RPS-BLAST 2.2.26 [Sep-21-2011]

Database: pdb70 
           27,921 sequences; 6,701,793 total letters

Searching..................................................done

Query= psy11271
         (78 letters)



>3iz5_N 60S ribosomal protein L14 (L14E); eukaryotic ribosome,homology
          modeling,de novo modeling,ribos proteins,novel
          ribosomal proteins, ribosome; 5.50A {Triticum aestivum}
          PDB: 3izr_N
          Length = 134

 Score = 95.9 bits (239), Expect = 2e-28
 Identities = 3/77 (3%), Positives = 13/77 (16%), Gaps = 8/77 (10%)

Query: 1  MPREIKEIKEFLLKARRKDAKSVTIKRNISKNKDKKPDNTKFKVRCSRFLYTLVITDNEK 60
          MP +       +            +               + +             + ++
Sbjct: 1  MPFKRFVEIGRVALVNYGKDYGRLVV--------IVDVVDQNRALVDAPDMVRCQINFKR 52

Query: 61 AEKLKQSLPPGLQVKEI 77
                 +      K+ 
Sbjct: 53 LSLTDIKIDIKRVPKKT 69


>3izc_n 60S ribosomal protein RPL38 (L38E); eukaryotic ribosome,homology
          modeling,de novo modeling,ribos proteins,novel
          ribosomal proteins; NMR {Saccharomyces cerevisiae} PDB:
          3izs_n 3u5e_k 3u5i_k
          Length = 78

 Score = 93.1 bits (231), Expect = 4e-27
 Identities = 44/78 (56%), Positives = 51/78 (65%), Gaps = 1/78 (1%)

Query: 1  MPREIKEIKEFLLKARRKDAKSVTIKRNISKNKDKKP-DNTKFKVRCSRFLYTLVITDNE 59
          M REI +IK+FL   RR D K+ T+K N   NK  KP   TKFKVR S  LYTLVI D  
Sbjct: 1  MAREITDIKQFLELTRRADVKTATVKINKKLNKAGKPFRQTKFKVRGSSSLYTLVINDAG 60

Query: 60 KAEKLKQSLPPGLQVKEI 77
          KA+KL QSLPP L+V  +
Sbjct: 61 KAKKLIQSLPPTLKVNRL 78


>4a18_P RPL38, ribosomal protein L22; ribosome, eukaryotic initiation
          factor 6, EIF6, transla large ribosomal subunit, rRNA;
          3.52A {Tetrahymena thermophila} PDB: 4a19_P 4a1b_P
          4a1d_P
          Length = 89

 Score = 54.1 bits (129), Expect = 1e-11
 Identities = 23/78 (29%), Positives = 36/78 (46%)

Query: 1  MPREIKEIKEFLLKARRKDAKSVTIKRNISKNKDKKPDNTKFKVRCSRFLYTLVITDNEK 60
          MP+EI +IK+F+   +       T               TKFK+R  ++LYT    D + 
Sbjct: 1  MPKEITDIKKFMKLWQNNKDTPATAGAKKVVYVKTNKRITKFKLRGKKYLYTFKTADPKI 60

Query: 61 AEKLKQSLPPGLQVKEIK 78
          A+ +K ++P      EIK
Sbjct: 61 AKGIKDAIPATYSKIEIK 78


>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 = 28.8 bits (63), Expect = 0.12
 Identities = 9/26 (34%), Positives = 11/26 (42%), Gaps = 9/26 (34%)

Query: 59 EKAE--KLKQSL----P---PGLQVK 75
          EK    KL+ SL        P L +K
Sbjct: 18 EKQALKKLQASLKLYADDSAPALAIK 43


>2owm_A Nckin3-434, related to kinesin-like protein KIF1C; motor domain,
           ADP, NECK linker, motor PR; HET: ADP; 3.25A {Neurospora
           crassa}
          Length = 443

 Score = 25.4 bits (56), Expect = 2.3
 Identities = 14/55 (25%), Positives = 23/55 (41%), Gaps = 15/55 (27%)

Query: 29  ISKNKDKKPDNTKFKVRCSRFL--YTLVITDNEK-----AEKLKQSLPPGLQVKE 76
           I+  +D+ P N  + V+ S +   Y      NE      A  +    P  L+V+E
Sbjct: 175 IASAQDETP-NISYNVKVS-YFEVY------NEHVRDLLAPVVPNKPPYYLKVRE 221


>3ne5_A Cation efflux system protein CUSA; transmembrane helix, metal
           transport; 2.90A {Escherichia coli} PDB: 3k07_A 3k0i_A
           3kso_A 3kss_A
          Length = 1054

 Score = 24.1 bits (53), Expect = 5.7
 Identities = 8/17 (47%), Positives = 12/17 (70%)

Query: 59  EKAEKLKQSLPPGLQVK 75
           +K E LK SLP G+++ 
Sbjct: 313 DKLETLKSSLPEGVEIV 329


>3nrw_A Phage integrase/site-specific recombinase; alpha-helical domain,
          structural genomics, PSI-2, protein ST initiative;
          1.70A {Haloarcula marismortui}
          Length = 117

 Score = 23.5 bits (51), Expect = 7.2
 Identities = 4/23 (17%), Positives = 8/23 (34%)

Query: 8  IKEFLLKARRKDAKSVTIKRNIS 30
          + E+    R  D    T+   + 
Sbjct: 59 LDEYETFRRGSDVSPATLNGEMQ 81


>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 = 24.0 bits (51), Expect = 7.6
 Identities = 7/24 (29%), Positives = 14/24 (58%), Gaps = 2/24 (8%)

Query: 2   PREIKEIKEFLLKARRKDAKSVTI 25
            +   ++++ LL+ R   AK+V I
Sbjct: 134 LQPYLKLRQALLELR--PAKNVLI 155


>2gxq_A Heat resistant RNA dependent ATPase; RNA helicase, atomic
           resolution, AMP complex, ribosome biogenesis,
           thermophilic, hydrolase; HET: AMP; 1.20A {Thermus
           thermophilus HB27} PDB: 2gxs_A* 2gxu_A 3mwj_A 3mwk_A*
           3mwl_A* 3nbf_A* 3nej_A
          Length = 207

 Score = 23.7 bits (52), Expect = 8.2
 Identities = 4/27 (14%), Positives = 11/27 (40%), Gaps = 4/27 (14%)

Query: 1   MPREIKEIKEFLLKARRKDAKSVTIKR 27
           +P   K + E  +    K+   + + +
Sbjct: 185 LPSWAKRLAERYM----KNPVLINVIK 207


  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
   0.314    0.132    0.355 

Gapped
Lambda     K      H
   0.267   0.0455    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,099,569
Number of extensions: 48637
Number of successful extensions: 117
Number of sequences better than 10.0: 1
Number of HSP's gapped: 115
Number of HSP's successfully gapped: 22
Length of query: 78
Length of database: 6,701,793
Length adjustment: 47
Effective length of query: 31
Effective length of database: 5,389,506
Effective search space: 167074686
Effective search space used: 167074686
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: 42 (22.0 bits)
S2: 51 (24.1 bits)