BLASTP 2.2.26 [Sep-21-2011]


Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, 
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.


Reference for compositional score matrix adjustment: Altschul, Stephen F., 
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.

Query= 006445
         (645 letters)

Database: pdbaa 
           62,578 sequences; 14,973,337 total letters

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



>pdb|1OFH|A Chain A, Asymmetric Complex Between Hslv And I-domain Deleted Hslu
           (h. Influenzae)
 pdb|1OFH|B Chain B, Asymmetric Complex Between Hslv And I-domain Deleted Hslu
           (h. Influenzae)
 pdb|1OFH|C Chain C, Asymmetric Complex Between Hslv And I-domain Deleted Hslu
           (h. Influenzae)
 pdb|1OFI|A Chain A, Asymmetric Complex Between Hslv And I-Domain Deleted Hslu
           (H. Influenzae)
 pdb|1OFI|B Chain B, Asymmetric Complex Between Hslv And I-Domain Deleted Hslu
           (H. Influenzae)
 pdb|1OFI|C Chain C, Asymmetric Complex Between Hslv And I-Domain Deleted Hslu
           (H. Influenzae)
          Length = 310

 Score = 32.3 bits (72), Expect = 0.94,   Method: Compositional matrix adjust.
 Identities = 22/75 (29%), Positives = 38/75 (50%), Gaps = 1/75 (1%)

Query: 23  TLIGVVKYASIALKADDQGEG-GTFALYSLLSRKMDIGFFSAKNLDSNSIFHEGAENKSR 81
           T   V K A  A + +++ E  G   L++++ R MD   FSA +++  ++  + A     
Sbjct: 236 TTDAVKKIAEAAFRVNEKTENIGARRLHTVMERLMDKISFSASDMNGQTVNIDAAYVADA 295

Query: 82  LGKFFEKSILARRIL 96
           LG+  E   L+R IL
Sbjct: 296 LGEVVENEDLSRFIL 310


>pdb|1G3I|A Chain A, Crystal Structure Of The Hsluv Protease-Chaperone Complex
 pdb|1G3I|B Chain B, Crystal Structure Of The Hsluv Protease-Chaperone Complex
 pdb|1G3I|C Chain C, Crystal Structure Of The Hsluv Protease-Chaperone Complex
 pdb|1G3I|D Chain D, Crystal Structure Of The Hsluv Protease-Chaperone Complex
 pdb|1G3I|E Chain E, Crystal Structure Of The Hsluv Protease-Chaperone Complex
 pdb|1G3I|F Chain F, Crystal Structure Of The Hsluv Protease-Chaperone Complex
 pdb|1G3I|S Chain S, Crystal Structure Of The Hsluv Protease-Chaperone Complex
 pdb|1G3I|T Chain T, Crystal Structure Of The Hsluv Protease-Chaperone Complex
 pdb|1G3I|U Chain U, Crystal Structure Of The Hsluv Protease-Chaperone Complex
 pdb|1G3I|V Chain V, Crystal Structure Of The Hsluv Protease-Chaperone Complex
 pdb|1G3I|W Chain W, Crystal Structure Of The Hsluv Protease-Chaperone Complex
 pdb|1G3I|X Chain X, Crystal Structure Of The Hsluv Protease-Chaperone Complex
 pdb|1G41|A Chain A, Crystal Structure Of Hslu Haemophilus Influenzae
 pdb|1KYI|A Chain A, Hsluv (h. Influenzae)-nlvs Vinyl Sulfone Inhibitor Complex
 pdb|1KYI|B Chain B, Hsluv (h. Influenzae)-nlvs Vinyl Sulfone Inhibitor Complex
 pdb|1KYI|C Chain C, Hsluv (h. Influenzae)-nlvs Vinyl Sulfone Inhibitor Complex
 pdb|1KYI|D Chain D, Hsluv (h. Influenzae)-nlvs Vinyl Sulfone Inhibitor Complex
 pdb|1KYI|E Chain E, Hsluv (h. Influenzae)-nlvs Vinyl Sulfone Inhibitor Complex
 pdb|1KYI|F Chain F, Hsluv (h. Influenzae)-nlvs Vinyl Sulfone Inhibitor Complex
 pdb|1KYI|S Chain S, Hsluv (h. Influenzae)-nlvs Vinyl Sulfone Inhibitor Complex
 pdb|1KYI|T Chain T, Hsluv (h. Influenzae)-nlvs Vinyl Sulfone Inhibitor Complex
 pdb|1KYI|U Chain U, Hsluv (h. Influenzae)-nlvs Vinyl Sulfone Inhibitor Complex
 pdb|1KYI|V Chain V, Hsluv (h. Influenzae)-nlvs Vinyl Sulfone Inhibitor Complex
 pdb|1KYI|W Chain W, Hsluv (h. Influenzae)-nlvs Vinyl Sulfone Inhibitor Complex
 pdb|1KYI|X Chain X, Hsluv (h. Influenzae)-nlvs Vinyl Sulfone Inhibitor Complex
          Length = 444

 Score = 31.6 bits (70), Expect = 1.3,   Method: Compositional matrix adjust.
 Identities = 22/75 (29%), Positives = 38/75 (50%), Gaps = 1/75 (1%)

Query: 23  TLIGVVKYASIALKADDQGEG-GTFALYSLLSRKMDIGFFSAKNLDSNSIFHEGAENKSR 81
           T   V K A  A + +++ E  G   L++++ R MD   FSA +++  ++  + A     
Sbjct: 370 TTDAVKKIAEAAFRVNEKTENIGARRLHTVMERLMDKISFSASDMNGQTVNIDAAYVADA 429

Query: 82  LGKFFEKSILARRIL 96
           LG+  E   L+R IL
Sbjct: 430 LGEVVENEDLSRFIL 444


>pdb|3U65|B Chain B, The Crystal Structure Of Tat-P(T) (Tp0957)
 pdb|3U65|A Chain A, The Crystal Structure Of Tat-P(T) (Tp0957)
          Length = 328

 Score = 30.8 bits (68), Expect = 2.8,   Method: Compositional matrix adjust.
 Identities = 21/77 (27%), Positives = 33/77 (42%), Gaps = 3/77 (3%)

Query: 421 AISFFLAFIMFGWFNGRQKKIEYELTHKIDLERLGTLLSDPGVQRVPGLCFFYTNIHQDG 480
           +I  FL+  +F W  G  + I Y L  KI    +G L+SD    R+P     Y +     
Sbjct: 195 SIDGFLSVHLFTWATGFYRYISYALDTKICPAVIGMLISDGSWARIPSR---YHDAMLQA 251

Query: 481 LTPILGHYIKNMRSLHK 497
            T +      N+ +L +
Sbjct: 252 ATRVRQRLANNLETLDR 268


>pdb|4DI3|D Chain D, Crystal Structure Of A 2:1 Complex Of Treponema Pallidum
           Tatp(T) (Tp0957) Bound To Tatt (Tp0956)
 pdb|4DI3|E Chain E, Crystal Structure Of A 2:1 Complex Of Treponema Pallidum
           Tatp(T) (Tp0957) Bound To Tatt (Tp0956)
 pdb|4DI4|B Chain B, Crystal Structure Of A 3:1 Complex Of Treponema Pallidum
           Tatp(T) (Tp0957) Bound To Tatt (Tp0956)
          Length = 324

 Score = 30.4 bits (67), Expect = 3.3,   Method: Compositional matrix adjust.
 Identities = 21/77 (27%), Positives = 33/77 (42%), Gaps = 3/77 (3%)

Query: 421 AISFFLAFIMFGWFNGRQKKIEYELTHKIDLERLGTLLSDPGVQRVPGLCFFYTNIHQDG 480
           +I  FL+  +F W  G  + I Y L  KI    +G L+SD    R+P     Y +     
Sbjct: 191 SIDGFLSVHLFTWATGFYRYISYALDTKICPAVIGMLISDGSWARIPSR---YHDAMLQA 247

Query: 481 LTPILGHYIKNMRSLHK 497
            T +      N+ +L +
Sbjct: 248 ATRVRQRLANNLETLDR 264


>pdb|1C7G|A Chain A, Tyrosine Phenol-Lyase From Erwinia Herbicola
 pdb|1C7G|B Chain B, Tyrosine Phenol-Lyase From Erwinia Herbicola
 pdb|1C7G|C Chain C, Tyrosine Phenol-Lyase From Erwinia Herbicola
 pdb|1C7G|D Chain D, Tyrosine Phenol-Lyase From Erwinia Herbicola
          Length = 456

 Score = 30.0 bits (66), Expect = 3.7,   Method: Compositional matrix adjust.
 Identities = 15/51 (29%), Positives = 29/51 (56%), Gaps = 4/51 (7%)

Query: 449 IDLERLGTLLSDPGVQRVPGLCFFYTNIHQDGLTPILGHYIKNMRSLHKVT 499
           IDL +L TL+ + G + +  +C   T ++  G  P+    + NMR++H++ 
Sbjct: 158 IDLNKLATLIKEKGAENIAYICLAVT-VNLAGGQPV---SMANMRAVHEMA 204


>pdb|3RKO|A Chain A, Crystal Structure Of The Membrane Domain Of Respiratory
           Complex I From E. Coli At 3.0 Angstrom Resolution
 pdb|3RKO|E Chain E, Crystal Structure Of The Membrane Domain Of Respiratory
           Complex I From E. Coli At 3.0 Angstrom Resolution
          Length = 147

 Score = 29.6 bits (65), Expect = 5.1,   Method: Compositional matrix adjust.
 Identities = 15/44 (34%), Positives = 26/44 (59%), Gaps = 1/44 (2%)

Query: 389 LVALYFLVFFTMEGVYVSAVFTKIPEGGWIPFAISFFLAFIMFG 432
           LVA++F++F  +E +Y+ A  T I E GW+ F  +    F++  
Sbjct: 70  LVAMFFVIF-DVEALYLFAWSTSIRESGWVGFVEAAIFIFVLLA 112


>pdb|3K1D|A Chain A, Crystal Structure Of Glycogen Branching Enzyme Synonym:
           1,4- Glucan:1,4-Alpha-D-Glucan 6-Glucosyl-Transferase
           From Mycob Tuberculosis H37rv
          Length = 722

 Score = 29.6 bits (65), Expect = 5.6,   Method: Compositional matrix adjust.
 Identities = 15/35 (42%), Positives = 21/35 (60%), Gaps = 6/35 (17%)

Query: 391 ALYFLVFFTMEGVYVSAVFTKI------PEGGWIP 419
           ALY+L  F ++G+ V AV + +      PEGGW P
Sbjct: 387 ALYWLQEFHIDGLRVDAVASMLYLDYSRPEGGWTP 421


>pdb|1RH5|B Chain B, The Structure Of A Protein Conducting Channel
 pdb|1RHZ|B Chain B, The Structure Of A Protein Conducting Channel
 pdb|2YXQ|B Chain B, The Plug Domain Of The Secy Protein Stablizes The Closed
          State Of The Translocation Channel And Maintains A
          Membrane Seal
 pdb|2YXR|B Chain B, The Plug Domain Of The Secy Protein Stablizes The Closed
          State Of The Translocation Channel And Maintains A
          Membrane Seal
          Length = 74

 Score = 29.3 bits (64), Expect = 7.7,   Method: Composition-based stats.
 Identities = 10/28 (35%), Positives = 19/28 (67%)

Query: 3  LKSPTEDDYLGIYSIMFWTLTLIGVVKY 30
          LK PT+D+YL +  +    ++L+G++ Y
Sbjct: 26 LKKPTKDEYLAVAKVTALGISLLGIIGY 53


>pdb|3BO0|B Chain B, Ribosome-Secy Complex
 pdb|3BO1|B Chain B, Ribosome-Secy Complex
 pdb|3KCR|B Chain B, Ribosome-Secy Complex. This Entry 3kcr Contains 50s
          Ribosomal Subnit. The 30s Ribosomal Subunit Can Be
          Found In Pdb Entry 3kc4
          Length = 65

 Score = 29.3 bits (64), Expect = 8.0,   Method: Composition-based stats.
 Identities = 9/29 (31%), Positives = 19/29 (65%)

Query: 2  PLKSPTEDDYLGIYSIMFWTLTLIGVVKY 30
          P + PT+D+YL +  +    ++L+G++ Y
Sbjct: 23 PTRKPTKDEYLAVAKVTALGISLLGIIGY 51


>pdb|3DKN|B Chain B, Sec61 In The Canine Ribosome-Channel Complex From The
          Endoplasmic Reticulum
          Length = 65

 Score = 29.3 bits (64), Expect = 8.1,   Method: Composition-based stats.
 Identities = 10/28 (35%), Positives = 19/28 (67%)

Query: 3  LKSPTEDDYLGIYSIMFWTLTLIGVVKY 30
          LK PT+D+YL +  +    ++L+G++ Y
Sbjct: 24 LKKPTKDEYLAVAKVTALGISLLGIIGY 51


  Database: pdbaa
    Posted date:  Mar 3, 2013 10:34 PM
  Number of letters in database: 14,973,337
  Number of sequences in database:  62,578
  
Lambda     K      H
   0.327    0.143    0.435 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 18,292,023
Number of Sequences: 62578
Number of extensions: 747127
Number of successful extensions: 1741
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 1735
Number of HSP's gapped (non-prelim): 10
length of query: 645
length of database: 14,973,337
effective HSP length: 105
effective length of query: 540
effective length of database: 8,402,647
effective search space: 4537429380
effective search space used: 4537429380
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 55 (25.8 bits)