RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy5233
(178 letters)
>4a18_B RPL39, ribosomal protein L37; ribosome, eukaryotic initiation
factor 6, EIF6, transla large ribosomal subunit, rRNA;
3.52A {Tetrahymena thermophila} PDB: 4a19_B 4a1b_B
4a1d_B
Length = 52
Score = 91.0 bits (226), Expect = 4e-25
Identities = 27/50 (54%), Positives = 38/50 (76%)
Query: 129 SAHKTFRIKMKLAKKLKQNRPIPQWIRMRTGNTIRYNAKRRHWRRTKLKL 178
A+KT +K + +K+KQNRP+P W R ++ IRYN+KRR+WRRTKLK+
Sbjct: 2 GANKTLNMKKRFGRKIKQNRPLPNWYRYKSDTNIRYNSKRRNWRRTKLKI 51
>3u5e_L 60S ribosomal protein L13-A, 60S ribosomal protein L11-A;
translation, ribosome, ribosomal R ribosomal protein,
STM1, eukaryotic ribosome; 3.00A {Saccharomyces
cerevisiae} PDB: 3u5i_L
Length = 199
Score = 90.7 bits (225), Expect = 5e-25
Identities = 8/50 (16%), Positives = 14/50 (28%)
Query: 129 SAHKTFRIKMKLAKKLKQNRPIPQWIRMRTGNTIRYNAKRRHWRRTKLKL 178
+ K I +K Q R + + + R R + L
Sbjct: 2 AISKNLPILKNHFRKHWQERVKVHFDQAGKKVSRRNARATRAAKIAPRPL 51
>3iz5_O 60S ribosomal protein L27A (L15P); eukaryotic ribosome,homology
modeling,de novo modeling,ribos proteins,novel ribosomal
proteins, ribosome; 5.50A {Triticum aestivum} PDB:
3izr_O
Length = 144
Score = 88.7 bits (220), Expect = 2e-24
Identities = 3/50 (6%), Positives = 5/50 (10%)
Query: 129 SAHKTFRIKMKLAKKLKQNRPIPQWIRMRTGNTIRYNAKRRHWRRTKLKL 178
+ K + R R
Sbjct: 2 TTRFKKNRKKRGHVSAGHGRIGKHRKHPGGRGNAGGMHHHRILFDKYHPG 51
>1vq8_2 50S ribosomal protein L39E; 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: a.137.1.1 PDB: 1vq4_2*
1vq5_2* 1vq6_2* 1vq7_2* 1s72_2* 1vq9_2* 1vqk_2* 1vql_2*
1vqm_2* 1vqn_2* 1vqo_2* 1vqp_2* 1yhq_2* 1yi2_2* 1yij_2*
1yit_2* 1yj9_2* 1yjn_2* 1yjw_2* 2otj_2* ...
Length = 50
Score = 54.5 bits (130), Expect = 6e-11
Identities = 17/40 (42%), Positives = 24/40 (60%)
Query: 137 KMKLAKKLKQNRPIPQWIRMRTGNTIRYNAKRRHWRRTKL 176
K +LAK QN +P W+ ++T ++ N KRRHWRR
Sbjct: 9 KKRLAKLDNQNSRVPAWVMLKTDREVQRNHKRRHWRRNDT 48
Score = 34.4 bits (78), Expect = 0.001
Identities = 12/36 (33%), Positives = 19/36 (52%), Gaps = 2/36 (5%)
Query: 93 KMKLAKKLKQNRPIPQWIRMRTGNTISVLYHCKSRH 128
K +LAK QN +P W+ ++T + + K RH
Sbjct: 9 KKRLAKLDNQNSRVPAWVMLKTDREVQ--RNHKRRH 42
>1ffk_Y Ribosomal protein L39E; ribosome assembly, RNA-RNA, protein-RNA,
protein-protein; 2.40A {Haloarcula marismortui} SCOP:
a.137.1.1
Length = 49
Score = 47.2 bits (111), Expect = 3e-08
Identities = 15/38 (39%), Positives = 23/38 (60%)
Query: 137 KMKLAKKLKQNRPIPQWIRMRTGNTIRYNAKRRHWRRT 174
K + AK QN +P ++ ++T ++ N KRRHWRR
Sbjct: 8 KKRKAKLDNQNSRVPAYVMLKTDREVQRNHKRRHWRRN 45
Score = 29.9 bits (66), Expect = 0.067
Identities = 10/36 (27%), Positives = 18/36 (50%), Gaps = 2/36 (5%)
Query: 93 KMKLAKKLKQNRPIPQWIRMRTGNTISVLYHCKSRH 128
K + AK QN +P ++ ++T + + K RH
Sbjct: 8 KKRKAKLDNQNSRVPAYVMLKTDREVQ--RNHKRRH 41
>3e8t_A Takeout 1, takeout-like protein 1; transport protein; HET: UQ8;
1.30A {Epiphyas postvittana} PDB: 3e8w_A*
Length = 220
Score = 44.6 bits (105), Expect = 3e-06
Identities = 13/47 (27%), Positives = 18/47 (38%)
Query: 31 GTIALTFINQFWKVVYDALLPFAEEGFAKVAKPVLNKVFLSVPYEQL 77
LTF+NQ WK V + E AK + VP ++
Sbjct: 171 SDTMLTFLNQNWKQVSEEFGKPVMEAAAKKIFKNIKHFLAKVPIAEI 217
Score = 36.9 bits (85), Expect = 0.001
Identities = 5/26 (19%), Positives = 12/26 (46%)
Query: 6 CYRNSPDFNECIKNTLQSLIPKFKDG 31
+ + + + C+ + Q +P F G
Sbjct: 5 VEKCNLEDSACMTSAFQQALPTFVAG 30
>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 = 36.0 bits (82), Expect = 0.005
Identities = 27/198 (13%), Positives = 60/198 (30%), Gaps = 65/198 (32%)
Query: 7 YRNSPDFNECIKNTLQSLIPK-FKDGTIALTFINQFWKVVYDALLPFAEEGFAKVAKPVL 65
+ N I+++L L P ++ ++D L F A + +L
Sbjct: 349 HVNCDKLTTIIESSLNVLEPAEYRK--------------MFDRLSVFPPS--AHIPTILL 392
Query: 66 NKVFLSVPYEQLDQIGTNRSAHKTFRIKMKLAKKL---KQNRPIPQWIRMRTGNTISV-- 120
+ ++ V + + KL K KQ + +TIS+
Sbjct: 393 SLIWFDVIKSDVMVVVN------------KLHKYSLVEKQPKE----------STISIPS 430
Query: 121 LY-----HCKSRHSAHKTFRIKMKLAKKLKQNRPIPQWIRM-----------RTGNTIRY 164
+Y ++ ++ H++ + K + IP ++ + R
Sbjct: 431 IYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERM 490
Query: 165 NAKRR-----HWRRTKLK 177
R + K++
Sbjct: 491 TLFRMVFLDFRFLEQKIR 508
Score = 31.0 bits (69), Expect = 0.19
Identities = 42/232 (18%), Positives = 79/232 (34%), Gaps = 59/232 (25%)
Query: 1 TYAEICYRNSPDFN---EC--IKNTLQSLIPK--FKDGTIALTFINQFWKVVYDALLPFA 53
Y +I F +C +++ +S++ K ++ ++ ++ + LL
Sbjct: 17 QYKDILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRL-FWTLLSKQ 75
Query: 54 EEGFAKVAKPVLNK--VFLSVPY---------------EQLDQI-GTNRSAHKTF--RIK 93
EE K + VL FL P EQ D++ N+ K R++
Sbjct: 76 EEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQ 135
Query: 94 M--KLAKKLKQNRPIPQWIR---MR-TGNTISVLYHCKS------------------RHS 129
KL + L + RP + + +G T L C S +S
Sbjct: 136 PYLKLRQALLELRPAK-NVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNS 194
Query: 130 AHKTFRIKMKLAKKLKQN---RP-IPQWIRMRTGNTIRYNAKRRHWRRTKLK 177
+ KL ++ N R I++R ++I+ RR + +
Sbjct: 195 PETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRI-HSIQ-AELRRLLKSKPYE 244
>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 = 35.8 bits (82), Expect = 0.007
Identities = 23/160 (14%), Positives = 44/160 (27%), Gaps = 62/160 (38%)
Query: 18 KNTLQSLIPKF-----KDGTIALTFIN---QFWKVV---YDAL----------------- 49
+ +Q + K + ++ +N VV +L
Sbjct: 346 QEQVQDYVNKTNSHLPAGKQVEISLVNGAKNL--VVSGPPQSLYGLNLTLRKAKAPSGLD 403
Query: 50 ---LPFAEEGFAKVAKPVLNKVFL--SVPY------EQLDQIGTNRSAHKTFRIKMKLAK 98
+PF+E K + FL + P+ D I AK
Sbjct: 404 QSRIPFSER------KLKFSNRFLPVASPFHSHLLVPASDLI-NKDLVKNNVSFN---AK 453
Query: 99 KLKQNRPIPQW-------IRMRTGNTISVLYHCKSRHSAH 131
++ IP + +R+ +G+ + C R
Sbjct: 454 DIQ----IPVYDTFDGSDLRVLSGSISERIVDCIIRLPVK 489
>2rqf_A HJHBP, hemolymph juvenIle hormone binding protein; HET: JH3; NMR
{Bombyx mori} PDB: 3a1z_A 3aos_A* 3aot_A*
Length = 227
Score = 31.6 bits (71), Expect = 0.095
Identities = 4/31 (12%), Positives = 10/31 (32%), Gaps = 3/31 (9%)
Query: 1 TYAEICYRNSPDFNECIKNTLQSLIPKFKDG 31
+ C +C+ + + + K G
Sbjct: 6 ALLKPCKLGD---MQCLSSATEQFLEKTSKG 33
>2rck_A JuvenIle hormone binding protein; hemolymph, JHBP-fold; HET: NAG;
2.44A {Galleria mellonella}
Length = 225
Score = 29.7 bits (66), Expect = 0.40
Identities = 6/26 (23%), Positives = 8/26 (30%), Gaps = 3/26 (11%)
Query: 6 CYRNSPDFNECIKNTLQSLIPKFKDG 31
C + ECI Q + G
Sbjct: 10 CDVSDI---ECISKATQVFLDNTYQG 32
>2odp_A Complement C2; C3/C5 convertase, complement serin protease, human
complement system, glycoprotein, SP, VWFA,; HET: NAG;
1.90A {Homo sapiens} PDB: 2odq_A* 2i6q_A* 2i6s_A*
Length = 509
Score = 26.5 bits (58), Expect = 5.7
Identities = 17/112 (15%), Positives = 34/112 (30%), Gaps = 22/112 (19%)
Query: 12 DFNECIKNTLQSLIPKFKDGTIALTFINQFWKVVYDALLPFAEE---------GFAKVAK 62
DF K + ++ + I ++ A++ FA E ++
Sbjct: 26 DFLIF-KESASLMVDRIFSFEINVSV----------AIITFASEPKVLMSVLNDNSRDMT 74
Query: 63 PVLNKVFLSVPY-EQLDQIGTNRSAHKTFRIKMKLAKKLKQNRPIPQWIRMR 113
V++ + Y + + GTN A M + W +R
Sbjct: 75 EVISS-LENANYKDHENGTGTNTYAALNSVYLMMNNQMRLLGMETMAWQEIR 125
>1u6e_A 3-oxoacyl-[acyl-carrier-protein] synthase III; transferase; 1.85A
{Mycobacterium tuberculosis} SCOP: c.95.1.2 c.95.1.2
PDB: 1u6s_A* 1m1m_A 1hzp_A* 2qnx_A* 2qnz_A* 2qo1_A*
2qx1_A* 2qo0_A* 2qny_A* 2ahb_A 2aj9_A
Length = 335
Score = 25.9 bits (58), Expect = 7.4
Identities = 7/20 (35%), Positives = 10/20 (50%), Gaps = 6/20 (30%)
Query: 152 QWIRMRTGNTIRYNAKRRHW 171
+WI RTG I+ R +
Sbjct: 41 EWIYTRTG--IK----TRRF 54
>2uxt_A Protein SUFI, SUFI; oxidoreductase, periplasmic, cupredoxin-like,
FTS mutant suppressor; 1.90A {Escherichia coli} PDB:
2uxv_A
Length = 451
Score = 26.1 bits (57), Expect = 8.1
Identities = 7/24 (29%), Positives = 11/24 (45%)
Query: 149 PIPQWIRMRTGNTIRYNAKRRHWR 172
P+P + R G + +R HW
Sbjct: 8 PVPPLLESRRGQPLFMTVQRAHWS 31
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
0.324 0.136 0.422
Gapped
Lambda K H
0.267 0.0641 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,716,062
Number of extensions: 146023
Number of successful extensions: 500
Number of sequences better than 10.0: 1
Number of HSP's gapped: 497
Number of HSP's successfully gapped: 23
Length of query: 178
Length of database: 6,701,793
Length adjustment: 87
Effective length of query: 91
Effective length of database: 4,272,666
Effective search space: 388812606
Effective search space used: 388812606
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 (24.8 bits)