BLASTP 2.2.23 [Feb-03-2010]


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.


Reference for composition-based statistics starting in round 2:
Schaffer, Alejandro A., L. Aravind, Thomas L. Madden,
Sergei Shavirin, John L. Spouge, Yuri I. Wolf,  
Eugene V. Koonin, and Stephen F. Altschul (2001), 
"Improving the accuracy of PSI-BLAST protein database searches with 
composition-based statistics and other refinements",  Nucleic Acids Res. 29:2994-3005.

Query= P35179
         (80 letters)

Database: ../databases/nrPDB-GO_2019.06.18_sequences.fasta 
           36,641 sequences; 10,336,785 total letters

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


Results from round 1


                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

2WW9-B nrPDB                                                          159   3e-40
2WWB-B nrPDB                                                           66   3e-12
1RHZ-B nrPDB                                                           39   4e-04
4V7I-AB nrPDB                                                          35   0.006
1M9N-A nrPDB                                                           30   0.31 
1OCP-A nrPDB                                                           25   6.9  
5XY3-G nrPDB                                                           25   7.2  

>2WW9-B nrPDB
          Length = 80

 Score =  159 bits (401), Expect = 3e-40,   Method: Compositional matrix adjust.
 Identities = 80/80 (100%), Positives = 80/80 (100%)

Query: 1  MARASEKGEEKKQSNNQVEKLVEAPVEFVREGTQFLAKCKKPDLKEYTKIVKAVGIGFIA 60
          MARASEKGEEKKQSNNQVEKLVEAPVEFVREGTQFLAKCKKPDLKEYTKIVKAVGIGFIA
Sbjct: 1  MARASEKGEEKKQSNNQVEKLVEAPVEFVREGTQFLAKCKKPDLKEYTKIVKAVGIGFIA 60

Query: 61 VGIIGYAIKLIHIPIRYVIV 80
          VGIIGYAIKLIHIPIRYVIV
Sbjct: 61 VGIIGYAIKLIHIPIRYVIV 80


>2WWB-B nrPDB
          Length = 68

 Score = 66.2 bits (160), Expect = 3e-12,   Method: Compositional matrix adjust.
 Identities = 30/65 (46%), Positives = 43/65 (66%)

Query: 16 NQVEKLVEAPVEFVREGTQFLAKCKKPDLKEYTKIVKAVGIGFIAVGIIGYAIKLIHIPI 75
          +QV + VE   +FV++  + + +C KPD KE+ KI  A  IGF  +G IG+ +KLIHIPI
Sbjct: 2  DQVMQFVEPSRQFVKDSIRLVKRCTKPDRKEFQKIAMATAIGFAIMGFIGFFVKLIHIPI 61

Query: 76 RYVIV 80
            +IV
Sbjct: 62 NNIIV 66


>1RHZ-B nrPDB
          Length = 74

 Score = 38.9 bits (89), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 23/68 (33%), Positives = 34/68 (50%), Gaps = 7/68 (10%)

Query: 11 KKQSNNQVEKLVEAPVEFVREGTQFLAKCKKPDLKEYTKIVKAVGIGFIAVGIIGYAIKL 70
          K   N ++E+L E    F+ E  +     KKP   EY  + K   +G   +GIIGY   +
Sbjct: 2  KTDFNQKIEQLKE----FIEECRRVWLVLKKPTKDEYLAVAKVTALGISLLGIIGY---I 54

Query: 71 IHIPIRYV 78
          IH+P  Y+
Sbjct: 55 IHVPATYI 62


>4V7I-AB nrPDB
          Length = 65

 Score = 35.4 bits (80), Expect = 0.006,   Method: Compositional matrix adjust.
 Identities = 20/60 (33%), Positives = 30/60 (50%), Gaps = 7/60 (11%)

Query: 23 EAPVEFVREGT----QFLAKCKKPDLKEYTKIVKAVGIGFIAVGIIGYAIKLIHIPIRYV 78
          +A V F RE      + +   +KP   EY  + K   +G   +GIIGY   +IH+P  Y+
Sbjct: 4  KATVAFAREARTEVRKVIWPTRKPTKDEYLAVAKVTALGISLLGIIGY---IIHVPATYI 60


>1M9N-A nrPDB
          Length = 613

 Score = 29.6 bits (65), Expect = 0.31,   Method: Composition-based stats.
 Identities = 15/49 (30%), Positives = 27/49 (55%)

Query: 30 REGTQFLAKCKKPDLKEYTKIVKAVGIGFIAVGIIGYAIKLIHIPIRYV 78
          R+    L+  +K  L E+ + + A+G+G IA G    A++   +P+R V
Sbjct: 24 RQQLALLSVSEKAGLVEFARSLNALGLGLIASGGTATALRDAGLPVRDV 72


>1OCP-A nrPDB
          Length = 67

 Score = 25.0 bits (53), Expect = 6.9,   Method: Compositional matrix adjust.
 Identities = 15/48 (31%), Positives = 24/48 (50%), Gaps = 6/48 (12%)

Query: 9  EEKKQSNNQVEKLVEAPVEFVREGTQFLAKCKKPDLKEYTKIVKAVGI 56
          + +K+    +E  V   +E     T FL KC KP L++ T I   +G+
Sbjct: 6  QARKRKRTSIENRVRWSLE-----TMFL-KCPKPSLQQITHIANQLGL 47


>5XY3-G nrPDB
          Length = 244

 Score = 25.0 bits (53), Expect = 7.2,   Method: Compositional matrix adjust.
 Identities = 12/25 (48%), Positives = 16/25 (64%)

Query: 36  LAKCKKPDLKEYTKIVKAVGIGFIA 60
           LA+ K  D   +TKIV +V  GF+A
Sbjct: 190 LAEVKPEDRAAFTKIVDSVNSGFLA 214


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


Results from round 2


                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value
Sequences used in model and found again:

2WW9-B nrPDB                                                          110   1e-25
2WWB-B nrPDB                                                           96   4e-21
1RHZ-B nrPDB                                                           80   3e-16

Sequences not found previously or not previously below threshold:

4V7I-AB nrPDB                                                          51   1e-07
2RAJ-A nrPDB                                                           28   1.00 
2WMN-A nrPDB                                                           27   1.8  
6AYG-A nrPDB                                                           26   3.0  
3MP7-B nrPDB                                                           26   3.9  
3BIC-A nrPDB                                                           25   7.4  

>2WW9-B nrPDB
          Length = 80

 Score =  110 bits (275), Expect = 1e-25,   Method: Composition-based stats.
 Identities = 80/80 (100%), Positives = 80/80 (100%)

Query: 1  MARASEKGEEKKQSNNQVEKLVEAPVEFVREGTQFLAKCKKPDLKEYTKIVKAVGIGFIA 60
          MARASEKGEEKKQSNNQVEKLVEAPVEFVREGTQFLAKCKKPDLKEYTKIVKAVGIGFIA
Sbjct: 1  MARASEKGEEKKQSNNQVEKLVEAPVEFVREGTQFLAKCKKPDLKEYTKIVKAVGIGFIA 60

Query: 61 VGIIGYAIKLIHIPIRYVIV 80
          VGIIGYAIKLIHIPIRYVIV
Sbjct: 61 VGIIGYAIKLIHIPIRYVIV 80


>2WWB-B nrPDB
          Length = 68

 Score = 95.5 bits (236), Expect = 4e-21,   Method: Composition-based stats.
 Identities = 30/65 (46%), Positives = 43/65 (66%)

Query: 16 NQVEKLVEAPVEFVREGTQFLAKCKKPDLKEYTKIVKAVGIGFIAVGIIGYAIKLIHIPI 75
          +QV + VE   +FV++  + + +C KPD KE+ KI  A  IGF  +G IG+ +KLIHIPI
Sbjct: 2  DQVMQFVEPSRQFVKDSIRLVKRCTKPDRKEFQKIAMATAIGFAIMGFIGFFVKLIHIPI 61

Query: 76 RYVIV 80
            +IV
Sbjct: 62 NNIIV 66


>1RHZ-B nrPDB
          Length = 74

 Score = 79.7 bits (195), Expect = 3e-16,   Method: Composition-based stats.
 Identities = 23/68 (33%), Positives = 34/68 (50%), Gaps = 7/68 (10%)

Query: 11 KKQSNNQVEKLVEAPVEFVREGTQFLAKCKKPDLKEYTKIVKAVGIGFIAVGIIGYAIKL 70
          K   N ++E+L E    F+ E  +     KKP   EY  + K   +G   +GIIGY   +
Sbjct: 2  KTDFNQKIEQLKE----FIEECRRVWLVLKKPTKDEYLAVAKVTALGISLLGIIGY---I 54

Query: 71 IHIPIRYV 78
          IH+P  Y+
Sbjct: 55 IHVPATYI 62


>4V7I-AB nrPDB
          Length = 65

 Score = 51.2 bits (121), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 18/57 (31%), Positives = 27/57 (47%), Gaps = 3/57 (5%)

Query: 22 VEAPVEFVREGTQFLAKCKKPDLKEYTKIVKAVGIGFIAVGIIGYAIKLIHIPIRYV 78
          V    E   E  + +   +KP   EY  + K   +G   +GIIGY   +IH+P  Y+
Sbjct: 7  VAFAREARTEVRKVIWPTRKPTKDEYLAVAKVTALGISLLGIIGY---IIHVPATYI 60


>2RAJ-A nrPDB
          Length = 392

 Score = 28.1 bits (61), Expect = 1.00,   Method: Composition-based stats.
 Identities = 17/48 (35%), Positives = 23/48 (47%), Gaps = 4/48 (8%)

Query: 10  EKKQSNNQVEKLVEAPVEFVRE----GTQFLAKCKKPDLKEYTKIVKA 53
           E +Q    V K  +A  + V+E    G +   +C  P  KEY KI KA
Sbjct: 191 EIEQKCEAVGKFTKAMDDGVKELLTVGQEHWKRCTGPLPKEYQKIGKA 238


>2WMN-A nrPDB
          Length = 428

 Score = 27.0 bits (58), Expect = 1.8,   Method: Composition-based stats.
 Identities = 16/46 (34%), Positives = 24/46 (52%), Gaps = 3/46 (6%)

Query: 11  KKQSNNQVEKLVEAPVEFVREGTQFLA---KCKKPDLKEYTKIVKA 53
           K+  +N+V+ L E   +FV    Q LA   +  K D  EY + +KA
Sbjct: 365 KRYPDNKVKLLKEVFRQFVEACGQALAVNERLIKEDQLEYQEEMKA 410


>6AYG-A nrPDB
          Length = 558

 Score = 26.2 bits (56), Expect = 3.0,   Method: Composition-based stats.
 Identities = 15/72 (20%), Positives = 26/72 (36%), Gaps = 13/72 (18%)

Query: 4  ASEKGEEKKQSNNQVEKLVEAPVE----------FVREGTQFLAKCKKPDLK--EYTKIV 51
          +S + E +   N Q     E  +E          F+    +F A+ +KP     +  KI 
Sbjct: 17 SSHEEENRCNFNQQTSPSEELLLEDQMRRKLKFFFMNPCEKFWARGRKPWKLAIQILKIA 76

Query: 52 KAVGIGFIAVGI 63
              I  +  G+
Sbjct: 77 MVT-IQLVLFGL 87


>3MP7-B nrPDB
          Length = 61

 Score = 25.8 bits (55), Expect = 3.9,   Method: Composition-based stats.
 Identities = 9/33 (27%), Positives = 14/33 (42%)

Query: 20 KLVEAPVEFVREGTQFLAKCKKPDLKEYTKIVK 52
          +L E    F +E  +     KKP+   Y +  K
Sbjct: 3  ELQERIRHFWKESRRAFLVTKKPNWATYKRAAK 35


>3BIC-A nrPDB
          Length = 762

 Score = 25.0 bits (53), Expect = 7.4,   Method: Composition-based stats.
 Identities = 16/64 (25%), Positives = 24/64 (37%), Gaps = 8/64 (12%)

Query: 2   ARASEKGEEK--KQSNNQVEKLVEAPVEFVREGTQFLAKCKKPDLKEYTKIVKAVGIGFI 59
           A   E GE K    +  +V K +E      REG +      K     + +  K +  GF 
Sbjct: 576 AYRQEFGESKEITSAIKRVHKFME------REGRRPRLLVAKMGQDGHDRGAKVIATGFA 629

Query: 60  AVGI 63
            +G 
Sbjct: 630 DLGF 633


  Database: ../databases/nrPDB-GO_2019.06.18_sequences.fasta
    Posted date:  Jan 3, 2023  9:05 PM
  Number of letters in database: 10,336,785
  Number of sequences in database:  36,641
  
Lambda     K      H
   0.318    0.132    0.340 

Lambda     K      H
   0.267   0.0403    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,754,565
Number of Sequences: 36641
Number of extensions: 84343
Number of successful extensions: 287
Number of sequences better than 10.0: 15
Number of HSP's better than 10.0 without gapping: 17
Number of HSP's successfully gapped in prelim test: 11
Number of HSP's that attempted gapping in prelim test: 267
Number of HSP's gapped (non-prelim): 28
length of query: 80
length of database: 10,336,785
effective HSP length: 50
effective length of query: 30
effective length of database: 8,504,735
effective search space: 255142050
effective search space used: 255142050
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 52 (24.7 bits)