BLASTP 2.2.9 [May-01-2004]

Reference:
Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schäffer, 
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), 
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs",  Nucleic Acids Res. 25:3389-3402.

RID: 1097570767-22253-25497443947.BLASTQ4

Query= 
         (249 letters)


Database: PDB protein database 
           18,695 sequences; 4,163,319 total letters

 
If you have any problems or questions with the results of this search 
please refer to the BLAST FAQs

Taxonomy reports

Related Structures

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|52695604|pdb|1T0T|Z  Chain Z, Crystallographic Structure ...   268   8e-73 
gi|49259066|pdb|1SMY|P  Chain P, Structural Basis For Transc...    28   1.8   
gi|21466021|pdb|1L9Z|H  Chain H, Thermus Aquaticus Rna Polym...    28   1.8   
gi|21466014|pdb|1L9U|Q  Chain Q, Thermus Aquaticus Rna Polym...    28   1.8   
gi|20151057|pdb|1KU2|B  Chain B, Crystal Structure Of Thermu...    28   1.8   
gi|4699639|pdb|1EGZ|C  Chain C, Cellulase Cel5 From Erwinia ...    27   2.4   
gi|42543729|pdb|1UKU|A  Chain A, Crystal Structure Of Pyroco...    27   4.1   
gi|42543004|pdb|1J2V|A  Chain A, Crystal Structure Of Cuta1 ...    27   4.1   
gi|52695978|pdb|1U3D|A  Chain A, Crystal Structure Of The Ph...    26   7.0   
gi|42543049|pdb|1N9E|D  Chain D, Crystal Structure Of Pichia...    25   9.1   

Alignments


>gi|52695604|pdb|1T0T|Z   Chain Z, Crystallographic Structure Of A Putative Chlorite
           Dismutase
 gi|52695603|pdb|1T0T|Y   Chain Y, Crystallographic Structure Of A Putative Chlorite
           Dismutase
 gi|52695602|pdb|1T0T|X   Chain X, Crystallographic Structure Of A Putative Chlorite
           Dismutase
 gi|52695601|pdb|1T0T|W   Chain W, Crystallographic Structure Of A Putative Chlorite
           Dismutase
 gi|52695600|pdb|1T0T|V   Chain V, Crystallographic Structure Of A Putative Chlorite
           Dismutase
          Length = 248

 Score =  268 bits (684), Expect = 8e-73
 Identities = 133/243 (54%), Positives = 171/243 (70%), Gaps = 3/243 (1%)

Query: 7   EPTHTLEGWHVLHDFRLLDFARWFSAPLEAREDAWEELKGLVREWRELEEAGQGSYGIYQ 66
           E   TL+GW+ LHDFR +D++ W + P E RE A  E   LV +W   E   QGS+ +Y 
Sbjct: 3   EAAQTLDGWYCLHDFRTIDWSAWKTLPNEEREAAISEFLALVDQWETTESEKQGSHAVYT 62

Query: 67  VVGHKADLLFLNLRPGLDPLLEAEARLSRSAFARYLGRSYSFYSVVELGSQ--EKPLDP- 123
           +VG KAD+LF+ LRP LD L E E  L+++  A YL  +YS+ SVVEL +       DP 
Sbjct: 63  IVGQKADILFMILRPTLDELHEIETALNKTKLADYLLPAYSYVSVVELSNYLASGSEDPY 122

Query: 124 ESPYVKPRLTPRVPKSGYVCFYPMNKRRQGQDNWYMLPAKERASLMKAHGETGRKYQGEV 183
           + P V+ RL P +PK+ Y+CFYPM+KRRQG DNWYML  ++R  LM+AHG TGRKY G+V
Sbjct: 123 QIPEVRRRLYPILPKTNYICFYPMDKRRQGNDNWYMLSMEQRRELMRAHGMTGRKYAGKV 182

Query: 184 MQVISGAQGLDDWEWGVDLFSEDPVQFKKIVYEMRFDEVSARYGEFGPFFVGKYLDEEAL 243
            Q+I+G+ GLDD+EWGV LFS+D +QFKK+VYEMRFDEVSAR+GEFG FFVG  L  E +
Sbjct: 183 TQIITGSVGLDDFEWGVTLFSDDALQFKKLVYEMRFDEVSARFGEFGSFFVGTRLPMENV 242

Query: 244 RAF 246
            +F
Sbjct: 243 SSF 245



>gi|49259066|pdb|1SMY|P   Chain P, Structural Basis For Transcription Regulation By Alarmone
           Ppgpp
 gi|49259060|pdb|1SMY|F   Chain F, Structural Basis For Transcription Regulation By Alarmone
           Ppgpp
 gi|21730348|pdb|1IW7|P   Chain P, Crystal Structure Of The Rna Polymerase Holoenzyme From
           Thermus Thermophilus At 2.6a Resolution
 gi|21730342|pdb|1IW7|F   Chain F, Crystal Structure Of The Rna Polymerase Holoenzyme From
           Thermus Thermophilus At 2.6a Resolution
          Length = 423

 Score = 27.7 bits (60), Expect = 1.8
 Identities = 13/32 (40%), Positives = 19/32 (59%)

Query: 86  LLEAEARLSRSAFARYLGRSYSFYSVVELGSQ 117
           L+EA  RL  S   +Y GR  SF  +++ G+Q
Sbjct: 187 LIEANLRLVVSIAKKYTGRGLSFLDLIQEGNQ 218



>gi|21466021|pdb|1L9Z|H   Chain H, Thermus Aquaticus Rna Polymerase HoloenzymeFORK-Junction
           Promoter Dna Complex At 6.5 A Resolution
          Length = 438

 Score = 27.7 bits (60), Expect = 1.8
 Identities = 13/32 (40%), Positives = 19/32 (59%)

Query: 86  LLEAEARLSRSAFARYLGRSYSFYSVVELGSQ 117
           L+EA  RL  S   +Y GR  SF  +++ G+Q
Sbjct: 202 LIEANLRLVVSIAKKYTGRGLSFLDLIQEGNQ 233



>gi|21466014|pdb|1L9U|Q   Chain Q, Thermus Aquaticus Rna Polymerase Holoenzyme At 4 A
           Resolution
 gi|21466008|pdb|1L9U|H   Chain H, Thermus Aquaticus Rna Polymerase Holoenzyme At 4 A
           Resolution
          Length = 332

 Score = 27.7 bits (60), Expect = 1.8
 Identities = 13/32 (40%), Positives = 19/32 (59%)

Query: 86  LLEAEARLSRSAFARYLGRSYSFYSVVELGSQ 117
           L+EA  RL  S   +Y GR  SF  +++ G+Q
Sbjct: 96  LIEANLRLVVSIAKKYTGRGLSFLDLIQEGNQ 127



>gi|20151057|pdb|1KU2|B   Chain B, Crystal Structure Of Thermus Aquaticus Rna Polymerase
           Sigma Subunit Fragment Containing Regions 1.2 To 3.1
 gi|20151056|pdb|1KU2|A   Chain A, Crystal Structure Of Thermus Aquaticus Rna Polymerase
           Sigma Subunit Fragment Containing Regions 1.2 To 3.1
          Length = 241

 Score = 27.7 bits (60), Expect = 1.8
 Identities = 13/32 (40%), Positives = 19/32 (59%)

Query: 86  LLEAEARLSRSAFARYLGRSYSFYSVVELGSQ 117
           L+EA  RL  S   +Y GR  SF  +++ G+Q
Sbjct: 111 LIEANLRLVVSIAKKYTGRGLSFLDLIQEGNQ 142



>gi|4699639|pdb|1EGZ|C   Chain C, Cellulase Cel5 From Erwinia Chrysanthemi, A Family Gh 5-2
           Enzyme
 gi|4699638|pdb|1EGZ|B   Chain B, Cellulase Cel5 From Erwinia Chrysanthemi, A Family Gh 5-2
           Enzyme
 gi|4699637|pdb|1EGZ|A   Chain A, Cellulase Cel5 From Erwinia Chrysanthemi, A Family Gh 5-2
           Enzyme
          Length = 291

 Score = 27.3 bits (59), Expect = 2.4
 Identities = 11/28 (39%), Positives = 13/28 (46%)

Query: 192 GLDDWEWGVDLFSEDPVQFKKIVYEMRF 219
           G   W   VD  S DP+  K I Y + F
Sbjct: 166 GTPSWSQNVDEASRDPINAKNIAYTLHF 193



>gi|42543729|pdb|1UKU|A   Chain A, Crystal Structure Of Pyrococcus Horikoshii Cuta1
          Complexed With Cu2+
          Length = 102

 Score = 26.6 bits (57), Expect = 4.1
 Identities = 11/19 (57%), Positives = 14/19 (73%)

Query: 32 APLEAREDAWEELKGLVRE 50
          A L+ RED WEELK  ++E
Sbjct: 53 AILKTREDLWEELKERIKE 71



>gi|42543004|pdb|1J2V|A   Chain A, Crystal Structure Of Cuta1 From Pyrococcus Horikoshii
          Length = 102

 Score = 26.6 bits (57), Expect = 4.1
 Identities = 11/19 (57%), Positives = 14/19 (73%)

Query: 32 APLEAREDAWEELKGLVRE 50
          A L+ RED WEELK  ++E
Sbjct: 53 AILKTREDLWEELKERIKE 71



>gi|52695978|pdb|1U3D|A   Chain A, Crystal Structure Of The Phr Domain Of Cryptochrome 1 From
           Arabidopsis Thaliana With Amppnp Bound
 gi|52695977|pdb|1U3C|A   Chain A, Crystal Structure Of The Phr Domain Of Cryptochrome 1 From
           Arabidopsis Thaliana
          Length = 509

 Score = 25.8 bits (55), Expect = 7.0
 Identities = 11/30 (36%), Positives = 16/30 (53%)

Query: 102 LGRSYSFYSVVELGSQEKPLDPESPYVKPR 131
           LGR +S ++         P DPESP + P+
Sbjct: 151 LGRPFSMFAAFWERCLSMPYDPESPLLPPK 180



>gi|42543049|pdb|1N9E|D   Chain D, Crystal Structure Of Pichia Pastoris Lysyl Oxidase Pplo
 gi|42543048|pdb|1N9E|C   Chain C, Crystal Structure Of Pichia Pastoris Lysyl Oxidase Pplo
 gi|42543047|pdb|1N9E|B   Chain B, Crystal Structure Of Pichia Pastoris Lysyl Oxidase Pplo
 gi|42543046|pdb|1N9E|A   Chain A, Crystal Structure Of Pichia Pastoris Lysyl Oxidase Pplo
          Length = 787

 Score = 25.4 bits (54), Expect = 9.1
 Identities = 10/22 (45%), Positives = 14/22 (63%)

Query: 211 KKIVYEMRFDEVSARYGEFGPF 232
           ++IVYE+   E+ A YG   PF
Sbjct: 369 ERIVYELSLQELIAEYGSDDPF 390






  Database: PDB protein database
    Posted date:  Oct 10, 2004 11:42 PM
  Number of letters in database: 4,163,319
  Number of sequences in database:  18,695
  
Lambda     K      H
   0.320    0.139    0.437 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 1,138,749
Number of Sequences: 18695
Number of extensions: 49110
Number of successful extensions: 123
Number of sequences better than 10.0: 4
Number of HSP's better than 10.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 119
Number of HSP's gapped (non-prelim): 4
length of query: 249
length of database: 4,163,319
effective HSP length: 88
effective length of query: 161
effective length of database: 2,518,159
effective search space: 405423599
effective search space used: 405423599
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 54 (25.4 bits)