Query 025960
Match_columns 245
No_of_seqs 181 out of 1594
Neff 7.8
Searched_HMMs 29240
Date Mon Mar 25 21:32:43 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/025960.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/025960hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 2ayj_A 50S ribosomal protein L 83.9 0.67 2.3E-05 29.7 2.4 29 122-150 17-45 (56)
2 3j21_g 50S ribosomal protein L 79.1 1 3.5E-05 28.3 2.0 28 123-150 13-40 (51)
3 1wfk_A Zinc finger, FYVE domai 77.7 1.2 4.1E-05 31.2 2.2 28 121-148 6-35 (88)
4 1x4u_A Zinc finger, FYVE domai 74.3 1.6 5.4E-05 30.2 2.1 25 124-148 14-40 (84)
5 1joc_A EEA1, early endosomal a 69.6 2 6.8E-05 32.1 1.8 25 124-148 69-95 (125)
6 1z2q_A LM5-1; membrane protein 67.8 2.8 9.7E-05 28.9 2.2 26 123-148 20-47 (84)
7 2yw8_A RUN and FYVE domain-con 66.7 2.8 9.7E-05 28.7 2.0 25 124-148 19-45 (82)
8 2dkt_A Ring finger and CHY zin 62.3 3.3 0.00011 31.7 1.8 45 119-163 78-126 (143)
9 1dvp_A HRS, hepatocyte growth 61.3 3 0.0001 34.0 1.5 25 125-149 162-188 (220)
10 1vfy_A Phosphatidylinositol-3- 59.6 2.6 8.9E-05 28.2 0.7 24 125-148 12-37 (73)
11 3t7l_A Zinc finger FYVE domain 56.8 5 0.00017 28.0 1.8 25 124-148 20-46 (90)
12 3zyq_A Hepatocyte growth facto 53.3 7 0.00024 32.0 2.5 24 125-148 165-190 (226)
13 2cr8_A MDM4 protein; ZF-ranbp 51.1 6.1 0.00021 24.6 1.3 21 125-145 12-32 (53)
14 2c6a_A Ubiquitin-protein ligas 48.5 7 0.00024 23.8 1.2 21 125-145 14-34 (46)
15 1y02_A CARP2, FYVE-ring finger 44.6 5.3 0.00018 29.6 0.3 23 125-147 20-44 (120)
16 3u5e_m 60S ribosomal protein L 44.6 10 0.00034 28.0 1.9 24 124-147 93-118 (128)
17 3j20_Y 30S ribosomal protein S 44.5 8.4 0.00029 23.9 1.2 24 123-146 18-45 (50)
18 3arc_T Photosystem II reaction 36.3 57 0.002 18.2 4.0 15 77-91 17-31 (32)
19 2vrw_B P95VAV, VAV1, proto-onc 32.3 21 0.0007 31.4 2.2 28 122-149 355-385 (406)
20 1twf_L ABC10-alpha, DNA-direct 29.7 35 0.0012 22.6 2.5 27 123-149 27-56 (70)
21 3mpx_A FYVE, rhogef and PH dom 29.1 12 0.0004 33.3 0.0 25 124-148 375-401 (434)
22 2ww9_C Protein transport prote 27.0 40 0.0014 23.4 2.4 35 192-226 46-82 (87)
23 1wil_A KIAA1045 protein; ring 26.5 56 0.0019 22.6 3.1 24 124-147 15-38 (89)
24 2apo_B Ribosome biogenesis pro 26.1 35 0.0012 21.9 1.9 22 123-146 5-26 (60)
25 2xzm_5 Ribosomal protein S26E 23.3 22 0.00074 26.2 0.5 19 137-155 19-37 (119)
26 3u5c_a 40S ribosomal protein S 23.0 22 0.00074 26.2 0.5 16 138-153 20-35 (119)
27 3jyw_9 60S ribosomal protein L 22.7 39 0.0013 22.6 1.7 26 124-149 26-55 (72)
28 3qt1_I DNA-directed RNA polyme 20.4 49 0.0017 24.7 2.0 26 121-146 21-54 (133)
29 2wwb_C SEC61BETA, protein tran 20.4 39 0.0013 23.9 1.4 35 191-225 54-90 (96)
No 1
>2ayj_A 50S ribosomal protein L40E; Zn-binding, beta-strand protein, structural genomics, PSI, protein structure initiative; NMR {Sulfolobus solfataricus} SCOP: g.41.8.7
Probab=83.92 E-value=0.67 Score=29.65 Aligned_cols=29 Identities=34% Similarity=0.718 Sum_probs=24.4
Q ss_pred cCceeccccccccCCCCccCcccCccccc
Q 025960 122 PRIRYCRKCNQLKPPRCHHCSVCGRCILK 150 (245)
Q Consensus 122 ~~~~~C~~C~~~kP~Rs~HC~~C~~CV~~ 150 (245)
.....|..|+..-|+|+..|+.||.--+|
T Consensus 17 ~~k~ICrkC~ARnp~~A~~CRKCg~~~LR 45 (56)
T 2ayj_A 17 FLKKVCRKCGALNPIRATKCRRCHSTNLR 45 (56)
T ss_dssp CCCEEETTTCCEECTTCSSCTTTCCCCEE
T ss_pred hchhhhccccCcCCcccccccCCCCCCCC
Confidence 35688999999999999999999865444
No 2
>3j21_g 50S ribosomal protein L40E; archaea, archaeal, KINK-turn, protein synthe ribosome; 6.60A {Pyrococcus furiosus}
Probab=79.07 E-value=1 Score=28.32 Aligned_cols=28 Identities=25% Similarity=0.615 Sum_probs=24.0
Q ss_pred CceeccccccccCCCCccCcccCccccc
Q 025960 123 RIRYCRKCNQLKPPRCHHCSVCGRCILK 150 (245)
Q Consensus 123 ~~~~C~~C~~~kP~Rs~HC~~C~~CV~~ 150 (245)
..+.|..|+...|+++..|+.||.--++
T Consensus 13 ~k~iCpkC~a~~~~gaw~CrKCG~~~lr 40 (51)
T 3j21_g 13 KKYVCLRCGATNPWGAKKCRKCGYKRLR 40 (51)
T ss_dssp SEEECTTTCCEECTTCSSCSSSSSCCCE
T ss_pred CCccCCCCCCcCCCCceecCCCCCcccc
Confidence 4588999999999999999999876443
No 3
>1wfk_A Zinc finger, FYVE domain containing 19; riken structural genomics/proteomics initiative, RSGI, structural genomics, unknown function; NMR {Mus musculus} SCOP: g.50.1.1
Probab=77.70 E-value=1.2 Score=31.23 Aligned_cols=28 Identities=21% Similarity=0.387 Sum_probs=19.3
Q ss_pred CcCceeccccccc--cCCCCccCcccCccc
Q 025960 121 NPRIRYCRKCNQL--KPPRCHHCSVCGRCI 148 (245)
Q Consensus 121 ~~~~~~C~~C~~~--kP~Rs~HC~~C~~CV 148 (245)
..+...|..|+.. --.|-|||+.||+-+
T Consensus 6 ~~~~~~C~~C~~~F~~~~RrHHCR~CG~vf 35 (88)
T 1wfk_A 6 SGMESRCYGCAVKFTLFKKEYGCKNCGRAF 35 (88)
T ss_dssp CCCCSBCTTTCCBCCSSSCEEECSSSCCEE
T ss_pred CCcCCCCcCcCCcccCccccccCCCCCCEE
Confidence 3445678888752 236889999998743
No 4
>1x4u_A Zinc finger, FYVE domain containing 27 isoform B; phosphoinositide binding, zinc binding, structural genomics, NPPSFA; NMR {Homo sapiens}
Probab=74.31 E-value=1.6 Score=30.17 Aligned_cols=25 Identities=24% Similarity=0.627 Sum_probs=17.3
Q ss_pred ceeccccccc--cCCCCccCcccCccc
Q 025960 124 IRYCRKCNQL--KPPRCHHCSVCGRCI 148 (245)
Q Consensus 124 ~~~C~~C~~~--kP~Rs~HC~~C~~CV 148 (245)
...|..|+.. --.|-|||+.||+-+
T Consensus 14 ~~~C~~C~~~F~~~~RrHHCR~CG~vf 40 (84)
T 1x4u_A 14 FGNCTGCSATFSVLKKRRSCSNCGNSF 40 (84)
T ss_dssp CSSCSSSCCCCCSSSCCEECSSSCCEE
T ss_pred CCcCcCcCCccccchhhhhhcCCCcEE
Confidence 3567777642 336889999998743
No 5
>1joc_A EEA1, early endosomal autoantigen 1; FYVE domain, inositol 3-phosphate binding, membrane protein; HET: ITP; 2.20A {Homo sapiens} SCOP: g.50.1.1 h.1.21.1 PDB: 1hyi_A* 1hyj_A
Probab=69.61 E-value=2 Score=32.11 Aligned_cols=25 Identities=32% Similarity=0.810 Sum_probs=17.9
Q ss_pred ceeccccccc--cCCCCccCcccCccc
Q 025960 124 IRYCRKCNQL--KPPRCHHCSVCGRCI 148 (245)
Q Consensus 124 ~~~C~~C~~~--kP~Rs~HC~~C~~CV 148 (245)
...|..|+.. --.|-|||+.||+-+
T Consensus 69 ~~~C~~C~~~Fs~~~RrHHCR~CG~vf 95 (125)
T 1joc_A 69 VQNCMACGKGFSVTVRRHHCRQCGNIF 95 (125)
T ss_dssp CCBCTTTCCBCCSSSCCEECTTTCCEE
T ss_pred CCCCcCcCCccccccccccCCCCCeEE
Confidence 4578888753 235889999998753
No 6
>1z2q_A LM5-1; membrane protein, FYVE domain, zinc-finger; NMR {Leishmania major}
Probab=67.83 E-value=2.8 Score=28.86 Aligned_cols=26 Identities=31% Similarity=0.755 Sum_probs=18.2
Q ss_pred Cceeccccccc--cCCCCccCcccCccc
Q 025960 123 RIRYCRKCNQL--KPPRCHHCSVCGRCI 148 (245)
Q Consensus 123 ~~~~C~~C~~~--kP~Rs~HC~~C~~CV 148 (245)
+...|..|+.. --.|-|||+.||+-+
T Consensus 20 ~~~~C~~C~~~Fs~~~RrHHCR~CG~v~ 47 (84)
T 1z2q_A 20 DAPACNGCGCVFTTTVRRHHCRNCGYVL 47 (84)
T ss_dssp TCCBCTTTCCBCCTTSCCEECTTTCCEE
T ss_pred CCCCCcCcCCccccchhcccccCCCcEE
Confidence 34678888753 235889999998753
No 7
>2yw8_A RUN and FYVE domain-containing protein 1; structure genomics, structural genomics, NPPSFA; 3.00A {Homo sapiens} PDB: 2yqm_A
Probab=66.67 E-value=2.8 Score=28.72 Aligned_cols=25 Identities=36% Similarity=0.861 Sum_probs=17.6
Q ss_pred ceeccccccc--cCCCCccCcccCccc
Q 025960 124 IRYCRKCNQL--KPPRCHHCSVCGRCI 148 (245)
Q Consensus 124 ~~~C~~C~~~--kP~Rs~HC~~C~~CV 148 (245)
...|..|+.. --.|-|||+.||+-+
T Consensus 19 ~~~C~~C~~~Fs~~~RrHHCR~CG~v~ 45 (82)
T 2yw8_A 19 ATHCRQCEKEFSISRRKHHCRNCGHIF 45 (82)
T ss_dssp CCBCTTTCCBCBTTBCCEECTTTCCEE
T ss_pred CCcccCcCCcccCccccccCCCCCCEE
Confidence 4568888642 235889999998754
No 8
>2dkt_A Ring finger and CHY zinc finger domain- containing protein 1; RCHY1, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: g.89.1.1 g.93.1.1 PDB: 2k2c_A
Probab=62.26 E-value=3.3 Score=31.73 Aligned_cols=45 Identities=27% Similarity=0.611 Sum_probs=31.5
Q ss_pred CCCcCceeccccccccCCC-CccCcccCcccccC--C-cccccccceec
Q 025960 119 PLNPRIRYCRKCNQLKPPR-CHHCSVCGRCILKM--D-HHCVWVVNCVG 163 (245)
Q Consensus 119 ~~~~~~~~C~~C~~~kP~R-s~HC~~C~~CV~~~--D-HhCpwi~nCIG 163 (245)
+......||..|+.+.+++ ..||..||-|...- | -||.-=|.|+.
T Consensus 78 g~~f~~Y~C~~C~l~d~~k~~yHC~~CgiCR~G~~~~ffHC~~C~~C~s 126 (143)
T 2dkt_A 78 STLFGEYYCSICHLFDKDKRQYHCESCGICRIGPKEDFFHCLKCNLCLT 126 (143)
T ss_dssp CCBSCSEECSSSCCEECSSSEEEETTTTEEEESCGGGEEEETTTTEEEE
T ss_pred CccceeeEeceeecccCCCceecCCCCCceeccCCcCcEECCcCCeeec
Confidence 3445567899999887664 47888888888752 2 46776666754
No 9
>1dvp_A HRS, hepatocyte growth factor-regulated tyrosine kinase substrate; VHS, FYVE, zinc finger, superhelix, transferase; HET: CIT; 2.00A {Drosophila melanogaster} SCOP: a.118.9.2 g.50.1.1
Probab=61.32 E-value=3 Score=33.98 Aligned_cols=25 Identities=36% Similarity=0.852 Sum_probs=18.3
Q ss_pred eeccccccc--cCCCCccCcccCcccc
Q 025960 125 RYCRKCNQL--KPPRCHHCSVCGRCIL 149 (245)
Q Consensus 125 ~~C~~C~~~--kP~Rs~HC~~C~~CV~ 149 (245)
..|..|+.. --.|-|||+.||+-+-
T Consensus 162 ~~C~~C~~~F~~~~rrhhCr~CG~v~C 188 (220)
T 1dvp_A 162 RVCHRCRVEFTFTNRKHHCRNCGQVFC 188 (220)
T ss_dssp SBCTTTCCBCCSSSCCEECTTTCCEEC
T ss_pred CccCCCCCccCCcccccccCCcCCEEC
Confidence 679888742 2358899999987543
No 10
>1vfy_A Phosphatidylinositol-3-phosphate binding FYVE domain of protein VPS27; endosome maturation, intracellular trafficking; 1.15A {Saccharomyces cerevisiae} SCOP: g.50.1.1
Probab=59.59 E-value=2.6 Score=28.22 Aligned_cols=24 Identities=33% Similarity=0.750 Sum_probs=16.9
Q ss_pred eeccccccc--cCCCCccCcccCccc
Q 025960 125 RYCRKCNQL--KPPRCHHCSVCGRCI 148 (245)
Q Consensus 125 ~~C~~C~~~--kP~Rs~HC~~C~~CV 148 (245)
..|..|+.. --.|-|||+.||+-+
T Consensus 12 ~~C~~C~~~F~~~~RrHHCR~CG~v~ 37 (73)
T 1vfy_A 12 DACMICSKKFSLLNRKHHCRSCGGVF 37 (73)
T ss_dssp SBCTTTCCBCBTTBCCEECTTTCCEE
T ss_pred CcccCCCCccCCccccccCCCCCEEE
Confidence 358888642 235889999998754
No 11
>3t7l_A Zinc finger FYVE domain-containing protein 16; structural genomics consortium, SGC, lipid BIND protein, transport protein; 1.09A {Homo sapiens}
Probab=56.83 E-value=5 Score=27.98 Aligned_cols=25 Identities=32% Similarity=0.800 Sum_probs=17.3
Q ss_pred ceeccccccc--cCCCCccCcccCccc
Q 025960 124 IRYCRKCNQL--KPPRCHHCSVCGRCI 148 (245)
Q Consensus 124 ~~~C~~C~~~--kP~Rs~HC~~C~~CV 148 (245)
...|..|+.. --.|-|||+.||+-+
T Consensus 20 ~~~C~~C~~~F~~~~RrhhCr~CG~v~ 46 (90)
T 3t7l_A 20 APNCMNCQVKFTFTKRRHHCRACGKVF 46 (90)
T ss_dssp CCBCTTTCCBCCSSSCCEECTTTCCEE
T ss_pred CCcCcCCCCcccchhhCccccCCCCEE
Confidence 4568888642 224789999998754
No 12
>3zyq_A Hepatocyte growth factor-regulated tyrosine kinas substrate; signaling; 1.48A {Homo sapiens} PDB: 4avx_A*
Probab=53.35 E-value=7 Score=32.02 Aligned_cols=24 Identities=33% Similarity=0.910 Sum_probs=17.2
Q ss_pred eecccccc-c-cCCCCccCcccCccc
Q 025960 125 RYCRKCNQ-L-KPPRCHHCSVCGRCI 148 (245)
Q Consensus 125 ~~C~~C~~-~-kP~Rs~HC~~C~~CV 148 (245)
..|..|+. + --.|-|||+.||+.+
T Consensus 165 ~~C~~C~~~F~~~~RrhHCR~CG~v~ 190 (226)
T 3zyq_A 165 EECHRCRVQFGVMTRKHHCRACGQIF 190 (226)
T ss_dssp SBCTTTCCBCBTTBCCEECTTTCCEE
T ss_pred CCCcCcCCCCCccccccccCCCcCEe
Confidence 57888874 1 224789999998754
No 13
>2cr8_A MDM4 protein; ZF-ranbp domain, P53-binding protein MDM4, MDM2-like P53-binding DE protein, MDMX protein, double minute 4 protein; NMR {Homo sapiens} SCOP: g.41.11.1
Probab=51.10 E-value=6.1 Score=24.63 Aligned_cols=21 Identities=24% Similarity=0.689 Sum_probs=16.2
Q ss_pred eeccccccccCCCCccCcccC
Q 025960 125 RYCRKCNQLKPPRCHHCSVCG 145 (245)
Q Consensus 125 ~~C~~C~~~kP~Rs~HC~~C~ 145 (245)
=.|.+|+..-||-..||..|-
T Consensus 12 WkC~~C~k~N~Pl~ryC~rCw 32 (53)
T 2cr8_A 12 WQCTECKKFNSPSKRYCFRCW 32 (53)
T ss_dssp EECSSSCCEECSSCCBCTTTC
T ss_pred eecccccccCCCccchhHHHH
Confidence 458888888888888887664
No 14
>2c6a_A Ubiquitin-protein ligase E3 MDM2; zinc finger, human MDM2, phosphorylation, alternative splicing, metal-binding, nuclear protein, proto- oncogene; NMR {Homo sapiens} SCOP: g.41.11.1 PDB: 2c6b_A
Probab=48.47 E-value=7 Score=23.83 Aligned_cols=21 Identities=38% Similarity=0.982 Sum_probs=17.0
Q ss_pred eeccccccccCCCCccCcccC
Q 025960 125 RYCRKCNQLKPPRCHHCSVCG 145 (245)
Q Consensus 125 ~~C~~C~~~kP~Rs~HC~~C~ 145 (245)
=.|.+|+..-||-..||..|-
T Consensus 14 WkC~~C~~~N~Pl~r~C~rCw 34 (46)
T 2c6a_A 14 WKCTSCNEMNPPLPSHCNRCW 34 (46)
T ss_dssp EECTTTCCEECSSCSSCTTTC
T ss_pred EecccccccCCCccchhhHHH
Confidence 469999999999888887664
No 15
>1y02_A CARP2, FYVE-ring finger protein sakura; zinc-binding module, phosphoinositide binding, caspase regulation, metal binding protein; 1.80A {Homo sapiens} SCOP: a.140.2.1 g.50.1.1
Probab=44.64 E-value=5.3 Score=29.60 Aligned_cols=23 Identities=22% Similarity=0.625 Sum_probs=16.5
Q ss_pred eeccccccc--cCCCCccCcccCcc
Q 025960 125 RYCRKCNQL--KPPRCHHCSVCGRC 147 (245)
Q Consensus 125 ~~C~~C~~~--kP~Rs~HC~~C~~C 147 (245)
..|..|+.. -..|-|||+.||+.
T Consensus 20 ~~C~~C~~~Fs~~~RkHHCR~CG~i 44 (120)
T 1y02_A 20 PSCKSCGAHFANTARKQTCLDCKKN 44 (120)
T ss_dssp CCCTTTCCCCSSGGGCEECTTTCCE
T ss_pred CcccCcCCccccccccccCCCCCCe
Confidence 467777642 23588999999874
No 16
>3u5e_m 60S ribosomal protein L40; translation, ribosome, ribosomal R ribosomal protein, STM1, eukaryotic ribosome; 3.00A {Saccharomyces cerevisiae} PDB: 3u5i_m 4b6a_m 4a18_K 4a19_K 4a1b_K 4a1d_K 4adx_5 3izc_p 3izs_p 3iz5_p 3izr_p
Probab=44.61 E-value=10 Score=27.97 Aligned_cols=24 Identities=42% Similarity=0.981 Sum_probs=21.0
Q ss_pred ceeccccccccCCCCccCc--ccCcc
Q 025960 124 IRYCRKCNQLKPPRCHHCS--VCGRC 147 (245)
Q Consensus 124 ~~~C~~C~~~kP~Rs~HC~--~C~~C 147 (245)
...|.+|+..-|+|+..|+ .||..
T Consensus 93 ~~ic~~~~~~~~~~~~~~~~~~c~~~ 118 (128)
T 3u5e_m 93 KSVCRKCYARLPPRATNCRKRKCGHT 118 (128)
T ss_dssp CEEETTTCCEECTTCSSCSCTTTTSC
T ss_pred eEeeccccccCCchhhccchhhCCCc
Confidence 4789999999999999999 48764
No 17
>3j20_Y 30S ribosomal protein S27AE; archaea, archaeal, KINK-turn, protein synthe ribosome; 6.60A {Pyrococcus furiosus}
Probab=44.52 E-value=8.4 Score=23.86 Aligned_cols=24 Identities=21% Similarity=0.667 Sum_probs=14.5
Q ss_pred Cceeccccccc---cC-CCCccCcccCc
Q 025960 123 RIRYCRKCNQL---KP-PRCHHCSVCGR 146 (245)
Q Consensus 123 ~~~~C~~C~~~---kP-~Rs~HC~~C~~ 146 (245)
..++|+.|+.. .+ ...++|..|+.
T Consensus 18 ~~k~CP~CG~~~fm~~~~~R~~C~kCG~ 45 (50)
T 3j20_Y 18 KNKFCPRCGPGVFMADHGDRWACGKCGY 45 (50)
T ss_dssp SSEECSSSCSSCEEEECSSEEECSSSCC
T ss_pred ecccCCCCCCceEEecCCCeEECCCCCC
Confidence 46899999751 11 22456777663
No 18
>3arc_T Photosystem II reaction center protein T; PSII, membrane-protein complex, transmembrane alpha-helix, E transport, photosynthesis; HET: OEX CLA PHO BCR PL9 SQD LMG UNL LMT HTG DGD LHG HEM; 1.90A {Thermosynechococcus vulcanus} PDB: 1s5l_T* 2axt_T* 3bz1_T* 3bz2_T* 3kzi_T* 3prq_T* 3prr_T* 3a0b_T* 3a0h_T*
Probab=36.27 E-value=57 Score=18.16 Aligned_cols=15 Identities=7% Similarity=0.428 Sum_probs=11.2
Q ss_pred HHHHhhhcCCCCCCC
Q 025960 77 SYFSVVLTDAGSVPP 91 (245)
Q Consensus 77 ~y~~~~~~dPG~vp~ 91 (245)
.++...+.||-.+++
T Consensus 17 iFFAI~FRePPri~~ 31 (32)
T 3arc_T 17 FFFAIFFREPPRITK 31 (32)
T ss_dssp HHHHHHTSCCCCCC-
T ss_pred HHHhhhhcCCCCCCC
Confidence 467788899988764
No 19
>2vrw_B P95VAV, VAV1, proto-oncogene VAV; lipoprotein, GTP-binding, metal-binding, phosphoprotein, exchange factor, RAC, GTPase, membrane domain; 1.85A {Mus musculus} PDB: 3bji_A 1f5x_A
Probab=32.26 E-value=21 Score=31.45 Aligned_cols=28 Identities=18% Similarity=0.320 Sum_probs=20.1
Q ss_pred cCceecccccccc---CCCCccCcccCcccc
Q 025960 122 PRIRYCRKCNQLK---PPRCHHCSVCGRCIL 149 (245)
Q Consensus 122 ~~~~~C~~C~~~k---P~Rs~HC~~C~~CV~ 149 (245)
....+|..|+..- -.|-|||+.||..|-
T Consensus 355 ~~~t~C~~C~~~~~g~~~qg~~C~~C~~~~h 385 (406)
T 2vrw_B 355 EETTSCKACQMLLRGTFYQGYRCYRCRAPAH 385 (406)
T ss_dssp SSCCBCTTTCCBCCSSSSCEEEETTTCCEEC
T ss_pred CCCCCCccccchhceeCCCCCCCCCCcCccc
Confidence 4568999998643 358899999965433
No 20
>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=29.66 E-value=35 Score=22.60 Aligned_cols=27 Identities=26% Similarity=0.582 Sum_probs=19.3
Q ss_pred Cceeccccccc---cCCCCccCcccCcccc
Q 025960 123 RIRYCRKCNQL---KPPRCHHCSVCGRCIL 149 (245)
Q Consensus 123 ~~~~C~~C~~~---kP~Rs~HC~~C~~CV~ 149 (245)
....|..|+.. ++.-+-+|+.||.-|+
T Consensus 27 v~Y~C~~CG~~~e~~~~d~irCp~CG~RIL 56 (70)
T 1twf_L 27 LKYICAECSSKLSLSRTDAVRCKDCGHRIL 56 (70)
T ss_dssp CCEECSSSCCEECCCTTSTTCCSSSCCCCC
T ss_pred EEEECCCCCCcceeCCCCCccCCCCCceEe
Confidence 44679999864 4455778999988554
No 21
>3mpx_A FYVE, rhogef and PH domain-containing protein 5; structural genomics consortium, DH domain, SGC, L binding protein; 2.80A {Homo sapiens}
Probab=29.08 E-value=12 Score=33.30 Aligned_cols=25 Identities=32% Similarity=0.822 Sum_probs=0.0
Q ss_pred ceeccccccc--cCCCCccCcccCccc
Q 025960 124 IRYCRKCNQL--KPPRCHHCSVCGRCI 148 (245)
Q Consensus 124 ~~~C~~C~~~--kP~Rs~HC~~C~~CV 148 (245)
...|..|... --.|-|||+.||+.+
T Consensus 375 ~~~c~~c~~~f~~~~r~h~Cr~Cg~~~ 401 (434)
T 3mpx_A 375 VMMCMNCGCDFSLTLRRHHCHACGKIV 401 (434)
T ss_dssp ---------------------------
T ss_pred CCcCCCcCCCCCCcchhhhcccCcCEe
Confidence 4568888742 224789999998743
No 22
>2ww9_C Protein transport protein SEB2; ribonucleoprotein, transmembrane, phospho signal sequence, membrane, ribosome, transport; 8.60A {Saccharomyces cerevisiae} PDB: 2wwa_C
Probab=27.02 E-value=40 Score=23.38 Aligned_cols=35 Identities=6% Similarity=0.101 Sum_probs=18.1
Q ss_pred HHHHhcC--CCCCCChhHHHHHHHHHHHHHHHHHHHH
Q 025960 192 FISFFSE--GEIPGTPGTLATTFLAFGMASLTYHSDL 226 (245)
Q Consensus 192 ~~~~~~~--~~~~~~~~~~~~~~l~fvl~~~~~h~~l 226 (245)
+.+++.+ ..+..+|..+.++.++|+...+++|+|-
T Consensus 46 llrfYtdds~GlKV~P~~VLv~sl~FIa~VilLHI~g 82 (87)
T 2ww9_C 46 ILKLYTDEANGFRVDSLVVLFLSVGFIFSVIALHLLT 82 (87)
T ss_dssp ------------CCCHHHHHHHHHHHHHHHHHC----
T ss_pred HHHHhhcCCCceEEcCeeehhhHHHHHHHHHHHHHhh
Confidence 3455654 2355677888888899999999999863
No 23
>1wil_A KIAA1045 protein; ring finger domain, structural genomics, riken structural genomics/proteomics initiative, RSGI, unknown function; NMR {Homo sapiens} SCOP: g.50.1.3
Probab=26.54 E-value=56 Score=22.60 Aligned_cols=24 Identities=25% Similarity=0.596 Sum_probs=19.2
Q ss_pred ceeccccccccCCCCccCcccCcc
Q 025960 124 IRYCRKCNQLKPPRCHHCSVCGRC 147 (245)
Q Consensus 124 ~~~C~~C~~~kP~Rs~HC~~C~~C 147 (245)
...|..|+.+-..--.-||.|+|+
T Consensus 15 D~~C~VC~~~t~~~l~pCRvC~Rv 38 (89)
T 1wil_A 15 DEMCDVCEVWTAESLFPCRVCTRV 38 (89)
T ss_dssp SCCCTTTCCCCSSCCSSCSSSSSC
T ss_pred CcccCccccccccceecccccccc
Confidence 467999988887777779999885
No 24
>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=26.05 E-value=35 Score=21.92 Aligned_cols=22 Identities=32% Similarity=0.815 Sum_probs=15.3
Q ss_pred CceeccccccccCCCCccCcccCc
Q 025960 123 RIRYCRKCNQLKPPRCHHCSVCGR 146 (245)
Q Consensus 123 ~~~~C~~C~~~kP~Rs~HC~~C~~ 146 (245)
..+.|..|+++-- .+.|..||.
T Consensus 5 ~mr~C~~CgvYTL--k~~CP~CG~ 26 (60)
T 2apo_B 5 RMKKCPKCGLYTL--KEICPKCGE 26 (60)
T ss_dssp CCEECTTTCCEES--SSBCSSSCS
T ss_pred hceeCCCCCCEec--cccCcCCCC
Confidence 4578888877665 566777764
No 25
>2xzm_5 Ribosomal protein S26E containing protein; ribosome, translation; 3.93A {Tetrahymena thermophila} PDB: 2xzn_5
Probab=23.29 E-value=22 Score=26.17 Aligned_cols=19 Identities=32% Similarity=0.515 Sum_probs=13.8
Q ss_pred CCccCcccCcccccCCccc
Q 025960 137 RCHHCSVCGRCILKMDHHC 155 (245)
Q Consensus 137 Rs~HC~~C~~CV~~~DHhC 155 (245)
+.-+|..|++||.+----+
T Consensus 19 ~~V~C~nCgr~vPKDKAIK 37 (119)
T 2xzm_5 19 RTVPCTNCGRQVAKDKAVK 37 (119)
T ss_dssp CEEECTTTCCEEETTTSEE
T ss_pred ccEeeCCccccCcccceeE
Confidence 3457999999999754433
No 26
>3u5c_a 40S ribosomal protein S26-A, 40S ribosomal protein S25-A; translation, ribosome, ribosomal, ribosomal R ribosomal protein, eukaryotic ribosome, RNA-protein C; 3.00A {Saccharomyces cerevisiae} PDB: 3u5g_a
Probab=23.03 E-value=22 Score=26.17 Aligned_cols=16 Identities=25% Similarity=0.420 Sum_probs=12.2
Q ss_pred CccCcccCcccccCCc
Q 025960 138 CHHCSVCGRCILKMDH 153 (245)
Q Consensus 138 s~HC~~C~~CV~~~DH 153 (245)
.-||..|++||.+---
T Consensus 20 ~V~C~nCgr~vPKDKA 35 (119)
T 3u5c_a 20 PVRCVNCSKSIPKDKA 35 (119)
T ss_dssp EEECTTTCCEEEGGGS
T ss_pred cEeeccccccccccce
Confidence 4579999999987543
No 27
>3jyw_9 60S ribosomal protein L43; eukaryotic ribosome, RACK1 protein, flexible fitting; 8.90A {Thermomyces lanuginosus}
Probab=22.70 E-value=39 Score=22.59 Aligned_cols=26 Identities=23% Similarity=0.511 Sum_probs=19.3
Q ss_pred ceeccccccccCCCC----ccCcccCcccc
Q 025960 124 IRYCRKCNQLKPPRC----HHCSVCGRCIL 149 (245)
Q Consensus 124 ~~~C~~C~~~kP~Rs----~HC~~C~~CV~ 149 (245)
...|+.|...+-.|. .||+.|+.=+.
T Consensus 26 ky~C~fCgk~~vkR~a~GIW~C~~C~~~~A 55 (72)
T 3jyw_9 26 RYDCSFCGKKTVKRGAAGIWTCSCCKKTVA 55 (72)
T ss_dssp CBCCSSCCSSCBSBCSSSCBCCSSSCCCCC
T ss_pred CccCCCCCCceeEecCCCeEECCCCCCEEe
Confidence 467999987777774 58999887554
No 28
>3qt1_I DNA-directed RNA polymerases I, II, and III subun; transferase-transcription complex, RNA polymerase II, transc elongation; 4.30A {Saccharomyces cerevisiae}
Probab=20.44 E-value=49 Score=24.74 Aligned_cols=26 Identities=35% Similarity=0.913 Sum_probs=16.9
Q ss_pred CcCceeccccccccCCC--------CccCcccCc
Q 025960 121 NPRIRYCRKCNQLKPPR--------CHHCSVCGR 146 (245)
Q Consensus 121 ~~~~~~C~~C~~~kP~R--------s~HC~~C~~ 146 (245)
....+||++|+..-.++ -.-|+.|+.
T Consensus 21 ~~~~~FCPeCgNmL~pked~~~~~l~~~CrtCgY 54 (133)
T 3qt1_I 21 MTTFRFCRDCNNMLYPREDKENNRLLFECRTCSY 54 (133)
T ss_dssp -CCCCBCTTTCCBCBCCBCTTTCCBCCBCSSSCC
T ss_pred ccCCeeCCCCCCEeeECccCCCceeEEECCCCCC
Confidence 34579999998765443 145777765
No 29
>2wwb_C SEC61BETA, protein transport protein SEC61 subunit beta; ribosome, protein EXIT tunnel, cotranslational protein translocation, protein conducting channel; 6.48A {Canis lupus familiaris}
Probab=20.43 E-value=39 Score=23.85 Aligned_cols=35 Identities=17% Similarity=0.185 Sum_probs=20.2
Q ss_pred HHHHHhcCC--CCCCChhHHHHHHHHHHHHHHHHHHH
Q 025960 191 HFISFFSEG--EIPGTPGTLATTFLAFGMASLTYHSD 225 (245)
Q Consensus 191 ~~~~~~~~~--~~~~~~~~~~~~~l~fvl~~~~~h~~ 225 (245)
.+++|++++ .+..+|..++++.+.|+...+++|+|
T Consensus 54 GllRfY~dds~GlKV~P~~VLv~sl~Fi~~Vi~Lhi~ 90 (96)
T 2wwb_C 54 GMWRFYTEDSPGLKVGPVPVLVMSLLFIASVFMLHIW 90 (96)
T ss_dssp -------CCSCCCCCSSCSHHHHHHHHHHHHHHHSCS
T ss_pred ceeeeeecCCCceEECCEEehhhHHHHHHHHHHHHHh
Confidence 345666652 34556777888888888888888864
Done!