Query 027581
Match_columns 221
No_of_seqs 150 out of 1070
Neff 4.0
Searched_HMMs 29240
Date Mon Mar 25 20:31:22 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/027581.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/027581hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 3bbo_G Ribosomal protein L4; l 100.0 2.9E-43 1E-47 316.8 8.2 114 96-209 50-169 (293)
2 1dmg_A Ribosomal protein L4; a 100.0 1E-43 3.5E-48 309.1 3.7 112 99-210 1-118 (225)
3 3v2d_F 50S ribosomal protein L 100.0 9.2E-42 3.1E-46 294.2 9.3 109 97-210 5-119 (210)
4 3r8s_E 50S ribosomal protein L 100.0 2.6E-41 8.9E-46 289.9 8.1 97 113-209 11-113 (201)
5 2zjr_C 50S ribosomal protein L 100.0 1.2E-40 4E-45 286.1 8.5 104 100-209 3-112 (205)
6 3j21_D 50S ribosomal protein L 100.0 7.9E-34 2.7E-38 251.3 12.0 109 99-212 1-125 (255)
7 2zkr_c 60S ribosomal protein L 100.0 3.6E-34 1.2E-38 267.6 9.8 110 98-209 5-132 (421)
8 2ftc_D Mitochondrial ribosomal 100.0 1.1E-33 3.6E-38 238.1 6.6 80 131-210 1-87 (175)
9 4a17_C RPL4, ribosomal protein 100.0 4.4E-33 1.5E-37 259.6 11.2 112 97-210 3-138 (410)
10 1vq8_C 50S ribosomal protein L 100.0 8.4E-32 2.9E-36 237.2 11.9 105 99-210 1-120 (246)
11 3iz5_D 60S ribosomal protein L 100.0 2.9E-31 1E-35 247.3 10.5 109 99-210 7-137 (405)
12 2wwb_H 60S ribosomal protein L 100.0 3.8E-31 1.3E-35 243.7 9.4 107 98-210 3-131 (362)
13 1vq8_C 50S ribosomal protein L 55.4 6.1 0.00021 34.6 2.5 37 132-171 29-67 (246)
14 3j21_D 50S ribosomal protein L 21.1 67 0.0023 28.1 3.3 42 133-175 30-73 (255)
No 1
>3bbo_G Ribosomal protein L4; large ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Spinacea oleracea}
Probab=100.00 E-value=2.9e-43 Score=316.78 Aligned_cols=114 Identities=28% Similarity=0.355 Sum_probs=108.9
Q ss_pred ccceeeEEeccCCCeeeeEEcCccccCCCCchhHHHHHHHHHHHHcccCCCCCceeccccCCccCcccccCcceeccCCC
Q 027581 96 HQDLVIPVTNFFNEDKGFMVLAGDVFDVPIRKDIIHRVVRWQLAKRQQGTHSTKTISEVSGTGKKPWRQKGTGRARHGTL 175 (221)
Q Consensus 96 ~~~m~ipV~~~~Ge~~g~IeLp~~VF~~p~R~DLIhraV~~q~anrRqGta~TKtRsEVsGsgkKpwrQKGTGRAR~Gs~ 175 (221)
++|++++|||++|+++|+|+||++||+.|+|.||||+||+||++|+|||||+||||+||+|+|||||+||||||||+|++
T Consensus 50 ~~M~~v~V~~~~G~~~g~veLp~~VF~~~~r~dlih~vV~~q~an~RQGTa~tKtRaEV~GgGRKp~RQKGTGRAR~Gs~ 129 (293)
T 3bbo_G 50 SELIPLPILNFSGEKVGETFLNLKTAPPEKARAVVHRGLITHLQNKRRGTASTLTRAEVRGGGRKPYPQKKTGRARRGSQ 129 (293)
T ss_dssp -CCEEEECCCSSSCCCSEEEECSSSSSSCCCTTTTTTHHHHHHHHHCCCCCCCCSSTTCSSSCCCCCCCSSSCSCSCCSS
T ss_pred hcCceeEEEcCCCCEeeeEEcCHHHhCCCccHHHHHHHHHHHHHhcccccccCceeeeeccCCCceeccCCCCccccCcc
Confidence 35668999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCc--c---c-cCCCcccccCCHHHHHHHHHHHHhhcc
Q 027581 176 RGPQG--W---Y-YNARSKAQKPCYKVEQEGAAAWVEDCS 209 (221)
Q Consensus 176 RsP~~--G---~-PkPRdy~~kLNKKvRrlALrsALSa~~ 209 (221)
|+|+| | | |+||+|++|||||+|++||++||++.+
T Consensus 130 rsP~~rGGGvafGPkPRdy~~klNKK~rrlAlrsALSak~ 169 (293)
T 3bbo_G 130 GSPLRPGGGVIFGPKPRDWTIKMNKKERRLALSTAIASAV 169 (293)
T ss_dssp SCSSSSSSCCSSCCCSCCCCCCCCSHHHHHHHHHHHHHHH
T ss_pred cCCceecCceecCCcCcchhhhcCHHHHHHHHHHHHHHHc
Confidence 99999 3 2 999999999999999999999999865
No 2
>1dmg_A Ribosomal protein L4; alpha-beta, ribosome, RNA, S10 operon, gene regulation; HET: CIT; 1.70A {Thermotoga maritima} SCOP: c.22.1.1
Probab=100.00 E-value=1e-43 Score=309.11 Aligned_cols=112 Identities=35% Similarity=0.444 Sum_probs=62.6
Q ss_pred eeeEEeccCCCeeeeEEcCccccCCCCchhHHHHHHHHHHHHcccCCCCCceeccccCCccCcccccCcceeccCCCCCC
Q 027581 99 LVIPVTNFFNEDKGFMVLAGDVFDVPIRKDIIHRVVRWQLAKRQQGTHSTKTISEVSGTGKKPWRQKGTGRARHGTLRGP 178 (221)
Q Consensus 99 m~ipV~~~~Ge~~g~IeLp~~VF~~p~R~DLIhraV~~q~anrRqGta~TKtRsEVsGsgkKpwrQKGTGRAR~Gs~RsP 178 (221)
|+++|||++|+++|+|+||++||+.|+|.||||++|+||++|+||||++||||+||+|+|||||+||||||||+|++|+|
T Consensus 1 ~~~~v~~~~g~~~g~v~L~~~vF~~~~r~dlih~~v~~~~a~~Rqgt~~tktRaEv~G~GrKp~rQKGTGrAR~Gs~rsP 80 (225)
T 1dmg_A 1 AQVDLLNVKGEKVGTLEISDFVFNIDPNYDVMWRYVDMQLSNRRAGTASTKTRGEVSGGGRKPWPQKHTGRARHGSIRSP 80 (225)
T ss_dssp CEEEEECTTSCEEEEEECCHHHHSSCCCHHHHHHHHHHHHC---------------------------------------
T ss_pred CeeEEEcCCCCEeeEEEcCHHHhCCCccHHHHHHHHHHHHHhccCCccccceeeEeecCCCCCCCCCCCCccccccccCC
Confidence 68999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred Cc--c---c-cCCCcccccCCHHHHHHHHHHHHhhccc
Q 027581 179 QG--W---Y-YNARSKAQKPCYKVEQEGAAAWVEDCSI 210 (221)
Q Consensus 179 ~~--G---~-PkPRdy~~kLNKKvRrlALrsALSa~~~ 210 (221)
+| | | |+||||+++||||+|++||++|||+.+.
T Consensus 81 ~~rGGG~~fgPkpR~~~~klnkK~rrlAl~sALs~k~~ 118 (225)
T 1dmg_A 81 IWRHGGVVHGPKPRDWSKKLNKKMKKLALRSALSVKYR 118 (225)
T ss_dssp --------------CHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred ceecCceecCCcCccccccCCHHHHHHHHHHHHHHHHh
Confidence 99 3 3 9999999999999999999999997763
No 3
>3v2d_F 50S ribosomal protein L4; ribosome associated inhibitor A, RAIA, protein Y, stress RES stationary phase, ribosome hibernation, ribosome; 2.70A {Thermus thermophilus} PDB: 2hgq_F 2hgj_F 2hgu_F 2j03_F 2jl6_F 2jl8_F 2v47_F 2v49_F 2wdi_F 2wdj_F 2wdl_F 2wdn_F 2wh2_F 2wh4_F 2wrj_F 2wrl_F 2wro_F 2wrr_F 2x9s_F 2x9u_F ...
Probab=100.00 E-value=9.2e-42 Score=294.22 Aligned_cols=109 Identities=39% Similarity=0.467 Sum_probs=103.8
Q ss_pred cceeeEEeccCCCeeeeEEcCccccCCCCchhHHHHHHHHHHHHcccCCCCCceeccccCCccCcccccCcceeccCCCC
Q 027581 97 QDLVIPVTNFFNEDKGFMVLAGDVFDVPIRKDIIHRVVRWQLAKRQQGTHSTKTISEVSGTGKKPWRQKGTGRARHGTLR 176 (221)
Q Consensus 97 ~~m~ipV~~~~Ge~~g~IeLp~~VF~~p~R~DLIhraV~~q~anrRqGta~TKtRsEVsGsgkKpwrQKGTGRAR~Gs~R 176 (221)
-||+++|||++|+.+|+||||+ |+|.||||++|+||++|+|||||+||||+||+|+|||||+||||||||+|++|
T Consensus 5 ~m~~v~V~~~~G~~~g~i~L~~-----~~r~dlih~~v~~~~a~~Rqgt~~tktraEv~G~grKp~rQKGTGrAR~Gs~r 79 (210)
T 3v2d_F 5 AVYQIPVLSPSGRRELAADLPA-----EINPHLLWEVVRWQLAKRRRGTASTKTRGEVAYSGRKIWPQKHTGRARHGDIG 79 (210)
T ss_dssp -CCCCCEECSSSCCCCCCCCCS-----CCCHHHHHHHHHHHHHHTCCCCCCCCCTTTSSCCCCCSSCSSSSSSCCCCCTT
T ss_pred ccceeEEEcCCCCEeeeEecCC-----cccHHHHHHHHHHHHHhccCCccCCCccccccCCCCCCCCCCCCCccCCCccc
Confidence 4789999999999999999996 99999999999999999999999999999999999999999999999999999
Q ss_pred CCCc--c---c-cCCCcccccCCHHHHHHHHHHHHhhccc
Q 027581 177 GPQG--W---Y-YNARSKAQKPCYKVEQEGAAAWVEDCSI 210 (221)
Q Consensus 177 sP~~--G---~-PkPRdy~~kLNKKvRrlALrsALSa~~~ 210 (221)
+|+| | | |+||||+++||||+|++||++|||+.+.
T Consensus 80 sP~~~gGG~~fgP~pR~~~~klnkK~rrlAl~sALs~k~~ 119 (210)
T 3v2d_F 80 APIFVGGGVVFGPKPRDYSYTLPKKVRKKGLAMAVADRAR 119 (210)
T ss_dssp STTSTTCCCSSCCCCCCCCCCCCHHHHHHHHHHHHHHHHH
T ss_pred CCcccCCeeeCCCCCccceeeCCHHHHHHHHHHHHHHHHh
Confidence 9999 3 3 9999999999999999999999998653
No 4
>3r8s_E 50S ribosomal protein L4; protein biosynthesis, RNA, tRNA, transfer RNA, 23S ribosomal subunit, ribosome recycling factor, RRF, ribosome; 3.00A {Escherichia coli} PDB: 1p85_C 1p86_C 1vs8_E 1vs6_E 2aw4_E 2awb_E 1vt2_E 2i2v_E 2j28_E 2i2t_E* 2qao_E* 2qba_E* 2qbc_E* 2qbe_E 2qbg_E 2qbi_E* 2qbk_E* 2qov_E 2qox_E 2qoz_E* ...
Probab=100.00 E-value=2.6e-41 Score=289.93 Aligned_cols=97 Identities=33% Similarity=0.525 Sum_probs=94.1
Q ss_pred eEEcCccccCCCCchhHHHHHHHHHHHHcccCCCCCceeccccCCccCcccccCcceeccCCCCCCCc--c---c-cCCC
Q 027581 113 FMVLAGDVFDVPIRKDIIHRVVRWQLAKRQQGTHSTKTISEVSGTGKKPWRQKGTGRARHGTLRGPQG--W---Y-YNAR 186 (221)
Q Consensus 113 ~IeLp~~VF~~p~R~DLIhraV~~q~anrRqGta~TKtRsEVsGsgkKpwrQKGTGRAR~Gs~RsP~~--G---~-PkPR 186 (221)
+|+||++||+.|+|.||||++|+||++|+||||++||||+||+|+|||||+||||||||+|++|+|+| | | |+||
T Consensus 11 ~i~L~~~vF~~~~r~dlih~~v~~~~a~~Rqgt~~tktraEv~G~grKp~rQKGTGrAR~Gs~rsP~~~gGG~~fgP~pR 90 (201)
T 3r8s_E 11 ALTVSETTFGRDFNEALVHQVVVAYAAGARQGTRAQKTRAEVTGSGKKPWRQKGTGRARSGSIKSPIWRSGGVTFAARPQ 90 (201)
T ss_dssp CEECCHHHHSSCCCHHHHHHHHHHHHTTSCCCCCCCCBTTTSSCCCCCSSCSSSSSSCCCCCTTCTTSTTCCBTTCCCCC
T ss_pred eEECCHHHhCCCCCHHHHHHHHHHHHHhCcCCCCCCcceeeecCCCCCCCccCCCCccccCcCcCCceeCCEeecCCccc
Confidence 89999999999999999999999999999999999999999999999999999999999999999999 3 3 9999
Q ss_pred cccccCCHHHHHHHHHHHHhhcc
Q 027581 187 SKAQKPCYKVEQEGAAAWVEDCS 209 (221)
Q Consensus 187 dy~~kLNKKvRrlALrsALSa~~ 209 (221)
||+++||||+|++||++|||+.+
T Consensus 91 ~~~~klnkK~rrlAl~sALs~k~ 113 (201)
T 3r8s_E 91 DHSQKVNKKMYRGALKSILSELV 113 (201)
T ss_dssp CCCCCCCHHHHHHHHHHHHHHHH
T ss_pred cceeccCHHHHHHHHHHHHHHHh
Confidence 99999999999999999999765
No 5
>2zjr_C 50S ribosomal protein L4; ribosome, large ribosomal subunit, ribonucleoprotein, RNA-binding, rRNA-binding, tRNA-binding, methylation; 2.91A {Deinococcus radiodurans} SCOP: c.22.1.1 PDB: 1j5a_K* 1jzy_K* 1jzz_K* 1k01_K* 1nkw_C 1sm1_C* 2zjp_C* 2zjq_C 1jzx_K 3cf5_C* 3dll_C* 3pio_C* 3pip_C* 1nwy_C* 1nwx_C* 1xbp_C* 1pnu_C 1pny_C 1vor_F 1vou_F ...
Probab=100.00 E-value=1.2e-40 Score=286.11 Aligned_cols=104 Identities=36% Similarity=0.419 Sum_probs=100.3
Q ss_pred eeEEeccCCCeeeeEEcCccccCCCCchhHHHHHHHHHHHHcccCCCCCceeccccCCccCcccccCcceeccCCCCCCC
Q 027581 100 VIPVTNFFNEDKGFMVLAGDVFDVPIRKDIIHRVVRWQLAKRQQGTHSTKTISEVSGTGKKPWRQKGTGRARHGTLRGPQ 179 (221)
Q Consensus 100 ~ipV~~~~Ge~~g~IeLp~~VF~~p~R~DLIhraV~~q~anrRqGta~TKtRsEVsGsgkKpwrQKGTGRAR~Gs~RsP~ 179 (221)
+++|||++|+.+|+|+||+ +|.||||+||+||++|+|||||+||||+||+|+|||||+||||||||+|++|+|+
T Consensus 3 ~v~v~~~~g~~~g~i~L~~------~r~dlih~~v~~~~a~~Rqgt~~tktraEv~G~GrKp~rQKGTGrAR~Gs~rsP~ 76 (205)
T 2zjr_C 3 QINVIGQNGGRTIELPLPE------VNSGVLHEVVTWQLASRRRGTASTRTRAQVSKTGRKMYGQKGTGNARHGDRSVPT 76 (205)
T ss_dssp CCCCSSCCCCCCCCCCTTT------CCHHHHHHHHHHHHHHHCCCCCCCCCCTTTSCCCSCCSCSSSSSSCCCSCSCSTT
T ss_pred eeEEEcCCCCEeeeEECCC------chHHHHHHHHHHHHHhccccccccceeeeccCCCCCCCCcCCCCCcccCcccCCc
Confidence 6899999999999999996 9999999999999999999999999999999999999999999999999999999
Q ss_pred c--c---c-cCCCcccccCCHHHHHHHHHHHHhhcc
Q 027581 180 G--W---Y-YNARSKAQKPCYKVEQEGAAAWVEDCS 209 (221)
Q Consensus 180 ~--G---~-PkPRdy~~kLNKKvRrlALrsALSa~~ 209 (221)
| | | |+||||+++||||+|++||++|||+.+
T Consensus 77 ~~gGG~~fgP~pR~~~~klnkK~rrlAl~sALs~k~ 112 (205)
T 2zjr_C 77 FVGGGVAFGPKPRSYDYTLPRQVRQLGLAMAIASRQ 112 (205)
T ss_dssp STTSCCTTCCCCCCCCCCCCHHHHHHHHHHHHHHHH
T ss_pred ccCCeeecCCCCcchhhhcCHHHHHHHHHHHHHHHh
Confidence 9 3 3 999999999999999999999999766
No 6
>3j21_D 50S ribosomal protein L4P; archaea, archaeal, KINK-turn, protein synthe ribosome; 6.60A {Pyrococcus furiosus}
Probab=100.00 E-value=7.9e-34 Score=251.32 Aligned_cols=109 Identities=20% Similarity=0.181 Sum_probs=102.3
Q ss_pred eeeEEeccCCCeeeeEEcCccccCCCCchhHHHHHHHHHHHHccc--CCCC---CceeccccCCccC---cccccCc-ce
Q 027581 99 LVIPVTNFFNEDKGFMVLAGDVFDVPIRKDIIHRVVRWQLAKRQQ--GTHS---TKTISEVSGTGKK---PWRQKGT-GR 169 (221)
Q Consensus 99 m~ipV~~~~Ge~~g~IeLp~~VF~~p~R~DLIhraV~~q~anrRq--Gta~---TKtRsEVsGsgkK---pwrQKGT-GR 169 (221)
|+++|||++|+++|+|+|| +||+.|+|.||||+||+||++|+|| ||+. ||||+||+|+|+| +|+|||| |+
T Consensus 1 m~v~V~~~~G~~~g~v~Lp-~vF~~~~r~dli~~~v~~~~an~Rq~~Gt~~~ag~ktraev~G~Gr~~ar~~RqKGtgGr 79 (255)
T 3j21_D 1 MKVKVFDLNGQPVGEIELP-KVFFTPFRPDLIRRAVIASWTHRIQPQGRDPMAGKRRVTENIGKGHSMARVERLKTPPRY 79 (255)
T ss_dssp CEEEEECTTSCEEEEEECC-GGGGSCCCHHHHHHHHHHHHHHTCCCCCCCSSTTSSSCCBCCCSSSSSCCCCBCSSSCCC
T ss_pred CeeEEEcCCCCEeeEEEhH-HhhCCCCcHHHHHHHHHHHHHhccccccCCcccCcccceeecCCCCCcCcCCccCCCCCc
Confidence 7899999999999999999 8999999999999999999999999 7776 8999999999995 9999999 99
Q ss_pred eccCCCCCCCc--c---c-cCC-CcccccCCHHHHHHHHHHHHhhccccc
Q 027581 170 ARHGTLRGPQG--W---Y-YNA-RSKAQKPCYKVEQEGAAAWVEDCSICS 212 (221)
Q Consensus 170 AR~Gs~RsP~~--G---~-PkP-Rdy~~kLNKKvRrlALrsALSa~~~~~ 212 (221)
|| ++|+| | | |+| |+|+++||||+|++||++|||+++..+
T Consensus 80 Ar----rsP~~rGGg~~~gPkp~R~~~~klNkK~rrlAl~sALsa~~~~~ 125 (255)
T 3j21_D 80 AA----FVPFARGGRRTHPPKVEKIIWEDINKKEKRLALMSAIAATANYD 125 (255)
T ss_dssp CS----SCSSSTTCCCSSCCCTTSCCCCCCCHHHHHHHHHHHHHHTTCHH
T ss_pred cc----cCccccCCeeecCCCCCcccceecCHHHHHHHHHHHHHHHhhcc
Confidence 98 99999 3 3 999 899999999999999999999887643
No 7
>2zkr_c 60S ribosomal protein L4; protein-RNA complex, 60S ribosomal subunit, ribosomal protein/RNA complex; 8.70A {Canis familiaris}
Probab=100.00 E-value=3.6e-34 Score=267.59 Aligned_cols=110 Identities=24% Similarity=0.228 Sum_probs=103.9
Q ss_pred ceeeEEeccCCCeee-eEEcCccccCCCCchhHHHHHHHHHHHHcccCCCCC-----ceeccccCCccCccc-----ccC
Q 027581 98 DLVIPVTNFFNEDKG-FMVLAGDVFDVPIRKDIIHRVVRWQLAKRQQGTHST-----KTISEVSGTGKKPWR-----QKG 166 (221)
Q Consensus 98 ~m~ipV~~~~Ge~~g-~IeLp~~VF~~p~R~DLIhraV~~q~anrRqGta~T-----KtRsEVsGsgkKpwr-----QKG 166 (221)
.|+++|||++|+.+| +|+|| +||+.|+|.||||+||+||++|+||||+.| |||+||+|+|+|||+ |||
T Consensus 5 rm~v~V~~~~G~~~g~~ieLp-~VF~~piR~dlIh~vV~~~~an~RQgta~t~~AG~KTraEv~G~GRKp~RiPRv~QKG 83 (421)
T 2zkr_c 5 RPLISVYSEKGESSGKNVTLP-AVFKAPIRPDIVNFVHTNLRKNNRQPYAVSELAGHQTSAESWGTGRAVARIPRVRGGG 83 (421)
T ss_dssp --CCEEECTTSSEEEECSSCC-GGGGSCCCHHHHHHHHHHHHHTTCCCCCCCSCTTTCSCCCCCCSSSSSCCSCCBTTTT
T ss_pred CceeEEEcCCCCccccEEehh-HhhCCCccHHHHHHHHHHHHHhccCCCCcCcccCCcceeEecCCCCCcCCcccccCCC
Confidence 478999999999977 89999 999999999999999999999999999999 999999999999999 999
Q ss_pred cceeccCCCCCCCc-c---c-cC-C-CcccccCCHHHHHHHHHHHHhhcc
Q 027581 167 TGRARHGTLRGPQG-W---Y-YN-A-RSKAQKPCYKVEQEGAAAWVEDCS 209 (221)
Q Consensus 167 TGRAR~Gs~RsP~~-G---~-Pk-P-Rdy~~kLNKKvRrlALrsALSa~~ 209 (221)
|||||+|++++ +| | + |+ | |+|+++||+|+|++||++|||+++
T Consensus 84 TGRARqGs~rs-~~RGGr~fgP~kp~R~~~~KlNkK~rrlAlrSALSaka 132 (421)
T 2zkr_c 84 THRSGQGAFGN-MCRGGRMFAPTKTWRRWHRRVNTTQKRYAICSALACLS 132 (421)
T ss_dssp BCCCSTTCCTT-STTCCCCSSCCCSSSCCCCCCCHHHHHHHHHHHHHHHT
T ss_pred CCccCcccccc-ccccceeeCCCCCCcchhhhcCHHHHHHHHHHHHHhcc
Confidence 99999999999 99 3 2 76 8 999999999999999999999995
No 8
>2ftc_D Mitochondrial ribosomal protein L4 isoform A, mitochondrial 39S ribosomal protein L3; mitochondrial ribosome, large ribosomal subunit, ribosomal R ribosome; 12.10A {Bos taurus} PDB: 3iy9_D
Probab=100.00 E-value=1.1e-33 Score=238.07 Aligned_cols=80 Identities=38% Similarity=0.457 Sum_probs=76.5
Q ss_pred HHHHHHHHHHcccCCCCCceeccccCCccCcccccCcceeccCCCCCCCc--c---c-cC-CCcccccCCHHHHHHHHHH
Q 027581 131 HRVVRWQLAKRQQGTHSTKTISEVSGTGKKPWRQKGTGRARHGTLRGPQG--W---Y-YN-ARSKAQKPCYKVEQEGAAA 203 (221)
Q Consensus 131 hraV~~q~anrRqGta~TKtRsEVsGsgkKpwrQKGTGRAR~Gs~RsP~~--G---~-Pk-PRdy~~kLNKKvRrlALrs 203 (221)
|++|+||++++|||||+||||+||+|+|||||+||||||||+|++|+|+| | | |+ ||||+++||||+|++||++
T Consensus 1 h~~v~~~~a~~Rqgt~~tktraEv~G~grKp~rQKGTGrAR~Gs~rsP~~~gGG~~fgP~~pR~~~~klnkK~rrlAl~s 80 (175)
T 2ftc_D 1 HQVAMWQKNFKRISYAKTKTRAEVRGGGRKPWPQKGTGRARHGSIRSPLWRGGGVAHGPRGPTSYYYMLPMKVRALGLKV 80 (175)
T ss_pred CHHHHHHHHHhhcCCCCCcceeeecCCCCCCCCcCCCCccccCCCcCCcccCCEeecCCCCccchhhhcCHHHHHHHHHH
Confidence 79999999999999999999999999999999999999999999999999 3 3 99 7999999999999999999
Q ss_pred HHhhccc
Q 027581 204 WVEDCSI 210 (221)
Q Consensus 204 ALSa~~~ 210 (221)
|||+.+.
T Consensus 81 ALs~k~~ 87 (175)
T 2ftc_D 81 ALTVKLA 87 (175)
T ss_pred HHHHhcc
Confidence 9998664
No 9
>4a17_C RPL4, ribosomal protein L3; eukaryotic ribosome, ribosome, eukaryotic initiation factor 60S, translation, large ribosomal subunit; 3.52A {Tetrahymena thermophila} PDB: 4a1a_C 4a1c_C 4a1e_C
Probab=99.98 E-value=4.4e-33 Score=259.60 Aligned_cols=112 Identities=25% Similarity=0.288 Sum_probs=104.6
Q ss_pred cceeeEEe-ccCCCee-ee-EEcCccccCCCCchhHHHHHHHHHHHHccc---------CCCCCceeccccCCccCccc-
Q 027581 97 QDLVIPVT-NFFNEDK-GF-MVLAGDVFDVPIRKDIIHRVVRWQLAKRQQ---------GTHSTKTISEVSGTGKKPWR- 163 (221)
Q Consensus 97 ~~m~ipV~-~~~Ge~~-g~-IeLp~~VF~~p~R~DLIhraV~~q~anrRq---------Gta~TKtRsEVsGsgkKpwr- 163 (221)
.|++++|| |++|+.+ |+ |+|| +||+.|+|.||||+||+||++|+|| ||+++|||+||+|+|+|||+
T Consensus 3 ~~p~v~V~~~~~G~~~~g~~veLp-~VF~~~ir~dlIh~vV~~~~anrRQ~~~~~~~~rGTa~tktraEv~GtGRk~~Ri 81 (410)
T 4a17_C 3 SRPQIHVHDAKEANKQTATKLTLP-AVFTAPIRTDIVHKVFTDLNKNRKQASGVKISTRGTAGMGHSAESWGTGRAVARI 81 (410)
T ss_dssp CCCEEEEEESSSTTEEEEEEEECC-GGGGSCCCHHHHHHHHHHHHHTTCCCCCCCBCSSCBTTCCSCEEECCGGGSSCSS
T ss_pred CCCeeEEEECCCCCccCCceEehh-HhhCCCCcHHHHHHHHHHHHHhCcCcccCCCcccccccCCccceeCCCCCCcccc
Confidence 46799999 8999995 78 9996 7999999999999999999999999 77999999999999999999
Q ss_pred ----ccCcceeccCCCCCCCc-c---c-cCC--CcccccCCHHHHHHHHHHHHhhccc
Q 027581 164 ----QKGTGRARHGTLRGPQG-W---Y-YNA--RSKAQKPCYKVEQEGAAAWVEDCSI 210 (221)
Q Consensus 164 ----QKGTGRAR~Gs~RsP~~-G---~-PkP--Rdy~~kLNKKvRrlALrsALSa~~~ 210 (221)
||||||||+|+++ |+| | + |+| |+|+++||+|+|++||++|||+++.
T Consensus 82 PR~~QKGTGRARqGs~r-P~~rGGr~fgP~p~~R~y~~KlNKK~rrlAlrSALSaka~ 138 (410)
T 4a17_C 82 PRVGGSGTHRSGQAAFG-NQCRKGRMFAPLKTYRRVHRRVNVNQKRHAVAAALAASAL 138 (410)
T ss_dssp EEECCSSSTTTTCBCSS-TTSSSCCCSSCCCSCCCCCCCCCHHHHHHHHHHHHHHHTC
T ss_pred ccccCCCCCcccccccC-CccCCeEEcCCCCCccchhhhhCHHHHHHHHHHHHHHhcc
Confidence 9999999999999 999 3 2 776 9999999999999999999999863
No 10
>1vq8_C 50S ribosomal protein L4E; 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: c.22.1.1 PDB: 1k73_E* 1k8a_E* 1k9m_E* 1kc8_E* 1kd1_E* 1kqs_C* 1m1k_E* 1m90_E* 1n8r_E* 1nji_E* 1q7y_E* 1q81_E* 1q82_E* 1q86_E* 1qvf_C 1qvg_C 1s72_C* 1vq4_C* 1vq5_C* 1vq6_C* ...
Probab=99.97 E-value=8.4e-32 Score=237.25 Aligned_cols=105 Identities=27% Similarity=0.328 Sum_probs=100.0
Q ss_pred eeeEEeccCCCeeeeEEcCccccCCCCchhHHHHHHHHHHHHcccCCCC-----CceeccccCCccCc---ccccCccee
Q 027581 99 LVIPVTNFFNEDKGFMVLAGDVFDVPIRKDIIHRVVRWQLAKRQQGTHS-----TKTISEVSGTGKKP---WRQKGTGRA 170 (221)
Q Consensus 99 m~ipV~~~~Ge~~g~IeLp~~VF~~p~R~DLIhraV~~q~anrRqGta~-----TKtRsEVsGsgkKp---wrQKGTGRA 170 (221)
|+++|||++|+.+|+|+|| +||+.|+|.||||+||+||++|+||||+. +||++|++|+|+|+ |+|| |+|
T Consensus 1 m~v~v~~~~g~~~g~v~Lp-~vF~~~~r~dli~~~v~~~~an~Rqgt~~~~~aG~kt~ae~~GtGR~~ari~rqK--G~a 77 (246)
T 1vq8_C 1 MQATIYDLDGNTDGEVDLP-DVFETPVRSDLIGKAVRAAQANRKQDYGSDEYAGLRTPAESFGSGRGQAHVPKLD--GRA 77 (246)
T ss_dssp CEEEEECTTSCEEEEEECC-GGGGSCCCHHHHHHHHHHHHHHTCCCCCCCTTTTTCCCCBCCCSSSSCCCCCEET--TEE
T ss_pred CeeEEEcCCCCCccEEEhh-HhhCCCccHHHHHHHHHHHHHhcccCcccccccCcccceeeccCCCCcccccccc--Ccc
Confidence 6799999999999999999 99999999999999999999999999999 99999999999999 9999 777
Q ss_pred ccCCCCCCCc--c---c-cCC-CcccccCCHHHHHHHHHHHHhhccc
Q 027581 171 RHGTLRGPQG--W---Y-YNA-RSKAQKPCYKVEQEGAAAWVEDCSI 210 (221)
Q Consensus 171 R~Gs~RsP~~--G---~-PkP-Rdy~~kLNKKvRrlALrsALSa~~~ 210 (221)
| ++|+| | | |+| |+|+++||||+|++||++|||+++.
T Consensus 78 r----rsP~~rGGg~~~gPkp~R~~~~klnkK~rrlAl~sALsa~~~ 120 (246)
T 1vq8_C 78 R----RVPQAVKGRSAHPPKTEKDRSLDLNDKERQLAVRSALAATAD 120 (246)
T ss_dssp C----SSTTSTTCCCSSCCCTTCCCCCCCCHHHHHHHHHHHHHHTTC
T ss_pred c----cCCccCCCeeecCCCCCccchhhcCHHHHHHHHHHHHHHhhh
Confidence 5 89999 3 3 999 9999999999999999999999884
No 11
>3iz5_D 60S ribosomal protein L4 (L4P); eukaryotic ribosome,homology modeling,de novo modeling,ribos proteins,novel ribosomal proteins, ribosome; 5.50A {Triticum aestivum} PDB: 3izr_D
Probab=99.97 E-value=2.9e-31 Score=247.31 Aligned_cols=109 Identities=23% Similarity=0.300 Sum_probs=99.9
Q ss_pred eeeEEeccCCCeee----eEEcCccccCCCCchhHHHHHHHHHHHHcccCCCCCc-----eeccccCCccCcc---ccc-
Q 027581 99 LVIPVTNFFNEDKG----FMVLAGDVFDVPIRKDIIHRVVRWQLAKRQQGTHSTK-----TISEVSGTGKKPW---RQK- 165 (221)
Q Consensus 99 m~ipV~~~~Ge~~g----~IeLp~~VF~~p~R~DLIhraV~~q~anrRqGta~TK-----tRsEVsGsgkKpw---rQK- 165 (221)
-+++|||++|+.+| +|+|| +||+.|+|+||||+||+||++|+||||+.|| ||+||+|+|+||| +||
T Consensus 7 p~v~V~~~~G~~~g~~~~~v~Lp-~VF~~~~r~dlIh~vV~~~~an~RQgt~~tk~AG~~traEv~GtGRk~~RipRQKG 85 (405)
T 3iz5_D 7 PLVSVKALEGDMATDNSSSLALA-EVFRAPLRPDVVRFVHRLLSCNKRQPYAVSRRAGHQTSAESWGTGRAVSRIPRVPG 85 (405)
T ss_dssp CEECCBCCSCCCCSSCCCCEECC-GGGGSCCCHHHHHHHHHHHHHTCSCCCCSCTTTTTCSCCCCCCSSSSSCSSCCCCC
T ss_pred ceEEEEeCCCCcccccceeeccH-HHhCCCCCHHHHHHHHHHHHHhhhcCcCCCccccCCccceecCCCCCccccccccC
Confidence 37889999999999 79996 9999999999999999999999999999999 9999999999999 999
Q ss_pred -CcceeccCCCCCCCc--c---c-cCC--CcccccCCHHHHHHHHHHHHhhccc
Q 027581 166 -GTGRARHGTLRGPQG--W---Y-YNA--RSKAQKPCYKVEQEGAAAWVEDCSI 210 (221)
Q Consensus 166 -GTGRAR~Gs~RsP~~--G---~-PkP--Rdy~~kLNKKvRrlALrsALSa~~~ 210 (221)
||||||+|++ |+| | + |+| |+|+++||||+|++||++|||+++.
T Consensus 86 ~GTgRAr~gs~--~~~~gGGr~fgP~p~~R~y~~klNKK~rrlAlrSALSaka~ 137 (405)
T 3iz5_D 86 GGTHRAGQGAF--GNMCRGGRMFAPTKTWRKWHRRVNVHLRRVAVASALAATSV 137 (405)
T ss_dssp CSSSCCCSCCS--SSSSTTCCCSSSCCSCCCCCCCCCHHHHHHHHHHHHHHTTC
T ss_pred CCCCccCCCCC--CCccCCeEEcCCCCCCccceeecCHHHHHHHHHHHHHHhcc
Confidence 7777888887 567 3 2 877 9999999999999999999999864
No 12
>2wwb_H 60S ribosomal protein L4-B; ribosome, protein EXIT tunnel, cotranslational protein translocation, protein conducting channel; 6.48A {Triticum aestivum} PDB: 2wwa_H 2ww9_H 3izc_D 3izs_D 3o58_D 3o5h_D 3u5e_C 3u5i_C 1s1i_D 3jyw_D
Probab=99.97 E-value=3.8e-31 Score=243.75 Aligned_cols=107 Identities=25% Similarity=0.317 Sum_probs=101.3
Q ss_pred ceeeEEeccCCCeeee-EEcCccccCCCCchhHHHHHHHHHHHHcccCCCCCceeccccCCccCcccccCcceecc----
Q 027581 98 DLVIPVTNFFNEDKGF-MVLAGDVFDVPIRKDIIHRVVRWQLAKRQQGTHSTKTISEVSGTGKKPWRQKGTGRARH---- 172 (221)
Q Consensus 98 ~m~ipV~~~~Ge~~g~-IeLp~~VF~~p~R~DLIhraV~~q~anrRqGta~TKtRsEVsGsgkKpwrQKGTGRAR~---- 172 (221)
.++++|||++|+.+|+ |+|| +||+.|+|.||||+||+||++|+||||+.||+|+|| +|+||| ||||||+
T Consensus 3 r~~v~V~~~~G~~~g~~i~Lp-~VF~~p~r~dlih~vv~~~~an~RQgt~~tk~rgev--tg~K~w---GTGRAraripR 76 (362)
T 2wwb_H 3 RPQVTVHSLTGEATANALPLP-AVFSAPIRPDIVHTVFTSVNKNKRQAYAVSEKAGHQ--TSAESW---GTGRAVARIPR 76 (362)
T ss_dssp SSCCCCCCSSCSCCSCCCCCC-GGGCSCCCHHHHHHHHHHHHHHHCCCCCCCSSSSCS--SCCSSC---CCCSSSCSCSC
T ss_pred CCeeEEEcCCCcCcCceEehh-HhhCCCccHHHHHHHHHHHHHhccCCCCCCCccccc--ccceec---CCCCCeeeccc
Confidence 3578999999999999 9999 999999999999999999999999999999999999 889999 9999999
Q ss_pred ----CCCCCCC-----c--c---c-cCC--CcccccCCHHHHHHHHHHHHhhccc
Q 027581 173 ----GTLRGPQ-----G--W---Y-YNA--RSKAQKPCYKVEQEGAAAWVEDCSI 210 (221)
Q Consensus 173 ----Gs~RsP~-----~--G---~-PkP--Rdy~~kLNKKvRrlALrsALSa~~~ 210 (221)
|++|||+ | | + |+| |+|+++||+|+|++||++|||++++
T Consensus 77 v~g~Gs~RSp~ga~~~~~gGG~~fgP~p~~R~~~~klNkK~rrlAl~SALsaka~ 131 (362)
T 2wwb_H 77 VGGGGTGRSGQGAFGNMCRGGRMFAPTKTWRKWNVKVNHNEKRYATASAIAATAV 131 (362)
T ss_dssp CCSCSSSSCSSTTTSSSCSSSCCSSSSCSSCCCCCCCCHHHHHHHHHHHHHGGGC
T ss_pred ccCCCCCCCcccccCCccCCeEECCCCCCCcchhhhcCHHHHHHHHHHHHHhccc
Confidence 9999999 9 3 2 877 9999999999999999999999953
No 13
>1vq8_C 50S ribosomal protein L4E; 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: c.22.1.1 PDB: 1k73_E* 1k8a_E* 1k9m_E* 1kc8_E* 1kd1_E* 1kqs_C* 1m1k_E* 1m90_E* 1n8r_E* 1nji_E* 1q7y_E* 1q81_E* 1q82_E* 1q86_E* 1qvf_C 1qvg_C 1s72_C* 1vq4_C* 1vq5_C* 1vq6_C* ...
Probab=55.42 E-value=6.1 Score=34.57 Aligned_cols=37 Identities=16% Similarity=0.295 Sum_probs=26.7
Q ss_pred HHHHHHHHHcccCCCCCceeccccCC--ccCcccccCcceec
Q 027581 132 RVVRWQLAKRQQGTHSTKTISEVSGT--GKKPWRQKGTGRAR 171 (221)
Q Consensus 132 raV~~q~anrRqGta~TKtRsEVsGs--gkKpwrQKGTGRAR 171 (221)
++|...-.+.+....+-..++||+|+ ++++| |||||+
T Consensus 29 dli~~~v~~~~an~Rqgt~~~~~aG~kt~ae~~---GtGR~~ 67 (246)
T 1vq8_C 29 DLIGKAVRAAQANRKQDYGSDEYAGLRTPAESF---GSGRGQ 67 (246)
T ss_dssp HHHHHHHHHHHHHTCCCCCCCTTTTTCCCCBCC---CSSSSC
T ss_pred HHHHHHHHHHHHhcccCcccccccCcccceeec---cCCCCc
Confidence 45555555555666666779999999 99999 777764
No 14
>3j21_D 50S ribosomal protein L4P; archaea, archaeal, KINK-turn, protein synthe ribosome; 6.60A {Pyrococcus furiosus}
Probab=21.11 E-value=67 Score=28.10 Aligned_cols=42 Identities=17% Similarity=0.161 Sum_probs=23.2
Q ss_pred HHHHHHHHcccCCCCCceeccccCC--ccCcccccCcceeccCCC
Q 027581 133 VVRWQLAKRQQGTHSTKTISEVSGT--GKKPWRQKGTGRARHGTL 175 (221)
Q Consensus 133 aV~~q~anrRqGta~TKtRsEVsGs--gkKpwrQKGTGRAR~Gs~ 175 (221)
+|...-.+.+......++.++++|. ..+.| |+|.|+||..+.
T Consensus 30 li~~~v~~~~an~Rq~~Gt~~~ag~ktraev~-G~Gr~~ar~~Rq 73 (255)
T 3j21_D 30 LIRRAVIASWTHRIQPQGRDPMAGKRRVTENI-GKGHSMARVERL 73 (255)
T ss_dssp HHHHHHHHHHHHTCCCCCCCSSTTSSSCCBCC-CSSSSSCCCCBC
T ss_pred HHHHHHHHHHHhccccccCCcccCcccceeec-CCCCCcCcCCcc
Confidence 3333333444444445677777773 44555 777777777433
Done!