RPS-BLAST 2.2.26 [Sep-21-2011]

Database: scop70_1_75 
           13,730 sequences; 2,407,596 total letters

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

Query= 022312
         (299 letters)



>d2gycc1 c.22.1.1 (C:1-198) Ribosomal protein L4 {Escherichia coli
           [TaxId: 562]}
          Length = 198

 Score =  138 bits (349), Expect = 7e-41
 Identities = 58/168 (34%), Positives = 92/168 (54%), Gaps = 2/168 (1%)

Query: 108 NEDKGFMVLAGDVFDVPIRKDIIHRVVRWQLAKRQQGTHSTKTISEVSGTGKKPWRQKGT 167
            + +  + ++   F     + ++H+VV    A  +QGT + KT +EV+G+GKKPWRQKGT
Sbjct: 6   KDAQSALTVSETTFGRDFNEALVHQVVVAYAAGARQGTRAQKTRAEVTGSGKKPWRQKGT 65

Query: 168 GRARHGTLRGPQFRGGTTMHGPKPRSHAIKLNKKVRRLGLKIALSARAAEGKLLVFEDLE 227
           GRAR G+++ P +R G      +P+ H+ K+NKK+ R  LK  LS    + +L+V E   
Sbjct: 66  GRARSGSIKSPIWRSGGVTFAARPQDHSQKVNKKMYRGALKSILSELVRQDRLIVVEKFS 125

Query: 228 VPSHKTKFIVNYYNQMENTKKVLLCDGGCIHEKLKLATQNLHYVNVLP 275
           V + KTK +      M     +++      +  L LA +NLH V+V  
Sbjct: 126 VEAPKTKLLAQKLKDMALEDVLIITGELDEN--LFLAARNLHKVDVRD 171


>d1dmga_ c.22.1.1 (A:) Ribosomal protein L4 {Thermotoga maritima
           [TaxId: 2336]}
          Length = 225

 Score =  137 bits (346), Expect = 3e-40
 Identities = 73/179 (40%), Positives = 107/179 (59%), Gaps = 3/179 (1%)

Query: 101 IPVTNFFNEDKGFMVLAGDVFDVPIRKDIIHRVVRWQLAKRQQGTHSTKTISEVSGTGKK 160
           + + N   E  G + ++  VF++    D++ R V  QL+ R+ GT STKT  EVSG G+K
Sbjct: 3   VDLLNVKGEKVGTLEISDFVFNIDPNYDVMWRYVDMQLSNRRAGTASTKTRGEVSGGGRK 62

Query: 161 PWRQKGTGRARHGTLRGPQFRGGTTMHGPKPRSHAIKLNKKVRRLGLKIALSARAAEGKL 220
           PW QK TGRARHG++R P +R G  +HGPKPR  + KLNKK+++L L+ ALS +  E KL
Sbjct: 63  PWPQKHTGRARHGSIRSPIWRHGGVVHGPKPRDWSKKLNKKMKKLALRSALSVKYRENKL 122

Query: 221 LVFEDLEVPSHKTKFIVNYYNQMENTKKVLLCDGGCIHE---KLKLATQNLHYVNVLPS 276
           LV +DL++   KTK +      ++ + K  L       E    +KL+ +NL  V V+ +
Sbjct: 123 LVLDDLKLERPKTKSLKEILQNLQLSDKKTLIVLPWKEEGYMNVKLSGRNLPDVKVIIA 181


>d2zjrc1 c.22.1.1 (C:2-198) Ribosomal protein L4 {Deinococcus
           radiodurans [TaxId: 1299]}
          Length = 197

 Score =  129 bits (324), Expect = 3e-37
 Identities = 58/159 (36%), Positives = 91/159 (57%), Gaps = 1/159 (0%)

Query: 117 AGDVFDVPIRKDIIHRVVRWQLAKRQQGTHSTKTISEVSGTGKKPWRQKGTGRARHGTLR 176
             ++    +   ++H VV WQLA R++GT ST+T ++VS TG+K + QKGTG ARHG   
Sbjct: 13  TIELPLPEVNSGVLHEVVTWQLASRRRGTASTRTRAQVSKTGRKMYGQKGTGNARHGDRS 72

Query: 177 GPQFRGGTTMHGPKPRSHAIKLNKKVRRLGLKIALSARAAEGKLLVFEDLEVPSHKTKFI 236
            P F GG    GPKPRS+   L ++VR+LGL +A+++R   GKL+  +  ++   KTK  
Sbjct: 73  VPTFVGGGVAFGPKPRSYDYTLPRQVRQLGLAMAIASRQEGGKLVAVDGFDIADAKTKNF 132

Query: 237 VNYYNQMENTKKVLLCDGGCIHEKLKLATQNLHYVNVLP 275
           +++  Q        +          + A +N+ +V+VLP
Sbjct: 133 ISWAKQNGLDGTEKVLLVTDDE-NTRRAARNVSWVSVLP 170


>d1vqoc1 c.22.1.1 (C:1-246) Ribosomal protein L4 {Archaeon
           Haloarcula marismortui [TaxId: 2238]}
          Length = 246

 Score =  126 bits (316), Expect = 2e-35
 Identities = 43/213 (20%), Positives = 76/213 (35%), Gaps = 39/213 (18%)

Query: 101 IPVTNFFNEDKGFMVLAGDVFDVPIRKDIIHRVVRWQLAKRQQGTHSTKT--ISEVSGTG 158
             + +      G + L  DVF+ P+R D+I + VR   A R+Q   S +   +   + + 
Sbjct: 3   ATIYDLDGNTDGEVDLP-DVFETPVRSDLIGKAVRAAQANRKQDYGSDEYAGLRTPAESF 61

Query: 159 KKPWRQKGTGRARHGTLRGPQFRGGTTMHGPKP-RSHAIKLNKKVRRLGLKIALSARAAE 217
                Q    +      R PQ   G + H PK  +  ++ LN K R+L ++ AL+A A  
Sbjct: 62  GSGRGQAHVPKLDGRARRVPQAVKGRSAHPPKTEKDRSLDLNDKERQLAVRSALAATADA 121

Query: 218 GKL-------------LVFEDLEVPSHKTKFIVNYYNQMENTKKVLLCDGGCIH------ 258
             +             +V  D      KT+ +V+    ++    +   D   I       
Sbjct: 122 DLVADRGHEFDRDEVPVVVSDDFEDLVKTQEVVSLLEALDVHADIDRADETKIKAGQGSA 181

Query: 259 ----------------EKLKLATQNLHYVNVLP 275
                           ++   A +NL   +V  
Sbjct: 182 RGRKYRRPASILFVTSDEPSTAARNLAGADVAT 214


>d2j01f1 c.22.1.1 (F:1-208) Ribosomal protein L4 {Thermus
           thermophilus [TaxId: 274]}
          Length = 208

 Score =  114 bits (285), Expect = 2e-31
 Identities = 70/175 (40%), Positives = 96/175 (54%), Gaps = 6/175 (3%)

Query: 101 IPVTNFFNEDKGFMVLAGDVFDVPIRKDIIHRVVRWQLAKRQQGTHSTKTISEVSGTGKK 160
           IPV +      G   LA       I   ++  VVRWQLAKR++GT STKT  EV+ +G+K
Sbjct: 9   IPVLSP----SGRRELA-ADLPAEINPHLLWEVVRWQLAKRRRGTASTKTRGEVAYSGRK 63

Query: 161 PWRQKGTGRARHGTLRGPQFRGGTTMHGPKPRSHAIKLNKKVRRLGLKIALSARAAEGKL 220
            W QK TGRARHG +  P F GG  + GPKPR ++  L KKVR+ GL +A++ RA EGKL
Sbjct: 64  IWPQKHTGRARHGDIGAPIFVGGGVVFGPKPRDYSYTLPKKVRKKGLAMAVADRAREGKL 123

Query: 221 LVFEDLEVPSHKTKFIVNYYNQMENTKKVLLCDGGCIHEKLKLATQNLHYVNVLP 275
           L+ E     + KTK  + +  +               +E ++ A +NL +V  L 
Sbjct: 124 LLVEAFAGVNGKTKEFLAWAKEAGLDGSE-SVLLVTGNELVRRAARNLPWVVTLA 177


>d1shwb_ b.18.1.4 (B:) Ligand-binding domain of the ephb2 receptor
           tyrosine kinase {Mouse (Mus musculus) [TaxId: 10090]}
          Length = 181

 Score = 25.9 bits (57), Expect = 4.8
 Identities = 11/24 (45%), Positives = 16/24 (66%)

Query: 272 NVLPSVVRSTTQSFLIYYYFLDFD 295
           + +PSV  S  ++F +YYY  DFD
Sbjct: 80  SSIPSVPGSCKETFNLYYYEADFD 103


  Database: scop70_1_75
    Posted date:  Mar 27, 2010  6:21 PM
  Number of letters in database: 2,407,596
  Number of sequences in database:  13,730
  
Lambda     K      H
   0.322    0.138    0.407 

Gapped
Lambda     K      H
   0.267   0.0523    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 13730
Number of Hits to DB: 1,106,686
Number of extensions: 49896
Number of successful extensions: 99
Number of sequences better than 10.0: 1
Number of HSP's gapped: 92
Number of HSP's successfully gapped: 8
Length of query: 299
Length of database: 2,407,596
Length adjustment: 85
Effective length of query: 214
Effective length of database: 1,240,546
Effective search space: 265476844
Effective search space used: 265476844
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 (21.9 bits)
S2: 53 (24.7 bits)