Query 030308
Match_columns 179
No_of_seqs 97 out of 99
Neff 3.5
Searched_HMMs 29240
Date Mon Mar 25 19:03:32 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/030308.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/030308hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 2jrp_A Putative cytoplasmic pr 89.8 0.008 2.7E-07 43.9 -4.7 49 42-102 1-49 (81)
2 2jne_A Hypothetical protein YF 75.5 0.1 3.5E-06 39.6 -4.1 51 39-101 28-78 (101)
3 2ea5_A Cell growth regulator w 70.6 1.7 5.9E-05 29.0 1.5 42 68-109 15-61 (68)
4 2vje_B MDM4 protein; proto-onc 67.9 1.2 4.1E-05 29.1 0.2 43 66-108 5-58 (63)
5 2vje_A E3 ubiquitin-protein li 55.4 2.4 8.3E-05 27.7 -0.0 44 65-108 5-59 (64)
6 2ecg_A Baculoviral IAP repeat- 49.8 6.9 0.00024 25.9 1.5 24 84-107 45-69 (75)
7 2cup_A Skeletal muscle LIM-pro 42.3 1.8 6.2E-05 29.8 -2.4 62 42-105 4-77 (101)
8 2yho_A E3 ubiquitin-protein li 41.2 11 0.00039 25.5 1.6 41 68-108 18-63 (79)
9 4ic3_A E3 ubiquitin-protein li 40.3 12 0.00041 24.7 1.6 25 83-107 43-68 (74)
10 2apo_B Ribosome biogenesis pro 36.6 13 0.00046 25.4 1.3 29 68-110 6-34 (60)
11 3vk6_A E3 ubiquitin-protein li 35.9 9.6 0.00033 28.7 0.6 26 83-108 21-51 (101)
12 3gox_A Restriction endonucleas 32.9 11 0.00038 31.5 0.5 23 83-105 103-148 (200)
13 2l7x_A Envelope glycoprotein; 32.7 9.8 0.00034 27.4 0.1 14 67-80 4-17 (77)
14 2ckl_A Polycomb group ring fin 29.7 25 0.00087 24.4 1.9 23 84-106 36-62 (108)
15 2aus_D NOP10, ribosome biogene 29.5 28 0.00095 23.8 2.0 28 68-109 5-32 (60)
16 1vq8_1 50S ribosomal protein L 27.8 12 0.0004 25.7 -0.2 24 68-102 17-40 (57)
17 2zkr_2 60S ribosomal protein L 27.5 15 0.0005 27.6 0.3 28 68-106 16-43 (97)
18 2lcq_A Putative toxin VAPC6; P 27.2 8 0.00027 29.4 -1.2 22 84-105 132-159 (165)
19 3hug_A RNA polymerase sigma fa 27.1 32 0.0011 23.1 2.0 25 118-142 27-52 (92)
20 3cao_A Cytochrome C3; tetrahem 26.4 24 0.00081 25.1 1.3 55 45-101 35-100 (103)
21 4ayc_A E3 ubiquitin-protein li 26.4 66 0.0022 23.4 3.7 22 84-105 73-98 (138)
22 3vth_A Hydrogenase maturation 25.8 68 0.0023 30.9 4.6 59 41-105 109-194 (761)
23 1or7_A Sigma-24, RNA polymeras 25.6 46 0.0016 24.2 2.8 25 118-142 130-155 (194)
24 3t6p_A Baculoviral IAP repeat- 24.6 14 0.00047 32.2 -0.4 41 68-108 295-340 (345)
25 2k0a_A PRE-mRNA-splicing facto 23.4 17 0.00058 27.8 0.0 27 59-92 53-80 (109)
26 3mzy_A RNA polymerase sigma-H 22.8 55 0.0019 22.7 2.6 24 119-142 99-123 (164)
27 3j21_e 50S ribosomal protein L 22.6 31 0.0011 23.9 1.2 25 68-103 17-41 (62)
28 2er8_A Regulatory protein Leu3 22.2 26 0.00088 22.8 0.7 29 70-98 5-37 (72)
29 1jm7_A BRCA1, breast cancer ty 21.7 47 0.0016 22.7 2.0 22 84-105 41-69 (112)
No 1
>2jrp_A Putative cytoplasmic protein; two-zinc binding protein, structural genomics, PSI-2, protein structure initiative; NMR {Salmonella typhimurium LT2}
Probab=89.82 E-value=0.008 Score=43.92 Aligned_cols=49 Identities=31% Similarity=0.730 Sum_probs=40.1
Q ss_pred ccCcchhhHHHHHHHHHhCCCCCCCCcccccccccchhhHHHHhcChhHHhhccccccccC
Q 030308 42 ITGVCPRCKDQIDWKRRYGKYKPLSEPAKCQRCTKRAVRQAYHNLCPGCAKEQNVCAKCCS 102 (179)
Q Consensus 42 ~~gvCqRC~eiIeWK~kY~KYKpLt~p~KC~kC~qktV~~AYh~iC~~CA~~~~vCaKC~k 102 (179)
|+..|+.|...|+|.-+ ...|..|++-=...| .|+.|..++.+|..||.
T Consensus 1 M~~~CP~C~~~l~~~~~---------~~~C~~C~~~~~~~a---fCPeCgq~Le~lkACGA 49 (81)
T 2jrp_A 1 MEITCPVCHHALERNGD---------TAHCETCAKDFSLQA---LCPDCRQPLQVLKACGA 49 (81)
T ss_dssp CCCCCSSSCSCCEECSS---------EEECTTTCCEEEEEE---ECSSSCSCCCEEEETTE
T ss_pred CCCCCCCCCCccccCCC---------ceECccccccCCCcc---cCcchhhHHHHHHhcCC
Confidence 34679999999999622 456999988766666 79999999999999984
No 2
>2jne_A Hypothetical protein YFGJ; zinc fingers, two zinc, structural genomics, PSI-2, protein structure initiative; NMR {Escherichia coli} SCOP: g.41.18.1
Probab=75.45 E-value=0.1 Score=39.64 Aligned_cols=51 Identities=27% Similarity=0.654 Sum_probs=39.0
Q ss_pred CCCccCcchhhHHHHHHHHHhCCCCCCCCcccccccccchhhHHHHhcChhHHhhcccccccc
Q 030308 39 YPEITGVCPRCKDQIDWKRRYGKYKPLSEPAKCQRCTKRAVRQAYHNLCPGCAKEQNVCAKCC 101 (179)
Q Consensus 39 ~~~~~gvCqRC~eiIeWK~kY~KYKpLt~p~KC~kC~qktV~~AYh~iC~~CA~~~~vCaKC~ 101 (179)
.+.|+..|+.|...|+|. ....-|..|.+--.+.| .|++|..++.+.-.||
T Consensus 28 ~~~M~~~CP~Cq~eL~~~---------g~~~hC~~C~~~f~~~a---~CPdC~q~LevLkACG 78 (101)
T 2jne_A 28 GSHMELHCPQCQHVLDQD---------NGHARCRSCGEFIEMKA---LCPDCHQPLQVLKACG 78 (101)
T ss_dssp ---CCCBCSSSCSBEEEE---------TTEEEETTTCCEEEEEE---ECTTTCSBCEEEEETT
T ss_pred cccccccCccCCCcceec---------CCEEECccccchhhccc---cCcchhhHHHHHHHhc
Confidence 345788999999999996 23446999987655554 5999999999999998
No 3
>2ea5_A Cell growth regulator with ring finger domain protein 1; CGRRF1, ring domain, zinc-binding domain, structural genomics, NPPSFA; NMR {Homo sapiens}
Probab=70.59 E-value=1.7 Score=29.01 Aligned_cols=42 Identities=29% Similarity=0.621 Sum_probs=31.1
Q ss_pred cccccccccchhhHH----HHh-cChhHHhhccccccccCccceecC
Q 030308 68 PAKCQRCTKRAVRQA----YHN-LCPGCAKEQNVCAKCCSRVDRVIG 109 (179)
Q Consensus 68 p~KC~kC~qktV~~A----Yh~-iC~~CA~~~~vCaKC~k~~~~i~~ 109 (179)
...|..|......-+ -|. +|..|+.....|+-|..+...++.
T Consensus 15 ~~~C~IC~~~~~~~v~~pCgH~~~C~~C~~~~~~CP~CR~~i~~~~~ 61 (68)
T 2ea5_A 15 SKDCVVCQNGTVNWVLLPCRHTCLCDGCVKYFQQCPMCRQFVQESFA 61 (68)
T ss_dssp SSCCSSSSSSCCCCEETTTTBCCSCTTHHHHCSSCTTTCCCCCCEEC
T ss_pred CCCCCCcCcCCCCEEEECCCChhhhHHHHhcCCCCCCCCcchhceEE
Confidence 556777766554332 467 999999999999999988776543
No 4
>2vje_B MDM4 protein; proto-oncogene, phosphorylation, alternative splicing, HOST-virus interaction, UBL conjugation pathway, zinc-finger, polymorphism; HET: FLC; 2.20A {Homo sapiens} PDB: 2vjf_B*
Probab=67.94 E-value=1.2 Score=29.15 Aligned_cols=43 Identities=28% Similarity=0.551 Sum_probs=30.9
Q ss_pred CCcccccccccchhh------HHHHh-cChhHHhhcc----ccccccCccceec
Q 030308 66 SEPAKCQRCTKRAVR------QAYHN-LCPGCAKEQN----VCAKCCSRVDRVI 108 (179)
Q Consensus 66 t~p~KC~kC~qktV~------~AYh~-iC~~CA~~~~----vCaKC~k~~~~i~ 108 (179)
.....|..|...... -=-|. .|..|+.... .|+-|..+...++
T Consensus 5 ~~~~~C~IC~~~~~~~~~~~~pCgH~~~C~~C~~~~~~~~~~CPiCR~~i~~~i 58 (63)
T 2vje_B 5 NLLKPCSLCEKRPRDGNIIHGRTGHLVTCFHCARRLKKAGASCPICKKEIQLVI 58 (63)
T ss_dssp GGGSBCTTTSSSBSCEEEEETTEEEEEECHHHHHHHHHTTCBCTTTCCBCCEEE
T ss_pred CcCCCCcccCCcCCCeEEEecCCCCHhHHHHHHHHHHHhCCcCCCcCchhhceE
Confidence 345678888775432 22366 7999999987 9999998877654
No 5
>2vje_A E3 ubiquitin-protein ligase MDM2; proto-oncogene, phosphorylation, alternative splicing, HOST-virus interaction, UBL conjugation pathway, zinc-finger, polymorphism; HET: FLC; 2.20A {Homo sapiens} PDB: 2vjf_A* 2hdp_A
Probab=55.36 E-value=2.4 Score=27.71 Aligned_cols=44 Identities=25% Similarity=0.533 Sum_probs=30.1
Q ss_pred CCCcccccccccchhhHH------HHh-cChhHHhhccc----cccccCccceec
Q 030308 65 LSEPAKCQRCTKRAVRQA------YHN-LCPGCAKEQNV----CAKCCSRVDRVI 108 (179)
Q Consensus 65 Lt~p~KC~kC~qktV~~A------Yh~-iC~~CA~~~~v----CaKC~k~~~~i~ 108 (179)
......|..|......-+ -|. .|..|+..... |+-|..+.+.++
T Consensus 5 ~~~~~~C~IC~~~~~~~~~~~~pCgH~~~C~~C~~~~~~~~~~CPiCR~~i~~~i 59 (64)
T 2vje_A 5 LNAIEPCVICQGRPKNGCIVHGKTGHLMACFTCAKKLKKRNKPCPVCRQPIQMIV 59 (64)
T ss_dssp CGGGSCCTTTSSSCSCEEEEETTEEEEEECHHHHHHHHHTTCCCTTTCCCCCEEE
T ss_pred CCCcCCCCcCCCCCCCEEEECCCCCChhhHHHHHHHHHHcCCcCCCcCcchhceE
Confidence 344556777766544332 355 79999998765 999998877654
No 6
>2ecg_A Baculoviral IAP repeat-containing protein 4; BIRC4, ring domian, zinc-binding domain, structural genomics, NPPSFA; NMR {Homo sapiens}
Probab=49.79 E-value=6.9 Score=25.90 Aligned_cols=24 Identities=25% Similarity=0.623 Sum_probs=20.5
Q ss_pred Hh-cChhHHhhccccccccCcccee
Q 030308 84 HN-LCPGCAKEQNVCAKCCSRVDRV 107 (179)
Q Consensus 84 h~-iC~~CA~~~~vCaKC~k~~~~i 107 (179)
|. .|..|+.....|+-|..+...+
T Consensus 45 H~~~C~~C~~~~~~CP~Cr~~i~~~ 69 (75)
T 2ecg_A 45 HLVTCKQCAEAVDKCPMCYTVITFK 69 (75)
T ss_dssp CCCBCHHHHHHCSBCTTTCCBCCCC
T ss_pred CHHHHHHHhhCCCCCccCCceecCc
Confidence 66 8999999999999999876653
No 7
>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=42.32 E-value=1.8 Score=29.83 Aligned_cols=62 Identities=18% Similarity=0.532 Sum_probs=36.9
Q ss_pred ccCcchhhHHHHH---HHHHhC--CCCCCCCcccccccccchhhHHH-----HhcChhHHhhc--cccccccCccc
Q 030308 42 ITGVCPRCKDQID---WKRRYG--KYKPLSEPAKCQRCTKRAVRQAY-----HNLCPGCAKEQ--NVCAKCCSRVD 105 (179)
Q Consensus 42 ~~gvCqRC~eiIe---WK~kY~--KYKpLt~p~KC~kC~qktV~~AY-----h~iC~~CA~~~--~vCaKC~k~~~ 105 (179)
...+|.+|.+.|. ..+... .|. ..-.+|..|...-....| ...|.+|-.++ ..|++|+++..
T Consensus 4 ~~~~C~~C~~~I~~~~~~~~a~~~~~H--~~CF~C~~C~~~L~~~~~~~~~g~~yC~~cy~~~~~~~C~~C~~~I~ 77 (101)
T 2cup_A 4 GSSGCVECRKPIGADSKEVHYKNRFWH--DTCFRCAKCLHPLANETFVAKDNKILCNKCTTREDSPKCKGCFKAIV 77 (101)
T ss_dssp CCCBCSSSCCBCCSSSCEEEETTEEEE--TTTCCCSSSCCCTTSSCCEEETTEEECHHHHTTCCCCBCSSSCCBCC
T ss_pred CCCcCcccCCcccCCceEEEECccChh--hcCCcccccCCCCCcCeeECcCCEEEChhHhhhhcCCccccCCCccc
Confidence 4567888888773 222211 122 245667777554332333 45799998775 68999988654
No 8
>2yho_A E3 ubiquitin-protein ligase mylip; ligase, E2 ligase-E3 ligase complex, ring zinc-finger, UBL conjugation pathway; 2.10A {Homo sapiens} PDB: 2yhn_A
Probab=41.25 E-value=11 Score=25.54 Aligned_cols=41 Identities=29% Similarity=0.674 Sum_probs=29.4
Q ss_pred cccccccccchhhH----HHHh-cChhHHhhccccccccCccceec
Q 030308 68 PAKCQRCTKRAVRQ----AYHN-LCPGCAKEQNVCAKCCSRVDRVI 108 (179)
Q Consensus 68 p~KC~kC~qktV~~----AYh~-iC~~CA~~~~vCaKC~k~~~~i~ 108 (179)
...|..|......- --|. .|..|+.....|+-|..+...++
T Consensus 18 ~~~C~IC~~~~~~~v~~pCgH~~~C~~C~~~~~~CP~Cr~~i~~~~ 63 (79)
T 2yho_A 18 AMLCMVCCEEEINSTFCPCGHTVCCESCAAQLQSCPVCRSRVEHVQ 63 (79)
T ss_dssp HTBCTTTSSSBCCEEEETTCBCCBCHHHHTTCSBCTTTCCBCCEEE
T ss_pred CCEeEEeCcccCcEEEECCCCHHHHHHHHHhcCcCCCCCchhhCeE
Confidence 34566665544332 2366 89999999999999998877643
No 9
>4ic3_A E3 ubiquitin-protein ligase XIAP; ring domain, zinc-finger, E3 ligase; 1.78A {Homo sapiens} PDB: 4ic2_A
Probab=40.34 E-value=12 Score=24.74 Aligned_cols=25 Identities=24% Similarity=0.545 Sum_probs=21.1
Q ss_pred HHh-cChhHHhhccccccccCcccee
Q 030308 83 YHN-LCPGCAKEQNVCAKCCSRVDRV 107 (179)
Q Consensus 83 Yh~-iC~~CA~~~~vCaKC~k~~~~i 107 (179)
-|. .|..|+.....|+-|..+...+
T Consensus 43 gH~~~C~~C~~~~~~CP~Cr~~i~~~ 68 (74)
T 4ic3_A 43 GHLVTCKQCAEAVDKCPMCYTVITFK 68 (74)
T ss_dssp CCBCCCHHHHTTCSBCTTTCCBCSEE
T ss_pred CChhHHHHhhhcCccCCCcCcCccCc
Confidence 377 9999999999999998876654
No 10
>2apo_B Ribosome biogenesis protein NOP10; protein-protein complex, box H/ACA, snoRNP, pseudouridine synthase, RNA modification; 1.95A {Methanocaldococcus jannaschii} SCOP: g.41.16.1 PDB: 2aqc_A
Probab=36.64 E-value=13 Score=25.37 Aligned_cols=29 Identities=21% Similarity=0.512 Sum_probs=20.8
Q ss_pred cccccccccchhhHHHHhcChhHHhhccccccccCccceecCC
Q 030308 68 PAKCQRCTKRAVRQAYHNLCPGCAKEQNVCAKCCSRVDRVIGR 110 (179)
Q Consensus 68 p~KC~kC~qktV~~AYh~iC~~CA~~~~vCaKC~k~~~~i~~~ 110 (179)
-.+|..|+..|. ..+|+.||.+....-|.
T Consensus 6 mr~C~~CgvYTL--------------k~~CP~CG~~T~~~hPa 34 (60)
T 2apo_B 6 MKKCPKCGLYTL--------------KEICPKCGEKTVIPKPP 34 (60)
T ss_dssp CEECTTTCCEES--------------SSBCSSSCSBCBCCCCC
T ss_pred ceeCCCCCCEec--------------cccCcCCCCcCCCCCCC
Confidence 457888866665 56799999887765553
No 11
>3vk6_A E3 ubiquitin-protein ligase hakai; HYB, phosphotyrosine binding domain; 1.90A {Mus musculus}
Probab=35.92 E-value=9.6 Score=28.68 Aligned_cols=26 Identities=31% Similarity=0.715 Sum_probs=21.8
Q ss_pred HHhcChhHHhh-----ccccccccCccceec
Q 030308 83 YHNLCPGCAKE-----QNVCAKCCSRVDRVI 108 (179)
Q Consensus 83 Yh~iC~~CA~~-----~~vCaKC~k~~~~i~ 108 (179)
+|+.|-.||.. .+.|+.|..+...|.
T Consensus 21 kHvFCydCa~~~~~~~~k~Cp~C~~~V~rVe 51 (101)
T 3vk6_A 21 KHVFCYDCAILHEKKGDKMCPGCSDPVQRIE 51 (101)
T ss_dssp CCEEEHHHHHHHHHTTCCBCTTTCCBCSEEE
T ss_pred cccHHHHHHHHHHhccCCCCcCcCCeeeeeE
Confidence 79999999954 579999999887764
No 12
>3gox_A Restriction endonuclease HPY99I; endonuclease-DNA complex, restriction enzyme, HPY99I, pseudopalindrome; HET: 1PE; 1.50A {Helicobacter pylori} PDB: 3fc3_A*
Probab=32.95 E-value=11 Score=31.50 Aligned_cols=23 Identities=26% Similarity=0.501 Sum_probs=18.5
Q ss_pred HHhcChhHHh------------------hc-----cccccccCccc
Q 030308 83 YHNLCPGCAK------------------EQ-----NVCAKCCSRVD 105 (179)
Q Consensus 83 Yh~iC~~CA~------------------~~-----~vCaKC~k~~~ 105 (179)
|+..|.+|+. +. ..|+-|+.+..
T Consensus 103 l~s~CkeC~~~lr~YGIT~eey~~L~e~Qg~~~~~G~C~ICg~~~~ 148 (200)
T 3gox_A 103 TRPSCRECRKNIDGVKLSSTEKKKMDEIAPPKGSVFTCPICEKRSI 148 (200)
T ss_dssp ECSSCHHHHHHHHCSCCCHHHHHHHHTTCCCTTCEEECTTTCCEEE
T ss_pred cCccChhhhhccCCcCCCHHHHHHHHHHcccCCCCCcCcCCCCCCC
Confidence 8888999975 33 68999998776
No 13
>2l7x_A Envelope glycoprotein; cytoplasmic tail, viral protein; NMR {Crimean-congo hemorrhagic fever virus}
Probab=32.70 E-value=9.8 Score=27.45 Aligned_cols=14 Identities=29% Similarity=0.788 Sum_probs=11.9
Q ss_pred Ccccccccccchhh
Q 030308 67 EPAKCQRCTKRAVR 80 (179)
Q Consensus 67 ~p~KC~kC~qktV~ 80 (179)
.|..|.+|.|++|.
T Consensus 4 kg~~C~kCEq~~vn 17 (77)
T 2l7x_A 4 KPQTCTICETTPVN 17 (77)
T ss_dssp CCCCCTTTCCCCSS
T ss_pred CCceeeeecccccc
Confidence 46789999999986
No 14
>2ckl_A Polycomb group ring finger protein 4; BMI1, RING1B, polycomb, E3-ligase, nuclear protein, chromosomal protein, transcription regulation; 2.0A {Mus musculus} PDB: 3rpg_B 2h0d_A
Probab=29.74 E-value=25 Score=24.37 Aligned_cols=23 Identities=26% Similarity=0.740 Sum_probs=17.1
Q ss_pred HhcChhHHhhc----cccccccCccce
Q 030308 84 HNLCPGCAKEQ----NVCAKCCSRVDR 106 (179)
Q Consensus 84 h~iC~~CA~~~----~vCaKC~k~~~~ 106 (179)
|+.|..|.... ..|+-|..+...
T Consensus 36 H~fC~~Ci~~~~~~~~~CP~Cr~~~~~ 62 (108)
T 2ckl_A 36 HSFCKTCIVRYLETSKYCPICDVQVHK 62 (108)
T ss_dssp CEEEHHHHHHHHTSCSBCTTTCCBSCS
T ss_pred ChhhHHHHHHHHHhCCcCcCCCccccc
Confidence 77788887654 689999876543
No 15
>2aus_D NOP10, ribosome biogenesis protein NOP10; isomerase, structural protein, isomerase-structural protein; 2.10A {Pyrococcus abyssi} PDB: 3lwr_B 3lwo_B* 3lwq_B* 3lwp_B 3lwv_B 3hax_C* 2hvy_C* 3hay_C* 2ey4_E 3hjw_B* 2rfk_B* 3hjy_B 3mqk_B
Probab=29.52 E-value=28 Score=23.85 Aligned_cols=28 Identities=18% Similarity=0.565 Sum_probs=18.4
Q ss_pred cccccccccchhhHHHHhcChhHHhhccccccccCccceecC
Q 030308 68 PAKCQRCTKRAVRQAYHNLCPGCAKEQNVCAKCCSRVDRVIG 109 (179)
Q Consensus 68 p~KC~kC~qktV~~AYh~iC~~CA~~~~vCaKC~k~~~~i~~ 109 (179)
-.+|..|+..|. ..+|+.||.+....-|
T Consensus 5 mr~C~~Cg~YTL--------------k~~CP~CG~~t~~ahP 32 (60)
T 2aus_D 5 IRKCPKCGRYTL--------------KETCPVCGEKTKVAHP 32 (60)
T ss_dssp CEECTTTCCEES--------------SSBCTTTCSBCEESSC
T ss_pred ceECCCCCCEEc--------------cccCcCCCCccCCCCC
Confidence 356777765554 3578899987766444
No 16
>1vq8_1 50S ribosomal protein L37E; ribosome 50S, protein-protein complex, RNA-RNA complex, PROT complex, peptidyl transferase reaction; HET: 1MA OMU OMG UR3 PSU SPS; 2.20A {Haloarcula marismortui} SCOP: g.41.8.2 PDB: 1vq4_1* 1vq5_1* 1vq6_1* 1vq7_1* 1s72_1* 1vq9_1* 1vqk_1* 1vql_1* 1vqm_1* 1vqn_1* 1vqo_1* 1vqp_1* 1yhq_1* 1yi2_1* 1yij_1* 1yit_1* 1yj9_1* 1yjn_1* 1yjw_1* 2otj_1* ...
Probab=27.81 E-value=12 Score=25.69 Aligned_cols=24 Identities=38% Similarity=1.055 Sum_probs=15.7
Q ss_pred cccccccccchhhHHHHhcChhHHhhccccccccC
Q 030308 68 PAKCQRCTKRAVRQAYHNLCPGCAKEQNVCAKCCS 102 (179)
Q Consensus 68 p~KC~kC~qktV~~AYh~iC~~CA~~~~vCaKC~k 102 (179)
.-.|-.|+.+ ||| .....||.||-
T Consensus 17 H~~CrRCG~~----syH-------~qK~~Ca~CGy 40 (57)
T 1vq8_1 17 HTKCRRCGEK----SYH-------TKKKVCSSCGF 40 (57)
T ss_dssp EEECTTTCSE----EEE-------TTTTEETTTCT
T ss_pred cccccccCCh----hhh-------ccccccccccC
Confidence 3445555543 566 35789999997
No 17
>2zkr_2 60S ribosomal protein L37E; protein-RNA complex, 60S ribosomal subunit, ribosomal protein/RNA complex; 8.70A {Canis familiaris} SCOP: i.1.1.1
Probab=27.50 E-value=15 Score=27.60 Aligned_cols=28 Identities=36% Similarity=0.866 Sum_probs=19.8
Q ss_pred cccccccccchhhHHHHhcChhHHhhccccccccCccce
Q 030308 68 PAKCQRCTKRAVRQAYHNLCPGCAKEQNVCAKCCSRVDR 106 (179)
Q Consensus 68 p~KC~kC~qktV~~AYh~iC~~CA~~~~vCaKC~k~~~~ 106 (179)
...|..|+.. +||. +...|++||-|...
T Consensus 16 H~lCrRCG~~----sfH~-------qK~~CgkCGYpa~k 43 (97)
T 2zkr_2 16 HTLCRRCGSK----AYHL-------QKSTCGKCGYPAKR 43 (97)
T ss_dssp EECCTTTCSS----CEET-------TSCCBTTTCTTTSS
T ss_pred CCcCCCCCCc----cCcC-------ccccCcccCCchHh
Confidence 4567777765 4563 67899999986544
No 18
>2lcq_A Putative toxin VAPC6; PIN domain, Zn ribbon domain, ribosome biogenesis, metal BIN protein; NMR {Pyrococcus horikoshii}
Probab=27.16 E-value=8 Score=29.43 Aligned_cols=22 Identities=36% Similarity=0.980 Sum_probs=15.9
Q ss_pred HhcChhHHhhcc------ccccccCccc
Q 030308 84 HNLCPGCAKEQN------VCAKCCSRVD 105 (179)
Q Consensus 84 h~iC~~CA~~~~------vCaKC~k~~~ 105 (179)
.-.|..|...+. .|+.||.+..
T Consensus 132 ~y~C~~Cg~~~~~~~~~~~Cp~CG~~~~ 159 (165)
T 2lcq_A 132 RYVCIGCGRKFSTLPPGGVCPDCGSKVK 159 (165)
T ss_dssp CEEESSSCCEESSCCGGGBCTTTCCBEE
T ss_pred EEECCCCCCcccCCCCCCcCCCCCCcce
Confidence 345888887665 7999998743
No 19
>3hug_A RNA polymerase sigma factor; ECF sigma factor, zinc binding anti-sigma factor, oxidative transcription regulation; 2.35A {Mycobacterium tuberculosis}
Probab=27.06 E-value=32 Score=23.12 Aligned_cols=25 Identities=16% Similarity=0.310 Sum_probs=19.8
Q ss_pred HHHHHHHHHhhchhhchhhHHH-hhh
Q 030308 118 EQKMLEAALKNARERDRRILLR-AVS 142 (179)
Q Consensus 118 eq~ele~~lk~l~ER~RRt~lR-~~~ 142 (179)
....+.++|..|++++|.-|.- +++
T Consensus 27 ~~~~l~~~l~~L~~~~r~vl~l~~~~ 52 (92)
T 3hug_A 27 DRLLIADALAQLSAEHRAVIQRSYYR 52 (92)
T ss_dssp HHHHHHHHHHTSCHHHHHHHHHHHTS
T ss_pred HHHHHHHHHHcCCHHHHHHHHHHHHc
Confidence 4457889999999999999865 443
No 20
>3cao_A Cytochrome C3; tetraheme, oxidised form, electron transport; HET: HEM; 1.60A {Desulfovibrio africanus} SCOP: a.138.1.1 PDB: 3car_A*
Probab=26.40 E-value=24 Score=25.06 Aligned_cols=55 Identities=25% Similarity=0.566 Sum_probs=38.0
Q ss_pred cchhhHHHHHHHHHhCCCCCCCCcccccccccch-------hhHHHHhcChhHHhhcc----cccccc
Q 030308 45 VCPRCKDQIDWKRRYGKYKPLSEPAKCQRCTKRA-------VRQAYHNLCPGCAKEQN----VCAKCC 101 (179)
Q Consensus 45 vCqRC~eiIeWK~kY~KYKpLt~p~KC~kC~qkt-------V~~AYh~iC~~CA~~~~----vCaKC~ 101 (179)
-|.-|+...+-. +. .|...+....|..|+.-. ...|||..|..|=.+.. .|+.|-
T Consensus 35 ~C~~CH~~~~~~-~~-~~~~~~~~~~C~~CH~~~~~~~~~~~~~a~H~~C~~CH~~~~~gp~~C~~CH 100 (103)
T 3cao_A 35 SCNACHHVWVNG-VL-AEDEDSVGTPCSDCHALEQDGDTPGLQDAYHQQCWGCHEKQAKGPVMCGECH 100 (103)
T ss_dssp CGGGTSCCEETT-EE-CSSCCCTTSCGGGTCCSSCBTTBCCHHHHHHHHHHHHHHHHTCSCCSHHHHS
T ss_pred chhhhCCCCCCC-cc-ccccCCCCCchhhhcCccccccccchhhhccChHHHHhHHhccCCCcccccc
Confidence 399999865321 11 345667778899998653 34899999999987754 466554
No 21
>4ayc_A E3 ubiquitin-protein ligase RNF8; DNA damage, K63 chains; HET: CPQ; 1.90A {Homo sapiens} PDB: 4epo_C
Probab=26.40 E-value=66 Score=23.38 Aligned_cols=22 Identities=27% Similarity=0.774 Sum_probs=16.9
Q ss_pred HhcChhHHhh----ccccccccCccc
Q 030308 84 HNLCPGCAKE----QNVCAKCCSRVD 105 (179)
Q Consensus 84 h~iC~~CA~~----~~vCaKC~k~~~ 105 (179)
|+.|..|... ...|+-|.++..
T Consensus 73 H~fc~~Ci~~~~~~~~~CP~Cr~~~~ 98 (138)
T 4ayc_A 73 HSFCSYCINEWMKRKIECPICRKDIK 98 (138)
T ss_dssp CEEEHHHHHHHTTTCSBCTTTCCBCC
T ss_pred CCccHHHHHHHHHcCCcCCCCCCcCC
Confidence 7788888764 567999987654
No 22
>3vth_A Hydrogenase maturation factor; carbamoyltransfer, maturation of [NIFE]-hydrogenase, carbamoylphosphate, iron, HYPE; HET: APC AP2; 2.00A {Thermoanaerobacter tengcongensis} PDB: 3vti_A
Probab=25.76 E-value=68 Score=30.94 Aligned_cols=59 Identities=31% Similarity=0.817 Sum_probs=38.9
Q ss_pred CccCcchhhHHHH-HHH-HHhCCCCCCCCcccccccc-------------cchhhHHHHhcChhHHhhcc----------
Q 030308 41 EITGVCPRCKDQI-DWK-RRYGKYKPLSEPAKCQRCT-------------KRAVRQAYHNLCPGCAKEQN---------- 95 (179)
Q Consensus 41 ~~~gvCqRC~eiI-eWK-~kY~KYKpLt~p~KC~kC~-------------qktV~~AYh~iC~~CA~~~~---------- 95 (179)
+=..+|+-|..-| +=. .+| -| | =-.|+.|+ ..|...++. +|+.|+.|-.
T Consensus 109 pD~a~C~~Cl~e~~dp~~Rry-~y-p---F~nCt~CGPR~tii~~lPYDR~~TsM~~F~-mC~~C~~EY~dp~~RRfhAq 182 (761)
T 3vth_A 109 PDMGVCEDCLRELKDPKDRRY-RY-P---FINCTNCGPRFSIIEDIPYDRAKTSMKVFP-MCEKCSREYHDPHDRRFHAQ 182 (761)
T ss_dssp CCBCCCHHHHHHHTCTTSTTT-TC-T---TCCBTTBBCSGGGBCSSSCCGGGBGGGGSC-CCHHHHHHHTCTTSTTTTCT
T ss_pred CCccccHHHHHHhcCCCcccc-CC-C---cccCCCCCcchhhhccCCCCCCCCccccCC-CCHHHHHHhcCcccccccCC
Confidence 4457999999877 211 123 12 3 34699998 344444554 9999999843
Q ss_pred --ccccccCccc
Q 030308 96 --VCAKCCSRVD 105 (179)
Q Consensus 96 --vCaKC~k~~~ 105 (179)
.|+.||=...
T Consensus 183 p~aC~~CGP~l~ 194 (761)
T 3vth_A 183 PVACFDCGPSLS 194 (761)
T ss_dssp TCCCTTTSCCEE
T ss_pred CCcCCccCCeeE
Confidence 6999986543
No 23
>1or7_A Sigma-24, RNA polymerase sigma-E factor; regulation, DNA-binding, transmembrane, transcription; 2.00A {Escherichia coli} SCOP: a.4.13.2 a.177.1.1 PDB: 2h27_A
Probab=25.62 E-value=46 Score=24.16 Aligned_cols=25 Identities=16% Similarity=0.251 Sum_probs=19.9
Q ss_pred HHHHHHHHHhhchhhchhhH-HHhhh
Q 030308 118 EQKMLEAALKNARERDRRIL-LRAVS 142 (179)
Q Consensus 118 eq~ele~~lk~l~ER~RRt~-lR~~~ 142 (179)
....+.++|..|++++|.-| |++++
T Consensus 130 ~~~~l~~~l~~L~~~~r~vl~l~~~~ 155 (194)
T 1or7_A 130 LRQIVFRTIESLPEDLRMAITLRELD 155 (194)
T ss_dssp HHHHHHHHHHHSCHHHHHHHHHHHTT
T ss_pred HHHHHHHHHHhCCHHHHHHhHHHHHc
Confidence 34567899999999999998 55655
No 24
>3t6p_A Baculoviral IAP repeat-containing protein 2; ring, BIR, CARD, UBA, apoptosis, ubiquitin ligase, SMAC/ ubiquitin, caspase, IAP family, SMAC mimetic; 1.90A {Homo sapiens} PDB: 1qbh_A 2l9m_A 3eb5_A 3eb6_A 4auq_B
Probab=24.64 E-value=14 Score=32.20 Aligned_cols=41 Identities=22% Similarity=0.576 Sum_probs=29.9
Q ss_pred cccccccccchhhH----HHHh-cChhHHhhccccccccCccceec
Q 030308 68 PAKCQRCTKRAVRQ----AYHN-LCPGCAKEQNVCAKCCSRVDRVI 108 (179)
Q Consensus 68 p~KC~kC~qktV~~----AYh~-iC~~CA~~~~vCaKC~k~~~~i~ 108 (179)
...|..|......- ==|. .|..|+.....|+-|..+...++
T Consensus 295 ~~~C~IC~~~~~~~v~lpCgH~~fC~~C~~~~~~CP~CR~~i~~~~ 340 (345)
T 3t6p_A 295 ERTCKVCMDKEVSVVFIPCGHLVVCQECAPSLRKCPICRGIIKGTV 340 (345)
T ss_dssp TCBCTTTSSSBCCEEEETTCCEEECTTTGGGCSBCTTTCCBCCEEE
T ss_pred CCCCCccCCcCCceEEcCCCChhHhHHHHhcCCcCCCCCCCccCeE
Confidence 45677776654322 2377 99999999999999998776543
No 25
>2k0a_A PRE-mRNA-splicing factor RDS3; zinc finger, topological knot, mRNA processing, nucleus, spliceosome, RNA binding protein; NMR {Saccharomyces cerevisiae}
Probab=23.43 E-value=17 Score=27.79 Aligned_cols=27 Identities=30% Similarity=0.774 Sum_probs=20.5
Q ss_pred hCCCCCCCCcccccccc-cchhhHHHHhcChhHHh
Q 030308 59 YGKYKPLSEPAKCQRCT-KRAVRQAYHNLCPGCAK 92 (179)
Q Consensus 59 Y~KYKpLt~p~KC~kC~-qktV~~AYh~iC~~CA~ 92 (179)
||+| .++|+.|+ ...|..||. |..|..
T Consensus 53 ~G~~-----~~rCIiCg~~~g~~dAYY--C~eC~~ 80 (109)
T 2k0a_A 53 FGKQ-----AKNCIICNLNVGVNDAFY--CWECCR 80 (109)
T ss_dssp TSST-----TSBCTTTSSSBCCEECEE--CHHHHH
T ss_pred CCCc-----CCceEEcCCCCCccccee--hHhhhh
Confidence 6665 47888888 888888886 887774
No 26
>3mzy_A RNA polymerase sigma-H factor; PSI, MCSG, structural genomics, midwest center for structura genomics, protein structure initiative; 2.50A {Fusobacterium nucleatum subsp}
Probab=22.78 E-value=55 Score=22.73 Aligned_cols=24 Identities=8% Similarity=0.109 Sum_probs=19.5
Q ss_pred HHHHHHHHh-hchhhchhhHHHhhh
Q 030308 119 QKMLEAALK-NARERDRRILLRAVS 142 (179)
Q Consensus 119 q~ele~~lk-~l~ER~RRt~lR~~~ 142 (179)
...+.++|. .|++++|.-|.++++
T Consensus 99 ~~~l~~~l~~~L~~~~r~v~~~~~~ 123 (164)
T 3mzy_A 99 IEEFKKFSENNFSKFEKEVLTYLIR 123 (164)
T ss_dssp HHHHHHHHHHHSCHHHHHHHHHHTT
T ss_pred HHHHHHHHHhhCCHHHHHHHHHHHc
Confidence 346778898 999999999986654
No 27
>3j21_e 50S ribosomal protein L37E; archaea, archaeal, KINK-turn, protein synthe ribosome; 6.60A {Pyrococcus furiosus}
Probab=22.59 E-value=31 Score=23.94 Aligned_cols=25 Identities=28% Similarity=0.789 Sum_probs=16.9
Q ss_pred cccccccccchhhHHHHhcChhHHhhccccccccCc
Q 030308 68 PAKCQRCTKRAVRQAYHNLCPGCAKEQNVCAKCCSR 103 (179)
Q Consensus 68 p~KC~kC~qktV~~AYh~iC~~CA~~~~vCaKC~k~ 103 (179)
.-.|-.|+.+ ||| .....||.||-+
T Consensus 17 H~lCrRCG~~----syH-------~qK~~Ca~CGyg 41 (62)
T 3j21_e 17 HIRCRRCGRV----SYN-------VKKGYCAACGFG 41 (62)
T ss_dssp CCBCSSSCSB----CEE-------TTTTEETTTCTT
T ss_pred eeeecccCcc----hhc-------cccccccccCCc
Confidence 4456666544 566 467899999973
No 28
>2er8_A Regulatory protein Leu3; Zn(2)Cys(6) binuclear cluster motif, transcription activator/DNA complex; 2.85A {Saccharomyces cerevisiae} PDB: 2ere_A 2erg_A
Probab=22.24 E-value=26 Score=22.75 Aligned_cols=29 Identities=28% Similarity=0.707 Sum_probs=15.7
Q ss_pred cccccccchhhHHHH----hcChhHHhhccccc
Q 030308 70 KCQRCTKRAVRQAYH----NLCPGCAKEQNVCA 98 (179)
Q Consensus 70 KC~kC~qktV~~AYh----~iC~~CA~~~~vCa 98 (179)
-|..|..+.|+=.-. ..|..|.....-|.
T Consensus 5 AC~~Cr~rK~kCd~~~~~~~~C~~C~~~~~~C~ 37 (72)
T 2er8_A 5 ACVECRQQKSKCDAHERAPEPCTKCAKKNVPCI 37 (72)
T ss_dssp CCHHHHHTTCCCCSGGGTTSCCHHHHHTTCCCC
T ss_pred hhHHHHhcccCCCCCCCCCCCCcccccCCCcCC
Confidence 355555555543333 56777776665554
No 29
>1jm7_A BRCA1, breast cancer type 1 susceptibility protein; ring finger, zinc-binding protein, heterodimer, ubiquitin ligase, antitumor; NMR {Homo sapiens} SCOP: g.44.1.1
Probab=21.67 E-value=47 Score=22.69 Aligned_cols=22 Identities=23% Similarity=0.617 Sum_probs=16.3
Q ss_pred HhcChhHHhhc-------cccccccCccc
Q 030308 84 HNLCPGCAKEQ-------NVCAKCCSRVD 105 (179)
Q Consensus 84 h~iC~~CA~~~-------~vCaKC~k~~~ 105 (179)
|+.|..|.... ..|+-|..+..
T Consensus 41 H~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~ 69 (112)
T 1jm7_A 41 HIFCKFCMLKLLNQKKGPSQCPLCKNDIT 69 (112)
T ss_dssp CCCCSHHHHHHHHSSSSSCCCTTTSCCCC
T ss_pred CHHHHHHHHHHHHhCCCCCCCcCCCCcCC
Confidence 77888887653 27999987654
Done!