RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy10335
(177 letters)
>3u5e_S L18A, 60S ribosomal protein L20-A; translation, ribosome, ribosomal
R ribosomal protein, STM1, eukaryotic ribosome; 3.00A
{Saccharomyces cerevisiae} PDB: 3u5i_S
Length = 172
Score = 248 bits (635), Expect = 9e-86
Identities = 93/173 (53%), Positives = 125/173 (72%), Gaps = 3/173 (1%)
Query: 5 GLLKEYEVIGRKLPTEKEKITPLYKMRIFAPDDIVAKSRFWYFLRQLKKFKKSTGEIVSL 64
KEY+VIGR+LPTE L++MRIFA ++++AKSR+WYFL++L K KK++GEIVS+
Sbjct: 2 AHFKEYQVIGRRLPTESVPEPKLFRMRIFASNEVIAKSRYWYFLQKLHKVKKASGEIVSI 61
Query: 65 KLISEKSPTKIKNFGIWLRYDSRSGTHNMYREYRDLSVSGAVTQCYRDMGARHRARAHSI 124
I+E PTK+KNFG+W+RYDSRSGTHNMY+E RD+S AV Y+DM ARHRAR SI
Sbjct: 62 NQINEAHPTKVKNFGVWVRYDSRSGTHNMYKEIRDVSRVAAVETLYQDMAARHRARFRSI 121
Query: 125 QIIKL-EVVKASACRRPLVKQFHDSRIRFPLPKRIQHVNRMNLFSSRRPKTYF 176
I+K+ E+ K + +R VKQF ++FPLP R+Q FS +RP T++
Sbjct: 122 HILKVAEIEKTADVKRQYVKQFLTKDLKFPLPHRVQ--KSTKTFSYKRPSTFY 172
>3iz5_S 60S ribosomal protein L18A (L18AE); eukaryotic ribosome,homology
modeling,de novo modeling,ribos proteins,novel ribosomal
proteins, ribosome; 5.50A {Triticum aestivum} PDB:
3izr_S 3izc_S 3izs_S
Length = 178
Score = 244 bits (625), Expect = 3e-84
Identities = 83/176 (47%), Positives = 115/176 (65%), Gaps = 3/176 (1%)
Query: 3 AKGLLKEYEVIGRKLPTEKEKITPLYKMRIFAPDDIVAKSRFWYFLRQLKKFKKSTGEIV 62
+Y+V+GR LPT ++ +Y+M+++A +++ AKS+FWYFLR+LKK KKS G+I+
Sbjct: 2 GAFRFHQYQVVGRGLPTPTDEHPKIYRMKLWATNEVRAKSKFWYFLRKLKKVKKSNGQIL 61
Query: 63 SLKLISEKSPTKIKNFGIWLRYDSRSGTHNMYREYRDLSVSGAVTQCYRDMGARHRARAH 122
++ I EK+PT IKN+GIWLRY SR+G HNMY+EYRD +++GAV Q Y +M +RHR R
Sbjct: 62 AINEIFEKNPTTIKNYGIWLRYQSRTGYHNMYKEYRDTTLNGAVEQMYTEMASRHRVRFP 121
Query: 123 SIQIIKLEVVKASACRRPLVKQFHDSRIRFPLPKRIQHVNR---MNLFSSRRPKTY 175
IQIIK V C+R KQFH S I+FPL R F + RP +
Sbjct: 122 CIQIIKTATVHFKLCKRDNTKQFHKSDIKFPLVYRKVRPPTRKLKTTFKASRPNLF 177
>4a18_X RPL18A, 60S ribosomal protein L36; ribosome, eukaryotic initiation
factor 6, EIF6, transla large ribosomal subunit, rRNA;
3.52A {Tetrahymena thermophila} PDB: 4a19_X 4a1b_X
4a1d_X
Length = 189
Score = 243 bits (620), Expect = 3e-83
Identities = 65/175 (37%), Positives = 109/175 (62%), Gaps = 3/175 (1%)
Query: 4 KGLLKEYEVIGRKLPTEKEKITPLYKMRIFAPDDIVAKSRFWYFLRQLKKFKKSTGEIVS 63
+ +++Y V +LP E+ + +MR+FA D++ AK++FWY +R+L K K+S G I+S
Sbjct: 15 QMKVRQYVVSAARLPIEQGTKPEILQMRVFARDEVHAKTKFWYNMRKLNKIKRSQGRILS 74
Query: 64 LKLISEKSPTKIKNFGIWLRYDSRSGTHNMYREYRDLSVSGAVTQCYRDMGARHRARAHS 123
+ I EKS +K +GI L+Y SR+ HNMY+EYRD+S++GAV+Q +DM HRA+ +
Sbjct: 75 VNEIYEKSLNTVKTYGIVLKYQSRTAIHNMYKEYRDVSLNGAVSQLIQDMAGNHRAQPDT 134
Query: 124 IQIIKLEVVKASACRRPLVKQFHDSRIRFPLPKRIQHVNR---MNLFSSRRPKTY 175
IQII+ ++ +RP ++ ++FP+ K I + ++ + RP T+
Sbjct: 135 IQIIRTATLEPKDIKRPATLAMRNAALKFPIVKTIHRPSEKKYRTVYKATRPTTF 189
>4adx_G RPLX; ribosome, protein synthesis; 6.60A {Methanothermobacter
thermautotrophicusorganism_taxid} PDB: 2jxt_A
Length = 78
Score = 54.6 bits (131), Expect = 7e-11
Identities = 13/71 (18%), Positives = 29/71 (40%)
Query: 74 KIKNFGIWLRYDSRSGTHNMYREYRDLSVSGAVTQCYRDMGARHRARAHSIQIIKLEVVK 133
K K F + ++ +E + + Y + G++HR ++I ++E +
Sbjct: 4 KTKIFRVKGKFLMGDKLQPFTKELNAIREEEIYERLYSEFGSKHRVPRSKVKIEEIEEIS 63
Query: 134 ASACRRPLVKQ 144
+ P+VK
Sbjct: 64 PEEVQDPVVKA 74
>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 = 39.8 bits (92), Expect = 3e-04
Identities = 35/209 (16%), Positives = 68/209 (32%), Gaps = 46/209 (22%)
Query: 2 KAKGLLKEY-EVIGRKLPTEKEKITPLYKMRIFAPDDIVAKSRFWYFLRQLKKFKKSTGE 60
+ K LL +Y + + LP E P ++ I A + W + + K +T
Sbjct: 302 EVKSLLLKYLDCRPQDLPREVLTTNPR-RLSIIAESIRDGLAT-WDNWKHVNCDKLTTII 359
Query: 61 IVSLKLISEKSPTKIK----NFGIWLRYDSR--SGTHNMY---REYRDLSVSGAVTQCY- 110
SL ++ P + + + + + ++ D V V + +
Sbjct: 360 ESSLNVL---EPAEYRKMFDRLSV-FPPSAHIPTILLSLIWFDVIKSD--VMVVVNKLHK 413
Query: 111 RDMGARHRARA----HSIQI-IKLEVVKASACRRPLVKQF-----HDSRIRFPLP----- 155
+ + + SI + +K+++ A R +V + DS P
Sbjct: 414 YSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYF 473
Query: 156 --------KRIQHVNRMNLFSSRRPKTYF 176
K I+H RM LF +
Sbjct: 474 YSHIGHHLKNIEHPERMTLF----RMVFL 498
Score = 32.5 bits (73), Expect = 0.075
Identities = 26/159 (16%), Positives = 45/159 (28%), Gaps = 51/159 (32%)
Query: 21 KEKITPLYKMRIFAPDDIVAKSR-FWYFLRQLKK-FKKSTGEIVSLKLISEKSPTKIKNF 78
KE+I + D + R FW L + ++ +K E++ N+
Sbjct: 48 KEEIDHIIMS----KDAVSGTLRLFWTLLSKQEEMVQKFVEEVLR------------INY 91
Query: 79 GIWL------RYDSRSGTHNMYREYRDLSVSGAVTQCYRDMGARHRARAHSIQIIK--LE 130
+L S MY E RD + Q + + +R ++ L
Sbjct: 92 K-FLMSPIKTEQRQPSMMTRMYIEQRDRLYND--NQVFAK---YNVSRLQPYLKLRQALL 145
Query: 131 -------------------VVKASACRRPLVKQFHDSRI 150
V C V+ D +I
Sbjct: 146 ELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKI 184
>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 = 33.8 bits (76), Expect = 0.014
Identities = 5/18 (27%), Positives = 11/18 (61%), Gaps = 1/18 (5%)
Query: 20 EKEKITPL-YKMRIFAPD 36
EK+ + L ++++A D
Sbjct: 18 EKQALKKLQASLKLYADD 35
Score = 29.9 bits (66), Expect = 0.27
Identities = 11/30 (36%), Positives = 15/30 (50%), Gaps = 8/30 (26%)
Query: 49 RQLKKFKKSTGEIVSLKLISEKS-PT-KIK 76
+ LKK + SLKL ++ S P IK
Sbjct: 20 QALKKLQA------SLKLYADDSAPALAIK 43
>4dgw_C PRE-mRNA-splicing factor PRP11; zinc finger; 3.11A {Saccharomyces
cerevisiae}
Length = 231
Score = 31.2 bits (70), Expect = 0.11
Identities = 13/59 (22%), Positives = 23/59 (38%), Gaps = 10/59 (16%)
Query: 10 YEVIGRKLPTEKEKITP--LYKMRIFAPDDIVAKSRFW------YFLRQLKKFKKSTGE 60
+E I +LP + + D++ K FW Y++ Q FK++ E
Sbjct: 171 FENIAIELPPNEILFSENNDMDNNNDGVDELNKKCTFWDAISKLYYV-QF-FFKQAEQE 227
>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 = 29.2 bits (65), Expect = 0.94
Identities = 37/221 (16%), Positives = 62/221 (28%), Gaps = 89/221 (40%)
Query: 5 GL--LKEYEVIGRKLPTEKEKITPLYKMRIFAPDDIV-----AKSRFW-YFLRQLKKFKK 56
G+ L Y V + L ++ K +V A++ W F ++K
Sbjct: 242 GVIQLAHYVVTAKLLGFTPGELRSYLKGATGHSQGLVTAVAIAETDSWESFFVSVRKA-- 299
Query: 57 STGEIVSLKLISEKSPTKIKNFGIWLR----YDSRSGTHNMYREYRD---------LSVS 103
+ ++ F I +R Y + S ++ + + LS+S
Sbjct: 300 -------ITVL----------FFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSIS 342
Query: 104 G---AVTQCYRDMGARHRARAHSIQI----------------------IKLEVVKASACR 138
Q Y + H ++I + L KA
Sbjct: 343 NLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLYGLNLTLRKAKAP--- 399
Query: 139 RPLVKQFHDSRIRFPLPKRIQHVNRMNLFSSRRPKTY--FL 177
+ Q SRI P FS R+ K FL
Sbjct: 400 -SGLDQ---SRI----P-----------FSERKLKFSNRFL 421
Score = 27.7 bits (61), Expect = 2.9
Identities = 27/134 (20%), Positives = 50/134 (37%), Gaps = 21/134 (15%)
Query: 45 WYFLRQLK-KFKKSTGEIVSLKLISEKSPT-KIKNFGIWLRYDSRSGTHNMYREYRDL-- 100
++ QL+ +F K E + ++ PT + G +L Y S + ++ +
Sbjct: 27 FFIASQLQEQFNKILPE-PTEGFAADDEPTTPAELVGKFLGYVSSLVEPSKVGQFDQVLN 85
Query: 101 SVSGAVTQCY---RDMGARHRARAHSIQIIKLEVVKASACRRPLVKQFHDSRI--RFPLP 155
CY D+ H A +Q +VK + L+K + +RI + P
Sbjct: 86 LCLTEFENCYLEGNDI---HALAAKLLQENDTTLVK----TKELIKNYITARIMAKRPFD 138
Query: 156 KRIQHVNRMNLFSS 169
K+ LF +
Sbjct: 139 KKSNSA----LFRA 148
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
0.325 0.137 0.408
Gapped
Lambda K H
0.267 0.0515 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,697,553
Number of extensions: 151489
Number of successful extensions: 390
Number of sequences better than 10.0: 1
Number of HSP's gapped: 384
Number of HSP's successfully gapped: 12
Length of query: 177
Length of database: 6,701,793
Length adjustment: 87
Effective length of query: 90
Effective length of database: 4,272,666
Effective search space: 384539940
Effective search space used: 384539940
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 54 (25.1 bits)