RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy1295
(137 letters)
>2ale_A SNU13, NHP2/L7AE family protein YEL026W; splicing, RNA, yeast,
His-TAG, RNA binding protein; 1.80A {Saccharomyces
cerevisiae} SCOP: d.79.3.1 PDB: 1zwz_A 2ozb_A 3siu_A
3siv_A 1e7k_A
Length = 134
Score = 154 bits (390), Expect = 1e-49
Identities = 88/125 (70%), Positives = 107/125 (85%)
Query: 13 PAVNPKAYPLADTALTTKILSLVQQALNYKQLRKGANEATKTLNRGLSEFIVLAADAEPL 72
A NPKA+PLAD ALT +IL +VQQA N +QL+KGANEATKTLNRG+SEFI++AAD EP+
Sbjct: 2 SAPNPKAFPLADAALTQQILDVVQQAANLRQLKKGANEATKTLNRGISEFIIMAADCEPI 61
Query: 73 EIVLHLPLLCEDKNVPYVFVRSKQALGRACGVSRPIIACSVTVDEGSQLKPQIQAIQQQI 132
EI+LHLPLLCEDKNVPYVFV S+ ALGRACGVSRP+IA S+T ++ S +K QI A++ +I
Sbjct: 62 EILLHLPLLCEDKNVPYVFVPSRVALGRACGVSRPVIAASITTNDASAIKTQIYAVKDKI 121
Query: 133 ERLLI 137
E LLI
Sbjct: 122 ETLLI 126
>2aif_A Ribosomal protein L7A; high-mobility like protein, transcription
factor, structural genomics, structural genomics
consortium, SGC; 1.90A {Cryptosporidium parvum} SCOP:
d.79.3.1
Length = 135
Score = 152 bits (386), Expect = 4e-49
Identities = 86/130 (66%), Positives = 107/130 (82%)
Query: 8 QTNEEPAVNPKAYPLADTALTTKILSLVQQALNYKQLRKGANEATKTLNRGLSEFIVLAA 67
+ +E+ NPKA+PLA L KI++LVQQA NYKQLRKGANEATK LNRG++E ++LAA
Sbjct: 6 EASEDTGFNPKAFPLASPDLNNKIINLVQQACNYKQLRKGANEATKALNRGIAEIVLLAA 65
Query: 68 DAEPLEIVLHLPLLCEDKNVPYVFVRSKQALGRACGVSRPIIACSVTVDEGSQLKPQIQA 127
DAEPLEI+LHLPL+CEDKN PYVFVRSK ALGRACGVSRP+IA ++T +GS L QI
Sbjct: 66 DAEPLEILLHLPLVCEDKNTPYVFVRSKVALGRACGVSRPVIAAAITSKDGSSLSSQITE 125
Query: 128 IQQQIERLLI 137
++ QIE++L+
Sbjct: 126 LKDQIEQILV 135
>2jnb_A NHP2-like protein 1; splicing, KINK-turn RNA-binding protein, NHPX,
RNA binding protein; NMR {Homo sapiens} SCOP: d.79.3.1
Length = 144
Score = 152 bits (386), Expect = 5e-49
Identities = 107/126 (84%), Positives = 116/126 (92%)
Query: 12 EPAVNPKAYPLADTALTTKILSLVQQALNYKQLRKGANEATKTLNRGLSEFIVLAADAEP 71
E VNPKAYPLAD LT K+L LVQQ+ NYKQLRKGANEATKTLNRG+SEFIV+AADAEP
Sbjct: 19 EADVNPKAYPLADAHLTKKLLDLVQQSCNYKQLRKGANEATKTLNRGISEFIVMAADAEP 78
Query: 72 LEIVLHLPLLCEDKNVPYVFVRSKQALGRACGVSRPIIACSVTVDEGSQLKPQIQAIQQQ 131
LEI+LHLPLLCEDKNVPYVFVRSKQALGRACGVSRP+IACSVT+ EGSQLK QIQ+IQQ
Sbjct: 79 LEIILHLPLLCEDKNVPYVFVRSKQALGRACGVSRPVIACSVTIKEGSQLKQQIQSIQQS 138
Query: 132 IERLLI 137
IERLL+
Sbjct: 139 IERLLV 144
>3o85_A Ribosomal protein L7AE; alpha beta sandwich fold, K-turn RNA
binding protein, KINK T ribosomal protein; 1.81A
{Giardia lamblia}
Length = 122
Score = 139 bits (351), Expect = 8e-44
Identities = 57/123 (46%), Positives = 85/123 (69%), Gaps = 2/123 (1%)
Query: 14 AVNPKAYPLADTALTTKILSLVQQALNYKQLRKGANEATKTLNRGLSEFIVLAADAEPLE 73
++P+A P A+ L+ ++L+LV+ + + +++GANEA K +NRG +E +++AADA+P+E
Sbjct: 2 QIDPRAIPFANEELSLELLNLVKHGASLQAIKRGANEALKQVNRGKAELVIIAADADPIE 61
Query: 74 IVLHLPLLCEDKNVPYVFVRSKQALGRACGVSRPIIACSVTVDEGSQLKPQIQAIQQQIE 133
IVLHLPL CEDK VPYVF+ SK ALGRAC VS P I S+ + L + I ++E
Sbjct: 62 IVLHLPLACEDKGVPYVFIGSKNALGRACNVSVPTIVASIGKHDA--LGNVVAEIVGKVE 119
Query: 134 RLL 136
L+
Sbjct: 120 ALV 122
>2fc3_A 50S ribosomal protein L7AE; alpha-beta-alpha sandwich, ribosome,
RNA binding protein; 1.56A {Aeropyrum pernix} SCOP:
d.79.3.1 PDB: 3pla_C* 3id5_C* 3hax_D* 2hvy_D* 3hay_D*
3nvi_B 3nmu_C 3nvk_E* 3lwr_C 3lwo_C* 3lwq_C* 3lwp_C
3lwv_C 3hjw_C* 2czw_A 1pxw_A
Length = 124
Score = 119 bits (301), Expect = 3e-36
Identities = 45/123 (36%), Positives = 71/123 (57%), Gaps = 5/123 (4%)
Query: 13 PAVNPKAYPLADTALTTKILSLVQQALNYKQLRKGANEATKTLNRGLSEFIVLAADAEPL 72
P P L K V++A +++KG NE TK + RGL++ +V+A D +P
Sbjct: 1 PIYVRFEVP---EDLAEKAYEAVKRARETGRIKKGTNETTKAVERGLAKLVVIAEDVDPP 57
Query: 73 EIVLHLPLLCEDKNVPYVFVRSKQALGRACGVSRPIIACSVTVDEGSQLKPQIQAIQQQI 132
EIV+HLPLLC++K +PYV+V SK+ LG A G+ A SV + E + ++ I +++
Sbjct: 58 EIVMHLPLLCDEKKIPYVYVPSKKRLGEAAGIEVA--AASVAIIEPGDAETLVREIVEKV 115
Query: 133 ERL 135
+ L
Sbjct: 116 KEL 118
>1vq8_F 50S ribosomal protein L7AE; 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.79.3.1 PDB: 1vq4_F*
1vq5_F* 1vq6_F* 1vq7_F* 1s72_F* 1vq9_F* 1vqk_F* 1vql_F*
1vqm_F* 1vqn_F* 1vqo_F* 1vqp_F* 1yhq_F* 1yi2_F* 1yij_F*
1yit_F* 1yj9_F* 1yjn_F* 1yjw_F* 2otj_F* ...
Length = 120
Score = 118 bits (298), Expect = 8e-36
Identities = 38/135 (28%), Positives = 67/135 (49%), Gaps = 16/135 (11%)
Query: 1 MSTFLYFQTNEEPAVNPKAYPLADTALTTKILSLVQQALNYKQLRKGANEATKTLNRGLS 60
M ++ F + L L ++ A + ++KG NE TK++ RG +
Sbjct: 1 MPVYVDFDVPAD--------------LEDDALEALEVARDTGAVKKGTNETTKSIERGSA 46
Query: 61 EFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVRSKQALGRACGVSRPIIACSVTVDEGSQ 120
E + +A D +P EIV+H+P L ++K VP++FV + LG A G+ A +VT + +
Sbjct: 47 ELVFVAEDVQPEEIVMHIPELADEKGVPFIFVEQQDDLGHAAGLEVGSAAAAVT--DAGE 104
Query: 121 LKPQIQAIQQQIERL 135
++ I ++E L
Sbjct: 105 ADADVEDIADKVEEL 119
>2lbw_A H/ACA ribonucleoprotein complex subunit 2; L7AE, snoRNP, scaRNP,
RNA binding protein; NMR {Saccharomyces cerevisiae} PDB:
2lbx_A
Length = 121
Score = 118 bits (298), Expect = 8e-36
Identities = 34/112 (30%), Positives = 60/112 (53%), Gaps = 2/112 (1%)
Query: 27 LTTKILSLVQQALNYKQLRKGANEATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKN 86
L K+L V++A K +++G E K L +G +V+A D P +++ H+P+LCED +
Sbjct: 4 LNKKVLKTVKKASKAKNVKRGVKEVVKALRKGEKGLVVIAGDIWPADVISHIPVLCEDHS 63
Query: 87 VPYVFVRSKQALGRACGVSRPIIACSVTV--DEGSQLKPQIQAIQQQIERLL 136
VPY+F+ SKQ LG A RP + ++ K + + ++ ++
Sbjct: 64 VPYIFIPSKQDLGAAGATKRPTSVVFIVPGSNKKKDGKNKEEEYKESFNEVV 115
>1rlg_A 50S ribosomal protein L7AE; protein-RNA, structural protein/RNA
complex; HET: 5BU; 2.70A {Archaeoglobus fulgidus} SCOP:
d.79.3.1
Length = 119
Score = 115 bits (290), Expect = 1e-34
Identities = 42/115 (36%), Positives = 74/115 (64%), Gaps = 2/115 (1%)
Query: 21 PLADTALTTKILSLVQQALNYKQLRKGANEATKTLNRGLSEFIVLAADAEPLEIVLHLPL 80
+ + LSL+++ +++KG NE TK + RGL++ + +A D +P EIV HLPL
Sbjct: 5 FEVPEDMQNEALSLLEKVRESGKVKKGTNETTKAVERGLAKLVYIAEDVDPPEIVAHLPL 64
Query: 81 LCEDKNVPYVFVRSKQALGRACGVSRPIIACSVTVDEGSQLKPQIQAIQQQIERL 135
LCE+KNVPY++V+SK LGRA G+ P + ++ + +L+ ++ ++ ++I+ L
Sbjct: 65 LCEEKNVPYIYVKSKNDLGRAVGIEVPCASAAIINE--GELRKELGSLVEKIKGL 117
>1xbi_A 50S ribosomal protein L7AE; alpha-beta-alpha sandwich fold, RNA
binding protein/structural protein complex; HET: EPE;
1.45A {Methanocaldococcus jannaschii} SCOP: d.79.3.1
PDB: 1ra4_A* 1sds_A 3paf_A
Length = 120
Score = 108 bits (272), Expect = 6e-32
Identities = 37/120 (30%), Positives = 69/120 (57%), Gaps = 4/120 (3%)
Query: 15 VNPKAYPLADTALTTKILSLVQQALNYKQLRKGANEATKTLNRGLSEFIVLAADAEPLEI 74
+ + ++L V +A ++++KGANE TK + RG+++ +++A D +P E+
Sbjct: 4 MAVYVKFKVPEEIQKELLDAVAKA---QKIKKGANEVTKAVERGIAKLVIIAEDVKPEEV 60
Query: 75 VLHLPLLCEDKNVPYVFVRSKQALGRACGVSRPIIACSVTVDEGS-QLKPQIQAIQQQIE 133
V HLP LCE+K +PY +V SKQ LG+A G+ + ++ + + +LK I+ + +
Sbjct: 61 VAHLPYLCEEKGIPYAYVASKQDLGKAAGLEVAASSVAIINEGDAEELKVLIEKVNVLKQ 120
>3v7e_A Ribosome-associated protein L7AE-like; RNA-protein complex, K-turn,
L7AE-like, A member L7AE/L30E superfamily; HET: SAM;
2.80A {Bacillus subtilis}
Length = 82
Score = 101 bits (254), Expect = 2e-29
Identities = 22/76 (28%), Positives = 37/76 (48%), Gaps = 1/76 (1%)
Query: 38 ALNYKQLRKGANEATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVRSKQA 97
K + G + K L RG + +V+A DA+P + + L ED+ + V S +
Sbjct: 6 VSQAKSIIIGTKQTVKALKRGSVKEVVVAKDADP-ILTSSVVSLAEDQGISVSMVESMKK 64
Query: 98 LGRACGVSRPIIACSV 113
LG+ACG+ A ++
Sbjct: 65 LGKACGIEVGAAAVAI 80
>2xzm_U Ribosomal protein L7AE containing protein; ribosome, translation;
3.93A {Tetrahymena thermophila} PDB: 2xzn_U
Length = 126
Score = 97.1 bits (241), Expect = 3e-27
Identities = 22/125 (17%), Positives = 47/125 (37%), Gaps = 12/125 (9%)
Query: 22 LADTA--LTTKILSLVQQALNYKQLRKGANEATKTLNRGLSEFIVLAADAEPLEIVLHLP 79
+AD L + +++ + + KG +E +T+ + F+ +A D + V +
Sbjct: 1 MADQNQQLNEVLAKVIKSSNCQDAISKGLHEVLRTIEAKQALFVCVAEDCDQGNYVKLVK 60
Query: 80 LLCEDKNVPYVFVRSKQALGRACGVS--------RPIIACSVTV--DEGSQLKPQIQAIQ 129
LC + YV V + +LG G + + CS ++ + I
Sbjct: 61 ALCAKNEIKYVSVPKRASLGEYLGHFTANAKGEIKKVKGCSSLAIRKYAPEITEDEKKII 120
Query: 130 QQIER 134
+ +
Sbjct: 121 EGALK 125
>3izc_H 60S ribosomal protein RPL8 (L7AE); eukaryotic ribosome,homology
modeling,de novo modeling,ribos proteins,novel ribosomal
proteins; NMR {Saccharomyces cerevisiae} PDB: 3izs_H
3o58_H 3o5h_H 3u5e_G 3u5i_G
Length = 256
Score = 100 bits (248), Expect = 5e-27
Identities = 27/122 (22%), Positives = 47/122 (38%), Gaps = 2/122 (1%)
Query: 12 EPAVNPKAYPLADTALTTKILSLVQQALNYKQLRKGANEATKTLNRGLSEFIVLAADAEP 71
E A K + A + S + ++ G N + ++ +++A D +P
Sbjct: 100 ETAAEKKERLTKEAAAVAEGKSKQDASPKPYAVKYGLNHVVALIENKKAKLVLIANDVDP 159
Query: 72 LEIVLHLPLLCEDKNVPYVFVRSKQALGRACGVSRPIIACSVTVDEG--SQLKPQIQAIQ 129
+E+V+ LP LC+ VPY V+ K LG +A V + L + I
Sbjct: 160 IELVVFLPALCKKMGVPYAIVKGKARLGTLVNQKTSAVAALTEVRAEDEAALAKLVSTID 219
Query: 130 QQ 131
Sbjct: 220 AN 221
>3jyw_G 60S ribosomal protein L8(A); eukaryotic ribosome, RACK1 protein,
flexible fitting; 8.90A {Thermomyces lanuginosus} PDB:
1s1i_G
Length = 113
Score = 93.1 bits (231), Expect = 6e-26
Identities = 24/109 (22%), Positives = 44/109 (40%), Gaps = 2/109 (1%)
Query: 22 LADTALTTKILSLVQQALNYKQLRKGANEATKTLNRGLSEFIVLAADAEPLEIVLHLPLL 81
+ A + S + ++ G N + ++ +++A D +P+E+V+ LP L
Sbjct: 4 TKEAAAVAEGKSKQDASPKPYAVKYGLNHVVALIENKKAKLVLIANDVDPIELVVFLPAL 63
Query: 82 CEDKNVPYVFVRSKQALGRACGVSRPIIACSVTVDEG--SQLKPQIQAI 128
C+ VPY V+ K LG +A V + L + I
Sbjct: 64 CKKMGVPYAIVKGKARLGTLVNQKTSAVAALTEVRAEDEAALAKLVSTI 112
>4a17_F RPL7A, 60S ribosomal protein L9; eukaryotic ribosome, ribosome,
eukaryotic initiation factor 60S, translation, large
ribosomal subunit; 3.52A {Tetrahymena thermophila} PDB:
4a1a_F 4a1c_F 4a1e_F
Length = 255
Score = 88.1 bits (217), Expect = 2e-22
Identities = 25/111 (22%), Positives = 44/111 (39%), Gaps = 2/111 (1%)
Query: 26 ALTTKILSLVQQALNYKQLRKGANEATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDK 85
K + L+ G N T + ++ +V+A D +P+E+V+ LP LC
Sbjct: 107 QAEAKKDGKQVETKKPIVLKYGLNHITTLIENKQAKLVVIAHDVDPIELVIFLPQLCRKN 166
Query: 86 NVPYVFVRSKQALGRACGVSRPIIACSVTVDEGSQ--LKPQIQAIQQQIER 134
+VP+ FV+ K ALG+ V + L+ + +
Sbjct: 167 DVPFAFVKGKAALGKLVNKKTATAVALTEVRNEDKAKLQQFSELFKTNYNA 217
>2zkr_f 60S ribosomal protein L7A; protein-RNA complex, 60S ribosomal
subunit, ribosomal protein/RNA complex; 8.70A {Canis
familiaris}
Length = 266
Score = 84.6 bits (208), Expect = 5e-21
Identities = 25/92 (27%), Positives = 41/92 (44%), Gaps = 2/92 (2%)
Query: 42 KQLRKGANEATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVRSKQALGRA 101
LR G N T + ++ +V+A D +P+E+V+ LP LC VPY ++ K LG
Sbjct: 134 PVLRAGVNTVTTLVENKKAQLVVIAHDVDPIELVVFLPALCRKMGVPYCIIKGKARLGHL 193
Query: 102 CGVSRPIIACSVTV--DEGSQLKPQIQAIQQQ 131
V ++ L ++AI+
Sbjct: 194 VHRKTCTTVAFTQVNSEDKGALAKLVEAIRTN 225
>3iz5_H 60S ribosomal protein L7A (L7AE); eukaryotic ribosome,homology
modeling,de novo modeling,ribos proteins,novel ribosomal
proteins, ribosome; 5.50A {Triticum aestivum} PDB:
3izr_H
Length = 258
Score = 82.7 bits (203), Expect = 2e-20
Identities = 26/104 (25%), Positives = 46/104 (44%), Gaps = 2/104 (1%)
Query: 30 KILSLVQQALNYKQLRKGANEATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPY 89
+ +A ++ G N T + + ++ +V+A D +P+E+V+ LP LC VPY
Sbjct: 114 EAEGKTVEAKKPIVVKYGLNHVTYLIEQSKAQLVVIAHDVDPIELVVWLPALCRKMEVPY 173
Query: 90 VFVRSKQALGRACGVSRPIIACSVTVDEG--SQLKPQIQAIQQQ 131
V+ K LG + C TV + ++AI+
Sbjct: 174 CIVKGKARLGSIVHKKTASVLCLTTVKNEDKLEFSKILEAIKAN 217
>3u5c_M 40S ribosomal protein S12, 40S ribosomal protein S11-A;
translation, ribosome, ribosomal, ribosomal R ribosomal
protein, eukaryotic ribosome, RNA-protein C; 3.00A
{Saccharomyces cerevisiae} PDB: 3u5g_M
Length = 143
Score = 69.9 bits (170), Expect = 2e-16
Identities = 28/133 (21%), Positives = 50/133 (37%), Gaps = 11/133 (8%)
Query: 12 EPAVNPKAYPLADTALTTKILSLVQQALNYKQLRKGANEATKTLNRGLSEFIVLAADAEP 71
E A+ + + +++ AL + L +G E+TK L RG + +VL +
Sbjct: 9 EVQEETVVEQTAEVTIEDALKVVLRTALVHDGLARGLRESTKALTRGEALLVVLVSSVTE 68
Query: 72 LEIVLHLPLLCED--KNVPYVFVRSKQALGRACGVS--------RPIIACS-VTVDEGSQ 120
I+ + L D VP + V + LG G+ R ++ S V V
Sbjct: 69 ANIIKLVEGLANDPENKVPLIKVADAKQLGEWAGLGKIDREGNARKVVGASVVVVKNWGA 128
Query: 121 LKPQIQAIQQQIE 133
++ I +
Sbjct: 129 ETDELSMIMEHFS 141
>3v7q_A Probable ribosomal protein YLXQ; L7AE superfamily, K-turn binding,
K-turn RNA, hypothetical R protein, RNA binding protein;
HET: CIT; 1.55A {Bacillus subtilis}
Length = 101
Score = 64.7 bits (158), Expect = 6e-15
Identities = 19/89 (21%), Positives = 35/89 (39%), Gaps = 3/89 (3%)
Query: 30 KILSLVQQALNYKQLRKGANEATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPY 89
+ L+ A +++ G + K + ++ ++L DA + C VPY
Sbjct: 6 EWFPLLGLANRARKVVSGEDLVIKEIRNARAKLVLLTEDASS-NTAKKVTDKCNYYKVPY 64
Query: 90 VFVRSKQALGRACGVSRPIIACSVTVDEG 118
V S+ LGR+ G + D+G
Sbjct: 65 KKVESRAVLGRSIG--KEARVVVAVTDQG 91
>3on1_A BH2414 protein; structural genomics, PSI-2, protein structure
initiative, MI center for structural genomics, MCSG,
unknown function; HET: MSE; 1.65A {Bacillus halodurans}
Length = 101
Score = 59.7 bits (145), Expect = 6e-13
Identities = 25/89 (28%), Positives = 37/89 (41%), Gaps = 3/89 (3%)
Query: 30 KILSLVQQALNYKQLRKGANEATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPY 89
K LSL+ A +QL G + K + G ++L++DA L C +P
Sbjct: 5 KWLSLLGLAARARQLLTGEEQVVKAVQNGQVTLVILSSDAGI-HTKKKLLDKCGSYQIPV 63
Query: 90 VFVRSKQALGRACGVSRPIIACSVTVDEG 118
V ++Q LGRA G + D G
Sbjct: 64 KVVGNRQMLGRAIG--KHERVVIGVKDAG 90
>3u5e_c L32, RP73, YL38, 60S ribosomal protein L30; translation, ribosome,
ribosomal R ribosomal protein, STM1, eukaryotic
ribosome; 3.00A {Saccharomyces cerevisiae} PDB: 3izc_f
3izs_f 3o58_Z 3o5h_Z 1t0k_B 3u5i_c 1ck2_A 1cn7_A 1nmu_B*
3jyw_2
Length = 105
Score = 56.7 bits (137), Expect = 8e-12
Identities = 19/90 (21%), Positives = 32/90 (35%), Gaps = 3/90 (3%)
Query: 30 KILSLVQQALNYKQLRKGANEATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVP- 88
I + + + G K+L +G S+ I++AA+ P+ L
Sbjct: 9 SINQKLALVIKSGKYTLGYKSTVKSLRQGKSKLIIIAANT-PVLRKSELEYYAMLSKTKV 67
Query: 89 YVFVRSKQALGRACGVSRPIIACSVTVDEG 118
Y F LG A G + S+ + G
Sbjct: 68 YYFQGGNNELGTAVGKLFRVGVVSIL-EAG 96
>3vi6_A 60S ribosomal protein L30; three-layer alpha/beta/ALPA; 1.59A {Homo
sapiens} PDB: 2zkr_6 1ysh_C
Length = 125
Score = 57.5 bits (139), Expect = 8e-12
Identities = 16/90 (17%), Positives = 34/90 (37%), Gaps = 3/90 (3%)
Query: 30 KILSLVQQALNYKQLRKGANEATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVP- 88
I S +Q + + G + K + +G ++ ++LA + P +
Sbjct: 14 SINSRLQLVMKSGKYVLGYKQTLKMIRQGKAKLVILANNC-PALRKSEIEYYAMLAKTGV 72
Query: 89 YVFVRSKQALGRACGVSRPIIACSVTVDEG 118
+ + + LG ACG + ++ D G
Sbjct: 73 HHYSGNNIELGTACGKYYRVCTLAII-DPG 101
>4a18_G RPL30; ribosome, eukaryotic initiation factor 6, EIF6, transla
large ribosomal subunit, rRNA; 3.52A {Tetrahymena
thermophila} PDB: 4a19_G 4a1b_G 4a1d_G 4adx_6
Length = 104
Score = 55.2 bits (133), Expect = 4e-11
Identities = 16/90 (17%), Positives = 31/90 (34%), Gaps = 3/90 (3%)
Query: 30 KILSLVQQALNYKQLRKGANEATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVP- 88
I S + + + G K + G ++ + ++ + P + +
Sbjct: 9 NIQSKLALVMRSGKATLGYKSTIKAIRNGTAKLVFISNNC-PTVRKSEIEYYASLAQISI 67
Query: 89 YVFVRSKQALGRACGVSRPIIACSVTVDEG 118
+ FV S LG ACG ++ D G
Sbjct: 68 HHFVGSNVELGTACGKYHRCSTMAIL-DAG 96
>3iz5_F 60S ribosomal protein L9 (L6P); eukaryotic ribosome,homology
modeling,de novo modeling,ribos proteins,novel ribosomal
proteins, ribosome; 5.50A {Triticum aestivum} PDB:
3izr_F
Length = 190
Score = 55.2 bits (133), Expect = 4e-11
Identities = 9/90 (10%), Positives = 19/90 (21%), Gaps = 3/90 (3%)
Query: 30 KILSLVQQALNYKQLRKGANEATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVP- 88
VQ A + + T+ +F +L L++ +
Sbjct: 13 PEGVTVQVAAKVVTVEGPRGKLTRNFKHLNLDFQLLEGGR-KLQVDAWFGTRRTMAAIRT 71
Query: 89 YVFVRSKQALGRACGVSRPIIACSVTVDEG 118
+ G G +
Sbjct: 72 AISHVQNLITGVTKGYRYKMRFVYAH-FPI 100
>3cpq_A 50S ribosomal protein L30E; RNA-protein, elongation factor,
ribonucleoprotein, structural genomics, NPPSFA; 1.90A
{Methanocaldococcus jannaschii}
Length = 110
Score = 53.7 bits (129), Expect = 2e-10
Identities = 21/89 (23%), Positives = 40/89 (44%), Gaps = 3/89 (3%)
Query: 31 ILSLVQQALNYKQLRKGANEATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVP-Y 89
+ ++ A++ ++ G+ K + G + +VLA + P ++ + + N+P Y
Sbjct: 9 VNKAIRTAVDTGKVILGSKRTIKFVKHGEGKLVVLAGNI-PKDLEEDVKYYAKLSNIPVY 67
Query: 90 VFVRSKQALGRACGVSRPIIACSVTVDEG 118
+ LG CG P+ A V DEG
Sbjct: 68 QHKITSLELGAVCGKPFPVAALLVL-DEG 95
>1w41_A 50S ribosomal protein L30E; electrostatic interactions,
thermostability, protein engineering; 1.7A {Thermococcus
celer} SCOP: d.79.3.1 PDB: 3n4y_A 3lfo_A 1w40_A 1go0_A
1go1_A 1h7m_A 1w42_A 1w3e_X 3ra6_A 3ra5_A 3n4z_A 2bo1_A
Length = 101
Score = 51.7 bits (124), Expect = 6e-10
Identities = 18/89 (20%), Positives = 38/89 (42%), Gaps = 3/89 (3%)
Query: 31 ILSLVQQALNYKQLRKGANEATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVP-Y 89
+++A + ++ GA ++ + G ++ I++A +A +I + +P Y
Sbjct: 4 FAFELRKAQDTGKIVMGARKSIQYAKMGGAKLIIVARNA-RPDIKEDIEYYARLSGIPVY 62
Query: 90 VFVRSKQALGRACGVSRPIIACSVTVDEG 118
F + LG G + A +V D G
Sbjct: 63 EFEGTSVELGTLLGRPHTVSALAVV-DPG 90
>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 = 37.7 bits (87), Expect = 6e-04
Identities = 27/112 (24%), Positives = 46/112 (41%), Gaps = 30/112 (26%)
Query: 22 LADTALTTKILSLVQQALNYKQLR-KGANEATKTLNRGLS--EFIVLAADAE--PLEIVL 76
L+ T T L+L+++A ++ L+ KG A T G S E+ LA+ A+ +E ++
Sbjct: 1726 LSATQFTQPALTLMEKAA-FEDLKSKGLIPADATF-AGHSLGEYAALASLADVMSIESLV 1783
Query: 77 HLPLLCEDKNVPYVFVRSKQALGRACGVSRPIIACSVTVDEGSQLKPQIQAI 128
+ VF R G + +V DE + + AI
Sbjct: 1784 EV-----------VFYR-----GMT-------MQVAVPRDELGRSNYGMIAI 1812
Score = 37.3 bits (86), Expect = 0.001
Identities = 27/151 (17%), Positives = 51/151 (33%), Gaps = 40/151 (26%)
Query: 11 EEPAVNPKAYPLADTALTTKILSLVQQALNY----KQLRKGANEATKTLNRGLS---EFI 63
E P+ P L ++ ++ ++Q A +Y K L E L +G + + +
Sbjct: 220 ENPSNTPDKDYLLSIPISCPLIGVIQLA-HYVVTAKLLGFTPGELRSYL-KGATGHSQGL 277
Query: 64 VLA-----ADAEP--LEIVLHLPLLCEDKNVPYVF---VRSKQALGRACGVSRPIIACSV 113
V A D+ V K + +F VR +A + I+ S+
Sbjct: 278 VTAVAIAETDSWESFFVSV--------RKAITVLFFIGVRCYEAYPN-TSLPPSILEDSL 328
Query: 114 TVDEGSQLKP---------QIQAIQQQIERL 135
+EG P + +Q + +
Sbjct: 329 ENNEGV---PSPMLSISNLTQEQVQDYVNKT 356
Score = 28.1 bits (62), Expect = 1.1
Identities = 16/89 (17%), Positives = 29/89 (32%), Gaps = 31/89 (34%)
Query: 14 AVNPK--AYPLADTAL----------TTKILSLVQQALNYKQLRKGANEATKTLNRGLSE 61
A+NP A + AL T ++ +V NY N +
Sbjct: 1811 AINPGRVAASFSQEALQYVVERVGKRTGWLVEIV----NY-------NVENQQ------- 1852
Query: 62 FIVLAADAEPLEIVLHLPLLCEDKNVPYV 90
V A D L+ V ++ + + + +
Sbjct: 1853 -YVAAGDLRALDTVTNVLNFIKLQKIDII 1880
>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 = 35.2 bits (80), Expect = 0.004
Identities = 17/123 (13%), Positives = 38/123 (30%), Gaps = 20/123 (16%)
Query: 25 TALTTKILSLVQQALNYKQLRKGANEATKTLNRG-----LSEFIVLAADAEPLEIVLHLP 79
LTT+ + + + TL L +++ P E++ P
Sbjct: 268 ILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNP 327
Query: 80 LLC-----EDKNVPYVFVRSKQALGRACGVSRPIIACSVTVDEGSQLKPQIQAIQQQIER 134
++ + K ++ II S+ + L+P ++ +R
Sbjct: 328 RRLSIIAESIRDGLATWDNWKHVNCDK--LTT-IIESSL-----NVLEPAEY--RKMFDR 377
Query: 135 LLI 137
L +
Sbjct: 378 LSV 380
Score = 31.4 bits (70), Expect = 0.084
Identities = 23/131 (17%), Positives = 40/131 (30%), Gaps = 26/131 (19%)
Query: 11 EEPAVNPKAYPLADTALTTKILSLVQQAL------NYK----QLRKGANEATKTLNRGLS 60
L T L +K +VQ+ + NYK ++ + + +
Sbjct: 56 MSKDAVSGTLRLFWT-LLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIE 114
Query: 61 EFIVLAADAEPL--------EIVLHL-PLLCEDKNVPYVFVRSKQALGRACGVSRPIIAC 111
+ L D + + L L L E + V + LG G + +A
Sbjct: 115 QRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGV--LG--SGKT--WVAL 168
Query: 112 SVTVDEGSQLK 122
V + Q K
Sbjct: 169 DVCLSYKVQCK 179
>2kg4_A Growth arrest and DNA-damage-inducible protein GA alpha; GADD45,
flexible regions, monomer cycle; NMR {Homo sapiens}
Length = 165
Score = 32.8 bits (74), Expect = 0.020
Identities = 22/107 (20%), Positives = 40/107 (37%), Gaps = 9/107 (8%)
Query: 9 TNEEPAVNPKAYPLADTALTTKILSLVQQALNYKQLRKGANEATKTLN--RGLSEFIVLA 66
T EE + + D + ++ +AL+ + + G EA K LN +LA
Sbjct: 2 TLEEFSAGEQKTERMDKVGDA-LEEVLSKALSQRTITVGVYEAAKLLNVDPDNVVLCLLA 60
Query: 67 ADAEPLEIV---LHLPL---LCEDKNVPYVFVRSKQALGRACGVSRP 107
AD + V +H L C + ++ + V + L +
Sbjct: 61 ADEDDDRDVALQIHFTLIQAFCCENDINILRVSNPGRLAELLLLETD 107
>3ffm_A Growth arrest and DNA-damage-inducible protein GADD45 gamma;
beta-turn-helix, cell cycle; 2.30A {Homo sapiens}
Length = 167
Score = 30.4 bits (68), Expect = 0.13
Identities = 20/81 (24%), Positives = 28/81 (34%), Gaps = 8/81 (9%)
Query: 33 SLVQQALNYKQLRKGANEATKTLNRGLSEFI--VLAAD-AEPLEIVLHLPL-----LCED 84
L+ A L G E+ K LN VLAA + +I L + C +
Sbjct: 36 ELLLSAQRQGCLTAGVYESAKVLNVDPDNVTFCVLAAGEEDEGDIALQIHFTLIQAFCCE 95
Query: 85 KNVPYVFVRSKQALGRACGVS 105
++ V V Q L G
Sbjct: 96 NDIDIVRVGDVQRLAAIVGAG 116
>3cg6_A Growth arrest and DNA-damage-inducible 45 gamma; alpha/beta, cell
cycle; 1.70A {Mus musculus} PDB: 2wal_A
Length = 146
Score = 30.0 bits (67), Expect = 0.14
Identities = 21/82 (25%), Positives = 29/82 (35%), Gaps = 8/82 (9%)
Query: 33 SLVQQALNYKQLRKGANEATKTLNRGLSEFI--VLAAD-AEPLEIVLHLPL-----LCED 84
L+ A L G E+ K LN VLAAD + +I L + C +
Sbjct: 15 ELLLSAQRQGCLTAGVYESAKVLNVDPDNVTFCVLAADEEDEGDIALQIHFTLIQAFCCE 74
Query: 85 KNVPYVFVRSKQALGRACGVSR 106
++ V V Q L G
Sbjct: 75 NDIDIVRVGDVQRLAAIVGSDE 96
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna; HET:
CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 26.1 bits (56), Expect = 3.2
Identities = 11/46 (23%), Positives = 16/46 (34%), Gaps = 24/46 (52%)
Query: 95 KQALGRACGVSRPIIACSVTVDEGSQLK-------PQIQAIQQQIE 133
KQAL + + S LK P + AI+ +E
Sbjct: 19 KQALKKL---------------QAS-LKLYADDSAPAL-AIKATME 47
>2fds_A Orotidine-monophosphate-decarboxylase; TIM barrel, structural
genomics, structural genomics consortium, SGC, unknown
function; 1.72A {Plasmodium berghei} SCOP: c.1.2.3 PDB:
2aqw_A
Length = 352
Score = 25.2 bits (54), Expect = 8.6
Identities = 8/33 (24%), Positives = 9/33 (27%)
Query: 104 VSRPIIACSVTVDEGSQLKPQIQAIQQQIERLL 136
V R I QI I + IE
Sbjct: 313 VGRAITKSPNPKKSSESYYNQIIQIFKDIENGG 345
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
0.319 0.134 0.372
Gapped
Lambda K H
0.267 0.0658 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,876,517
Number of extensions: 99052
Number of successful extensions: 255
Number of sequences better than 10.0: 1
Number of HSP's gapped: 249
Number of HSP's successfully gapped: 36
Length of query: 137
Length of database: 6,701,793
Length adjustment: 84
Effective length of query: 53
Effective length of database: 4,356,429
Effective search space: 230890737
Effective search space used: 230890737
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 52 (24.0 bits)