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= psy8114
(111 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1RW4|A Chain A, Nitrogenase Fe Protein L127 Deletion Variant
Length = 272
Score = 28.1 bits (61), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 15/47 (31%), Positives = 20/47 (42%)
Query: 65 GSMDQFVNPEINQLMENGVKRQDMDHVFLRYGKITSDGWVSPVHVYK 111
G + V IN L E G D+D VF G + G+ P+ K
Sbjct: 97 GCAGRGVITAINFLEEEGAYEDDLDFVFYDVGDVVCGGFAMPIRENK 143
>pdb|1G20|E Chain E, Mgatp-Bound And Nucleotide-Free Structures Of A
Nitrogenase Protein Complex Between Leu127del-Fe Protein
And The Mofe Protein
pdb|1G20|F Chain F, Mgatp-Bound And Nucleotide-Free Structures Of A
Nitrogenase Protein Complex Between Leu127del-Fe Protein
And The Mofe Protein
pdb|1G20|G Chain G, Mgatp-Bound And Nucleotide-Free Structures Of A
Nitrogenase Protein Complex Between Leu127del-Fe Protein
And The Mofe Protein
pdb|1G20|H Chain H, Mgatp-Bound And Nucleotide-Free Structures Of A
Nitrogenase Protein Complex Between Leu127del-Fe Protein
And The Mofe Protein
pdb|1G21|E Chain E, Mgatp-Bound And Nucleotide-Free Structures Of A
Nitrogenase Protein Complex Between Leu127del-Fe Protein
And The Mofe Protein
pdb|1G21|F Chain F, Mgatp-Bound And Nucleotide-Free Structures Of A
Nitrogenase Protein Complex Between Leu127del-Fe Protein
And The Mofe Protein
pdb|1G21|G Chain G, Mgatp-Bound And Nucleotide-Free Structures Of A
Nitrogenase Protein Complex Between Leu127del-Fe Protein
And The Mofe Protein
pdb|1G21|H Chain H, Mgatp-Bound And Nucleotide-Free Structures Of A
Nitrogenase Protein Complex Between Leu127del-Fe Protein
And The Mofe Protein
Length = 289
Score = 28.1 bits (61), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 15/47 (31%), Positives = 20/47 (42%)
Query: 65 GSMDQFVNPEINQLMENGVKRQDMDHVFLRYGKITSDGWVSPVHVYK 111
G + V IN L E G D+D VF G + G+ P+ K
Sbjct: 97 GCAGRGVITAINFLEEEGAYEDDLDFVFYDVGDVVCGGFAMPIRENK 143
>pdb|2C8V|A Chain A, Insights Into The Role Of Nucleotide-Dependent
Conformational Change In Nitrogenase Catalysis:
Structural Characterization Of The Nitrogenase Fe
Protein Leu127 Deletion Variant With Bound Mgatp
Length = 288
Score = 28.1 bits (61), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 15/47 (31%), Positives = 20/47 (42%)
Query: 65 GSMDQFVNPEINQLMENGVKRQDMDHVFLRYGKITSDGWVSPVHVYK 111
G + V IN L E G D+D VF G + G+ P+ K
Sbjct: 96 GCAGRGVITAINFLEEEGAYEDDLDFVFYDVGDVVCGGFAMPIRENK 142
>pdb|3C5I|A Chain A, Crystal Structure Of Plasmodium Knowlesi Choline Kinase,
Pkh_134520
pdb|3C5I|B Chain B, Crystal Structure Of Plasmodium Knowlesi Choline Kinase,
Pkh_134520
pdb|3C5I|C Chain C, Crystal Structure Of Plasmodium Knowlesi Choline Kinase,
Pkh_134520
pdb|3C5I|D Chain D, Crystal Structure Of Plasmodium Knowlesi Choline Kinase,
Pkh_134520
Length = 369
Score = 27.3 bits (59), Expect = 2.1, Method: Composition-based stats.
Identities = 27/95 (28%), Positives = 44/95 (46%), Gaps = 17/95 (17%)
Query: 28 CTPGFVDQI-PFKIRKICVALSTIYELSNAMESYIDDNGSMDQFVNPEINQLMENGVKRQ 86
C F D P I+KIC L + E ++ + +DN + Q ++ NQL E G+K +
Sbjct: 4 CAQEFSDLTDPLYIKKIC--LEKVPEWNH----FTEDNLRVKQILSGLTNQLFEVGLKEE 57
Query: 87 DMDH--------VFLRYGKITSDGW--VSPVHVYK 111
++ +F YGK + + +S VYK
Sbjct: 58 TANNYNSIRTRVLFRIYGKHVDELYNTISEFEVYK 92
>pdb|1ELQ|A Chain A, Crystal Structure Of The Cystine C-S Lyase C-Des
pdb|1ELQ|B Chain B, Crystal Structure Of The Cystine C-S Lyase C-Des
pdb|1ELU|A Chain A, Complex Between The Cystine C-S Lyase C-Des And Its
Reaction Product Cysteine Persulfide.
pdb|1ELU|B Chain B, Complex Between The Cystine C-S Lyase C-Des And Its
Reaction Product Cysteine Persulfide
Length = 390
Score = 27.3 bits (59), Expect = 2.4, Method: Composition-based stats.
Identities = 15/60 (25%), Positives = 24/60 (40%)
Query: 20 SLAMPPLQCTPGFVDQIPFKIRKICVALSTIYELSNAMESYIDDNGSMDQFVNPEINQLM 79
++ P L PG ++ F + + E AM Y+ +NG N I QL+
Sbjct: 2 TMITPSLHQFPGLANKTYFNFGGQGILPTVALEAITAMYGYLQENGPFSIAANQHIQQLI 61
>pdb|1DE0|A Chain A, Modulating The Midpoint Potential Of The [4fe-4s] Cluster
Of The Nitrogenase Fe Protein
pdb|1DE0|B Chain B, Modulating The Midpoint Potential Of The [4fe-4s] Cluster
Of The Nitrogenase Fe Protein
pdb|1XCP|A Chain A, Crystal Structure Of The Nitrogenase Fe Protein Phe135trp
With Mgadp Bound
pdb|1XCP|B Chain B, Crystal Structure Of The Nitrogenase Fe Protein Phe135trp
With Mgadp Bound
pdb|1XCP|C Chain C, Crystal Structure Of The Nitrogenase Fe Protein Phe135trp
With Mgadp Bound
pdb|1XCP|D Chain D, Crystal Structure Of The Nitrogenase Fe Protein Phe135trp
With Mgadp Bound
Length = 289
Score = 27.3 bits (59), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 16/48 (33%), Positives = 20/48 (41%), Gaps = 1/48 (2%)
Query: 65 GSMDQFVNPEINQLMENGVKRQDMDHVFLRY-GKITSDGWVSPVHVYK 111
G + V IN L E G D+D VF G + GW P+ K
Sbjct: 96 GCAGRGVITAINFLEEEGAYEDDLDFVFYDVLGDVVCGGWAMPIRENK 143
>pdb|2F6D|A Chain A, Structure Of The Complex Of A Glucoamylase From
Saccharomycopsis Fibuligera With Acarbose
pdb|2FBA|A Chain A, Glucoamylase From Saccharomycopsis Fibuligera At Atomic
Resolution
pdb|1AYX|A Chain A, Crystal Structure Of Glucoamylase From Saccharomycopsis
Fibuligera At 1.7 Angstroms
Length = 492
Score = 26.9 bits (58), Expect = 2.6, Method: Composition-based stats.
Identities = 12/34 (35%), Positives = 23/34 (67%), Gaps = 2/34 (5%)
Query: 48 STIYELSNAMESYIDDNGSMDQFVNPEINQLMEN 81
+T+ ++ +ESY+ +GS FVN ++N ++EN
Sbjct: 244 NTLSSTASTLESYL--SGSDGGFVNTDVNHIVEN 275
>pdb|1EI3|B Chain B, Crystal Structure Of Native Chicken Fibrinogen
pdb|1EI3|E Chain E, Crystal Structure Of Native Chicken Fibrinogen
pdb|1M1J|B Chain B, Crystal Structure Of Native Chicken Fibrinogen With Two
Different Bound Ligands
pdb|1M1J|E Chain E, Crystal Structure Of Native Chicken Fibrinogen With Two
Different Bound Ligands
Length = 464
Score = 25.8 bits (55), Expect = 6.6, Method: Composition-based stats.
Identities = 12/44 (27%), Positives = 25/44 (56%)
Query: 52 ELSNAMESYIDDNGSMDQFVNPEINQLMENGVKRQDMDHVFLRY 95
+L + + + D + +M Q+VN N+L++ +R+D D + Y
Sbjct: 104 DLKDRVAKFSDTSTTMYQYVNMIDNKLVKTQKQRKDNDIILSEY 147
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
0.325 0.139 0.430
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,299,799
Number of Sequences: 62578
Number of extensions: 112796
Number of successful extensions: 353
Number of sequences better than 100.0: 13
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 345
Number of HSP's gapped (non-prelim): 13
length of query: 111
length of database: 14,973,337
effective HSP length: 75
effective length of query: 36
effective length of database: 10,279,987
effective search space: 370079532
effective search space used: 370079532
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 45 (21.9 bits)