RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy1114
(480 letters)
>4a17_H RPL10, 60S ribosomal protein L10; eukaryotic ribosome, ribosome,
eukaryotic initiation factor 60S, translation, large
ribosomal subunit; 3.52A {Tetrahymena thermophila} PDB:
4a1a_H 4a1c_H 4a1e_H
Length = 215
Score = 252 bits (645), Expect = 3e-82
Identities = 114/185 (61%), Positives = 140/185 (75%)
Query: 76 YRYCKNKPYPKSRFCRGVPDPKIRIFDLGKKKAKVEDFPLCVHLVSDEYEQLSSEALEAG 135
YR K KPYPKSR+ RGVPD +IRI+D G+KKA VE+FP VH+VSDE EQ++SEALEA
Sbjct: 9 YRQPKGKPYPKSRYNRGVPDARIRIYDSGRKKATVEEFPYVVHIVSDEKEQITSEALEAA 68
Query: 136 RICCNKYLVKNCGKDQFHIRMRLHPFHVIRINKMLSCAGADRLQTGMRGAYGKPQGTVAR 195
RI NK L+K KD FH+R R+HP+HV+RINKMLSCAGADRLQ+GMRGA+GK G AR
Sbjct: 69 RIAANKNLIKFISKDAFHLRCRVHPWHVLRINKMLSCAGADRLQSGMRGAFGKALGKAAR 128
Query: 196 VNIGQPIMSVRSSDKFKPAVIEALRRAKFKFPGRQKIYVSKKWGFTKYDREEYETLRDQN 255
V+IG + SVR + I+AL RAK KFPGRQK+ S+KWGFTK R +Y LR+Q
Sbjct: 129 VDIGSILFSVRVKEPHVKYAIDALTRAKAKFPGRQKVVTSQKWGFTKLTRAQYSRLRNQK 188
Query: 256 RILHD 260
+++ D
Sbjct: 189 KLVTD 193
Score = 140 bits (353), Expect = 4e-39
Identities = 70/104 (67%), Positives = 84/104 (80%)
Query: 349 YRYCKNKPYPKSRFCRGVPDPKIRIFDLGKKKAKVEDFPLCVHLVSDEYEQLSSEALEAG 408
YR K KPYPKSR+ RGVPD +IRI+D G+KKA VE+FP VH+VSDE EQ++SEALEA
Sbjct: 9 YRQPKGKPYPKSRYNRGVPDARIRIYDSGRKKATVEEFPYVVHIVSDEKEQITSEALEAA 68
Query: 409 RICCNKYLVKNCGKDQFHIRMRLHPFHVIRINKMLSCAGADRFE 452
RI NK L+K KD FH+R R+HP+HV+RINKMLSCAGADR +
Sbjct: 69 RIAANKNLIKFISKDAFHLRCRVHPWHVLRINKMLSCAGADRLQ 112
Score = 112 bits (282), Expect = 5e-29
Identities = 44/79 (55%), Positives = 54/79 (68%)
Query: 269 RLQTGMRGAYGKPQGTVARVNIGQPIMSVRSSDKFKPAVIEALRRAKFKFPGRQKIYVSK 328
RLQ+GMRGA+GK G ARV+IG + SVR + I+AL RAK KFPGRQK+ S+
Sbjct: 110 RLQSGMRGAFGKALGKAARVDIGSILFSVRVKEPHVKYAIDALTRAKAKFPGRQKVVTSQ 169
Query: 329 KWGFTKYDREEYETLRDQN 347
KWGFTK R +Y LR+Q
Sbjct: 170 KWGFTKLTRAQYSRLRNQK 188
Score = 107 bits (267), Expect = 6e-27
Identities = 40/74 (54%), Positives = 49/74 (66%)
Query: 1 MRGAYGKPQGTVARVNIGQPIMSVRSSDKFKPAVIEALRRAKFKFPGRQKIYVSKKWGFT 60
MRGA+GK G ARV+IG + SVR + I+AL RAK KFPGRQK+ S+KWGFT
Sbjct: 115 MRGAFGKALGKAARVDIGSILFSVRVKEPHVKYAIDALTRAKAKFPGRQKVVTSQKWGFT 174
Query: 61 KYDREEYETLRDQN 74
K R +Y LR+Q
Sbjct: 175 KLTRAQYSRLRNQK 188
Score = 38.5 bits (89), Expect = 0.002
Identities = 9/25 (36%), Positives = 13/25 (52%)
Query: 450 RFELDGCNVKYRAEHGPLAAWKKVQ 474
+ DG NVK E GPL+ + +
Sbjct: 189 KLVTDGSNVKVIGERGPLSRLELFR 213
>3iz5_I 60S ribosomal protein L10 (L10E); eukaryotic ribosome,homology
modeling,de novo modeling,ribos proteins,novel ribosomal
proteins, ribosome; 5.50A {Triticum aestivum} PDB:
3izr_I 1s1i_I 3jyw_I
Length = 224
Score = 252 bits (644), Expect = 6e-82
Identities = 131/185 (70%), Positives = 152/185 (82%)
Query: 76 YRYCKNKPYPKSRFCRGVPDPKIRIFDLGKKKAKVEDFPLCVHLVSDEYEQLSSEALEAG 135
YR KNKPYPKSR+CRGVPDPKIRI+D+G KK V++FP CVHLVS E E +SSEALEA
Sbjct: 9 YRQIKNKPYPKSRYCRGVPDPKIRIYDVGMKKKGVDEFPYCVHLVSWEKENVSSEALEAA 68
Query: 136 RICCNKYLVKNCGKDQFHIRMRLHPFHVIRINKMLSCAGADRLQTGMRGAYGKPQGTVAR 195
RI CNKY+ KN GKD FH+R+R+HPFHV+RINKMLSCAGADRLQTGMRGA+GKPQGT AR
Sbjct: 69 RIACNKYMTKNAGKDAFHLRVRVHPFHVLRINKMLSCAGADRLQTGMRGAFGKPQGTCAR 128
Query: 196 VNIGQPIMSVRSSDKFKPAVIEALRRAKFKFPGRQKIYVSKKWGFTKYDREEYETLRDQN 255
V+IGQ ++SVR + EALRRAKFKFPGRQKI S+KWGFTK+ REEY L+ +
Sbjct: 129 VDIGQVLLSVRCKESNAKHAEEALRRAKFKFPGRQKIIHSRKWGFTKFTREEYVKLKAEG 188
Query: 256 RILHD 260
RI+ D
Sbjct: 189 RIMSD 193
Score = 137 bits (347), Expect = 3e-38
Identities = 77/104 (74%), Positives = 89/104 (85%)
Query: 349 YRYCKNKPYPKSRFCRGVPDPKIRIFDLGKKKAKVEDFPLCVHLVSDEYEQLSSEALEAG 408
YR KNKPYPKSR+CRGVPDPKIRI+D+G KK V++FP CVHLVS E E +SSEALEA
Sbjct: 9 YRQIKNKPYPKSRYCRGVPDPKIRIYDVGMKKKGVDEFPYCVHLVSWEKENVSSEALEAA 68
Query: 409 RICCNKYLVKNCGKDQFHIRMRLHPFHVIRINKMLSCAGADRFE 452
RI CNKY+ KN GKD FH+R+R+HPFHV+RINKMLSCAGADR +
Sbjct: 69 RIACNKYMTKNAGKDAFHLRVRVHPFHVLRINKMLSCAGADRLQ 112
Score = 114 bits (286), Expect = 2e-29
Identities = 52/79 (65%), Positives = 61/79 (77%)
Query: 269 RLQTGMRGAYGKPQGTVARVNIGQPIMSVRSSDKFKPAVIEALRRAKFKFPGRQKIYVSK 328
RLQTGMRGA+GKPQGT ARV+IGQ ++SVR + EALRRAKFKFPGRQKI S+
Sbjct: 110 RLQTGMRGAFGKPQGTCARVDIGQVLLSVRCKESNAKHAEEALRRAKFKFPGRQKIIHSR 169
Query: 329 KWGFTKYDREEYETLRDQN 347
KWGFTK+ REEY L+ +
Sbjct: 170 KWGFTKFTREEYVKLKAEG 188
Score = 108 bits (271), Expect = 2e-27
Identities = 47/74 (63%), Positives = 56/74 (75%)
Query: 1 MRGAYGKPQGTVARVNIGQPIMSVRSSDKFKPAVIEALRRAKFKFPGRQKIYVSKKWGFT 60
MRGA+GKPQGT ARV+IGQ ++SVR + EALRRAKFKFPGRQKI S+KWGFT
Sbjct: 115 MRGAFGKPQGTCARVDIGQVLLSVRCKESNAKHAEEALRRAKFKFPGRQKIIHSRKWGFT 174
Query: 61 KYDREEYETLRDQN 74
K+ REEY L+ +
Sbjct: 175 KFTREEYVKLKAEG 188
Score = 40.8 bits (95), Expect = 4e-04
Identities = 10/29 (34%), Positives = 12/29 (41%)
Query: 450 RFELDGCNVKYRAEHGPLAAWKKVQEELA 478
R DG N + HG LA + LA
Sbjct: 189 RIMSDGVNAQLLGSHGRLAKRAPGKAFLA 217
>2zkr_h 60S ribosomal protein L10; protein-RNA complex, 60S ribosomal
subunit, ribosomal protein/RNA complex; 8.70A {Canis
familiaris}
Length = 214
Score = 250 bits (639), Expect = 2e-81
Identities = 145/185 (78%), Positives = 168/185 (90%)
Query: 76 YRYCKNKPYPKSRFCRGVPDPKIRIFDLGKKKAKVEDFPLCVHLVSDEYEQLSSEALEAG 135
YRYCKNKPYPKSRFCRGVPD KIRIFDLG+KKAKV++FPLC H+VSDEYEQLSSEALEA
Sbjct: 9 YRYCKNKPYPKSRFCRGVPDAKIRIFDLGRKKAKVDEFPLCGHMVSDEYEQLSSEALEAA 68
Query: 136 RICCNKYLVKNCGKDQFHIRMRLHPFHVIRINKMLSCAGADRLQTGMRGAYGKPQGTVAR 195
RIC NKY+VK+CGKD FHIR+RLHPFHVIRINKMLSCAGADRLQTGMRGA+GKPQGTVA+
Sbjct: 69 RICANKYMVKSCGKDGFHIRVRLHPFHVIRINKMLSCAGADRLQTGMRGAFGKPQGTVAK 128
Query: 196 VNIGQPIMSVRSSDKFKPAVIEALRRAKFKFPGRQKIYVSKKWGFTKYDREEYETLRDQN 255
V+IGQ IMS+R+ + K VIEALRRAKFKFPGRQKI++SKKWGFTK++ +E+E + +
Sbjct: 129 VHIGQVIMSIRTKLQNKEHVIEALRRAKFKFPGRQKIHISKKWGFTKFNADEFENMVAEK 188
Query: 256 RILHD 260
R++ D
Sbjct: 189 RLIPD 193
Score = 137 bits (347), Expect = 3e-38
Identities = 90/104 (86%), Positives = 98/104 (94%)
Query: 349 YRYCKNKPYPKSRFCRGVPDPKIRIFDLGKKKAKVEDFPLCVHLVSDEYEQLSSEALEAG 408
YRYCKNKPYPKSRFCRGVPD KIRIFDLG+KKAKV++FPLC H+VSDEYEQLSSEALEA
Sbjct: 9 YRYCKNKPYPKSRFCRGVPDAKIRIFDLGRKKAKVDEFPLCGHMVSDEYEQLSSEALEAA 68
Query: 409 RICCNKYLVKNCGKDQFHIRMRLHPFHVIRINKMLSCAGADRFE 452
RIC NKY+VK+CGKD FHIR+RLHPFHVIRINKMLSCAGADR +
Sbjct: 69 RICANKYMVKSCGKDGFHIRVRLHPFHVIRINKMLSCAGADRLQ 112
Score = 112 bits (282), Expect = 5e-29
Identities = 54/79 (68%), Positives = 68/79 (86%)
Query: 269 RLQTGMRGAYGKPQGTVARVNIGQPIMSVRSSDKFKPAVIEALRRAKFKFPGRQKIYVSK 328
RLQTGMRGA+GKPQGTVA+V+IGQ IMS+R+ + K VIEALRRAKFKFPGRQKI++SK
Sbjct: 110 RLQTGMRGAFGKPQGTVAKVHIGQVIMSIRTKLQNKEHVIEALRRAKFKFPGRQKIHISK 169
Query: 329 KWGFTKYDREEYETLRDQN 347
KWGFTK++ +E+E + +
Sbjct: 170 KWGFTKFNADEFENMVAEK 188
Score = 107 bits (267), Expect = 6e-27
Identities = 49/74 (66%), Positives = 63/74 (85%)
Query: 1 MRGAYGKPQGTVARVNIGQPIMSVRSSDKFKPAVIEALRRAKFKFPGRQKIYVSKKWGFT 60
MRGA+GKPQGTVA+V+IGQ IMS+R+ + K VIEALRRAKFKFPGRQKI++SKKWGFT
Sbjct: 115 MRGAFGKPQGTVAKVHIGQVIMSIRTKLQNKEHVIEALRRAKFKFPGRQKIHISKKWGFT 174
Query: 61 KYDREEYETLRDQN 74
K++ +E+E + +
Sbjct: 175 KFNADEFENMVAEK 188
Score = 40.1 bits (93), Expect = 7e-04
Identities = 19/71 (26%), Positives = 29/71 (40%), Gaps = 5/71 (7%)
Query: 404 ALEAGRICCNKYLVKNCGKDQFHIRMRLHPFHVIRINKMLSCAGADRFELDGCNVKYRAE 463
+EA R K+ G+ + HI + F ++ + R DGC VKY
Sbjct: 148 VIEALRRAKFKFP----GRQKIHIS-KKWGFTKFNADEFENMVAEKRLIPDGCGVKYIPN 202
Query: 464 HGPLAAWKKVQ 474
GPL W+ +
Sbjct: 203 RGPLDKWRALH 213
>3j0l_J Ribosomal protein L10; mammalia, translation, elongation cycle,
tRNA, ribosome; 9.80A {Oryctolagus cuniculus} PDB:
3j0q_J 3izc_I 3izs_I 3o58_J 3o5h_J 3u5e_I 3u5i_I
Length = 219
Score = 247 bits (632), Expect = 3e-80
Identities = 127/185 (68%), Positives = 148/185 (80%)
Query: 76 YRYCKNKPYPKSRFCRGVPDPKIRIFDLGKKKAKVEDFPLCVHLVSDEYEQLSSEALEAG 135
YRY KNKPYPKSR+ R VPD KIRI+DLGKKKA V++FPLCVHLVS+E EQLSSEALEA
Sbjct: 7 YRYQKNKPYPKSRYNRAVPDSKIRIYDLGKKKATVDEFPLCVHLVSNELEQLSSEALEAA 66
Query: 136 RICCNKYLVKNCGKDQFHIRMRLHPFHVIRINKMLSCAGADRLQTGMRGAYGKPQGTVAR 195
RIC NKY+ G+D FH+R+R+HPFHV+RINKMLSCAGADRLQ GMRGA+GKP G AR
Sbjct: 67 RICANKYMTTVSGRDAFHLRVRVHPFHVLRINKMLSCAGADRLQQGMRGAWGKPHGLAAR 126
Query: 196 VNIGQPIMSVRSSDKFKPAVIEALRRAKFKFPGRQKIYVSKKWGFTKYDREEYETLRDQN 255
V+IGQ I SVR+ D K V+E LRRA++KFPG+QKI +SKKWGFT DR EY R+
Sbjct: 127 VDIGQIIFSVRTKDSNKDVVVEGLRRARYKFPGQQKIILSKKWGFTNLDRPEYLKKREAG 186
Query: 256 RILHD 260
+ D
Sbjct: 187 EVKDD 191
Score = 137 bits (345), Expect = 7e-38
Identities = 78/104 (75%), Positives = 90/104 (86%)
Query: 349 YRYCKNKPYPKSRFCRGVPDPKIRIFDLGKKKAKVEDFPLCVHLVSDEYEQLSSEALEAG 408
YRY KNKPYPKSR+ R VPD KIRI+DLGKKKA V++FPLCVHLVS+E EQLSSEALEA
Sbjct: 7 YRYQKNKPYPKSRYNRAVPDSKIRIYDLGKKKATVDEFPLCVHLVSNELEQLSSEALEAA 66
Query: 409 RICCNKYLVKNCGKDQFHIRMRLHPFHVIRINKMLSCAGADRFE 452
RIC NKY+ G+D FH+R+R+HPFHV+RINKMLSCAGADR +
Sbjct: 67 RICANKYMTTVSGRDAFHLRVRVHPFHVLRINKMLSCAGADRLQ 110
Score = 110 bits (277), Expect = 2e-28
Identities = 49/79 (62%), Positives = 58/79 (73%)
Query: 269 RLQTGMRGAYGKPQGTVARVNIGQPIMSVRSSDKFKPAVIEALRRAKFKFPGRQKIYVSK 328
RLQ GMRGA+GKP G ARV+IGQ I SVR+ D K V+E LRRA++KFPG+QKI +SK
Sbjct: 108 RLQQGMRGAWGKPHGLAARVDIGQIIFSVRTKDSNKDVVVEGLRRARYKFPGQQKIILSK 167
Query: 329 KWGFTKYDREEYETLRDQN 347
KWGFT DR EY R+
Sbjct: 168 KWGFTNLDRPEYLKKREAG 186
Score = 105 bits (263), Expect = 2e-26
Identities = 45/74 (60%), Positives = 54/74 (72%)
Query: 1 MRGAYGKPQGTVARVNIGQPIMSVRSSDKFKPAVIEALRRAKFKFPGRQKIYVSKKWGFT 60
MRGA+GKP G ARV+IGQ I SVR+ D K V+E LRRA++KFPG+QKI +SKKWGFT
Sbjct: 113 MRGAWGKPHGLAARVDIGQIIFSVRTKDSNKDVVVEGLRRARYKFPGQQKIILSKKWGFT 172
Query: 61 KYDREEYETLRDQN 74
DR EY R+
Sbjct: 173 NLDRPEYLKKREAG 186
Score = 39.3 bits (91), Expect = 0.001
Identities = 7/29 (24%), Positives = 12/29 (41%)
Query: 450 RFELDGCNVKYRAEHGPLAAWKKVQEELA 478
+ DG VK+ ++ G L + E
Sbjct: 187 EVKDDGAFVKFLSKKGSLENNIREFPEYF 215
>1vq8_H 50S ribosomal protein L10E; 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: d.41.4.1 PDB: 1vq4_H*
1vq5_H* 1vq6_H* 1vq7_H* 1s72_H* 1vq9_H* 1vqk_H* 1vql_H*
1vqm_H* 1vqn_H* 1vqo_H* 1vqp_H* 2otj_H* 2otl_H* 2qa4_H*
2qex_H* 1yhq_H* 1yi2_H* 1yij_H* 1yit_H* ...
Length = 171
Score = 221 bits (563), Expect = 1e-70
Identities = 55/163 (33%), Positives = 87/163 (53%), Gaps = 1/163 (0%)
Query: 76 YRYCKNKPYPKSRFCRGVPDPKIRIFDLGKKKAKVEDFPLCVHLVSDEYEQLSSEALEAG 135
YR Y + + G+P KI +G+K+ +D+P+ + L+ +E QL +LEA
Sbjct: 6 YRDIDKPAYTRREYITGIPGSKIAQHKMGRKQKDADDYPVQISLIVEETVQLRHGSLEAS 65
Query: 136 RICCNKYLVKNCGKD-QFHIRMRLHPFHVIRINKMLSCAGADRLQTGMRGAYGKPQGTVA 194
R+ N++L+K G++ + + +R P V+R NK + AGADR+ GMR A+GK GT A
Sbjct: 66 RLSANRHLIKELGEEGDYKMTLRKFPHQVLRENKQATGAGADRVSDGMRAAFGKIVGTAA 125
Query: 195 RVNIGQPIMSVRSSDKFKPAVIEALRRAKFKFPGRQKIYVSKK 237
RV G+ + + + + V EA RRA K +I S
Sbjct: 126 RVQAGEQLFTAYCNVEDAEHVKEAFRRAYNKITPSCRIDSSPA 168
Score = 138 bits (349), Expect = 5e-39
Identities = 34/105 (32%), Positives = 58/105 (55%), Gaps = 1/105 (0%)
Query: 349 YRYCKNKPYPKSRFCRGVPDPKIRIFDLGKKKAKVEDFPLCVHLVSDEYEQLSSEALEAG 408
YR Y + + G+P KI +G+K+ +D+P+ + L+ +E QL +LEA
Sbjct: 6 YRDIDKPAYTRREYITGIPGSKIAQHKMGRKQKDADDYPVQISLIVEETVQLRHGSLEAS 65
Query: 409 RICCNKYLVKNCGKD-QFHIRMRLHPFHVIRINKMLSCAGADRFE 452
R+ N++L+K G++ + + +R P V+R NK + AGADR
Sbjct: 66 RLSANRHLIKELGEEGDYKMTLRKFPHQVLRENKQATGAGADRVS 110
Score = 88.2 bits (218), Expect = 9e-21
Identities = 22/61 (36%), Positives = 30/61 (49%)
Query: 269 RLQTGMRGAYGKPQGTVARVNIGQPIMSVRSSDKFKPAVIEALRRAKFKFPGRQKIYVSK 328
R+ GMR A+GK GT ARV G+ + + + + V EA RRA K +I S
Sbjct: 108 RVSDGMRAAFGKIVGTAARVQAGEQLFTAYCNVEDAEHVKEAFRRAYNKITPSCRIDSSP 167
Query: 329 K 329
Sbjct: 168 A 168
Score = 81.7 bits (201), Expect = 2e-18
Identities = 20/56 (35%), Positives = 27/56 (48%)
Query: 1 MRGAYGKPQGTVARVNIGQPIMSVRSSDKFKPAVIEALRRAKFKFPGRQKIYVSKK 56
MR A+GK GT ARV G+ + + + + V EA RRA K +I S
Sbjct: 113 MRAAFGKIVGTAARVQAGEQLFTAYCNVEDAEHVKEAFRRAYNKITPSCRIDSSPA 168
>2pa2_A 60S ribosomal protein L10; QM protein, , structural genomics,
NPPSFA, national project on protein structural and
functional analyses; 2.50A {Homo sapiens} SCOP: d.41.4.1
Length = 151
Score = 215 bits (548), Expect = 1e-68
Identities = 120/149 (80%), Positives = 138/149 (92%)
Query: 101 FDLGKKKAKVEDFPLCVHLVSDEYEQLSSEALEAGRICCNKYLVKNCGKDQFHIRMRLHP 160
FDLG+KKAKV++FPLC H+VSDEYEQLSSEALEA RIC NKY+VK+CGKD FHIR+RLHP
Sbjct: 3 FDLGRKKAKVDEFPLCGHMVSDEYEQLSSEALEAARICANKYMVKSCGKDGFHIRVRLHP 62
Query: 161 FHVIRINKMLSCAGADRLQTGMRGAYGKPQGTVARVNIGQPIMSVRSSDKFKPAVIEALR 220
FHVIRINKMLSCAGADRLQTGMRGA+GKPQGTVARV+IGQ IMS+R+ + K VIEALR
Sbjct: 63 FHVIRINKMLSCAGADRLQTGMRGAFGKPQGTVARVHIGQVIMSIRTKLQNKEHVIEALR 122
Query: 221 RAKFKFPGRQKIYVSKKWGFTKYDREEYE 249
RAKFKFPGRQKI++SKKWGFTK++ +E+E
Sbjct: 123 RAKFKFPGRQKIHISKKWGFTKFNADEFE 151
Score = 112 bits (281), Expect = 1e-29
Identities = 55/73 (75%), Positives = 66/73 (90%)
Query: 269 RLQTGMRGAYGKPQGTVARVNIGQPIMSVRSSDKFKPAVIEALRRAKFKFPGRQKIYVSK 328
RLQTGMRGA+GKPQGTVARV+IGQ IMS+R+ + K VIEALRRAKFKFPGRQKI++SK
Sbjct: 79 RLQTGMRGAFGKPQGTVARVHIGQVIMSIRTKLQNKEHVIEALRRAKFKFPGRQKIHISK 138
Query: 329 KWGFTKYDREEYE 341
KWGFTK++ +E+E
Sbjct: 139 KWGFTKFNADEFE 151
Score = 108 bits (270), Expect = 4e-28
Identities = 66/79 (83%), Positives = 74/79 (93%)
Query: 374 FDLGKKKAKVEDFPLCVHLVSDEYEQLSSEALEAGRICCNKYLVKNCGKDQFHIRMRLHP 433
FDLG+KKAKV++FPLC H+VSDEYEQLSSEALEA RIC NKY+VK+CGKD FHIR+RLHP
Sbjct: 3 FDLGRKKAKVDEFPLCGHMVSDEYEQLSSEALEAARICANKYMVKSCGKDGFHIRVRLHP 62
Query: 434 FHVIRINKMLSCAGADRFE 452
FHVIRINKMLSCAGADR +
Sbjct: 63 FHVIRINKMLSCAGADRLQ 81
Score = 106 bits (266), Expect = 1e-27
Identities = 50/68 (73%), Positives = 61/68 (89%)
Query: 1 MRGAYGKPQGTVARVNIGQPIMSVRSSDKFKPAVIEALRRAKFKFPGRQKIYVSKKWGFT 60
MRGA+GKPQGTVARV+IGQ IMS+R+ + K VIEALRRAKFKFPGRQKI++SKKWGFT
Sbjct: 84 MRGAFGKPQGTVARVHIGQVIMSIRTKLQNKEHVIEALRRAKFKFPGRQKIHISKKWGFT 143
Query: 61 KYDREEYE 68
K++ +E+E
Sbjct: 144 KFNADEFE 151
>1ffk_F Ribosomal protein L10E; ribosome assembly, RNA-RNA, protein-RNA,
protein-protein; 2.40A {Haloarcula marismortui} SCOP:
d.41.4.1 PDB: 1jj2_H 1k73_J* 1k8a_J* 1k9m_J* 1kc8_J*
1kd1_J* 1kqs_H* 1m1k_J* 1m90_J* 1n8r_J* 1nji_J* 1q7y_J*
1q81_J* 1q82_J* 1q86_J* 1qvf_H 1qvg_H 1w2b_H 3cxc_H*
1giy_P ...
Length = 157
Score = 198 bits (505), Expect = 4e-62
Identities = 45/162 (27%), Positives = 65/162 (40%), Gaps = 13/162 (8%)
Query: 76 YRYCKNKPYPKSRFCRGVPDPKIRIFDLGKKKAKVEDFPLCVHLVSDEYEQLSSEALEAG 135
+R Y + + G+P I F +G A +P V V ++ Q+ ALEA
Sbjct: 6 FRNSIKPAYTRREYISGIPGKGIAQFKMGNNGAG-PTYPAQVENVVEKPVQIRHNALEAA 64
Query: 136 RICCNKYLVKNCGKDQFHIRMRLHPFHVIRINKMLSCAGADRLQTGMRGAYGKPQGTVAR 195
R N+++ + + R+R PFHVIR ++ GMR +GK GT AR
Sbjct: 65 RNAANRFVQNSGAAANYKFRIRKFPFHVIR----------EQDGDGMRAPFGKSVGTAAR 114
Query: 196 VNIGQPIMSVRSSDKFKPAVIEALRRAKFKFPGRQKIYVSKK 237
+ + PAV A RRA K I S
Sbjct: 115 SHGANHDFIAWVNP--DPAVEFAWRRAYMKVTPTVNIDSSPA 154
Score = 125 bits (315), Expect = 2e-34
Identities = 26/93 (27%), Positives = 41/93 (44%), Gaps = 1/93 (1%)
Query: 349 YRYCKNKPYPKSRFCRGVPDPKIRIFDLGKKKAKVEDFPLCVHLVSDEYEQLSSEALEAG 408
+R Y + + G+P I F +G A +P V V ++ Q+ ALEA
Sbjct: 6 FRNSIKPAYTRREYISGIPGKGIAQFKMGNNGAG-PTYPAQVENVVEKPVQIRHNALEAA 64
Query: 409 RICCNKYLVKNCGKDQFHIRMRLHPFHVIRINK 441
R N+++ + + R+R PFHVIR
Sbjct: 65 RNAANRFVQNSGAAANYKFRIRKFPFHVIREQD 97
Score = 85.0 bits (210), Expect = 1e-19
Identities = 19/61 (31%), Positives = 23/61 (37%), Gaps = 2/61 (3%)
Query: 269 RLQTGMRGAYGKPQGTVARVNIGQPIMSVRSSDKFKPAVIEALRRAKFKFPGRQKIYVSK 328
+ GMR +GK GT AR + + PAV A RRA K I S
Sbjct: 96 QDGDGMRAPFGKSVGTAARSHGANHDFIAWVNP--DPAVEFAWRRAYMKVTPTVNIDSSP 153
Query: 329 K 329
Sbjct: 154 A 154
Score = 78.9 bits (194), Expect = 1e-17
Identities = 18/56 (32%), Positives = 21/56 (37%), Gaps = 2/56 (3%)
Query: 1 MRGAYGKPQGTVARVNIGQPIMSVRSSDKFKPAVIEALRRAKFKFPGRQKIYVSKK 56
MR +GK GT AR + + PAV A RRA K I S
Sbjct: 101 MRAPFGKSVGTAARSHGANHDFIAWVNPD--PAVEFAWRRAYMKVTPTVNIDSSPA 154
>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
acyl-carrier-protein, beta-ketoacyl RED beta-ketoacyl
synthase, dehydratase; 4.00A {Saccharomyces cerevisiae}
Length = 2006
Score = 60.4 bits (146), Expect = 9e-10
Identities = 81/499 (16%), Positives = 138/499 (27%), Gaps = 199/499 (39%)
Query: 13 ARVNIGQPIMSVRSSDKFKPAVIEALRRAKFK----FPGRQKIYVSKKWGFTKYDREEY- 67
AR+ +P +S A+ A+ + F G Q G + ++Y
Sbjct: 129 ARIMAKRPFDKKSNS-----ALFRAVGEGNAQLVAIFGG-Q--------G----NTDDYF 170
Query: 68 ETLRD-QNSYRYCKNKPYPK----------SRFCRGVPDPKI---RIFDLGKKKAKVEDF 113
E LRD +Y S R D + + ++ + +
Sbjct: 171 EELRDLYQTYH-----VLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNT 225
Query: 114 PLCVHLVSDEYEQLSSEALEAGRIC----CNKYLV--KNCGKDQFHIRMRLHPFHVIRIN 167
P +Y L S + I + Y+V K G P
Sbjct: 226 P------DKDY--LLSIPISCPLIGVIQLAH-YVVTAKLLG---------FTP------- 260
Query: 168 KMLSCAGADRLQTGMRGAYGKPQGTVARVNIGQPIMSVRSSDKFKPAVIEALRRAKFKFP 227
L++ ++GA G QG V V I S + F +V +A+
Sbjct: 261 --------GELRSYLKGATGHSQGLVTAV----AIAETDSWESFFVSVRKAIT------- 301
Query: 228 GRQKIYVSKKWGFTKYDREEYETLRDQNRILHDAHFDHWIIRLQTGMRG--AYGKPQGTV 285
F +I G+R AY P ++
Sbjct: 302 ----------VLF-------------------------FI-----GVRCYEAY--PNTSL 319
Query: 286 A--------RVNIGQPI-M-SVRSSDKFKPAVIEALRRAKFKFPGRQKIYVSKK------ 329
N G P M S+ + + V + + + P +++ +S
Sbjct: 320 PPSILEDSLENNEGVPSPMLSISNLTQ--EQVQDYVNKTNSHLPAGKQVEISLVNGAKNL 377
Query: 330 ---------WGFTKYDREEY-ETLRDQNSYRYCKNKPYPKSRFCR-GVP-------DPKI 371
+G R+ + DQ+ + + K +RF P
Sbjct: 378 VVSGPPQSLYGLNLTLRKAKAPSGLDQSRIPFSERKLKFSNRFLPVASPFHSHLLVPASD 437
Query: 372 RIF-DLGKKKA--KVEDFPLCVHLVSD--EYEQLSSEALEAGRICCNKYLVKNCGKDQFH 426
I DL K +D + V+ D + LS E RI D
Sbjct: 438 LINKDLVKNNVSFNAKDIQIPVYDTFDGSDLRVLSGSISE--RIV-----------DCI- 483
Query: 427 IRMRLH--------PFHVI 437
IR+ + H++
Sbjct: 484 IRLPVKWETTTQFKATHIL 502
Score = 40.8 bits (95), Expect = 0.001
Identities = 35/225 (15%), Positives = 64/225 (28%), Gaps = 70/225 (31%)
Query: 20 PIMSVRSSDKFKPAVIEALRRAKFKFPGRQKIYVSKK---------------WGFTKYDR 64
P++S+ + + V + + + P +++ +S +G R
Sbjct: 337 PMLSISNLTQ--EQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLYGLNLTLR 394
Query: 65 EEY-ETLRDQNSYRYCKNKPYPKSRFCR-GVP-------DPKIRIF-DLGKKKA--KVED 112
+ + DQ+ + + K +RF P I DL K +D
Sbjct: 395 KAKAPSGLDQSRIPFSERKLKFSNRFLPVASPFHSHLLVPASDLINKDLVKNNVSFNAKD 454
Query: 113 FPLCVHLVSD--EYEQLSSEALEAGRICCNKYLVKNCGKDQFHIRMRLH--------PFH 162
+ V+ D + LS E RI D IR+ + H
Sbjct: 455 IQIPVYDTFDGSDLRVLSGSISE--RIV-----------DCI-IRLPVKWETTTQFKATH 500
Query: 163 VI--------RINKMLS--CAG-------ADRLQTGMRGAYGKPQ 190
++ + + G A L YG Q
Sbjct: 501 ILDFGPGGASGLGVLTHRNKDGTGVRVIVAGTLDINPDDDYGFKQ 545
Score = 40.0 bits (93), Expect = 0.002
Identities = 47/316 (14%), Positives = 86/316 (27%), Gaps = 138/316 (43%)
Query: 246 EEYET--LRDQNRILH------DAHFDHWIIRLQTGMRGAYGKPQGTVARVNIGQPIMSV 297
E+E L + +H D +++ + ++ AR+ +P
Sbjct: 89 TEFENCYLEGND--IHALAAKLLQENDTTLVKTKELIKNYIT------ARIMAKRPFDKK 140
Query: 298 RSSDKFKPAVIEALRRAKFK----FPGRQKIYVSKKWGFTKYDREEY-ETLRD-QNSYRY 351
+S A+ A+ + F G Q G + ++Y E LRD +Y
Sbjct: 141 SNS-----ALFRAVGEGNAQLVAIFGG-Q--------G----NTDDYFEELRDLYQTYHV 182
Query: 352 ----------------CKNKPYPKSRFCRGV------------PD-----------PKIR 372
+ + F +G+ PD P I
Sbjct: 183 LVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPDKDYLLSIPISCPLIG 242
Query: 373 IFDLG--KKKAKVEDF-P---------LCVH---LVS----------DEYEQLSSEALEA 407
+ L AK+ F P H LV+ + + +A+
Sbjct: 243 VIQLAHYVVTAKLLGFTPGELRSYLKGATGHSQGLVTAVAIAETDSWESFFVSVRKAIT- 301
Query: 408 GRICCNKYLVKNCGKDQFHIRMRLH--------PFHVIRINK---------MLSCAGADR 450
L F I +R + P ++ + MLS + +
Sbjct: 302 -------VL--------FFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSISNLTQ 346
Query: 451 FELDGCNVKYRAEHGP 466
++ V H P
Sbjct: 347 EQVQ-DYVNKTNSHLP 361
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis,
programmed cell death; HET: DTP; 6.90A {Drosophila
melanogaster} PDB: 3iz8_A*
Length = 1221
Score = 54.9 bits (131), Expect = 4e-08
Identities = 77/502 (15%), Positives = 130/502 (25%), Gaps = 160/502 (31%)
Query: 8 PQGTVARVNIGQPIMSVRSS-DKFKPA----------------VIEALRRAKF--KFPGR 48
+ V+R+ QP + +R + + +PA ++ K K
Sbjct: 127 AKYNVSRL---QPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDF- 182
Query: 49 QKIYVSKKW-GFTKYDREEYETLRDQNSY-----------------------------RY 78
KI+ W + E Q R
Sbjct: 183 -KIF----WLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRL 237
Query: 79 CKNKPYPKSRFC----RGVPDPK-IRIFDLGKK------KAKVEDF---PLCVHLVSDEY 124
K+KPY C V + K F+L K +V DF H+ D +
Sbjct: 238 LKSKPYEN---CLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHH 294
Query: 125 EQ--LSSEALEAGRICCNKYLVKNCGKDQFHIRM-RLHPFHVIRINKMLSCAGADRLQTG 181
E KYL +C + +P + I + + G
Sbjct: 295 SMTLTPDEVKSL----LLKYL--DCRPQDLPREVLTTNPRRLSIIAESIR-DGLATWD-- 345
Query: 182 MRGAYGKPQGTVARVNIGQPIMSVRSS-DKFKPAVIEALRRAKFKFPGRQKI---YVSKK 237
VN + + SS + +PA + FP I +S
Sbjct: 346 ----------NWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLI 395
Query: 238 WGFTKYDREEYET---------LRDQNRI---LHDAHFD-----------HWIIRLQTGM 274
W + + + + H I +
Sbjct: 396 WFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNI 455
Query: 275 RGAYGKPQGTVARVN------IGQPIMSVRSSDKFKPAVIEALRRA--KFKFPGRQKI-Y 325
+ ++ IG + ++ ++ R F+F QKI +
Sbjct: 456 PKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERM-----TLFRMVFLDFRFL-EQKIRH 509
Query: 326 VSKKWGFTKYDREEYETLRDQNSYRYCKNKPYPKSRFCRGVPDPKIRIFDLGKKKAKVED 385
S W + TL+ Y KPY C P + + + D
Sbjct: 510 DSTAWNASGS---ILNTLQQLKFY-----KPY----ICDNDPKYERLVNAI-------LD 550
Query: 386 F-PLC-VHLVSDEYEQLSSEAL 405
F P +L+ +Y L AL
Sbjct: 551 FLPKIEENLICSKYTDLLRIAL 572
Score = 45.6 bits (107), Expect = 4e-05
Identities = 71/523 (13%), Positives = 134/523 (25%), Gaps = 161/523 (30%)
Query: 19 QPIMSVRSSDKF--KPAVIEALRR-------------AKFKFPGRQKIYVSKKWGFTKYD 63
+ I+S D + R KF + Y K+ +
Sbjct: 43 KSILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINY---KFLMSPIK 99
Query: 64 REEYETLRDQNSYRYCKNK------PYPKSRFCRGVPDPKIRIFDLGKKKAKVEDFPLCV 117
E+ + Y +++ + K R P K+R + + + +
Sbjct: 100 TEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQ---ALLELRPAKN-VLI 155
Query: 118 H---------LVSDEYEQLSSEALEAGRICCNKYL-VKNCGKDQFHIRMRLHPFHVIRIN 167
+ D + +I +L +KNC + + M + I N
Sbjct: 156 DGVLGSGKTWVALDVCLSYKVQCKMDFKI---FWLNLKNCNSPETVLEMLQKLLYQIDPN 212
Query: 168 KMLSCAGADR----------LQTGMRGAYGKPQ--------------GTVARVNIGQPIM 203
+ +D +Q +R N+ I+
Sbjct: 213 ---WTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKIL 269
Query: 204 SVRSSDKFKPAVIEALRRAKFKFPGRQKIYVSKKWGFTKYDREE---------YETLRDQ 254
+ + K V + L A T + + + L +
Sbjct: 270 -LTTRFK---QVTDFLSAATTT----HISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPRE 321
Query: 255 ------------NRILHD--AHFDHWIIRLQTGMRGAYGKPQGTVARVNIGQPIMSVRSS 300
+ D A +D+W VN + + SS
Sbjct: 322 VLTTNPRRLSIIAESIRDGLATWDNW-------------------KHVNCDKLTTIIESS 362
Query: 301 -DKFKPAVIEALRRAKFKFPGRQKI---YVSKKWGFTKYDREEYETLRDQNSYRYCKNKP 356
+ +PA + FP I +S W D + + + N
Sbjct: 363 LNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWF----DVIKSDVMVVVNK---LHK-- 413
Query: 357 YPKSRFCRGVPDPKIRIFDLG-KKKAKVEDFPLCVH--LVSDEYEQLSSEALEAGRICCN 413
S + + I I + + K K+E+ +H +V D Y + +
Sbjct: 414 --YSLVEKQPKESTISIPSIYLELKVKLENEY-ALHRSIV-DHYNIP--------KTFDS 461
Query: 414 KYLVKNCGKDQ---FHIRMRLHPFHVIRINKMLSCAGADRFEL 453
L+ DQ HI H+ I +R L
Sbjct: 462 DDLIPPY-LDQYFYSHI-----GHHLKNIEH------PERMTL 492
Score = 39.5 bits (91), Expect = 0.003
Identities = 35/247 (14%), Positives = 67/247 (27%), Gaps = 70/247 (28%)
Query: 240 FTKYDREEYETLRDQNRILHDAHFDHWIIRLQTGMRGAY-------GKPQGTVARVNIGQ 292
F + + + IL DH II + + G K + V +
Sbjct: 29 FVD-NFDCKDVQDMPKSILSKEEIDH-IIMSKDAVSGTLRLFWTLLSKQEEMVQK----- 81
Query: 293 PIMSVRSSDKFKPAVIEALRRAKFKFPGRQKIYVSKKWGFTKYDREEYETLRDQNSYRYC 352
V E L + Y K+ + E+ + Y
Sbjct: 82 -------------FVEEVL----------RINY---KFLMSPIKTEQRQPSMMTRMYIEQ 115
Query: 353 KNK------PYPKSRFCRGVPDPKIRIFDLGKKKAKVEDFPLCVH---------LVSDEY 397
+++ + K R P K+R + + + + + D
Sbjct: 116 RDRLYNDNQVFAKYNVSRLQPYLKLRQ---ALLELRPAKN-VLIDGVLGSGKTWVALDVC 171
Query: 398 EQLSSEALEAGRICCNKYL-VKNCGKDQFHIRMRLHPFHVIRINKMLSCAGADRFELDGC 456
+ +I +L +KNC + + M + I N + +D
Sbjct: 172 LSYKVQCKMDFKI---FWLNLKNCNSPETVLEMLQKLLYQIDPN---WTSRSDH----SS 221
Query: 457 NVKYRAE 463
N+K R
Sbjct: 222 NIKLRIH 228
>2zjr_J 50S ribosomal protein L16; ribosome, large ribosomal subunit,
ribonucleoprotein, RNA-binding, rRNA-binding,
tRNA-binding, methylation; 2.91A {Deinococcus
radiodurans} SCOP: d.41.4.2 PDB: 1sm1_K* 2zjp_J* 2zjq_J
1nkw_K 3cf5_J* 3dll_J* 3pio_J* 1njm_K* 1nwx_K* 1njp_K*
1xbp_K* 1y69_K 1nwy_K* 3pip_J* 1pnu_K 1pny_K 1vor_N
1vou_N 1vow_N 1voy_N ...
Length = 142
Score = 50.4 bits (120), Expect = 8e-08
Identities = 24/114 (21%), Positives = 44/114 (38%), Gaps = 16/114 (14%)
Query: 119 LVSDEYEQLSSEALEAGRICCNKYLVKNCGKDQFHIRMRLHPFHVIRINKMLSCAGADRL 178
L++ E + S +EA RI +++ + I +R+ P +
Sbjct: 35 LIAMEPAWIKSNQIEACRIVMSRHFRRGG-----KIYIRIFPDKPVTKKPA--------- 80
Query: 179 QTGMRGAYGKPQGTVARVNIGQPIMSVRSSDKFKPAVIEALRRAKFKFPGRQKI 232
+T M G + V+ V G+ + V + + EA R A K P + K+
Sbjct: 81 ETRMGKGKGAVEYWVSVVKPGRVMFEVAGVTEEQ--AKEAFRLAGHKLPIQTKM 132
Score = 41.5 bits (97), Expect = 1e-04
Identities = 14/59 (23%), Positives = 23/59 (38%), Gaps = 2/59 (3%)
Query: 266 WIIRLQTGMRGAYGKPQGTVARVNIGQPIMSVRSSDKFKPAVIEALRRAKFKFPGRQKI 324
+T M G + V+ V G+ + V + + EA R A K P + K+
Sbjct: 76 TKKPAETRMGKGKGAVEYWVSVVKPGRVMFEVAGVTEEQ--AKEAFRLAGHKLPIQTKM 132
Score = 38.8 bits (90), Expect = 0.001
Identities = 13/51 (25%), Positives = 21/51 (41%), Gaps = 2/51 (3%)
Query: 1 MRGAYGKPQGTVARVNIGQPIMSVRSSDKFKPAVIEALRRAKFKFPGRQKI 51
M G + V+ V G+ + V + + EA R A K P + K+
Sbjct: 84 MGKGKGAVEYWVSVVKPGRVMFEVAGVTEEQ--AKEAFRLAGHKLPIQTKM 132
>2ftc_I Mitochondrial ribosomal protein L16, 39S ribosomal protein L13,
mitochondrial; mitochondrial ribosome, large ribosomal
subunit, ribosomal R ribosome; 12.10A {Bos taurus} PDB:
3iy9_I
Length = 118
Score = 45.8 bits (108), Expect = 2e-06
Identities = 21/113 (18%), Positives = 36/113 (31%), Gaps = 13/113 (11%)
Query: 119 LVSDEYEQLSSEALEAGRICCNKYLVKNCGKDQFHIRMRLHPFHVIRINKMLSCAGADRL 178
+++ L E R+ N+ + K+ F I PF I +
Sbjct: 19 ILALGGGYLHWGHFEMMRLTINRSM---DPKNMFAIWRVPAPFKPITRKSV--------- 66
Query: 179 QTGMRGAYGKPQGTVARVNIGQPIMSVRSSDKFKPAVIEALRRAKFKFPGRQK 231
M G G V V G+ ++ + +F+ L + K P K
Sbjct: 67 GHRMGGGKGAIDHYVTPVKAGRLVVEMGGRCEFEEV-QGFLDQVAHKLPFAAK 118
Score = 36.9 bits (85), Expect = 0.003
Identities = 11/58 (18%), Positives = 19/58 (32%), Gaps = 1/58 (1%)
Query: 266 WIIRLQTGMRGAYGKPQGTVARVNIGQPIMSVRSSDKFKPAVIEALRRAKFKFPGRQK 323
+ M G G V V G+ ++ + +F+ L + K P K
Sbjct: 62 TRKSVGHRMGGGKGAIDHYVTPVKAGRLVVEMGGRCEFEEV-QGFLDQVAHKLPFAAK 118
Score = 35.0 bits (80), Expect = 0.012
Identities = 11/50 (22%), Positives = 18/50 (36%), Gaps = 1/50 (2%)
Query: 1 MRGAYGKPQGTVARVNIGQPIMSVRSSDKFKPAVIEALRRAKFKFPGRQK 50
M G G V V G+ ++ + +F+ L + K P K
Sbjct: 70 MGGGKGAIDHYVTPVKAGRLVVEMGGRCEFEEV-QGFLDQVAHKLPFAAK 118
>3r8s_M 50S ribosomal protein L16; protein biosynthesis, RNA, tRNA,
transfer RNA, 23S ribosomal subunit, ribosome recycling
factor, RRF, ribosome; 3.00A {Escherichia coli} PDB:
1p85_K 1p86_K 1vs8_M 1vs6_M 2aw4_M 2awb_M 1vt2_M 2i2v_M
2j28_M 2i2t_M* 2qao_M* 2qba_M* 2qbc_M* 2qbe_M 2qbg_M
2qbi_M* 2qbk_M* 2qov_M 2qox_M 2qoz_M* ...
Length = 136
Score = 43.4 bits (102), Expect = 2e-05
Identities = 21/114 (18%), Positives = 39/114 (34%), Gaps = 16/114 (14%)
Query: 119 LVSDEYEQLSSEALEAGRICCNKYLVKNCGKDQFHIRMRLHPFHVIRINKMLSCAGADRL 178
L + +L++ +EA R + + K Q I +R+ P I +
Sbjct: 33 LKAVGRGRLTARQIEAARRAMTRAV-----KRQGKIWIRVFPDKPITEKPL--------- 78
Query: 179 QTGMRGAYGKPQGTVARVNIGQPIMSVRSSDKFKPAVIEALRRAKFKFPGRQKI 232
M G + VA + G+ + + + EA + A K P +
Sbjct: 79 AVRMGKGKGNVEYWVALIQPGKVLYEMDGVPEE--LAREAFKLAAAKLPIKTTF 130
Score = 38.4 bits (89), Expect = 0.001
Identities = 11/59 (18%), Positives = 19/59 (32%), Gaps = 2/59 (3%)
Query: 266 WIIRLQTGMRGAYGKPQGTVARVNIGQPIMSVRSSDKFKPAVIEALRRAKFKFPGRQKI 324
L M G + VA + G+ + + + EA + A K P +
Sbjct: 74 TEKPLAVRMGKGKGNVEYWVALIQPGKVLYEMDGVPEE--LAREAFKLAAAKLPIKTTF 130
Score = 35.7 bits (82), Expect = 0.009
Identities = 10/51 (19%), Positives = 18/51 (35%), Gaps = 2/51 (3%)
Query: 1 MRGAYGKPQGTVARVNIGQPIMSVRSSDKFKPAVIEALRRAKFKFPGRQKI 51
M G + VA + G+ + + + EA + A K P +
Sbjct: 82 MGKGKGNVEYWVALIQPGKVLYEMDGVPEE--LAREAFKLAAAKLPIKTTF 130
>3bbo_O Ribosomal protein L16; large ribosomal subunit, spinach chloroplast
ribosome, ribonucleoprotein particle, macromolecular
complex; 9.40A {Spinacea oleracea} SCOP: i.1.1.2
Length = 135
Score = 41.1 bits (96), Expect = 1e-04
Identities = 24/114 (21%), Positives = 42/114 (36%), Gaps = 16/114 (14%)
Query: 119 LVSDEYEQLSSEALEAGRICCNKYLVKNCGKDQFHIRMRLHPFHVIRINKMLSCAGADRL 178
L + E ++S +EAGR + + I +R+ P + +
Sbjct: 34 LQALEPAWITSRQIEAGRRAMTRNA-----RRGGKIWVRIFPDKPVTVRPA--------- 79
Query: 179 QTGMRGAYGKPQGTVARVNIGQPIMSVRSSDKFKPAVIEALRRAKFKFPGRQKI 232
+T M G P+ VA V G+ + + S + A+ A K P R +
Sbjct: 80 ETRMGSGKGSPEYWVAVVKPGRILYEI--SGVAENIARRAVAIAASKMPIRTQF 131
Score = 36.9 bits (85), Expect = 0.004
Identities = 14/59 (23%), Positives = 23/59 (38%), Gaps = 2/59 (3%)
Query: 266 WIIRLQTGMRGAYGKPQGTVARVNIGQPIMSVRSSDKFKPAVIEALRRAKFKFPGRQKI 324
+ +T M G P+ VA V G+ + + S + A+ A K P R +
Sbjct: 75 TVRPAETRMGSGKGSPEYWVAVVKPGRILYEI--SGVAENIARRAVAIAASKMPIRTQF 131
Score = 33.0 bits (75), Expect = 0.061
Identities = 13/51 (25%), Positives = 20/51 (39%), Gaps = 2/51 (3%)
Query: 1 MRGAYGKPQGTVARVNIGQPIMSVRSSDKFKPAVIEALRRAKFKFPGRQKI 51
M G P+ VA V G+ + + S + A+ A K P R +
Sbjct: 83 MGSGKGSPEYWVAVVKPGRILYEI--SGVAENIARRAVAIAASKMPIRTQF 131
>1uvq_A HLA class II histocompatibility antigen; immunology, MHC class II,
diabetes, narcolepsy, autoimmune disease, structural
proteomics in europe, spine, structural genomics; HET:
NAG FUC BMA; 1.8A {Homo sapiens} SCOP: b.1.1.2 d.19.1.1
PDB: 3pl6_A* 4d8p_A 1s9v_A 2nna_A 1jk8_A*
Length = 197
Score = 29.0 bits (65), Expect = 2.2
Identities = 15/84 (17%), Positives = 29/84 (34%), Gaps = 5/84 (5%)
Query: 229 RQKIYVSKKWGFTKYDREEYETLRDQNRILHDAHFDHWIIRLQTGMRGAYGKPQGTVAR- 287
+K + F+K+ + + + H + +I+ P+ TV
Sbjct: 40 ERKETAWRWPEFSKFGGFDPQGALRNMAVAK--HNLNIMIKRYNSTAATNEVPEVTVFSK 97
Query: 288 --VNIGQPIMSVRSSDKFKPAVIE 309
V +GQP + D P V+
Sbjct: 98 SPVTLGQPNTLICLVDNIFPPVVN 121
>2grx_C Protein TONB; beta barrel, outer membrane, heterocomplex,
inter-protein beta sheet, protein-protein, metal
transport; HET: GCN KDO GMH FTT DAO MYR FCI; 3.30A
{Escherichia coli} SCOP: d.212.1.2 PDB: 1xx3_A
Length = 229
Score = 28.5 bits (63), Expect = 4.1
Identities = 13/55 (23%), Positives = 22/55 (40%), Gaps = 9/55 (16%)
Query: 8 PQGTVARVNIGQPIMSVRSSDK--FKPAVIEALRRAKFKFPGRQKIYVSKKWGFT 60
P G V V I + + F+ V A+RR +++ PG+ + F
Sbjct: 174 PDGRVDNVQI------LSAKPANMFEREVKNAMRRWRYE-PGKPGSGIVVNILFK 221
Score = 28.5 bits (63), Expect = 4.1
Identities = 13/55 (23%), Positives = 22/55 (40%), Gaps = 9/55 (16%)
Query: 189 PQGTVARVNIGQPIMSVRSSDK--FKPAVIEALRRAKFKFPGRQKIYVSKKWGFT 241
P G V V I + + F+ V A+RR +++ PG+ + F
Sbjct: 174 PDGRVDNVQI------LSAKPANMFEREVKNAMRRWRYE-PGKPGSGIVVNILFK 221
Score = 28.5 bits (63), Expect = 4.1
Identities = 13/55 (23%), Positives = 22/55 (40%), Gaps = 9/55 (16%)
Query: 281 PQGTVARVNIGQPIMSVRSSDK--FKPAVIEALRRAKFKFPGRQKIYVSKKWGFT 333
P G V V I + + F+ V A+RR +++ PG+ + F
Sbjct: 174 PDGRVDNVQI------LSAKPANMFEREVKNAMRRWRYE-PGKPGSGIVVNILFK 221
>1hvx_A Alpha-amylase; hydrolase, glycosyltransferase, thermostability;
2.00A {Geobacillus stearothermophilus} SCOP: b.71.1.1
c.1.8.1
Length = 515
Score = 29.0 bits (65), Expect = 4.4
Identities = 17/54 (31%), Positives = 26/54 (48%), Gaps = 2/54 (3%)
Query: 206 RSSDKFKPAVIEALRRAKFKFPGRQKIYVSKKWGFTKYDREEYETLRDQNRILH 259
R+ + I+A KF FPGR Y S KW + +D +++ R +RI
Sbjct: 126 RNQEISGTYQIQAWT--KFDFPGRGNTYSSFKWRWYHFDGVDWDESRKLSRIYK 177
Score = 28.6 bits (64), Expect = 5.0
Identities = 31/136 (22%), Positives = 46/136 (33%), Gaps = 36/136 (26%)
Query: 230 QKIYVSKKWGFTKYDREEYETLRDQNRILHDAHFDHWIIRLQTGMR-----------GAY 278
QK V K+G + +Y + AH GM+ GA
Sbjct: 70 QKGAVRTKYG----TKAQYLQA------IQAAH--------AAGMQVYADVVFDHKGGAD 111
Query: 279 GKPQGTVARVNIGQPIMSVRSSDKFKPAVIEALRRAKFKFPGRQKIYVSKKWGFTKYDRE 338
G VN S R+ + I+A KF FPGR Y S KW + +D
Sbjct: 112 GTEWVDAVEVN-----PSDRNQEISGTYQIQAWT--KFDFPGRGNTYSSFKWRWYHFDGV 164
Query: 339 EYETLRDQNSYRYCKN 354
+++ R + +
Sbjct: 165 DWDESRKLSRIYKFRG 180
>1u07_A TONB protein; beta-hairpin, protein transport; 1.13A {Escherichia
coli} SCOP: d.212.1.2 PDB: 2gsk_B* 1ihr_A 1qxx_A
Length = 90
Score = 26.9 bits (60), Expect = 4.4
Identities = 12/44 (27%), Positives = 20/44 (45%), Gaps = 9/44 (20%)
Query: 8 PQGTVARVNIGQPIMSVRSSDK--FKPAVIEALRRAKFKFPGRQ 49
P G V V I + + F+ V A+RR +++ PG+
Sbjct: 35 PDGRVDNVQI------LSAKPANMFEREVKNAMRRWRYE-PGKP 71
Score = 26.9 bits (60), Expect = 4.4
Identities = 12/44 (27%), Positives = 20/44 (45%), Gaps = 9/44 (20%)
Query: 189 PQGTVARVNIGQPIMSVRSSDK--FKPAVIEALRRAKFKFPGRQ 230
P G V V I + + F+ V A+RR +++ PG+
Sbjct: 35 PDGRVDNVQI------LSAKPANMFEREVKNAMRRWRYE-PGKP 71
Score = 26.9 bits (60), Expect = 4.4
Identities = 12/44 (27%), Positives = 20/44 (45%), Gaps = 9/44 (20%)
Query: 281 PQGTVARVNIGQPIMSVRSSDK--FKPAVIEALRRAKFKFPGRQ 322
P G V V I + + F+ V A+RR +++ PG+
Sbjct: 35 PDGRVDNVQI------LSAKPANMFEREVKNAMRRWRYE-PGKP 71
>1xfd_A DIP, dipeptidyl aminopeptidase-like protein 6, dipeptidylpeptidase
6; DPPX, DPP6, KV4, KV, KAF, membrane protein; HET: NDG
NAG BMA MAN; 3.00A {Homo sapiens} SCOP: b.70.3.1
c.69.1.24
Length = 723
Score = 28.6 bits (64), Expect = 5.0
Identities = 12/77 (15%), Positives = 23/77 (29%), Gaps = 10/77 (12%)
Query: 54 SKKWGFTKYDREEYETLR----DQNSYRYCKNKPYPKSRFCRGVPDPKIR--IFDLGKKK 107
+ + + + + Y K YPK+ G +P I + L
Sbjct: 184 GTRLAYAAINDSRVPIMELPTYTGSIYPTVKPYHYPKA----GSENPSISLHVIGLNGPT 239
Query: 108 AKVEDFPLCVHLVSDEY 124
+E P + + Y
Sbjct: 240 HDLEMMPPDDPRMREYY 256
Score = 28.6 bits (64), Expect = 5.0
Identities = 12/77 (15%), Positives = 23/77 (29%), Gaps = 10/77 (12%)
Query: 327 SKKWGFTKYDREEYETLR----DQNSYRYCKNKPYPKSRFCRGVPDPKIR--IFDLGKKK 380
+ + + + + Y K YPK+ G +P I + L
Sbjct: 184 GTRLAYAAINDSRVPIMELPTYTGSIYPTVKPYHYPKA----GSENPSISLHVIGLNGPT 239
Query: 381 AKVEDFPLCVHLVSDEY 397
+E P + + Y
Sbjct: 240 HDLEMMPPDDPRMREYY 256
>3ldu_A Putative methylase; structural genomics, PSI-2, protein structure
initiative, midwest center for structural genomics,
MCSG; HET: MSE GTP; 1.70A {Clostridium difficile}
Length = 385
Score = 28.0 bits (63), Expect = 6.5
Identities = 12/54 (22%), Positives = 21/54 (38%), Gaps = 2/54 (3%)
Query: 215 VIEALRRAKFKFPGRQKIYVSKKWGFTKYDREEYETLRDQNRILHDAHFDHWII 268
+IEA PG + ++S+KW D++ + +R D I
Sbjct: 210 LIEAAMIGINMAPGLNREFISEKWRT--LDKKIWWDVRKDAFNKIDNESKFKIY 261
>3k0b_A Predicted N6-adenine-specific DNA methylase; methylase,PF01170,
putative RNA methylase, PSI,MCSG, structu genomics;
1.50A {Listeria monocytogenes str}
Length = 393
Score = 28.0 bits (63), Expect = 6.7
Identities = 12/54 (22%), Positives = 22/54 (40%), Gaps = 2/54 (3%)
Query: 215 VIEALRRAKFKFPGRQKIYVSKKWGFTKYDREEYETLRDQNRILHDAHFDHWII 268
IEA + PG + +VS+ W + ++ + R + L + II
Sbjct: 216 PIEAALIGQNIAPGFNREFVSETWDW--MPKQVWADARQEAEDLANYDQPLNII 267
>3ldg_A Putative uncharacterized protein SMU.472; YPSC, methyltransferase,
transferase; HET: SAH; 1.96A {Streptococcus mutans}
Length = 384
Score = 28.0 bits (63), Expect = 7.2
Identities = 10/54 (18%), Positives = 18/54 (33%), Gaps = 2/54 (3%)
Query: 215 VIEALRRAKFKFPGRQKIYVSKKWGFTKYDREEYETLRDQNRILHDAHFDHWII 268
IEA PG + + ++W + D +R++ D I
Sbjct: 209 CIEAAMIGMNIAPGFNRDFAFEEWPW--VDEALVTRVRNEADEQADYDIQLDIS 260
Database: pdb70
Posted date: Sep 4, 2012 3:40 AM
Number of letters in database: 6,701,793
Number of sequences in database: 27,921
Lambda K H
0.323 0.139 0.432
Gapped
Lambda K H
0.267 0.0526 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 7,758,031
Number of extensions: 490185
Number of successful extensions: 955
Number of sequences better than 10.0: 1
Number of HSP's gapped: 931
Number of HSP's successfully gapped: 74
Length of query: 480
Length of database: 6,701,793
Length adjustment: 97
Effective length of query: 383
Effective length of database: 3,993,456
Effective search space: 1529493648
Effective search space used: 1529493648
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 59 (27.0 bits)