 1.3 7 79-85 155-161 (170)
41 1x3h_A Leupaxin; paxillin fami 30.7 11 0.00039 27.2 0.2 39 39-88 14-52 (80)
42 1wyh_A SLIM 2, skeletal muscle 30.5 15 0.00051 26.0 0.8 39 39-87 4-43 (72)
43 1x0t_A Ribonuclease P protein 30.5 57 0.0019 26.6 4.4 44 42-93 67-110 (120)
44 1iml_A CRIP, cysteine rich int 29.0 13 0.00045 26.8 0.3 37 42-88 2-38 (76)
45 2d8z_A Four and A half LIM dom 28.9 15 0.00051 25.9 0.6 38 39-87 4-41 (70)
46 2dlo_A Thyroid receptor-intera 28.2 17 0.00058 26.5 0.8 38 39-87 14-51 (81)
47 2cuq_A Four and A half LIM dom 27.8 19 0.00064 26.0 0.9 38 39-87 14-51 (80)
48 1tot_A CREB-binding protein; z 27.6 18 0.00063 25.7 0.8 13 38-50 4-16 (52)
49 1ef4_A Subunit N, DNA-directed 27.5 16 0.00055 26.9 0.5 13 39-51 2-14 (55)
50 1e8j_A Rubredoxin; iron-sulfur 26.3 26 0.0009 25.0 1.5 29 41-85 4-44 (52)
51 1tfi_A Transcriptional elongat 25.6 71 0.0024 22.4 3.6 41 40-89 9-49 (50)
52 3o9x_A Uncharacterized HTH-typ 25.6 60 0.0021 25.4 3.7 14 40-53 2-16 (133)
53 2cup_A Skeletal muscle LIM-pro 25.2 22 0.00076 26.7 1.0 14 39-52 4-17 (101)
54 2db6_A SH3 and cysteine rich d 24.4 78 0.0027 23.4 3.9 32 16-51 8-39 (74)
55 2l3k_A Rhombotin-2, linker, LI 24.3 30 0.001 27.4 1.6 39 39-87 5-46 (123)
56 2k4x_A 30S ribosomal protein S 23.4 43 0.0015 24.1 2.1 28 41-87 19-46 (55)
57 2czr_A TBP-interacting protein 23.2 48 0.0016 30.2 2.9 24 63-90 144-167 (226)
58 1yk4_A Rubredoxin, RD; electro 23.0 30 0.001 24.7 1.3 30 41-86 3-44 (52)
59 1zfo_A LAsp-1; LIM domain, zin 22.4 37 0.0013 21.4 1.4 20 39-58 2-21 (31)
60 2i5o_A DNA polymerase ETA; zin 21.7 7.6 0.00026 26.6 -2.0 14 77-90 9-22 (39)
61 4rxn_A Rubredoxin; electron tr 21.6 31 0.0011 25.0 1.1 30 41-86 4-45 (54)
62 2dar_A PDZ and LIM domain prot 21.6 28 0.00095 25.9 0.9 39 39-88 24-62 (90)
63 1v6g_A Actin binding LIM prote 21.5 34 0.0012 24.8 1.3 39 39-88 14-52 (81)
64 3po3_S Transcription elongatio 20.9 35 0.0012 29.7 1.5 41 40-89 137-177 (178)
65 1x62_A C-terminal LIM domain p 20.6 21 0.0007 26.0 -0.1 40 38-88 13-52 (79)
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=86.62 E-value=0.51 Score=41.39 Aligned_cols=63 Identities=16% Similarity=0.052 Sum_probs=41.8
Q ss_pred EecccceecCCCCCccccCccccccccc-cCCCcccceeeEEEEEEcCCCCceEEEeeCCCCC--cccccc
Q 020340 35 MMLPMSIRCNTCGNYIYKGTKFNSRKED-AIGETYLGIQIFRFYFKCTKCSAELTIKTDPQNS--DYIVES 102 (327)
Q Consensus 35 fm~PF~i~C~~Cg~yI~kG~KFNArKe~-v~gE~Ylgi~I~rFyiKC~~C~~eI~fkTDPkN~--dY~~es 102 (327)
|..-|.+.|..|++---+ +-+|..-+. +.| |-----|.+||..|..+.+|.--|... .|..+.
T Consensus 32 ~~~~fkvkC~~C~E~~~k-v~v~~~e~~ei~g----sRG~aNfv~KCk~C~re~Si~i~~~~~~~~y~~~d 97 (164)
T 1zso_A 32 YLWIFNIRDSTSSLTRDN-IQFRKTDILEIPN----SRGTANFMIKWTEYPKYSTINFVNTKNSCSYEEVN 97 (164)
T ss_dssp CCEEEEEEETTSSCEEEE-EEECTTCBEECTT----SSCEESEEECCSSSSCCEEEEEECCTTTTEEEGGG
T ss_pred cEEEEEEEECCCCcccCC-EEEcchheeecCC----CCcceeEEEeccccCCcceEEEEeCCCCccccccc
Confidence 455688999999998877 888765432 223 222348999999999865554333334 676643
No 2
>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=74.46 E-value=1.5 Score=32.29 Aligned_cols=40 Identities=23% Similarity=0.625 Sum_probs=26.7
Q ss_pred cceecCCCCCccccCccccccccccCCCcccceeeEEEEEEcCCCCceEE
Q 020340 39 MSIRCNTCGNYIYKGTKFNSRKEDAIGETYLGIQIFRFYFKCTKCSAELT 88 (327)
Q Consensus 39 F~i~C~~Cg~yI~kG~KFNArKe~v~gE~Ylgi~I~rFyiKC~~C~~eI~ 88 (327)
+.-+|..|+..|+.|....| .|..|... -|+|..|...|.
T Consensus 6 ~~~~C~~C~~~I~~~~~~~a-----~~~~~H~~-----CF~C~~C~~~L~ 45 (81)
T 1a7i_A 6 GGNKCGACGRTVYHAEEVQC-----DGRSFHRC-----CFLCMVCRKNLD 45 (81)
T ss_dssp --CBCSSSCCBCSSTTEEEE-----TTEEEESS-----SEECSSSCCEEC
T ss_pred CCCcCcCcCccccCceeEEe-----CCcccccc-----cCccCCCCCCCC
Confidence 36689999999998775544 23233322 478999998763
No 3
>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=67.68 E-value=0.75 Score=38.76 Aligned_cols=51 Identities=20% Similarity=0.486 Sum_probs=26.6
Q ss_pred ccEEEEecccceecCCCCCccccCcc----ccccccccCCCccccee-eEEEEEEcCCCCce
Q 020340 30 QIKVRMMLPMSIRCNTCGNYIYKGTK----FNSRKEDAIGETYLGIQ-IFRFYFKCTKCSAE 86 (327)
Q Consensus 30 ~~~VRfm~PF~i~C~~Cg~yI~kG~K----FNArKe~v~gE~Ylgi~-I~rFyiKC~~C~~e 86 (327)
.+.|. ..|-..||..||. ++.+.. ++.+.+. .+.-+| ++..+++||.|.+.
T Consensus 61 ~L~i~-~~p~~~~C~~CG~-~~~~~~~~~~~~~~~~~----~~h~~p~~~~~~~~CP~Cgs~ 116 (139)
T 3a43_A 61 EIEFV-EEEAVFKCRNCNY-EWKLKEVKDKFDERIKE----DIHFIPEVVHAFLACPKCGSH 116 (139)
T ss_dssp EEEEE-EECCEEEETTTCC-EEEGGGCTTCCSCCCGG----GCCCCGGGCGGGCSCSSSSCC
T ss_pred EEEEE-ecCCcEECCCCCC-EEecccccccccccccc----cccccccccccCCcCccccCC
Confidence 34443 4588899999984 333322 3322221 110111 11225789999885
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=60.53 E-value=2.3 Score=30.04 Aligned_cols=39 Identities=26% Similarity=0.497 Sum_probs=26.7
Q ss_pred cceecCCCCCccccCccccccccccCCCcccceeeEEEEEEcCCCCceEE
Q 020340 39 MSIRCNTCGNYIYKGTKFNSRKEDAIGETYLGIQIFRFYFKCTKCSAELT 88 (327)
Q Consensus 39 F~i~C~~Cg~yI~kG~KFNArKe~v~gE~Ylgi~I~rFyiKC~~C~~eI~ 88 (327)
|..+|..|+..|+ |...+| .|..|.-. -|+|..|...|.
T Consensus 4 ~~~~C~~C~~~I~-~~~~~a-----~~~~~H~~-----CF~C~~C~~~L~ 42 (66)
T 1nyp_A 4 GVPICGACRRPIE-GRVVNA-----MGKQWHVE-----HFVCAKCEKPFL 42 (66)
T ss_dssp CCCEETTTTEECC-SCEECC-----TTSBEETT-----TCBCTTTCCBCS
T ss_pred CCCCCcccCCEec-ceEEEE-----CccccccC-----cCEECCCCCCCC
Confidence 6789999999999 754443 34334332 467899988763
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=60.49 E-value=3.8 Score=29.03 Aligned_cols=38 Identities=26% Similarity=0.499 Sum_probs=24.3
Q ss_pred cceecCCCCCccccC-ccccccccccCCCcccceeeEE---EEEEcCCCCceE
Q 020340 39 MSIRCNTCGNYIYKG-TKFNSRKEDAIGETYLGIQIFR---FYFKCTKCSAEL 87 (327)
Q Consensus 39 F~i~C~~Cg~yI~kG-~KFNArKe~v~gE~Ylgi~I~r---FyiKC~~C~~eI 87 (327)
|.-+|.+|+..|+-| .... +++ ..|. =-|+|..|...|
T Consensus 1 fa~~C~~C~~~I~~~~~~v~----------a~~-~~wH~~~~CF~C~~C~~~L 42 (65)
T 2iyb_E 1 HAVVCQGCHNAIDPEVQRVT----------YNN-FSWHASTECFLCSCCSKCL 42 (65)
T ss_dssp -CEECTTTSSEECTTSCEEE----------ETT-EEEETTTTTSBCTTTCCBC
T ss_pred CcCCCcCCCCeeccCceEEE----------ECC-CccCCCCCCEECCCCCCcC
Confidence 677999999999964 3322 222 2222 126899999887
No 6
>1lko_A Rubrerythrin all-iron(II) form; reduced form, DIIRON, four-helix bundle, rubre like, electron transport; 1.63A {Desulfovibrio vulgaris} SCOP: a.25.1.1 g.41.5.1 PDB: 1dvb_A 1jyb_A 1b71_A 1lkm_A 1lkp_A 1qyb_A 1s2z_A 1s30_A 1ryt_A
Probab=57.93 E-value=2.8 Score=36.70 Aligned_cols=14 Identities=50% Similarity=1.246 Sum_probs=10.9
Q ss_pred ceecCCCCCccccCc
Q 020340 40 SIRCNTCGNYIYKGT 54 (327)
Q Consensus 40 ~i~C~~Cg~yI~kG~ 54 (327)
--+|..|| |||-|.
T Consensus 155 ~~~C~~CG-~~~~g~ 168 (191)
T 1lko_A 155 KWRCRNCG-YVHEGT 168 (191)
T ss_dssp EEEETTTC-CEEEEE
T ss_pred eEEECCCC-CEeeCC
Confidence 35699999 778775
No 7
>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=55.88 E-value=4.8 Score=29.45 Aligned_cols=39 Identities=18% Similarity=0.393 Sum_probs=26.7
Q ss_pred cceecCCCCCccccCccccccccccCCCcccceeeEEEEEEcCCCCceEE
Q 020340 39 MSIRCNTCGNYIYKGTKFNSRKEDAIGETYLGIQIFRFYFKCTKCSAELT 88 (327)
Q Consensus 39 F~i~C~~Cg~yI~kG~KFNArKe~v~gE~Ylgi~I~rFyiKC~~C~~eI~ 88 (327)
|..+|..|+..|+ |....|. |..|..- -|+|..|...|.
T Consensus 14 ~~~~C~~C~~~I~-~~~~~a~-----~~~~H~~-----CF~C~~C~~~L~ 52 (81)
T 1x6a_A 14 FGEFCHGCSLLMT-GPFMVAG-----EFKYHPE-----CFACMSCKVIIE 52 (81)
T ss_dssp SSCBCTTTCCBCC-SCCBCCT-----TCCBCTT-----SCBCTTTCCBCC
T ss_pred cCCcCccCCCCcC-ceEEEEC-----Cceeccc-----cCCccCCCCccC
Confidence 5568999999999 6554442 4344433 467999988763
No 8
>2kdx_A HYPA, hydrogenase/urease nickel incorporation protein HYPA; metallochaperone, metal-binding, metal- binding protein; NMR {Helicobacter pylori}
Probab=53.58 E-value=5.3 Score=32.27 Aligned_cols=23 Identities=13% Similarity=0.400 Sum_probs=17.5
Q ss_pred CCCCccEEEEecccceecCCCCCc
Q 020340 26 PKNQQIKVRMMLPMSIRCNTCGNY 49 (327)
Q Consensus 26 ~k~~~~~VRfm~PF~i~C~~Cg~y 49 (327)
..+-.+.|+ ..|-..||..||..
T Consensus 60 ~e~a~L~i~-~~p~~~~C~~CG~~ 82 (119)
T 2kdx_A 60 CKDAILDIV-DEKVELECKDCSHV 82 (119)
T ss_dssp TSSCCEEEE-EECCEEECSSSSCE
T ss_pred hcCcEEEEE-eccceEEcCCCCCE
Confidence 344567777 77999999999864
No 9
>4esj_A Type-2 restriction enzyme DPNI; restriction endonuclease-DNA complex, type IIM, type IIE, RE enzyme, DPNI; HET: DNA 6MA; 2.05A {Streptococcus pneumoniae}
Probab=53.51 E-value=5.8 Score=37.21 Aligned_cols=52 Identities=29% Similarity=0.621 Sum_probs=35.5
Q ss_pred cceecCCCCC-ccccCccccccccccCCCcccceeeEEEEEEcCCCCceEEEeeCCCCCccccccCcee
Q 020340 39 MSIRCNTCGN-YIYKGTKFNSRKEDAIGETYLGIQIFRFYFKCTKCSAELTIKTDPQNSDYIVESGASR 106 (327)
Q Consensus 39 F~i~C~~Cg~-yI~kG~KFNArKe~v~gE~Ylgi~I~rFyiKC~~C~~eI~fkTDPkN~dY~~esGA~R 106 (327)
=++-|..||+ .|. +|=+. .|+=-|| |+.|..++++|.--++..=.+.-||-.
T Consensus 33 ~n~yCPnCG~~~l~---~f~nN-----------~PVaDF~--C~~C~EeyELKSk~~~~~~~I~dGAY~ 85 (257)
T 4esj_A 33 RQSYCPNCGNNPLN---HFENN-----------RPVADFY--CNHCSEEFELKSKKGNFSSTINDGAYA 85 (257)
T ss_dssp HHCCCTTTCCSSCE---EC---------------CCCEEE--CTTTCCEEEEEEEESSCCSEEEEEEHH
T ss_pred HCCcCCCCCChhhh---hccCC-----------Ccccccc--cCCcchhheeccccCccCccccCchHH
Confidence 4788999998 453 23222 3444444 999999999998878777777777743
No 10
>1yuz_A Nigerythrin; rubrythrin, rubredoxin, hemerythrin, electron transfer, DIIR center, oxidoreductase; 1.40A {Desulfovibrio vulgaris subsp} SCOP: a.25.1.1 g.41.5.1 PDB: 1yv1_A 1yux_A
Probab=51.38 E-value=4.6 Score=35.81 Aligned_cols=13 Identities=54% Similarity=1.032 Sum_probs=10.3
Q ss_pred ceecCCCCCccccC
Q 020340 40 SIRCNTCGNYIYKG 53 (327)
Q Consensus 40 ~i~C~~Cg~yI~kG 53 (327)
--.|..|| |||-|
T Consensus 171 ~~~C~~CG-~i~~g 183 (202)
T 1yuz_A 171 FHLCPICG-YIHKG 183 (202)
T ss_dssp EEECSSSC-CEEES
T ss_pred EEEECCCC-CEEcC
Confidence 35699999 77877
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=47.37 E-value=4.6 Score=29.35 Aligned_cols=42 Identities=24% Similarity=0.360 Sum_probs=23.7
Q ss_pred cceecCCCCCcccc-CccccccccccCCCcccceeeEEEEEEcCCCCceEE
Q 020340 39 MSIRCNTCGNYIYK-GTKFNSRKEDAIGETYLGIQIFRFYFKCTKCSAELT 88 (327)
Q Consensus 39 F~i~C~~Cg~yI~k-G~KFNArKe~v~gE~Ylgi~I~rFyiKC~~C~~eI~ 88 (327)
|.-+|..|+..|+- | .++.-.+.|..|..- -|+|..|...|.
T Consensus 4 ~~~~C~~C~~~I~~~g---~~~~~~a~~~~wH~~-----CF~C~~C~~~L~ 46 (76)
T 1x68_A 4 GSSGCVACSKPISGLT---GAKFICFQDSQWHSE-----CFNCGKCSVSLV 46 (76)
T ss_dssp CCCCCTTTCCCCCTTT---TCCEEEETTEEEEGG-----GCBCTTTCCBCS
T ss_pred cCCCCccCCCcccCCC---CceeEEECCcccCcc-----cCChhhCCCcCC
Confidence 66789999999984 2 111111222112111 368888888763
No 12
>3fsa_A Azurin; copper, cupredoxin fold, metal-binding, protein-protein interaction, metal binding protein; 0.98A {Pseudomonas aeruginosa} SCOP: b.6.1.1 PDB: 2xv2_A 2xv0_A 3fs9_A 2fta_A* 2hx7_A 2hx8_A 2hx9_A 2hxa_A 1cc3_A 2ft6_A 2ft7_A 2ft8_A 1azn_A 3n2j_A 2iwe_A 2ghz_A 2gi0_A 1jzg_A* 1azu_A* 1bex_A ...
Probab=46.40 E-value=16 Score=30.57 Aligned_cols=44 Identities=20% Similarity=0.333 Sum_probs=33.3
Q ss_pred CcccCCCCCCCCCcccCCCCCC-ccEEEEecc-------cceecCCCCCccccCc
Q 020340 8 NKYYPPDFDPSKLPRIRRPKNQ-QIKVRMMLP-------MSIRCNTCGNYIYKGT 54 (327)
Q Consensus 8 NKYYPPDfDPsKipR~Kk~k~~-~~~VRfm~P-------F~i~C~~Cg~yI~kG~ 54 (327)
+-|.||+ ||.-|.-.+....+ ...|.|-.| |...|+ |.++-+|+
T Consensus 70 ~~y~~~~-d~~via~t~~l~pGes~~vtf~~~~l~~~G~y~f~C~--gH~~M~G~ 121 (125)
T 3fsa_A 70 KDYLKPD-DSRVIAHTKLIGSGEKDSVTFDVSKLKEGEQYMFFCA--AHAAMKGT 121 (125)
T ss_dssp GTTSCTT-CTTCCEECCCBCTTCEEEEEEEGGGC---CCEEEECS--SSTTCEEE
T ss_pred hccCCCC-CccceeccceeCCCcEEEEEEeCcCcCCCccEEEEcC--CCCCcEEE
Confidence 5688888 89888666555555 467899998 999999 77755554
No 13
>1wig_A KIAA1808 protein; LIM domain, zinc finger, metal-binding protein, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3
Probab=45.87 E-value=6.4 Score=28.62 Aligned_cols=39 Identities=26% Similarity=0.548 Sum_probs=24.8
Q ss_pred cceecCCCCCccccCccccccccccCCCcccceeeEEEEEEcCCCCceEE
Q 020340 39 MSIRCNTCGNYIYKGTKFNSRKEDAIGETYLGIQIFRFYFKCTKCSAELT 88 (327)
Q Consensus 39 F~i~C~~Cg~yI~kG~KFNArKe~v~gE~Ylgi~I~rFyiKC~~C~~eI~ 88 (327)
|..+|.+|+..|+ |... .+.|..|..- -|+|..|...|.
T Consensus 4 ~~~~C~~C~~~I~-~~~v-----~a~~~~wH~~-----CF~C~~C~~~L~ 42 (73)
T 1wig_A 4 GSSGCDSCEKYIT-GRVL-----EAGEKHYHPS-----CALCVRCGQMFA 42 (73)
T ss_dssp SCCSCSSSCCCCS-SCCB-----CCSSCCBCTT-----TSCCSSSCCCCC
T ss_pred CcCCcccCCCEec-CeeE-----EeCCCCCCCC-----cCEeCCCCCCCC
Confidence 6678999999997 3222 2334344332 367888887753
No 14
>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=45.45 E-value=6.4 Score=29.61 Aligned_cols=44 Identities=20% Similarity=0.503 Sum_probs=28.4
Q ss_pred EecccceecCCCCCccccCccccccccccCCCcccceeeEEEEEEcCCCCceEE
Q 020340 35 MMLPMSIRCNTCGNYIYKGTKFNSRKEDAIGETYLGIQIFRFYFKCTKCSAELT 88 (327)
Q Consensus 35 fm~PF~i~C~~Cg~yI~kG~KFNArKe~v~gE~Ylgi~I~rFyiKC~~C~~eI~ 88 (327)
|-+|+..+|..|+..|+-+.... +.|..|.-. -|+|..|...|.
T Consensus 10 ~~~~~~~~C~~C~~~I~~~~~v~-----a~~~~~H~~-----CF~C~~C~~~L~ 53 (91)
T 2d8y_A 10 FQAPARETCVECQKTVYPMERLL-----ANQQVFHIS-----CFRCSYCNNKLS 53 (91)
T ss_dssp SCSSSSCBCTTTCCBCCTTSEEE-----CSSSEEETT-----TCBCTTTCCBCC
T ss_pred cCCCCCCcCccCCCccCCceeEE-----ECCCEECCC-----CCeeCCCCCCCC
Confidence 34578889999999999654432 233223221 367888887653
No 15
>2k5c_A Uncharacterized protein PF0385; structural genomics, PSI-2, protein structure initiative, northeast structural genomics consortium, NESG; NMR {Pyrococcus furiosus}
Probab=44.73 E-value=7.2 Score=31.33 Aligned_cols=53 Identities=30% Similarity=0.435 Sum_probs=31.9
Q ss_pred eecCCCCCcccc-------CccccccccccCCCcccceeeEEEEEEcCCCCceEEEeeCCC
Q 020340 41 IRCNTCGNYIYK-------GTKFNSRKEDAIGETYLGIQIFRFYFKCTKCSAELTIKTDPQ 94 (327)
Q Consensus 41 i~C~~Cg~yI~k-------G~KFNArKe~v~gE~Ylgi~I~rFyiKC~~C~~eI~fkTDPk 94 (327)
..|.-||..+-- =+.=|++----..+.||+ .+=.|.||||.|.-++.=++=|.
T Consensus 9 ~~~PlCG~~L~W~eLIeQML~~en~~ei~kDr~~Fl~-~~e~F~FkCP~CgEEFyG~~Lp~ 68 (95)
T 2k5c_A 9 AKCPICGSPLKWEELIEEMLIIENFEEIVKDRERFLA-QVEEFVFKCPVCGEEFYGKTLPR 68 (95)
T ss_dssp EECSSSCCEECHHHHHHHSTTCSTHHHHTTCHHHHHH-HHHHSEEECTTTCCEEETTSSCT
T ss_pred ccCCcCCCccCHHHHHHHHHhhccHHHHHhhHHHHHH-HHHHHhhcCCCccHHHhcccCCh
Confidence 368889875421 122344321111135666 46679999999999987665554
No 16
>2egq_A FHL1 protein; LIM domain, four and A half LIM domains protein 1, skeletal muscle LIM- protein 1, SLIM 1, structural genomics NPPSFA; NMR {Homo sapiens}
Probab=43.85 E-value=5.6 Score=28.72 Aligned_cols=43 Identities=30% Similarity=0.608 Sum_probs=23.6
Q ss_pred cceecCCCCCcccc-CccccccccccCCCcccceeeEEEEEEcCCCCceEE
Q 020340 39 MSIRCNTCGNYIYK-GTKFNSRKEDAIGETYLGIQIFRFYFKCTKCSAELT 88 (327)
Q Consensus 39 F~i~C~~Cg~yI~k-G~KFNArKe~v~gE~Ylgi~I~rFyiKC~~C~~eI~ 88 (327)
|..+|.+|+..|+- |. .+..-.+.|..|... =|+|..|...|.
T Consensus 14 ~~~~C~~C~~~I~~~g~--~~~~~~a~~~~~H~~-----CF~C~~C~~~L~ 57 (77)
T 2egq_A 14 VAKKCAGCKNPITGFGK--GSSVVAYEGQSWHDY-----CFHCKKCSVNLA 57 (77)
T ss_dssp CCCCCSSSCCCCCCCSS--CCCEEEETTEEEETT-----TCBCSSSCCBCT
T ss_pred hCccCcccCCcccCCCC--CceeEEECcceeCcc-----cCEehhcCCCCC
Confidence 56789999999994 30 011111222122211 267888888763
No 17
>1dx8_A Rubredoxin; electron transport, zinc-substitution; NMR {Guillardia theta} SCOP: g.41.5.1 PDB: 1h7v_A
Probab=43.06 E-value=7.8 Score=29.44 Aligned_cols=31 Identities=39% Similarity=0.998 Sum_probs=21.6
Q ss_pred ceecCCCCCcccc------------CccccccccccCCCcccceeeEEEEEEcCCCCce
Q 020340 40 SIRCNTCGNYIYK------------GTKFNSRKEDAIGETYLGIQIFRFYFKCTKCSAE 86 (327)
Q Consensus 40 ~i~C~~Cg~yI~k------------G~KFNArKe~v~gE~Ylgi~I~rFyiKC~~C~~e 86 (327)
.-+|..|| |||- ||.|..--+ ..+|+.|.+.
T Consensus 7 ~y~C~vCG-yiYd~~~Gdp~~gi~pGT~f~~lPd---------------dw~CP~Cga~ 49 (70)
T 1dx8_A 7 KYECEACG-YIYEPEKGDKFAGIPPGTPFVDLSD---------------SFMCPACRSP 49 (70)
T ss_dssp CEEETTTC-CEECTTTCCTTTTCCSSCCGGGSCT---------------TCBCTTTCCB
T ss_pred eEEeCCCC-EEEcCCCCCcccCcCCCCchhhCCC---------------CCcCCCCCCC
Confidence 35799999 6675 677765432 2369999983
No 18
>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=41.27 E-value=7.2 Score=28.20 Aligned_cols=41 Identities=32% Similarity=0.744 Sum_probs=27.5
Q ss_pred ccceecCCCCCccccCccccccccccCCCcccceeeEEEEEEcCCCCceEE
Q 020340 38 PMSIRCNTCGNYIYKGTKFNSRKEDAIGETYLGIQIFRFYFKCTKCSAELT 88 (327)
Q Consensus 38 PF~i~C~~Cg~yI~kG~KFNArKe~v~gE~Ylgi~I~rFyiKC~~C~~eI~ 88 (327)
.|..+|..|+..|+-|....| .|..|... -|+|..|...|.
T Consensus 7 ~~~~~C~~C~~~I~~~~~v~a-----~~~~~H~~-----CF~C~~C~~~L~ 47 (76)
T 2cu8_A 7 GMASKCPKCDKTVYFAEKVSS-----LGKDWHKF-----CLKCERCSKTLT 47 (76)
T ss_dssp CCCCBCTTTCCBCCTTTEEEE-----TTEEEETT-----TCBCSSSCCBCC
T ss_pred CCCCCCcCCCCEeECCeEEEE-----CCeEeeCC-----CCCCCCCCCccC
Confidence 467799999999997765443 23223221 367899988764
No 19
>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=40.99 E-value=10 Score=27.66 Aligned_cols=40 Identities=18% Similarity=0.461 Sum_probs=25.7
Q ss_pred cceecCCCCCcccc-CccccccccccCCCcccceeeEEEEEEcCCCCceEE
Q 020340 39 MSIRCNTCGNYIYK-GTKFNSRKEDAIGETYLGIQIFRFYFKCTKCSAELT 88 (327)
Q Consensus 39 F~i~C~~Cg~yI~k-G~KFNArKe~v~gE~Ylgi~I~rFyiKC~~C~~eI~ 88 (327)
|..+|.+|+..|+- |....| .|..|... -|+|..|...|.
T Consensus 14 ~~~~C~~C~~~I~~~~~~~~a-----~~~~~H~~-----CF~C~~C~~~L~ 54 (82)
T 2ehe_A 14 FANTCAECQQLIGHDSRELFY-----EDRHFHEG-----CFRCCRCQRSLA 54 (82)
T ss_dssp CSCBCTTTCCBCCSSCCBCCC-----SSCCCBTT-----TSBCTTTCCBCS
T ss_pred cCCcCccCCCccccCcEEEEe-----CCcccccc-----CCeecCCCCccC
Confidence 56789999999984 333322 23344432 467888888764
No 20
>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=40.05 E-value=9.2 Score=27.17 Aligned_cols=40 Identities=25% Similarity=0.545 Sum_probs=26.6
Q ss_pred ccceecCCCCCcccc-CccccccccccCCCcccceeeEEEEEEcCCCCceE
Q 020340 38 PMSIRCNTCGNYIYK-GTKFNSRKEDAIGETYLGIQIFRFYFKCTKCSAEL 87 (327)
Q Consensus 38 PF~i~C~~Cg~yI~k-G~KFNArKe~v~gE~Ylgi~I~rFyiKC~~C~~eI 87 (327)
+|..+|..|+..|+- +....| .|..|.-. -|+|..|...|
T Consensus 3 ~~~~~C~~C~~~I~~~~~~~~a-----~~~~~H~~-----CF~C~~C~~~L 43 (72)
T 1x61_A 3 SGSSGCGGCGEDVVGDGAGVVA-----LDRVFHVG-----CFVCSTCRAQL 43 (72)
T ss_dssp SCCCCCSSSCSCCCSSSCCEEC-----SSSEECTT-----TCBCSSSCCBC
T ss_pred CCCCCCccCCCccCCCceEEEE-----CCCeEccc-----CCcccccCCcC
Confidence 577899999999985 333333 23233332 46899998876
No 21
>1s24_A Rubredoxin 2; electron transport; NMR {Pseudomonas oleovorans} SCOP: g.41.5.1
Probab=39.32 E-value=7.6 Score=30.90 Aligned_cols=30 Identities=40% Similarity=0.915 Sum_probs=21.1
Q ss_pred ceecCCCCCcccc------------CccccccccccCCCcccceeeEEEEEEcCCCCc
Q 020340 40 SIRCNTCGNYIYK------------GTKFNSRKEDAIGETYLGIQIFRFYFKCTKCSA 85 (327)
Q Consensus 40 ~i~C~~Cg~yI~k------------G~KFNArKe~v~gE~Ylgi~I~rFyiKC~~C~~ 85 (327)
..+|..|| |||- |+.|..--+ + ..|+.|.+
T Consensus 35 ~y~C~vCG-yvYD~~~Gdp~~gI~pGT~fedlPd-----d----------W~CPvCga 76 (87)
T 1s24_A 35 KWICITCG-HIYDEALGDEAEGFTPGTRFEDIPD-----D----------WCCPDCGA 76 (87)
T ss_dssp EEEETTTT-EEEETTSCCTTTTCCSCCCGGGCCT-----T----------CCCSSSCC
T ss_pred eEECCCCC-eEecCCcCCcccCcCCCCChhHCCC-----C----------CCCCCCCC
Confidence 57899999 6665 577764332 2 36999987
No 22
>1x63_A Skeletal muscle LIM-protein 1; LIM domain, four and A half LIM domains protein 1, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3
Probab=37.87 E-value=9.6 Score=27.75 Aligned_cols=41 Identities=22% Similarity=0.463 Sum_probs=25.5
Q ss_pred cccceecCCCCCccccCcc-ccccccccCCCcccceeeEEEEEEcCCCCceE
Q 020340 37 LPMSIRCNTCGNYIYKGTK-FNSRKEDAIGETYLGIQIFRFYFKCTKCSAEL 87 (327)
Q Consensus 37 ~PF~i~C~~Cg~yI~kG~K-FNArKe~v~gE~Ylgi~I~rFyiKC~~C~~eI 87 (327)
..|...|..|+..|+-|.+ ..| .|..|..- =|+|..|...|
T Consensus 12 ~~~~~~C~~C~~~I~~~~~~~~a-----~~~~~H~~-----CF~C~~C~~~L 53 (82)
T 1x63_A 12 REDSPKCKGCFKAIVAGDQNVEY-----KGTVWHKD-----CFTCSNCKQVI 53 (82)
T ss_dssp CCCSCBCSSSCCBCCSSSCEEEC-----SSCEEETT-----TCCCSSSCCCC
T ss_pred cccCCcCccCCcccccCceEEEE-----Cccccccc-----cCchhhCCCcc
Confidence 3477899999999987644 222 23222211 26788887765
No 23
>2cor_A Pinch protein; LIM domain, particularly interesting NEW Cys- His protein, LIM and senescent cell antigen-like domains 1, structural genomics; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3
Probab=37.81 E-value=11 Score=27.67 Aligned_cols=39 Identities=26% Similarity=0.452 Sum_probs=27.0
Q ss_pred cceecCCCCCccccCccccccccccCCCcccceeeEEEEEEcCCCCceEE
Q 020340 39 MSIRCNTCGNYIYKGTKFNSRKEDAIGETYLGIQIFRFYFKCTKCSAELT 88 (327)
Q Consensus 39 F~i~C~~Cg~yI~kG~KFNArKe~v~gE~Ylgi~I~rFyiKC~~C~~eI~ 88 (327)
+..+|..|+..|+ |....| .|..|..- -|+|..|...|.
T Consensus 14 ~~~~C~~C~~~I~-~~~v~a-----~~~~~H~~-----CF~C~~C~~~L~ 52 (79)
T 2cor_A 14 GKYICQKCHAIID-EQPLIF-----KNDPYHPD-----HFNCANCGKELT 52 (79)
T ss_dssp CCCBCTTTCCBCC-SCCCCC-----SSSCCCTT-----TSBCSSSCCBCC
T ss_pred CCCCCccCCCEec-ceEEEE-----CcceeCCC-----CCEeCCCCCccC
Confidence 5678999999999 654433 34344432 478999988765
No 24
>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=37.71 E-value=6.5 Score=27.83 Aligned_cols=39 Identities=23% Similarity=0.427 Sum_probs=24.5
Q ss_pred cceecCCCCCccccCccccccccccCCCcccceeeEEEEEEcCCCCceEE
Q 020340 39 MSIRCNTCGNYIYKGTKFNSRKEDAIGETYLGIQIFRFYFKCTKCSAELT 88 (327)
Q Consensus 39 F~i~C~~Cg~yI~kG~KFNArKe~v~gE~Ylgi~I~rFyiKC~~C~~eI~ 88 (327)
|..+|..|+..|+ |.... +.|..|... -|+|..|...|.
T Consensus 4 ~~~~C~~C~~~I~-~~~~~-----a~~~~~H~~-----CF~C~~C~~~L~ 42 (69)
T 2cur_A 4 GSSGCVKCNKAIT-SGGIT-----YQDQPWHAD-----CFVCVTCSKKLA 42 (69)
T ss_dssp CCCCCSSSCCCCC-TTCEE-----ETTEEECTT-----TTBCTTTCCBCT
T ss_pred CcCCCcccCCEeC-cceEE-----ECccccccC-----cCEECCCCCCCC
Confidence 5678999999997 43222 223233321 367888988764
No 25
>1pqv_S STP-alpha, transcription elongation factor S-II, DNA; mRNA cleavage, proofreading, BACKTRACKING, gene expression, multiprotein complex; 3.80A {Saccharomyces cerevisiae} SCOP: i.8.1.1 PDB: 1eo0_A
Probab=36.84 E-value=18 Score=34.00 Aligned_cols=41 Identities=17% Similarity=0.502 Sum_probs=23.3
Q ss_pred ceecCCCCCccccCccccccccccCCCcccceeeEEEEEEcCCCCceEEE
Q 020340 40 SIRCNTCGNYIYKGTKFNSRKEDAIGETYLGIQIFRFYFKCTKCSAELTI 89 (327)
Q Consensus 40 ~i~C~~Cg~yI~kG~KFNArKe~v~gE~Ylgi~I~rFyiKC~~C~~eI~f 89 (327)
.+.|..||. +..-|..-.-+-.+| + .-.|| .|..|++.+.|
T Consensus 268 ~~~C~~C~~---~~~~~~q~Q~rsaDe---~--~t~f~-~C~~Cg~~w~f 308 (309)
T 1pqv_S 268 RFTCGKCKE---KKVSYYQLQTRSADE---P--LTTFC-TCEACGNRWKF 308 (309)
T ss_pred cccCCCCCC---CeeEEEEeecccCCC---C--CcEEE-EeCCCCCceec
Confidence 358999993 333444332222233 2 22344 49999998776
No 26
>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=36.69 E-value=11 Score=28.91 Aligned_cols=14 Identities=29% Similarity=0.809 Sum_probs=11.3
Q ss_pred ccceecCCCCCccc
Q 020340 38 PMSIRCNTCGNYIY 51 (327)
Q Consensus 38 PF~i~C~~Cg~yI~ 51 (327)
=|.|+|-|||..|+
T Consensus 2 iiPVRCFTCGkvi~ 15 (70)
T 1twf_J 2 IVPVRCFSCGKVVG 15 (70)
T ss_dssp CCCSBCTTTCCBCT
T ss_pred CCCeecCCCCCChH
Confidence 36689999998875
No 27
>1pft_A TFIIB, PFTFIIBN; N-terminal domain, transcription initiation factor; NMR {Pyrococcus furiosus} SCOP: g.41.3.1
Probab=36.48 E-value=9.7 Score=26.19 Aligned_cols=23 Identities=17% Similarity=0.593 Sum_probs=16.0
Q ss_pred EcCCCCceEEEeeCCCCCcccccc
Q 020340 79 KCTKCSAELTIKTDPQNSDYIVES 102 (327)
Q Consensus 79 KC~~C~~eI~fkTDPkN~dY~~es 102 (327)
.|+.|.+. .+..||...++++..
T Consensus 7 ~CP~C~~~-~l~~d~~~gelvC~~ 29 (50)
T 1pft_A 7 VCPACESA-ELIYDPERGEIVCAK 29 (50)
T ss_dssp SCTTTSCC-CEEEETTTTEEEESS
T ss_pred eCcCCCCc-ceEEcCCCCeEECcc
Confidence 68888872 345578877777654
No 28
>1x4l_A Skeletal muscle LIM-protein 3; LIM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3
Probab=35.38 E-value=12 Score=26.60 Aligned_cols=39 Identities=31% Similarity=0.486 Sum_probs=24.3
Q ss_pred cceecCCCCCcccc--C-ccccccccccCCCcccceeeEEEEEEcCCCCceE
Q 020340 39 MSIRCNTCGNYIYK--G-TKFNSRKEDAIGETYLGIQIFRFYFKCTKCSAEL 87 (327)
Q Consensus 39 F~i~C~~Cg~yI~k--G-~KFNArKe~v~gE~Ylgi~I~rFyiKC~~C~~eI 87 (327)
|..+|.+|+..|+- + .... +.|..|... -|+|..|...|
T Consensus 4 ~~~~C~~C~~~I~~~~~~~~~~-----a~~~~wH~~-----CF~C~~C~~~L 45 (72)
T 1x4l_A 4 GSSGCAGCTNPISGLGGTKYIS-----FEERQWHND-----CFNCKKCSLSL 45 (72)
T ss_dssp CSCSBTTTTBCCCCSSSCSCEE-----CSSCEECTT-----TCBCSSSCCBC
T ss_pred CCCCCcCCCccccCCCCcceEE-----ECCcccCcc-----cCEeccCCCcC
Confidence 56789999999984 1 2222 123233322 36889998876
No 29
>1g47_A Pinch protein; LIM domain, Zn finger, cell adhesion; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3
Probab=35.27 E-value=10 Score=27.23 Aligned_cols=41 Identities=29% Similarity=0.527 Sum_probs=25.6
Q ss_pred cccceecCCCCCccccCccc-cccccccCCCcccceeeEEEEEEcCCCCceE
Q 020340 37 LPMSIRCNTCGNYIYKGTKF-NSRKEDAIGETYLGIQIFRFYFKCTKCSAEL 87 (327)
Q Consensus 37 ~PF~i~C~~Cg~yI~kG~KF-NArKe~v~gE~Ylgi~I~rFyiKC~~C~~eI 87 (327)
.++...|..|+..|+-+.++ .| .|..|... -|+|..|...|
T Consensus 8 ~~~~~~C~~C~~~I~~~~~~~~a-----~~~~~H~~-----CF~C~~C~~~L 49 (77)
T 1g47_A 8 ALASATCERCKGGFAPAEKIVNS-----NGELYHEQ-----CFVCAQCFQQF 49 (77)
T ss_dssp CCCCCBCSSSCCBCCSTTTCEEE-----TTEEECTT-----TCCCTTTCCCC
T ss_pred CCCCCCchhcCCccCCCceEEEe-----CccEeccc-----cCeECCCCCCC
Confidence 36788999999999854332 22 23223322 36788887765
No 30
>2kn9_A Rubredoxin; metalloprotein, ssgcid, structural genomics, seattle structural genomics center for infectious electron transport, iron; NMR {Mycobacterium tuberculosis}
Probab=34.68 E-value=9.6 Score=29.95 Aligned_cols=30 Identities=33% Similarity=0.957 Sum_probs=21.1
Q ss_pred ceecCCCCCcccc------------CccccccccccCCCcccceeeEEEEEEcCCCCc
Q 020340 40 SIRCNTCGNYIYK------------GTKFNSRKEDAIGETYLGIQIFRFYFKCTKCSA 85 (327)
Q Consensus 40 ~i~C~~Cg~yI~k------------G~KFNArKe~v~gE~Ylgi~I~rFyiKC~~C~~ 85 (327)
..+|..|| |||- ||.|+.--+ ..+|+.|.+
T Consensus 27 ~y~C~vCG-yvYD~~~Gdp~~gI~pGT~fedlPd---------------dW~CPvCga 68 (81)
T 2kn9_A 27 LFRCIQCG-FEYDEALGWPEDGIAAGTRWDDIPD---------------DWSCPDCGA 68 (81)
T ss_dssp EEEETTTC-CEEETTTCBTTTTBCTTCCTTTSCT---------------TCCCTTTCC
T ss_pred eEEeCCCC-EEEcCCcCCcccCcCCCCChhHCCC---------------CCcCCCCCC
Confidence 57899999 7775 566764332 236999998
No 31
>1qyp_A RNA polymerase II; transcription, RPB9, Zn ribbon, hyperthermophilic, extremophIle; NMR {Thermococcus celer} SCOP: g.41.3.1
Probab=34.45 E-value=38 Score=23.87 Aligned_cols=40 Identities=33% Similarity=0.604 Sum_probs=21.7
Q ss_pred ceecCCCCCccccCccccccccccCCCcccceeeEEEEEEcCCCCceEE
Q 020340 40 SIRCNTCGNYIYKGTKFNSRKEDAIGETYLGIQIFRFYFKCTKCSAELT 88 (327)
Q Consensus 40 ~i~C~~Cg~yI~kG~KFNArKe~v~gE~Ylgi~I~rFyiKC~~C~~eI~ 88 (327)
.+.|..||+ +...|....-+..+| +.. .| +.|+.|...+.
T Consensus 15 ~~~Cp~Cg~---~~~~~~q~Q~rsade---p~T--~f-y~C~~Cg~~w~ 54 (57)
T 1qyp_A 15 KITCPKCGN---DTAYWWEMQTRAGDE---PST--IF-YKCTKCGHTWR 54 (57)
T ss_dssp ECCCTTTCC---SEEEEEEECCSSSSC---SSE--EE-EEESSSCCEEE
T ss_pred EeECCCCCC---CEEEEEEeecccCCC---CCc--EE-EEcCCCCCEec
Confidence 467999996 333444333222233 222 34 45999987643
No 32
>2d8x_A Protein pinch; LIM domain, pinch 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=33.97 E-value=9.1 Score=27.12 Aligned_cols=39 Identities=28% Similarity=0.693 Sum_probs=23.6
Q ss_pred cceecCCCCCccccCccccccccccCCCcccceeeEEEEEEcCCCCceEE
Q 020340 39 MSIRCNTCGNYIYKGTKFNSRKEDAIGETYLGIQIFRFYFKCTKCSAELT 88 (327)
Q Consensus 39 F~i~C~~Cg~yI~kG~KFNArKe~v~gE~Ylgi~I~rFyiKC~~C~~eI~ 88 (327)
+...|..|+..|+ |.... +.|..|..- -|+|..|...|.
T Consensus 4 ~~~~C~~C~~~I~-~~~~~-----a~~~~~H~~-----CF~C~~C~~~L~ 42 (70)
T 2d8x_A 4 GSSGCHQCGEFII-GRVIK-----AMNNSWHPE-----CFRCDLCQEVLA 42 (70)
T ss_dssp CSSBCSSSCCBCC-SCCEE-----ETTEEECTT-----TSBCSSSCCBCS
T ss_pred CCCcCccCCCEec-ceEEE-----ECccccccc-----CCEeCCCCCcCC
Confidence 4568999999998 53222 223222221 367888887653
No 33
>2co8_A NEDD9 interacting protein with calponin homology and LIM domains; zinc finger protein, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3
Probab=33.31 E-value=16 Score=26.98 Aligned_cols=39 Identities=26% Similarity=0.554 Sum_probs=26.0
Q ss_pred ceecCCCCCccccCccccccccccCCCcccceeeEEEEEEcCCCCceEE
Q 020340 40 SIRCNTCGNYIYKGTKFNSRKEDAIGETYLGIQIFRFYFKCTKCSAELT 88 (327)
Q Consensus 40 ~i~C~~Cg~yI~kG~KFNArKe~v~gE~Ylgi~I~rFyiKC~~C~~eI~ 88 (327)
..+|..|+..||.+.+..| .|..|... =|+|..|...|.
T Consensus 15 ~~~C~~C~~~I~~~e~v~a-----~~~~wH~~-----CF~C~~C~~~L~ 53 (82)
T 2co8_A 15 GDLCALCGEHLYVLERLCV-----NGHFFHRS-----CFRCHTCEATLW 53 (82)
T ss_dssp SCBCSSSCCBCCTTTBCCB-----TTBCCBTT-----TCBCSSSCCBCC
T ss_pred CCCCcccCCCcccceEEEE-----CCCeeCCC-----cCEEcCCCCCcC
Confidence 4579999999997765543 23234332 478999987653
No 34
>2k3r_A Ribonuclease P protein component 4; PFU RPP21, RNAse P, hydrolase, tRNA processing; NMR {Pyrococcus furiosus} PDB: 2ki7_B
Probab=32.87 E-value=42 Score=27.66 Aligned_cols=45 Identities=18% Similarity=0.416 Sum_probs=31.8
Q ss_pred ecCCCCCccccCccccccccccCCCcccceeeEEEEEEcCCCCceEEEeeCCC
Q 020340 42 RCNTCGNYIYKGTKFNSRKEDAIGETYLGIQIFRFYFKCTKCSAELTIKTDPQ 94 (327)
Q Consensus 42 ~C~~Cg~yI~kG~KFNArKe~v~gE~Ylgi~I~rFyiKC~~C~~eI~fkTDPk 94 (327)
.|..|+.++--| .|++... .+..+ + ..-+.|..|+..-.|-.+++
T Consensus 62 ~Ck~C~s~LIPG--~t~~vri-~~~~k---~--~vv~tCl~Cg~~kR~p~~~~ 106 (123)
T 2k3r_A 62 YCKKCHAFLVPG--INARVRL-RQKRM---P--HIVVKCLECGHIMRYPYIKE 106 (123)
T ss_dssp BCTTTCCBCCBT--TTEEEEE-ECSSS---C--EEEEEETTTTEEEEEECCC-
T ss_pred hccCCCCEeECC--CceEEEE-ecCCc---c--EEEEECCCCCCEEEEecCcc
Confidence 799999999888 4565542 23222 2 26779999999888877664
No 35
>2xqn_T Testin, TESS; metal-binding protein, cytoskeleton, focal adhesion, acrosom; 2.62A {Homo sapiens}
Probab=32.44 E-value=13 Score=29.25 Aligned_cols=13 Identities=15% Similarity=0.521 Sum_probs=8.6
Q ss_pred EEEEcCCCCceEE
Q 020340 76 FYFKCTKCSAELT 88 (327)
Q Consensus 76 FyiKC~~C~~eI~ 88 (327)
|--+|..|...|.
T Consensus 62 ~~~~C~~C~~~I~ 74 (126)
T 2xqn_T 62 HAVVCQGCHNAID 74 (126)
T ss_dssp SCCBCTTTCSBCC
T ss_pred cCccCcccCCcCC
Confidence 4456777777665
No 36
>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=32.02 E-value=13 Score=27.82 Aligned_cols=41 Identities=24% Similarity=0.426 Sum_probs=26.2
Q ss_pred ecccceecCCCCCccccCccccccccccCCCcccceeeEEEEEEcCCCCceE
Q 020340 36 MLPMSIRCNTCGNYIYKGTKFNSRKEDAIGETYLGIQIFRFYFKCTKCSAEL 87 (327)
Q Consensus 36 m~PF~i~C~~Cg~yI~kG~KFNArKe~v~gE~Ylgi~I~rFyiKC~~C~~eI 87 (327)
.++..-+|..|+..|+ |.... +.|..|+-- -|+|..|...|
T Consensus 21 ~~~~~~~C~~C~~~I~-~~~~~-----a~~~~~H~~-----CF~C~~C~~~L 61 (89)
T 1x64_A 21 SAQRMPLCDKCGSGIV-GAVVK-----ARDKYRHPE-----CFVCADCNLNL 61 (89)
T ss_dssp CCCSCCBCTTTCCBCC-SCCEE-----SSSCEECTT-----TCCCSSSCCCT
T ss_pred CCCcCCCcccCCCEec-ccEEE-----ECCceECcc-----CCEecCCCCCC
Confidence 5577789999999999 42222 223233322 36788888765
No 37
>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=31.91 E-value=12 Score=30.28 Aligned_cols=43 Identities=23% Similarity=0.386 Sum_probs=26.8
Q ss_pred ecccceecCCCCCccccCccccccccccCCCcccceeeEEEEEEcCCCCceEE
Q 020340 36 MLPMSIRCNTCGNYIYKGTKFNSRKEDAIGETYLGIQIFRFYFKCTKCSAELT 88 (327)
Q Consensus 36 m~PF~i~C~~Cg~yI~kG~KFNArKe~v~gE~Ylgi~I~rFyiKC~~C~~eI~ 88 (327)
...|.-+|..|+..|+-+....| .|..|.. =-|+|..|...|.
T Consensus 57 ~~~~~~~C~~C~~~I~~~~~v~a-----~~~~wH~-----~CF~C~~C~~~L~ 99 (123)
T 2l4z_A 57 GGLSWKRCAGCGGKIADRFLLYA-----MDSYWHS-----RCLKCSSCQAQLG 99 (123)
T ss_dssp SCSSCSBBSSSSSBCCSSSEEEE-----TTEEEET-----TTSBCTTTCCBGG
T ss_pred cCccCCcCcCCCCCcCCcEEEEe-----CCcEEcc-----cccCcCcCCCccc
Confidence 45577899999999984323332 2312221 1378999988764
No 38
>2dj7_A Actin-binding LIM protein 3; LIM domain, Zn binding protein, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3
Probab=31.75 E-value=13 Score=27.62 Aligned_cols=38 Identities=26% Similarity=0.525 Sum_probs=26.1
Q ss_pred ceecCCCCCccccCccccccccccCCCcccceeeEEEEEEcCCCCceE
Q 020340 40 SIRCNTCGNYIYKGTKFNSRKEDAIGETYLGIQIFRFYFKCTKCSAEL 87 (327)
Q Consensus 40 ~i~C~~Cg~yI~kG~KFNArKe~v~gE~Ylgi~I~rFyiKC~~C~~eI 87 (327)
..+|..|+..|+-|...+|. |..|... -|+|..|...|
T Consensus 15 ~~~C~~C~~~I~~~~~v~a~-----~~~wH~~-----CF~C~~C~~~L 52 (80)
T 2dj7_A 15 PSHCAGCKEEIKHGQSLLAL-----DKQWHVS-----CFKCQTCSVIL 52 (80)
T ss_dssp CSCCTTTCCCCSSSCCEEET-----TEEECTT-----TCBCSSSCCBC
T ss_pred CCCCcCcCCeeCCCeEEEEC-----Ccccccc-----cCCcCcCCCCc
Confidence 56899999999977655442 3233332 47899998876
No 39
>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=31.11 E-value=26 Score=31.44 Aligned_cols=18 Identities=17% Similarity=0.815 Sum_probs=12.1
Q ss_pred cccceecCCCC-CccccCc
Q 020340 37 LPMSIRCNTCG-NYIYKGT 54 (327)
Q Consensus 37 ~PF~i~C~~Cg-~yI~kG~ 54 (327)
-||.+.|..|+ ++++.|+
T Consensus 19 ~~l~l~Cp~C~~~~~F~gv 37 (206)
T 3flo_B 19 VTLELSCPSCDKRFPFGGI 37 (206)
T ss_dssp CCEEEECTTTCCEEEECSS
T ss_pred ceeEEECCCCCCccCCCCc
Confidence 47777777776 4566665
No 40
>3pwf_A Rubrerythrin; non heme iron peroxidases, oxidative stress, oxidoreductase; 1.64A {Pyrococcus furiosus} PDB: 3mps_A 3pza_A 3qvd_A 1nnq_A 2hr5_A
Probab=30.86 E-value=17 Score=31.43 Aligned_cols=7 Identities=43% Similarity=1.051 Sum_probs=5.3
Q ss_pred EcCCCCc
Q 020340 79 KCTKCSA 85 (327)
Q Consensus 79 KC~~C~~ 85 (327)
+||.|.+
T Consensus 155 ~CP~Cg~ 161 (170)
T 3pwf_A 155 YCPVCGA 161 (170)
T ss_dssp BCTTTCC
T ss_pred CCCCCCC
Confidence 6888875
No 41
>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=30.75 E-value=11 Score=27.22 Aligned_cols=39 Identities=18% Similarity=0.501 Sum_probs=24.0
Q ss_pred cceecCCCCCccccCccccccccccCCCcccceeeEEEEEEcCCCCceEE
Q 020340 39 MSIRCNTCGNYIYKGTKFNSRKEDAIGETYLGIQIFRFYFKCTKCSAELT 88 (327)
Q Consensus 39 F~i~C~~Cg~yI~kG~KFNArKe~v~gE~Ylgi~I~rFyiKC~~C~~eI~ 88 (327)
|..+|..|+..|+ |... .+.|..|... -|+|..|...|.
T Consensus 14 ~~~~C~~C~~~I~-~~~v-----~a~~~~~H~~-----CF~C~~C~~~L~ 52 (80)
T 1x3h_A 14 FSPKCGGCNRPVL-ENYL-----SAMDTVWHPE-----CFVCGDCFTSFS 52 (80)
T ss_dssp CSCBCTTTCCBCC-SSCE-----EETTEEECTT-----TCBCSSSCCBSC
T ss_pred cCCccccCCCeec-ceeE-----EECCCeEecC-----cCChhhCCCCCC
Confidence 4568999999998 3222 1223233221 367899988763
No 42
>1wyh_A SLIM 2, skeletal muscle LIM-protein 2; structural genomics, riken structural genomics/proteomics initiative, RSGI, NPPSFA; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3
Probab=30.50 E-value=15 Score=25.95 Aligned_cols=39 Identities=31% Similarity=0.647 Sum_probs=25.3
Q ss_pred cceecCCCCCccccC-ccccccccccCCCcccceeeEEEEEEcCCCCceE
Q 020340 39 MSIRCNTCGNYIYKG-TKFNSRKEDAIGETYLGIQIFRFYFKCTKCSAEL 87 (327)
Q Consensus 39 F~i~C~~Cg~yI~kG-~KFNArKe~v~gE~Ylgi~I~rFyiKC~~C~~eI 87 (327)
|...|..|+..|+-+ ....| .|..|... -|+|..|...|
T Consensus 4 ~~~~C~~C~~~I~~~~~~~~a-----~~~~~H~~-----CF~C~~C~~~L 43 (72)
T 1wyh_A 4 GSSGCSACGETVMPGSRKLEY-----GGQTWHEH-----CFLCSGCEQPL 43 (72)
T ss_dssp CCCBCSSSCCBCCSSSCEECS-----TTCCEETT-----TCBCTTTCCBT
T ss_pred cCCCCccCCCccccCccEEEE-----CccccCcc-----cCeECCCCCcC
Confidence 677999999999974 33332 23233322 36788888765
No 43
>1x0t_A Ribonuclease P protein component 4; pyrococcus horikoshii OT3, hydrolase; 1.60A {Pyrococcus horikoshii} PDB: 2zae_B
Probab=30.48 E-value=57 Score=26.64 Aligned_cols=44 Identities=16% Similarity=0.373 Sum_probs=30.7
Q ss_pred ecCCCCCccccCccccccccccCCCcccceeeEEEEEEcCCCCceEEEeeCC
Q 020340 42 RCNTCGNYIYKGTKFNSRKEDAIGETYLGIQIFRFYFKCTKCSAELTIKTDP 93 (327)
Q Consensus 42 ~C~~Cg~yI~kG~KFNArKe~v~gE~Ylgi~I~rFyiKC~~C~~eI~fkTDP 93 (327)
.|..|+.++--|. |++-.. .+..+ + ..-+.|..|+..-.|-.++
T Consensus 67 ~Ck~C~s~LiPG~--t~~vri-~~~~~---~--~vv~tCl~Cg~~kR~p~~~ 110 (120)
T 1x0t_A 67 YCKRCHTFLIPGV--NARVRL-RTKRM---P--HVVITCLECGYIMRYPYLR 110 (120)
T ss_dssp BCTTTCCBCCBTT--TEEEEE-ECSSS---C--EEEEEETTTCCEEEEECC-
T ss_pred hccCCCCEeECCC--ceEEEE-ecCCc---c--EEEEECCCCCCEEEEccCc
Confidence 7999999999896 565542 23222 2 3677999999987776654
No 44
>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=29.03 E-value=13 Score=26.76 Aligned_cols=37 Identities=30% Similarity=0.703 Sum_probs=22.6
Q ss_pred ecCCCCCccccCccccccccccCCCcccceeeEEEEEEcCCCCceEE
Q 020340 42 RCNTCGNYIYKGTKFNSRKEDAIGETYLGIQIFRFYFKCTKCSAELT 88 (327)
Q Consensus 42 ~C~~Cg~yI~kG~KFNArKe~v~gE~Ylgi~I~rFyiKC~~C~~eI~ 88 (327)
+|..|+..|+-|....|. |..|... -|+|..|...|.
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 588999999876654432 3223221 367888877653
No 45
>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=28.92 E-value=15 Score=25.87 Aligned_cols=38 Identities=24% Similarity=0.374 Sum_probs=24.2
Q ss_pred cceecCCCCCccccCccccccccccCCCcccceeeEEEEEEcCCCCceE
Q 020340 39 MSIRCNTCGNYIYKGTKFNSRKEDAIGETYLGIQIFRFYFKCTKCSAEL 87 (327)
Q Consensus 39 F~i~C~~Cg~yI~kG~KFNArKe~v~gE~Ylgi~I~rFyiKC~~C~~eI 87 (327)
|..+|..|+..|+ +.... +.|..|... -|+|..|...|
T Consensus 4 ~~~~C~~C~~~I~-~~~~~-----a~~~~~H~~-----CF~C~~C~~~L 41 (70)
T 2d8z_A 4 GSSGCVQCKKPIT-TGGVT-----YREQPWHKE-----CFVCTACRKQL 41 (70)
T ss_dssp CCCBCSSSCCBCC-SSEEE-----SSSSEEETT-----TSBCSSSCCBC
T ss_pred CCCCCcccCCeec-cceEE-----ECccccCCC-----CCccCCCCCcC
Confidence 6778999999997 43222 234333322 36788888876
No 46
>2dlo_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=28.19 E-value=17 Score=26.49 Aligned_cols=38 Identities=26% Similarity=0.586 Sum_probs=24.7
Q ss_pred cceecCCCCCccccCccccccccccCCCcccceeeEEEEEEcCCCCceE
Q 020340 39 MSIRCNTCGNYIYKGTKFNSRKEDAIGETYLGIQIFRFYFKCTKCSAEL 87 (327)
Q Consensus 39 F~i~C~~Cg~yI~kG~KFNArKe~v~gE~Ylgi~I~rFyiKC~~C~~eI 87 (327)
|..+|..|+..|+ |....| .|..|... -|+|..|...|
T Consensus 14 ~~~~C~~C~~~I~-~~~~~a-----~~~~~H~~-----CF~C~~C~~~L 51 (81)
T 2dlo_A 14 TLEKCATCSQPIL-DRILRA-----MGKAYHPG-----CFTCVVCHRGL 51 (81)
T ss_dssp SCCBCTTTCCBCC-SCCEEE-----TTEEECTT-----TCBCSSSCCBC
T ss_pred CCCccccCCCeec-ceeEEE-----CCccccHH-----hcCcccCCCcc
Confidence 6789999999998 543332 23233322 36788898876
No 47
>2cuq_A Four and A half LIM domains 3; structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3
Probab=27.83 E-value=19 Score=26.03 Aligned_cols=38 Identities=21% Similarity=0.517 Sum_probs=24.6
Q ss_pred cceecCCCCCccccCccccccccccCCCcccceeeEEEEEEcCCCCceE
Q 020340 39 MSIRCNTCGNYIYKGTKFNSRKEDAIGETYLGIQIFRFYFKCTKCSAEL 87 (327)
Q Consensus 39 F~i~C~~Cg~yI~kG~KFNArKe~v~gE~Ylgi~I~rFyiKC~~C~~eI 87 (327)
|..+|..|+..|+-. .. .+.|..|... -|+|..|...|
T Consensus 14 ~~~~C~~C~~~I~~~-~v-----~a~~~~~H~~-----CF~C~~C~~~L 51 (80)
T 2cuq_A 14 FAPRCARCSKTLTQG-GV-----TYRDQPWHRE-----CLVCTGCQTPL 51 (80)
T ss_dssp SSCCCTTTCCCCCSC-CE-----ESSSSEECTT-----TCBCSSSCCBC
T ss_pred cCCcCCCCCCEecCc-EE-----EECCchhhhh-----hCCcccCCCcC
Confidence 567899999999742 22 2334334332 36889998876
No 48
>1tot_A CREB-binding protein; zinc binding, CBP, TAZ2, transferase; NMR {Mus musculus} SCOP: g.44.1.6
Probab=27.64 E-value=18 Score=25.65 Aligned_cols=13 Identities=23% Similarity=0.680 Sum_probs=9.7
Q ss_pred ccceecCCCCCcc
Q 020340 38 PMSIRCNTCGNYI 50 (327)
Q Consensus 38 PF~i~C~~Cg~yI 50 (327)
.|.+.|+.|+..|
T Consensus 4 ~~~~~Cd~C~~~i 16 (52)
T 1tot_A 4 RFVYTCNECKHHV 16 (52)
T ss_dssp SSCEEETTTTEEE
T ss_pred cCEEECCCCCCCC
Confidence 3667899998764
No 49
>1ef4_A Subunit N, DNA-directed RNA polymerase; three helix bundle, zinc binding, structural genomics, PSI; NMR {Methanothermobacterthermautotrophicus} SCOP: a.4.11.1
Probab=27.53 E-value=16 Score=26.89 Aligned_cols=13 Identities=31% Similarity=0.966 Sum_probs=9.6
Q ss_pred cceecCCCCCccc
Q 020340 39 MSIRCNTCGNYIY 51 (327)
Q Consensus 39 F~i~C~~Cg~yI~ 51 (327)
+.|+|-|||..|+
T Consensus 2 iPVRCFTCGkvi~ 14 (55)
T 1ef4_A 2 IPVRCLSCGKPVS 14 (55)
T ss_dssp CSSSCSCTTSCCH
T ss_pred CCeecCCCCCChh
Confidence 3578888888774
No 50
>1e8j_A Rubredoxin; iron-sulfur-protein, zinc-substitution, thermostability; NMR {Desulfovibrio gigas} SCOP: g.41.5.1 PDB: 1rdg_A 2dsx_A 1spw_A
Probab=26.33 E-value=26 Score=25.00 Aligned_cols=29 Identities=41% Similarity=0.988 Sum_probs=19.9
Q ss_pred eecCCCCCcccc------------CccccccccccCCCcccceeeEEEEEEcCCCCc
Q 020340 41 IRCNTCGNYIYK------------GTKFNSRKEDAIGETYLGIQIFRFYFKCTKCSA 85 (327)
Q Consensus 41 i~C~~Cg~yI~k------------G~KFNArKe~v~gE~Ylgi~I~rFyiKC~~C~~ 85 (327)
.+|..|| |||- ||.|..--+ ..+|+.|.+
T Consensus 4 y~C~~CG-yvYd~~~Gdp~~gi~pGt~f~~lP~---------------dw~CP~Cg~ 44 (52)
T 1e8j_A 4 YVCTVCG-YEYDPAKGDPDSGIKPGTKFEDLPD---------------DWACPVCGA 44 (52)
T ss_dssp EECSSSC-CCCCTTTCCTTTTCCSSCCTTSSCT---------------TCCCSSSCC
T ss_pred EEeCCCC-eEEcCCcCCcccCcCCCCchHHCCC---------------CCcCCCCCC
Confidence 5799999 7775 566654432 236999987
No 51
>1tfi_A Transcriptional elongation factor SII; transcription regulation; NMR {Homo sapiens} SCOP: g.41.3.1
Probab=25.58 E-value=71 Score=22.44 Aligned_cols=41 Identities=17% Similarity=0.519 Sum_probs=22.5
Q ss_pred ceecCCCCCccccCccccccccccCCCcccceeeEEEEEEcCCCCceEEE
Q 020340 40 SIRCNTCGNYIYKGTKFNSRKEDAIGETYLGIQIFRFYFKCTKCSAELTI 89 (327)
Q Consensus 40 ~i~C~~Cg~yI~kG~KFNArKe~v~gE~Ylgi~I~rFyiKC~~C~~eI~f 89 (327)
.+.|..||. ...-|-..--+..+| |.=.|| .|..|+..+.|
T Consensus 9 ~~~Cp~Cg~---~~a~f~q~Q~RsaDE-----~mT~Fy-~C~~Cg~~w~~ 49 (50)
T 1tfi_A 9 LFTCGKCKK---KNCTYTQVQTRSADE-----PMTTFV-VCNECGNRWKF 49 (50)
T ss_dssp CSCCSSSCS---SCEEEEEECSSSSSS-----CCEEEE-EESSSCCEEEC
T ss_pred ccCCCCCCC---CEEEEEEecCcCCCC-----CceEEE-EcCCCCCeEEe
Confidence 357999984 333333333222243 233344 59999987654
No 52
>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=25.55 E-value=60 Score=25.41 Aligned_cols=14 Identities=21% Similarity=0.726 Sum_probs=9.1
Q ss_pred ceecCCCCCc-cccC
Q 020340 40 SIRCNTCGNY-IYKG 53 (327)
Q Consensus 40 ~i~C~~Cg~y-I~kG 53 (327)
+|.|..||.- +..+
T Consensus 2 ~M~Cp~Cg~~~~~~~ 16 (133)
T 3o9x_A 2 HMKCPVCHQGEMVSG 16 (133)
T ss_dssp CCBCTTTSSSBEEEE
T ss_pred CcCCCcCCCCceeec
Confidence 5788888753 4333
No 53
>2cup_A Skeletal muscle LIM-protein 1; four and half LIM domains protein 1, LIM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3 g.39.1.3
Probab=25.22 E-value=22 Score=26.72 Aligned_cols=14 Identities=29% Similarity=0.309 Sum_probs=8.6
Q ss_pred cceecCCCCCcccc
Q 020340 39 MSIRCNTCGNYIYK 52 (327)
Q Consensus 39 F~i~C~~Cg~yI~k 52 (327)
|..+|..|+..|+.
T Consensus 4 ~~~~C~~C~~~I~~ 17 (101)
T 2cup_A 4 GSSGCVECRKPIGA 17 (101)
T ss_dssp CCCBCSSSCCBCCS
T ss_pred CCCcCcccCCcccC
Confidence 44566666666653
No 54
>2db6_A SH3 and cysteine rich domain 3; STAC3, C1 domain, cystein-rich domain, zinc-binding domain, structural genomics, NPPSFA; NMR {Homo sapiens}
Probab=24.42 E-value=78 Score=23.36 Aligned_cols=32 Identities=19% Similarity=0.311 Sum_probs=18.5
Q ss_pred CCCCCcccCCCCCCccEEEEecccceecCCCCCccc
Q 020340 16 DPSKLPRIRRPKNQQIKVRMMLPMSIRCNTCGNYIY 51 (327)
Q Consensus 16 DPsKipR~Kk~k~~~~~VRfm~PF~i~C~~Cg~yI~ 51 (327)
||.++...+. . .-....|. ...+|..|+..|.
T Consensus 8 ~~~k~~~~~~-H-~F~~~~f~--~pt~C~~C~~~lw 39 (74)
T 2db6_A 8 EPPKLVNDKP-H-KFKDHFFK--KPKFCDVCARMIV 39 (74)
T ss_dssp CCCCCSCSSB-C-CEEEEECS--SCEECSSSCCEEC
T ss_pred cccccccCCC-C-ceEEeeCC--CCcCchhcChhhc
Confidence 7776543321 1 11223343 4589999999985
No 55
>2l3k_A Rhombotin-2, linker, LIM domain-binding protein 1; LMO2(LIM2)-LDB1(LID), chimera, fusion protein, oncoprotein; NMR {Mus musculus} PDB: 2l6y_B 2l6z_C
Probab=24.35 E-value=30 Score=27.43 Aligned_cols=39 Identities=21% Similarity=0.450 Sum_probs=25.0
Q ss_pred cce--ecCCCCCccccCccc-cccccccCCCcccceeeEEEEEEcCCCCceE
Q 020340 39 MSI--RCNTCGNYIYKGTKF-NSRKEDAIGETYLGIQIFRFYFKCTKCSAEL 87 (327)
Q Consensus 39 F~i--~C~~Cg~yI~kG~KF-NArKe~v~gE~Ylgi~I~rFyiKC~~C~~eI 87 (327)
|.. .|..|+..|+-+-++ .|. |..|+-- =|+|..|...|
T Consensus 5 fg~~~~C~~C~~~I~~~e~~~~a~-----~~~~H~~-----CF~C~~C~~~L 46 (123)
T 2l3k_A 5 FGQDGLCASCDKRIRAYEMTMRVK-----DKVYHLE-----CFKCAACQKHF 46 (123)
T ss_dssp SSSSCCCSSSSCCCCTTCCCCCCS-----SCCCCTT-----TCBCTTTCCBC
T ss_pred hCCCCcccCCCCeecCCceEEEEC-----Ccccccc-----cCccccCCCCC
Confidence 566 899999999874332 332 3234332 46788888776
No 56
>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=23.36 E-value=43 Score=24.07 Aligned_cols=28 Identities=18% Similarity=0.575 Sum_probs=18.0
Q ss_pred eecCCCCCccccCccccccccccCCCcccceeeEEEEEEcCCCCceE
Q 020340 41 IRCNTCGNYIYKGTKFNSRKEDAIGETYLGIQIFRFYFKCTKCSAEL 87 (327)
Q Consensus 41 i~C~~Cg~yI~kG~KFNArKe~v~gE~Ylgi~I~rFyiKC~~C~~eI 87 (327)
..|..||+.+.....|+ ++.|..|.-..
T Consensus 19 ~fCPkCG~~~~ma~~~d-------------------r~~C~kCgyt~ 46 (55)
T 2k4x_A 19 RFCPRCGPGVFLAEHAD-------------------RYSCGRCGYTE 46 (55)
T ss_dssp CCCTTTTTTCCCEECSS-------------------EEECTTTCCCE
T ss_pred ccCcCCCCceeEeccCC-------------------EEECCCCCCEE
Confidence 45888988665443332 66788887653
No 57
>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=23.16 E-value=48 Score=30.16 Aligned_cols=24 Identities=33% Similarity=0.898 Sum_probs=18.1
Q ss_pred cCCCcccceeeEEEEEEcCCCCceEEEe
Q 020340 63 AIGETYLGIQIFRFYFKCTKCSAELTIK 90 (327)
Q Consensus 63 v~gE~Ylgi~I~rFyiKC~~C~~eI~fk 90 (327)
+.|.+| -.|.|| ||-.|...+-|-
T Consensus 144 ~~GqDy---vFWQFY-KCe~CgKYvDId 167 (226)
T 2czr_A 144 LAGQDY---IFWQFY-KCEECGKYVDIE 167 (226)
T ss_dssp CBTTTE---EEEEEE-ECTTTCCEEEGG
T ss_pred ccCcce---EEEEEE-ehhhcCceecHH
Confidence 346666 478888 899999987664
No 58
>1yk4_A Rubredoxin, RD; electron transport; 0.69A {Pyrococcus abyssi} PDB: 2pya_A 1yk5_A 1bq8_A 1bq9_A* 3kyu_A 3kyv_A 3kyw_A 3kyx_A 3kyy_A 3ryg_A 3rz6_A 3rzt_A 3ss2_A 1brf_A 1caa_A 1cad_A 1vcx_A 1zrp_A 1iu5_A 1iu6_A ...
Probab=23.00 E-value=30 Score=24.65 Aligned_cols=30 Identities=43% Similarity=1.048 Sum_probs=20.3
Q ss_pred eecCCCCCccc------------cCccccccccccCCCcccceeeEEEEEEcCCCCce
Q 020340 41 IRCNTCGNYIY------------KGTKFNSRKEDAIGETYLGIQIFRFYFKCTKCSAE 86 (327)
Q Consensus 41 i~C~~Cg~yI~------------kG~KFNArKe~v~gE~Ylgi~I~rFyiKC~~C~~e 86 (327)
.+|..|| ||| -||.|..--+ ..+|+.|.+.
T Consensus 3 ~~C~~CG-yvYd~~~Gdp~~gi~pGt~f~~lP~---------------dw~CP~Cg~~ 44 (52)
T 1yk4_A 3 LSCKICG-YIYDEDEGDPDNGISPGTKFEDLPD---------------DWVCPLCGAP 44 (52)
T ss_dssp EEESSSS-CEEETTTCBGGGTBCTTCCGGGSCT---------------TCBCTTTCCB
T ss_pred EEeCCCC-eEECCCcCCcccCcCCCCCHhHCCC---------------CCcCCCCCCC
Confidence 4799999 666 4667765432 2369999873
No 59
>1zfo_A LAsp-1; LIM domain, zinc-finger, metal-binding protein; NMR {Sus scrofa} SCOP: g.39.1.4
Probab=22.37 E-value=37 Score=21.36 Aligned_cols=20 Identities=35% Similarity=0.806 Sum_probs=15.3
Q ss_pred cceecCCCCCccccCccccc
Q 020340 39 MSIRCNTCGNYIYKGTKFNS 58 (327)
Q Consensus 39 F~i~C~~Cg~yI~kG~KFNA 58 (327)
++-.|..|+..+|-+.+..+
T Consensus 2 m~~~C~~C~k~Vy~~Ek~~~ 21 (31)
T 1zfo_A 2 MNPNCARCGKIVYPTEKVNC 21 (31)
T ss_dssp CCCBCSSSCSBCCGGGCCCS
T ss_pred CCCcCCccCCEEecceeEEE
Confidence 35589999999997766554
No 60
>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=21.66 E-value=7.6 Score=26.55 Aligned_cols=14 Identities=21% Similarity=0.574 Sum_probs=10.6
Q ss_pred EEEcCCCCceEEEe
Q 020340 77 YFKCTKCSAELTIK 90 (327)
Q Consensus 77 yiKC~~C~~eI~fk 90 (327)
...|++|...|.+.
T Consensus 9 ~~~C~~C~~~i~~~ 22 (39)
T 2i5o_A 9 QVPCEKCGSLVPVW 22 (39)
T ss_dssp EEECTTTCCEEEGG
T ss_pred CcccccccCcCCcc
Confidence 45799998887753
No 61
>4rxn_A Rubredoxin; electron transfer(iron-sulfur protein); 1.20A {Clostridium pasteurianum} SCOP: g.41.5.1 PDB: 5rxn_A 1bfy_A 1fhh_A 1fhm_A 1irn_A 1iro_A 1r0f_A 1r0g_A 1r0h_A 1r0i_A 1r0j_A 1t9q_A 1c09_A 1b2j_A 1b13_A 1smm_A 1smu_A 1smw_A 1be7_A 1t9o_A ...
Probab=21.63 E-value=31 Score=24.98 Aligned_cols=30 Identities=37% Similarity=0.934 Sum_probs=20.1
Q ss_pred eecCCCCCcccc------------CccccccccccCCCcccceeeEEEEEEcCCCCce
Q 020340 41 IRCNTCGNYIYK------------GTKFNSRKEDAIGETYLGIQIFRFYFKCTKCSAE 86 (327)
Q Consensus 41 i~C~~Cg~yI~k------------G~KFNArKe~v~gE~Ylgi~I~rFyiKC~~C~~e 86 (327)
-+|..|| |||- ||.|..-- . ...|+.|.+.
T Consensus 4 y~C~vCG-yvYd~~~Gdp~~gi~pGt~fe~lP----~-----------dw~CP~Cg~~ 45 (54)
T 4rxn_A 4 YTCTVCG-YIYDPEDGDPDDGVNPGTDFKDIP----D-----------DWVCPLCGVG 45 (54)
T ss_dssp EEETTTC-CEECTTTCBGGGTBCTTCCGGGSC----T-----------TCBCTTTCCB
T ss_pred eECCCCC-eEECCCcCCcccCcCCCCChhHCC----C-----------CCcCcCCCCc
Confidence 3799998 6654 67776432 2 2369999873
No 62
>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=21.56 E-value=28 Score=25.95 Aligned_cols=39 Identities=21% Similarity=0.571 Sum_probs=25.1
Q ss_pred cceecCCCCCccccCccccccccccCCCcccceeeEEEEEEcCCCCceEE
Q 020340 39 MSIRCNTCGNYIYKGTKFNSRKEDAIGETYLGIQIFRFYFKCTKCSAELT 88 (327)
Q Consensus 39 F~i~C~~Cg~yI~kG~KFNArKe~v~gE~Ylgi~I~rFyiKC~~C~~eI~ 88 (327)
+...|..|+..|+ |....| .|..|.-- -|+|..|...|.
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 6678999999995 543332 23223222 478999988764
No 63
>1v6g_A Actin binding LIM protein 2; LIM domain, zinc binding domain, ablim2, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3
Probab=21.45 E-value=34 Score=24.81 Aligned_cols=39 Identities=28% Similarity=0.686 Sum_probs=23.6
Q ss_pred cceecCCCCCccccCccccccccccCCCcccceeeEEEEEEcCCCCceEE
Q 020340 39 MSIRCNTCGNYIYKGTKFNSRKEDAIGETYLGIQIFRFYFKCTKCSAELT 88 (327)
Q Consensus 39 F~i~C~~Cg~yI~kG~KFNArKe~v~gE~Ylgi~I~rFyiKC~~C~~eI~ 88 (327)
|..+|..|+..|+ |....| .|..|+-- =|+|..|...|.
T Consensus 14 ~~~~C~~C~~~I~-~~~v~a-----~~~~wH~~-----CF~C~~C~~~L~ 52 (81)
T 1v6g_A 14 YGTRCFSCDQFIE-GEVVSA-----LGKTYHPD-----CFVCAVCRLPFP 52 (81)
T ss_dssp CCCBCTTTCCBCC-SCCEEE-----TTEEECTT-----TSSCSSSCCCCC
T ss_pred hCCcCccccCEec-cceEEE-----CCceeCcc-----CCccccCCCCCC
Confidence 5679999999998 643332 23222221 356788877553
No 64
>3po3_S Transcription elongation factor S-II; RNA polymerase II, mRNA, transcription, arrest, BACKTRACKING cleavage, transferase-DNA-RNA complex; HET: DNA BRU EPE PGE; 3.30A {Saccharomyces cerevisiae} PDB: 1y1v_S 1y1y_S 3gtm_S* 1enw_A
Probab=20.89 E-value=35 Score=29.71 Aligned_cols=41 Identities=15% Similarity=0.494 Sum_probs=22.5
Q ss_pred ceecCCCCCccccCccccccccccCCCcccceeeEEEEEEcCCCCceEEE
Q 020340 40 SIRCNTCGNYIYKGTKFNSRKEDAIGETYLGIQIFRFYFKCTKCSAELTI 89 (327)
Q Consensus 40 ~i~C~~Cg~yI~kG~KFNArKe~v~gE~Ylgi~I~rFyiKC~~C~~eI~f 89 (327)
.+.|..||. ...-|...--+..+| ++. .|| .|..|+..+.|
T Consensus 137 ~~~Cp~C~~---~~a~~~q~Q~rsaDE---~mt--~f~-~C~~C~~~w~f 177 (178)
T 3po3_S 137 RFTCGKCKE---KKVSYYQLQTRSAAA---PLT--TFC-TCEACGNRWKF 177 (178)
T ss_dssp SSCCSSSCC---SCEECCCCCCSCTTS---CCC--CCE-EETTTCCEECC
T ss_pred CcCCCCCCC---CceEEEEeecccCCC---CCc--EEE-EcCCCCCeecc
Confidence 458999995 233344332222233 222 344 59999987654
No 65
>1x62_A C-terminal LIM domain protein 1; PDZ and LIM domain protein 1, LIM domain protein CLP-36, contractIle protein, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3
Probab=20.57 E-value=21 Score=26.02 Aligned_cols=40 Identities=23% Similarity=0.426 Sum_probs=25.0
Q ss_pred ccceecCCCCCccccCccccccccccCCCcccceeeEEEEEEcCCCCceEE
Q 020340 38 PMSIRCNTCGNYIYKGTKFNSRKEDAIGETYLGIQIFRFYFKCTKCSAELT 88 (327)
Q Consensus 38 PF~i~C~~Cg~yI~kG~KFNArKe~v~gE~Ylgi~I~rFyiKC~~C~~eI~ 88 (327)
+...+|..|+..|+ |.... +.|..|+-- -|+|..|...|.
T Consensus 13 ~~~~~C~~C~~~I~-~~~~~-----a~~~~~H~~-----CF~C~~C~~~L~ 52 (79)
T 1x62_A 13 QKLPMCDKCGTGIV-GVFVK-----LRDRHRHPE-----CYVCTDCGTNLK 52 (79)
T ss_dssp CCCCCCSSSCCCCC-SSCEE-----CSSCEECTT-----TTSCSSSCCCHH
T ss_pred CCCCccccCCCCcc-CcEEE-----ECcceeCcC-----cCeeCCCCCCCC
Confidence 45678999999998 43222 223233321 367888888763
Done!