RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy7895
         (108 letters)



>1nvp_D Transcription initiation factor IIA gamma chain; transcription
           regulation, DNA, complex, transcription/DNA complex;
           2.10A {Homo sapiens} SCOP: a.32.1.1 b.56.1.1
          Length = 108

 Score =  158 bits (400), Expect = 5e-52
 Identities = 74/106 (69%), Positives = 90/106 (84%), Gaps = 1/106 (0%)

Query: 2   SYQLYRNTTLGNTLQESLDELIQYGTITPTLAMKVLLQFDKSINGALPSKVKSRLTFKSG 61
           +YQLYRNTTLGN+LQESLDELIQ   ITP LA++VLLQFDK+IN AL  +V++R+ F+ G
Sbjct: 1   AYQLYRNTTLGNSLQESLDELIQSQQITPQLALQVLLQFDKAINAALAQRVRNRVNFR-G 59

Query: 62  KLNTYRFCDNVWTFVLTDVEFREVAEIARVNKLKIVACDGKSSDDR 107
            LNTYRFCDNVWTFVL DVEFREV E+ +V+K+KIVACDGK++   
Sbjct: 60  SLNTYRFCDNVWTFVLNDVEFREVTELIKVDKVKIVACDGKNTGSN 105


>1nh2_D Transcription initiation factor IIA small chain; transcription/DNA;
           HET: 5IU; 1.90A {Saccharomyces cerevisiae} SCOP:
           a.32.1.1 b.56.1.1 PDB: 1ytf_D* 1rm1_B
          Length = 121

 Score =  145 bits (366), Expect = 1e-46
 Identities = 47/117 (40%), Positives = 70/117 (59%), Gaps = 15/117 (12%)

Query: 3   YQLYRNTTLGNTLQESLDELIQYGTITPTLAMKVLLQFDKSINGALPSKVKSRLTFKSGK 62
           Y+LYR +T+GN+L ++LD LI  G I  +LAM+VL  FDK +   L    +S+LT K G 
Sbjct: 6   YELYRRSTIGNSLVDALDTLISDGRIEASLAMRVLETFDKVVAETLKDNTQSKLTVK-GN 64

Query: 63  LNTYRFCDNVWTFVLTDVEFR--------------EVAEIARVNKLKIVACDGKSSD 105
           L+TY FCD+VWTF++ + +                +   +  V+KL+IVAC+ K S+
Sbjct: 65  LDTYGFCDDVWTFIVKNCQVTVEDSHRDASQNGSGDSQSVISVDKLRIVACNSKKSE 121


>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 = 29.1 bits (64), Expect = 0.18
 Identities = 10/26 (38%), Positives = 15/26 (57%), Gaps = 4/26 (15%)

Query: 15 LQESLDELIQYGTIT-PTLAMKVLLQ 39
          LQ SL +L  Y   + P LA+K  ++
Sbjct: 25 LQASL-KL--YADDSAPALAIKATME 47


>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 = 27.1 bits (59), Expect = 1.2
 Identities = 22/114 (19%), Positives = 36/114 (31%), Gaps = 32/114 (28%)

Query: 10  TLGNTLQ-ESLDELIQ--YGTITPTLAMKVLLQFDKSINGALPSK-VKSRLT--FKSGKL 63
            L N    E++ E++Q     I P    +     D S N  L    +++ L    KS   
Sbjct: 188 NLKNCNSPETVLEMLQKLLYQIDPNWTSRS----DHSSNIKLRIHSIQAELRRLLKS--- 240

Query: 64  NTYRFC----DNVW-------------TFVLTDVEFREVAEIARVNKLKIVACD 100
             Y  C     NV                + T   F++V +         ++ D
Sbjct: 241 KPYENCLLVLLNVQNAKAWNAFNLSCKILLTT--RFKQVTDFLSAATTTHISLD 292


>1gpl_A RP2 lipase; serine esterase, hydrolase, lipid degradation,
           pancreas, glycoprotein, chimeric; 2.01A {Cavia
           porcellus} SCOP: b.12.1.2 c.69.1.19 PDB: 1lpb_B* 1lpa_B*
           1n8s_A
          Length = 432

 Score = 26.1 bits (57), Expect = 2.9
 Identities = 8/61 (13%), Positives = 20/61 (32%), Gaps = 6/61 (9%)

Query: 10  TLGNTLQESLDELIQYGTITPTLAMKVLLQFDKSINGALPSKVK-SRLTFKSGKLNTYRF 68
              +T     D  +  G +       V   +  ++      +V  S++  ++     + F
Sbjct: 361 KPDSTHSNEFDSDVDVGDL-----QMVKFIWYNNVINPTLPRVGASKIIVETNVGKQFNF 415

Query: 69  C 69
           C
Sbjct: 416 C 416


>2oap_1 GSPE-2, type II secretion system protein; hexameric ATPase,
           hydrolase; HET: ANP; 2.95A {Archaeoglobus fulgidus} PDB:
           2oaq_1
          Length = 511

 Score = 25.9 bits (57), Expect = 3.0
 Identities = 5/29 (17%), Positives = 14/29 (48%), Gaps = 2/29 (6%)

Query: 18  SLDELIQYGTITPTLA--MKVLLQFDKSI 44
           +  +LI+ GT+   +   + + ++   S 
Sbjct: 235 TPIDLIEKGTVPSGVLAYLWLAIEHKFSA 263


>2vd8_A Alanine racemase; pyridoxal 5'-phosphate, peptidoglycan synthesis,
           PLP, OPPF, L-alanine, isomerase, D- alanine, pyridoxal
           phosphate; HET: MLY LLP; 1.47A {Bacillus anthracis} PDB:
           2vd9_A* 3ha1_A*
          Length = 391

 Score = 25.7 bits (56), Expect = 4.1
 Identities = 3/22 (13%), Positives = 9/22 (40%), Gaps = 1/22 (4%)

Query: 11  LGNTLQESLDELIQYGTITPTL 32
           LG +    ++   +   +  T+
Sbjct: 89  LGPSPPRDINVAAEND-VALTV 109


>3rcn_A Beta-N-acetylhexosaminidase; structural genomics, PSI-biology,
           midwest center for structu genomics, MCSG, alpha-beta
           half sandwich; HET: MSE; 2.51A {Arthrobacter aurescens}
          Length = 543

 Score = 25.1 bits (55), Expect = 6.6
 Identities = 7/24 (29%), Positives = 8/24 (33%), Gaps = 9/24 (37%)

Query: 65  TYRFCDNVWTFVLTDVEFREVAEI 88
           +  F  NV           EV EI
Sbjct: 290 SLEFYRNV---------LDEVVEI 304


  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
   0.319    0.133    0.378 

Gapped
Lambda     K      H
   0.267   0.0686    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,545,576
Number of extensions: 76135
Number of successful extensions: 175
Number of sequences better than 10.0: 1
Number of HSP's gapped: 172
Number of HSP's successfully gapped: 10
Length of query: 108
Length of database: 6,701,793
Length adjustment: 72
Effective length of query: 36
Effective length of database: 4,691,481
Effective search space: 168893316
Effective search space used: 168893316
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 (21.8 bits)
S2: 51 (23.5 bits)