RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy6080
(240 letters)
>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 = 115 bits (288), Expect = 6e-33
Identities = 55/116 (47%), Positives = 79/116 (68%)
Query: 68 LRGPEEIHNYLIHKQYGLVALSGGRMNYRHFETIRFAMMRKLDVKKMFAVWRVDPPWLPV 127
+RGP + ++AL GG +++ HFE +R + R +D K MFA+WRV P+ P+
Sbjct: 2 IRGPSTEATEFTEGNFAILALGGGYLHWGHFEMMRLTINRSMDPKNMFAIWRVPAPFKPI 61
Query: 128 TKKGLGSRMGGGKGSIDHYVTPVKTGRIIIEVGGKCSYEEVLPYLRSCASKMPFKC 183
T+K +G RMGGGKG+IDHYVTPVK GR+++E+GG+C +EEV +L A K+PF
Sbjct: 62 TRKSVGHRMGGGKGAIDHYVTPVKAGRLVVEMGGRCEFEEVQGFLDQVAHKLPFAA 117
>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 = 89.3 bits (221), Expect = 1e-22
Identities = 35/128 (27%), Positives = 58/128 (45%), Gaps = 3/128 (2%)
Query: 68 LRGPEEIHNYLIHKQYGLVALSGGRMNYRHFETIRFAMMRKLDVKKMFAVWRVDPPWLPV 127
+ G + +Y+ YGL+A+ + E R M R + P PV
Sbjct: 18 MTGDAKGGDYVAFGDYGLIAMEPAWIKSNQIEACRIVMSRHFRRGGKI--YIRIFPDKPV 75
Query: 128 TKKGLGSRMGGGKGSIDHYVTPVKTGRIIIEVGGKCSYEEVLPYLRSCASKMPFKCMPCN 187
TKK +RMG GKG+++++V+ VK GR++ EV G E+ R K+P +
Sbjct: 76 TKKPAETRMGKGKGAVEYWVSVVKPGRVMFEVAGVT-EEQAKEAFRLAGHKLPIQTKMVK 134
Query: 188 EDILREMK 195
++ E +
Sbjct: 135 REVYDEAQ 142
>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 = 88.9 bits (220), Expect = 1e-22
Identities = 37/116 (31%), Positives = 54/116 (46%), Gaps = 3/116 (2%)
Query: 68 LRGPEEIHNYLIHKQYGLVALSGGRMNYRHFETIRFAMMRKLDVKKMFAVWRVDPPWLPV 127
++G N + +Y L AL + R E R AM R ++ +W P PV
Sbjct: 17 MKGISYRGNRICFGRYALQALEPAWITSRQIEAGRRAMTRNA--RRGGKIWVRIFPDKPV 74
Query: 128 TKKGLGSRMGGGKGSIDHYVTPVKTGRIIIEVGGKCSYEEVLPYLRSCASKMPFKC 183
T + +RMG GKGS +++V VK GRI+ E+ G + ASKMP +
Sbjct: 75 TVRPAETRMGSGKGSPEYWVAVVKPGRILYEISGVA-ENIARRAVAIAASKMPIRT 129
>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 = 83.5 bits (206), Expect = 1e-20
Identities = 33/108 (30%), Positives = 56/108 (51%), Gaps = 3/108 (2%)
Query: 76 NYLIHKQYGLVALSGGRMNYRHFETIRFAMMRKLDVKKMFAVWRVDPPWLPVTKKGLGSR 135
+ +GL A+ GR+ R E R AM R + K+ +W P P+T+K L R
Sbjct: 24 TDVSFGSFGLKAVGRGRLTARQIEAARRAMTRAV--KRQGKIWIRVFPDKPITEKPLAVR 81
Query: 136 MGGGKGSIDHYVTPVKTGRIIIEVGGKCSYEEVLPYLRSCASKMPFKC 183
MG GKG+++++V ++ G+++ E+ G E + A+K+P K
Sbjct: 82 MGKGKGNVEYWVALIQPGKVLYEMDGVP-EELAREAFKLAAAKLPIKT 128
>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 = 52.0 bits (124), Expect = 9e-09
Identities = 21/115 (18%), Positives = 39/115 (33%), Gaps = 13/115 (11%)
Query: 82 QYGLVALSGGRMNYRHFETIRFAMMRKLDV---KKMFAVWRVDPPWLPVTKK-------- 130
+V+ +++ E R + + K F + P+ +
Sbjct: 18 CGHMVSDEYEQLSSEALEAARICANKYMVKSCGKDGFHIRVRLHPFHVIRINKMLSCAGA 77
Query: 131 -GLGSRMGGGKGSIDHYVTPVKTGRIIIEVGGK-CSYEEVLPYLRSCASKMPFKC 183
L + M G G V V G++I+ + K + E V+ LR K P +
Sbjct: 78 DRLQTGMRGAFGKPQGTVARVHIGQVIMSIRTKLQNKEHVIEALRRAKFKFPGRQ 132
>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 = 44.3 bits (104), Expect = 6e-06
Identities = 12/70 (17%), Positives = 18/70 (25%), Gaps = 1/70 (1%)
Query: 115 FAVWRVDPPWLPVTKKGLGSRMGGGKGSIDHYVTPVKTGRIIIEVGGK-CSYEEVLPYLR 173
V R + + M G I V+ G + E V R
Sbjct: 92 HQVLRENKQATGAGADRVSDGMRAAFGKIVGTAARVQAGEQLFTAYCNVEDAEHVKEAFR 151
Query: 174 SCASKMPFKC 183
+K+ C
Sbjct: 152 RAYNKITPSC 161
>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 = 43.5 bits (102), Expect = 1e-05
Identities = 21/115 (18%), Positives = 36/115 (31%), Gaps = 13/115 (11%)
Query: 82 QYGLVALSGGRMNYRHFETIRFAMMRKLDV---KKMFAVWRVDPPWLPVTKK-------- 130
LV+ +++ E R + + + F + P+ +
Sbjct: 47 CVHLVSNELEQLSSEALEAARICANKYMTTVSGRDAFHLRVRVHPFHVLRINKMLSCAGA 106
Query: 131 -GLGSRMGGGKGSIDHYVTPVKTGRIIIEVGGK-CSYEEVLPYLRSCASKMPFKC 183
L M G G V G+II V K + + V+ LR K P +
Sbjct: 107 DRLQQGMRGAWGKPHGLAARVDIGQIIFSVRTKDSNKDVVVEGLRRARYKFPGQQ 161
>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 = 44.5 bits (104), Expect = 2e-05
Identities = 41/255 (16%), Positives = 71/255 (27%), Gaps = 73/255 (28%)
Query: 23 LKNIKKPPNYDHIV-MP---ERPRLKFVDKVPTFIYNHKTPRTTKRL--DLLRGPEEIHN 76
K+I DHI+ F + K ++ ++LR N
Sbjct: 42 PKSILSKEEIDHIIMSKDAVSGTLRLF------WTLLSKQEEMVQKFVEEVLR-----IN 90
Query: 77 Y-----LIHKQYGLVALSGGRMNYRHFETIRFAMMRKLDVKKMFAVWRVDPPWLPVTKKG 131
Y I + M R + R + V + V R+ P ++
Sbjct: 91 YKFLMSPIKTEQ-----RQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYL--KLRQA 143
Query: 132 L------------GSRMGG-GKGSI------DHYVTPVKTGRII-IEVGGKCSYEEVLPY 171
L G + G GK + + V +I + + S E VL
Sbjct: 144 LLELRPAKNVLIDG--VLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEM 201
Query: 172 LRS-CASKMPFKCMPCN------------EDILRE-MKEKEEREA---RDNI-NPYTFEY 213
L+ P + + LR +K K N+ N +
Sbjct: 202 LQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNA 261
Query: 214 MIKNNIGNCRQWIST 228
N+ C+ ++T
Sbjct: 262 F---NLS-CKILLTT 272
Score = 30.6 bits (68), Expect = 0.53
Identities = 34/234 (14%), Positives = 58/234 (24%), Gaps = 77/234 (32%)
Query: 58 TPRTTKRLDLLRGPEEIHNYLIHKQYGLVALSGGRMNYRHFETIRFAMMRKLDVKKMFAV 117
T R + D L H L H L E K +
Sbjct: 271 TTRFKQVTDFLSAATTTHISLDHHSMTLT----------PDEV-----------KSLLLK 309
Query: 118 W-RVDPPWLP-VTKKG-------LGSRMGGGKGSIDHY--VTPVKTGRIIIEVGGKCSYE 166
+ P LP + + G + D++ V K II + S
Sbjct: 310 YLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTII-----ESSLN 364
Query: 167 -----EVLPYLRSCA-----SKMPFKCMP---------CNEDILREMK-----EKEEREA 202
E + + +P + ++ ++ EK+ +E+
Sbjct: 365 VLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKES 424
Query: 203 RDNINPYTFEYMIKN--------------NIGNCRQWISTHVDY--KYFGKYFG 240
+I E +K NI Y +YF + G
Sbjct: 425 TISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIG 478
>2zkr_h 60S ribosomal protein L10; protein-RNA complex, 60S ribosomal
subunit, ribosomal protein/RNA complex; 8.70A {Canis
familiaris}
Length = 214
Score = 43.2 bits (101), Expect = 2e-05
Identities = 29/164 (17%), Positives = 50/164 (30%), Gaps = 18/164 (10%)
Query: 37 MPERP----RLKFVDKVPTFIYNHKTPRTTKRLDLLRGPEEIHNYLIHKQYGLVALSGGR 92
M RP R P + P K G ++ +V+ +
Sbjct: 1 MGRRPARCYRYCKNKPYPKSRFCRGVPDA-KIRIFDLGRKKAKVDEFPLCGHMVSDEYEQ 59
Query: 93 MNYRHFETIRFAMMRKLDV---KKMFAVWRVDPPWLPVTKK---------GLGSRMGGGK 140
++ E R + + K F + P+ + L + M G
Sbjct: 60 LSSEALEAARICANKYMVKSCGKDGFHIRVRLHPFHVIRINKMLSCAGADRLQTGMRGAF 119
Query: 141 GSIDHYVTPVKTGRIIIEVGGK-CSYEEVLPYLRSCASKMPFKC 183
G V V G++I+ + K + E V+ LR K P +
Sbjct: 120 GKPQGTVAKVHIGQVIMSIRTKLQNKEHVIEALRRAKFKFPGRQ 163
>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 = 42.8 bits (100), Expect = 4e-05
Identities = 29/164 (17%), Positives = 47/164 (28%), Gaps = 18/164 (10%)
Query: 37 MPERP----RLKFVDKVPTFIYNHKTPRTTKRLDLLRGPEEIHNYLIHKQYGLVALSGGR 92
M RP R P Y P K G ++ LV+
Sbjct: 1 MGRRPARCYRQIKNKPYPKSRYCRGVPDP-KIRIYDVGMKKKGVDEFPYCVHLVSWEKEN 59
Query: 93 MNYRHFETIRFAMMRKLDV---KKMFAVWRVDPPWLPVTKK---------GLGSRMGGGK 140
++ E R A + + K F + P+ + L + M G
Sbjct: 60 VSSEALEAARIACNKYMTKNAGKDAFHLRVRVHPFHVLRINKMLSCAGADRLQTGMRGAF 119
Query: 141 GSIDHYVTPVKTGRIIIEVGGK-CSYEEVLPYLRSCASKMPFKC 183
G V G++++ V K + + LR K P +
Sbjct: 120 GKPQGTCARVDIGQVLLSVRCKESNAKHAEEALRRAKFKFPGRQ 163
>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 = 41.9 bits (98), Expect = 4e-05
Identities = 13/105 (12%), Positives = 23/105 (21%), Gaps = 5/105 (4%)
Query: 82 QYGLVALSGGRMNYRHFETIRFAMMRKLDV---KKMFAVWRVDPPWLPVTKKGLGSRMGG 138
Q V ++ + E R A R + + P+ + ++ G M
Sbjct: 45 QVENVVEKPVQIRHNALEAARNAANRFVQNSGAAANYKFRIRKFPFHVIREQ-DGDGMRA 103
Query: 139 GKGSIDHYVTPVKTGRIIIEVGGKCSYEEVLPYLRSCASKMPFKC 183
G V R K+
Sbjct: 104 PFGKSVGTAARSHGANHDFIAWVN-PDPAVEFAWRRAYMKVTPTV 147
>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 = 41.2 bits (96), Expect = 9e-05
Identities = 15/70 (21%), Positives = 23/70 (32%), Gaps = 1/70 (1%)
Query: 115 FAVWRVDPPWLPVTKKGLGSRMGGGKGSIDHYVTPVKTGRIIIEVGGK-CSYEEVLPYLR 173
+ V R++ L S M G G V G I+ V K + + L
Sbjct: 94 WHVLRINKMLSCAGADRLQSGMRGAFGKALGKAARVDIGSILFSVRVKEPHVKYAIDALT 153
Query: 174 SCASKMPFKC 183
+K P +
Sbjct: 154 RAKAKFPGRQ 163
>1b8q_A Protein (neuronal nitric oxide synthase); PDZ domain, NNOS, nitric
oxide synthase, oxidoreductase; NMR {Rattus norvegicus}
SCOP: b.36.1.1
Length = 127
Score = 31.0 bits (70), Expect = 0.15
Identities = 14/65 (21%), Positives = 24/65 (36%), Gaps = 16/65 (24%)
Query: 130 KGLGSRMGGGKGSIDHYVTPV-------KTGRI-----IIEVGGK----CSYEEVLPYLR 173
GLG + ++ + ++G I I+ V + SY+ L LR
Sbjct: 20 GGLGFLVKERVSKPPVIISDLIRGGAAEQSGLIQAGDIILAVNDRPLVDLSYDSALEVLR 79
Query: 174 SCASK 178
AS+
Sbjct: 80 GIASE 84
>2he4_A Na(+)/H(+) exchange regulatory cofactor NHE-RF2; phosphorylation,
structural genomics, structural genomics consortium,
SGC, unknown function; 1.45A {Homo sapiens} PDB: 2ozf_A
Length = 90
Score = 29.6 bits (67), Expect = 0.25
Identities = 11/76 (14%), Positives = 26/76 (34%), Gaps = 15/76 (19%)
Query: 130 KGLGSRMGGGKGSIDHYVTPV-----------KTGRIIIEVGGKC----SYEEVLPYLRS 174
+G G + K Y+ V + +IEV G+ + EV+ +++
Sbjct: 15 QGYGFNLHSDKSRPGQYIRSVDPGSPAARSGLRAQDRLIEVNGQNVEGLRHAEVVASIKA 74
Query: 175 CASKMPFKCMPCNEDI 190
+ + + +
Sbjct: 75 REDEARLLVVGPSTRL 90
>2eei_A PDZ domain-containing protein 1; regulatory factor, structural
genomics, NPPSFA, national project on protein structural
and functional analyses; NMR {Homo sapiens}
Length = 106
Score = 29.7 bits (67), Expect = 0.26
Identities = 13/67 (19%), Positives = 24/67 (35%), Gaps = 15/67 (22%)
Query: 128 TKKGLGSRMGGGKGSIDHYVTPV-----------KTGRIIIEVGG----KCSYEEVLPYL 172
G + +G Y+T + +IEV G S+EEV+ +
Sbjct: 17 EGGSYGFSLKTVQGKKGVYMTDITPQGVAMRAGVLADDHLIEVNGENVEDASHEEVVEKV 76
Query: 173 RSCASKM 179
+ S++
Sbjct: 77 KKSGSRV 83
>2vsp_A PDZ domain-containing protein 1; membrane, cytoplasm,
phosphoprotein, transport protein, CAsp; 2.60A {Homo
sapiens} PDB: 2eej_A
Length = 91
Score = 28.8 bits (65), Expect = 0.48
Identities = 13/65 (20%), Positives = 24/65 (36%), Gaps = 15/65 (23%)
Query: 130 KGLGSRMGGGKGSIDHYVTPV-----------KTGRIIIEVGG----KCSYEEVLPYLRS 174
G G + +G ++ V + +IIEV G YE+V+ ++S
Sbjct: 14 NGYGFHLNAIRGLPGSFIKEVQKGGPADLAGLEDEDVIIEVNGVNVLDEPYEKVVDRIQS 73
Query: 175 CASKM 179
+
Sbjct: 74 SGKNV 78
>1g9o_A NHE-RF; PDZ domain, complex, signaling protein; 1.50A {Homo
sapiens} SCOP: b.36.1.1 PDB: 1i92_A 1gq4_A 1gq5_A 2ocs_A
Length = 91
Score = 28.4 bits (64), Expect = 0.56
Identities = 14/65 (21%), Positives = 28/65 (43%), Gaps = 15/65 (23%)
Query: 130 KGLGSRMGGGKGSIDHYVTPV-----------KTGRIIIEVGG----KCSYEEVLPYLRS 174
G G + G KG + Y+ V G ++EV G K ++++V+ +R+
Sbjct: 14 NGYGFHLHGEKGKLGQYIRLVEPGSPAEKAGLLAGDRLVEVNGENVEKETHQQVVSRIRA 73
Query: 175 CASKM 179
+ +
Sbjct: 74 ALNAV 78
>2kjd_A Sodium/hydrogen exchange regulatory cofactor NHE- RF1; PDZ domain,
protein, acetylation, cell projection, disease mutation,
membrane; NMR {Homo sapiens}
Length = 128
Score = 28.7 bits (64), Expect = 0.85
Identities = 10/65 (15%), Positives = 21/65 (32%), Gaps = 15/65 (23%)
Query: 130 KGLGSRMGGGKGSIDHYVTPV-----------KTGRIIIEVGGK----CSYEEVLPYLRS 174
G G + K ++ V + I+EV G + +V+ +R+
Sbjct: 20 SGYGFNLHSDKSKPGQFIRSVDPDSPAEASGLRAQDRIVEVNGVCMEGKQHGDVVSAIRA 79
Query: 175 CASKM 179
+
Sbjct: 80 GGDET 84
>2jxo_A Ezrin-radixin-moesin-binding phosphoprotein 50; nherf-1, PDZ
domain, PDZ2, acetylation, cell projection, membrane,
polymorphism; NMR {Homo sapiens}
Length = 98
Score = 28.1 bits (63), Expect = 1.0
Identities = 10/65 (15%), Positives = 21/65 (32%), Gaps = 15/65 (23%)
Query: 130 KGLGSRMGGGKGSIDHYVTPV-----------KTGRIIIEVGGK----CSYEEVLPYLRS 174
G G + K ++ V + I+EV G + +V+ +R+
Sbjct: 20 SGYGFNLHSDKSKPGQFIRSVDPDSPAEASGLRAQDRIVEVNGVCMEGKQHGDVVSAIRA 79
Query: 175 CASKM 179
+
Sbjct: 80 GGDET 84
>1m5z_A GRIP, AMPA receptor interacting protein; six beta-strands and two
alpha-helices, protein binding; NMR {Rattus norvegicus}
SCOP: b.36.1.1
Length = 91
Score = 27.7 bits (62), Expect = 1.2
Identities = 9/65 (13%), Positives = 19/65 (29%), Gaps = 15/65 (23%)
Query: 130 KGLGSRMGGGKGSIDHYVTPV-----------KTGRIIIEVGGK----CSYEEVLPYLRS 174
+ G + G YV + K +++V V+P +
Sbjct: 19 EDFGFSVADGLLEKGVYVKNIRPAGPGDLGGLKPYDRLLQVNHVRTRDFDCCLVVPLIAE 78
Query: 175 CASKM 179
+K+
Sbjct: 79 SGNKL 83
>2krg_A Na(+)/H(+) exchange regulatory cofactor NHE-RF1; acetylation, cell
projection, disease mutation, membrane, phosphoprotein,
polymorphism; NMR {Homo sapiens}
Length = 216
Score = 28.6 bits (63), Expect = 1.5
Identities = 10/65 (15%), Positives = 21/65 (32%), Gaps = 15/65 (23%)
Query: 130 KGLGSRMGGGKGSIDHYVTPV-----------KTGRIIIEVGGK----CSYEEVLPYLRS 174
G G + K ++ V + I+EV G + +V+ +R+
Sbjct: 20 SGYGFNLHSDKSKPGQFIRSVDPDSPAEASGLRAQDRIVEVNGVCMEGKQHGDVVSAIRA 79
Query: 175 CASKM 179
+
Sbjct: 80 GGDET 84
>3lu0_D DNA-directed RNA polymerase subunit beta'; E. coli RNA polymerase,
nucleotidyltransferase, transcription, transferase;
11.20A {Escherichia coli} PDB: 3iyd_D*
Length = 1407
Score = 27.6 bits (62), Expect = 4.1
Identities = 14/56 (25%), Positives = 22/56 (39%), Gaps = 18/56 (32%)
Query: 66 DLLR--GPEEIHNYL---IHKQYGLVALSGGRM-----NYRHFETIRFAMMRKLDV 111
D+LR G + Y+ + Y R+ N +H E I M+RK +
Sbjct: 1219 DILRLRGVHAVTRYIVNEVQDVY--------RLQGVKINDKHIEVIVRQMLRKATI 1266
>1pxz_A Major pollen allergen JUN A 1; parallel beta-helix, cedar pollen;
1.70A {Juniperus ashei} SCOP: b.80.1.1
Length = 346
Score = 27.0 bits (59), Expect = 5.4
Identities = 14/37 (37%), Positives = 15/37 (40%), Gaps = 6/37 (16%)
Query: 118 WRVDPPW------LPVTKKGLGSRMGGGKGSIDHYVT 148
WR D W L G GS GGKG + VT
Sbjct: 8 WRGDSNWDQNRMKLADCAVGFGSSTMGGKGGDFYTVT 44
>1v7r_A Hypothetical protein PH1917; ntpase, structural genomics, riken
structural genomics/prote initiative, RSGI, hydrolase;
HET: CIT; 1.40A {Pyrococcus horikoshii} SCOP: c.51.4.1
PDB: 2dvn_A* 2dvo_A* 2dvp_A 2ehk_A 2zti_A 2e5x_A*
Length = 186
Score = 26.3 bits (59), Expect = 7.2
Identities = 9/34 (26%), Positives = 13/34 (38%), Gaps = 8/34 (23%)
Query: 187 NEDILREMKEKEEREAR--------DNINPYTFE 212
E IL+ M+ E+R A + Y F
Sbjct: 90 LEGILKLMEGAEDRRAYFKSVIGFYIDGKAYKFS 123
>3tcm_A Alanine aminotransferase 2; pyridoxal phosphate (PLP)-binding; HET:
DCS; 2.71A {Hordeum vulgare}
Length = 500
Score = 26.7 bits (59), Expect = 8.8
Identities = 5/26 (19%), Positives = 12/26 (46%)
Query: 199 EREARDNINPYTFEYMIKNNIGNCRQ 224
+ + + F+ ++ NIGN +
Sbjct: 51 QEQLKTQPGSLPFDEILYCNIGNPQS 76
>1ya0_A SMG-7 transcript variant 2; alpha-helical repeat, tetratricopetide
repeat (TPR), 14-3-3, signaling protein; 2.55A {Homo
sapiens} SCOP: a.118.8.1
Length = 497
Score = 26.5 bits (57), Expect = 9.2
Identities = 13/69 (18%), Positives = 16/69 (23%)
Query: 171 YLRSCASKMPFKCMPCNEDILREMKEKEEREARDNINPYTFEYMIKNNIGNCRQWISTHV 230
Y RS A K PF N + E + F G+ S
Sbjct: 209 YCRSIAVKFPFPAASTNLQKALSKALESRDEVKTKWGVSDFIKAFIKFHGHVYLSKSLEK 268
Query: 231 DYKYFGKYF 239
K
Sbjct: 269 LSPLREKLE 277
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 0.141 0.448
Gapped
Lambda K H
0.267 0.0510 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,977,911
Number of extensions: 244555
Number of successful extensions: 494
Number of sequences better than 10.0: 1
Number of HSP's gapped: 485
Number of HSP's successfully gapped: 37
Length of query: 240
Length of database: 6,701,793
Length adjustment: 91
Effective length of query: 149
Effective length of database: 4,160,982
Effective search space: 619986318
Effective search space used: 619986318
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: 56 (25.9 bits)