RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy4327
(187 letters)
>3izc_j 60S ribosomal protein RPL33 (L35AE); eukaryotic ribosome,homology
modeling,de novo modeling,ribos proteins,novel ribosomal
proteins; NMR {Saccharomyces cerevisiae} PDB: 3izs_j
3u5e_f 3u5i_f
Length = 107
Score = 143 bits (361), Expect = 7e-45
Identities = 52/111 (46%), Positives = 69/111 (62%), Gaps = 6/111 (5%)
Query: 77 RHGRLYARAIFTGFKRGQRNQHPNTSLLAIEKCNTKEDARFYVGKRCVFLYKAKTKELKP 136
RLY + ++R +R +PN SL+ IE T +DA+FY+GKR ++Y+A +
Sbjct: 3 ESHRLYVKGKHLSYQRSKRVNNPNVSLIKIEGVATPQDAQFYLGKRIAYVYRASKE---- 58
Query: 137 HSKRKSRLRAIWGKVTRPHGSSGSVRAKFHRNLPAIYMGRKVRIMLYPSNI 187
R S++R +WGKVTR HG+SG VRA F NLPA G VRI LYPSNI
Sbjct: 59 --VRGSKIRVMWGKVTRTHGNSGVVRATFRNNLPAKTFGASVRIFLYPSNI 107
>3iz5_J 60S ribosomal protein L12 (L11P); eukaryotic ribosome,homology
modeling,de novo modeling,ribos proteins,novel ribosomal
proteins, ribosome; 5.50A {Triticum aestivum} PDB:
3izr_J
Length = 166
Score = 141 bits (357), Expect = 3e-44
Identities = 8/111 (7%), Positives = 20/111 (18%), Gaps = 6/111 (5%)
Query: 77 RHGRLYARAIFTGFKRGQRNQHPNTSLLAIEKCNTKEDARFYVGKRCVFLYKAKTKELKP 136
+ TG + G + + + + K
Sbjct: 7 PTQVVDVFVRVTGGEVGAASSLAPKIGPLGLSPKKIGEDIAKETAKDWKGLRVTVK---- 62
Query: 137 HSKRKSRLRAIWGKVTRPHGSSGSVRAKFHRNLPAIYMGRKVRIMLYPSNI 187
+A V + R+ + + + I
Sbjct: 63 --LTVQNRQAKVSVVPSAAALVIKALKEPERDRKKVKNIKHSGNISLDDVI 111
>4a18_H RPL35A; ribosome, eukaryotic initiation factor 6, EIF6, transla
large ribosomal subunit, rRNA; 3.52A {Tetrahymena
thermophila} PDB: 4a19_H 4a1b_H 4a1d_H
Length = 113
Score = 135 bits (340), Expect = 1e-41
Identities = 46/117 (39%), Positives = 68/117 (58%), Gaps = 7/117 (5%)
Query: 69 KKHKRLRLRHGRLYARAIFTGFKRGQRNQHPNTSLLAIEKCNTKEDARFYVGKRCVFLYK 128
K + RL+ +A FTGF+R + Q+ N +LL ++ NTKED FY GKR V++YK
Sbjct: 2 AKTSTSPVAPTRLWVKAAFTGFRRSKHTQNSNQALLKLQNVNTKEDVAFYQGKRVVYIYK 61
Query: 129 AKTKELKPHSKRKSRLRAIWGKVTRPHGSSGSVRAKFHRNLPAIYMGRKVRIMLYPS 185
+ K S R IWG++ + HG++G A+F NLP +G +R+MLYP+
Sbjct: 62 GQ-------KKNGSNYRTIWGRIGKAHGNNGVAVARFAHNLPPQAIGSVLRVMLYPN 111
>1sqr_A 50S ribosomal protein L35AE; PFR48, structure, autostructure,
northeast structural genomics consortium, beta-barrel;
NMR {Pyrococcus furiosus} SCOP: b.43.3.3 PDB: 2lp6_A
Length = 95
Score = 128 bits (324), Expect = 2e-39
Identities = 25/107 (23%), Positives = 51/107 (47%), Gaps = 14/107 (13%)
Query: 81 LYARAIFTGFKRGQRNQHPNTSLLAIEKCNTKEDARFYVGKRCVFLYKAKTKELKPHSKR 140
+ + + ++R + NQH N ++ N++E+A +G+ ++ +
Sbjct: 1 MRIKGVVLSYRRSKENQHNNVMIIKPLDVNSREEASKLIGRLVLWKSPSG---------- 50
Query: 141 KSRLRAIWGKVTRPHGSSGSVRAKFHRNLPAIYMGRKVRIMLYPSNI 187
+ + GK+ R HG+ G+VRA+F + LP +G V I+L +
Sbjct: 51 ----KILKGKIVRVHGTKGAVRARFEKGLPGQALGDYVEIVLEHHHH 93
>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 = 38.1 bits (88), Expect = 0.001
Identities = 29/155 (18%), Positives = 43/155 (27%), Gaps = 76/155 (49%)
Query: 80 RLYARAI----FTGFKRGQRNQHPNTSL-------------------LA----------- 105
+AI F G R +PNTSL L+
Sbjct: 294 VSVRKAITVLFFIGV-RCYE-AYPNTSLPPSILEDSLENNEGVPSPMLSISNLTQEQVQD 351
Query: 106 -IEKCNTK--EDARFYV----GKRCVF--------LY---------KAKTKELK---PHS 138
+ K N+ + + G + LY KA + + P S
Sbjct: 352 YVNKTNSHLPAGKQVEISLVNGAKN-LVVSGPPQSLYGLNLTLRKAKAPSGLDQSRIPFS 410
Query: 139 KRKSRLRAIWGKVTRPHGSSGSVRAKFHRNL--PA 171
+RK + + V P FH +L PA
Sbjct: 411 ERKLKFSNRFLPVASP----------FHSHLLVPA 435
Score = 31.9 bits (72), Expect = 0.13
Identities = 28/146 (19%), Positives = 45/146 (30%), Gaps = 52/146 (35%)
Query: 72 KRLRLRHGRLYARAIFTG-FKRGQRNQHPNTSLL---AIEKCNTKEDAR----------F 117
K L G L R+ G Q L+ AI + ++ E F
Sbjct: 254 KLLGFTPGEL--RSYLKGATGHSQ-------GLVTAVAIAETDSWESFFVSVRKAITVLF 304
Query: 118 YVGKRCVFLYKAKTKELKPHSKRKSRLRAIWGKVTRPHGSSG---SVR-----------A 163
++G RC E P++ + + G S+
Sbjct: 305 FIGVRC--------YEAYPNTSLPPSILED--SLENNEGVPSPMLSISNLTQEQVQDYVN 354
Query: 164 KFHRNLPAIYMGRKVRIMLY--PSNI 187
K + +LPA G++V I L N+
Sbjct: 355 KTNSHLPA---GKQVEISLVNGAKNL 377
>1qy5_A Endoplasmin; GRP94, NECA, HSP90, chaperone; HET: NEC; 1.75A {Canis
lupus familiaris} SCOP: d.122.1.1 PDB: 1qy8_A* 1qye_A*
1u0y_A* 1yt2_A*
Length = 269
Score = 30.3 bits (69), Expect = 0.34
Identities = 13/47 (27%), Positives = 20/47 (42%)
Query: 22 VKKDEKKKVAKPKTPKTGEEKKVAKKATATTPSKDAKATDTKKVKKT 68
K E + + EEK+ + A ++ K TKKV+KT
Sbjct: 215 SSKTETVEEPMEEEEAAKEEKEDSDDEAAVEEEEEEKKPKTKKVEKT 261
>1tt5_B Ubiquitin-activating enzyme E1C isoform 1; cell cycle, ligase;
2.60A {Homo sapiens} SCOP: c.111.1.2 PDB: 3dbl_B 3dbr_B
3dbh_B 3gzn_B* 1yov_B 1r4m_B 1r4n_B*
Length = 434
Score = 28.0 bits (62), Expect = 2.0
Identities = 6/27 (22%), Positives = 10/27 (37%)
Query: 114 DARFYVGKRCVFLYKAKTKELKPHSKR 140
AR ++ + L + L P S
Sbjct: 141 IARRWINGMLISLLNYEDGVLDPSSIV 167
>3idb_B CAMP-dependent protein kinase type II-beta regulatory subunit,
CAMP-dependent protein kinase catalytic subunit alpha;
PKA, SPR, affinity; HET: TPO SEP ANP; 1.62A {Rattus
norvegicus} PDB: 3idc_B*
Length = 161
Score = 27.3 bits (61), Expect = 2.2
Identities = 10/42 (23%), Positives = 19/42 (45%)
Query: 12 RVSVMAAATEVKKDEKKKVAKPKTPKTGEEKKVAKKATATTP 53
R SV A A ++E ++ PKT +++ ++A
Sbjct: 3 RASVCAEAYNPDEEEDDAESRIIHPKTDDQRNRLQEACKDIL 44
>3tnp_B CAMP-dependent protein kinase type II-beta regula subunit; PKA RIIB
tetrameric holoenzyme, transferase; HET: SEP TPO; 2.30A
{Mus musculus} PDB: 3tnq_A* 1cx4_A* 2qvs_B*
Length = 416
Score = 27.0 bits (59), Expect = 3.8
Identities = 10/42 (23%), Positives = 19/42 (45%)
Query: 12 RVSVMAAATEVKKDEKKKVAKPKTPKTGEEKKVAKKATATTP 53
R SV A A ++E ++ PKT +++ ++A
Sbjct: 110 RASVCAEAYNPDEEEDDAESRIIHPKTDDQRNRLQEACKDIL 151
>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 = 6.3
Identities = 9/28 (32%), Positives = 12/28 (42%), Gaps = 8/28 (28%)
Query: 41 EKKVAKK--------ATATTPSKDAKAT 60
EK+ KK A + P+ KAT
Sbjct: 18 EKQALKKLQASLKLYADDSAPALAIKAT 45
>3kio_B Ribonuclease H2 subunit B; aicardi-goutieres syndrome, RNAse H2,
protein complex, autoimmune disease, endonuclease,
hydrolase, metal-binding; 2.90A {Mus musculus} PDB:
3p5j_B 3puf_B 3p56_B
Length = 332
Score = 26.3 bits (57), Expect = 7.2
Identities = 11/61 (18%), Positives = 20/61 (32%), Gaps = 5/61 (8%)
Query: 19 ATEVKKDEKKKVAKPKTPKTGEEKKVAKKATATTPSKDAKATDTKKV-----KKTKKHKR 73
++ + K+ K T KK +K A + K + K KK +
Sbjct: 272 LSDEPVEAKEDYTKFNTKDLKTGKKNSKMTAAQKALAKVDKSGMKSIDAFFGAKNKKTGK 331
Query: 74 L 74
+
Sbjct: 332 I 332
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
0.317 0.129 0.369
Gapped
Lambda K H
0.267 0.0602 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,679,547
Number of extensions: 144611
Number of successful extensions: 334
Number of sequences better than 10.0: 1
Number of HSP's gapped: 321
Number of HSP's successfully gapped: 32
Length of query: 187
Length of database: 6,701,793
Length adjustment: 88
Effective length of query: 99
Effective length of database: 4,244,745
Effective search space: 420229755
Effective search space used: 420229755
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 54 (24.9 bits)