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= psy13327
(154 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3GQ2|A Chain A, Crystal Structure Of The Dimer Of The P115 Tether Globular
Head Domain
pdb|3GQ2|B Chain B, Crystal Structure Of The Dimer Of The P115 Tether Globular
Head Domain
pdb|3GRL|A Chain A, Crystal Structure Of The Monomer Of The P115 Tether
Globular Head Domain
Length = 651
Score = 176 bits (445), Expect = 5e-45, Method: Compositional matrix adjust.
Identities = 82/145 (56%), Positives = 110/145 (75%)
Query: 8 ESEEGWSAQRESNILALLKVIRSLVTPGNPAQVVSSCQFVLQVSGILGSLCNLLMAAGVP 67
+ GWSAQ+ +N+ +L+++R LV+P NP SSCQ + G+L LC +LMA GVP
Sbjct: 267 DENSGWSAQKVTNLHLMLQLVRVLVSPNNPPGATSSCQKAMFQCGLLQQLCTILMATGVP 326
Query: 68 ACILTETINTVAEIIRSNHENQEHFANVYAPSDPPRQAIVVLLMSMVNQKQSYPLRCSVL 127
A ILTETINTV+E+IR NQ++FA+V APS+PPR AIVVLLMSMVN++Q + LRC+VL
Sbjct: 327 ADILTETINTVSEVIRGCQVNQDYFASVNAPSNPPRPAIVVLLMSMVNERQPFVLRCAVL 386
Query: 128 YCFLCYLYRNENNQAKIIATLLPSA 152
YCF C+LY+N+ Q +I++TLLPS
Sbjct: 387 YCFQCFLYKNQKGQGEIVSTLLPST 411
>pdb|2W3C|A Chain A, Globular Head Region Of The Human General Vesicular
Transport Factor P115
Length = 577
Score = 175 bits (443), Expect = 9e-45, Method: Compositional matrix adjust.
Identities = 82/145 (56%), Positives = 110/145 (75%)
Query: 8 ESEEGWSAQRESNILALLKVIRSLVTPGNPAQVVSSCQFVLQVSGILGSLCNLLMAAGVP 67
+ GWSAQ+ +N+ +L+++R LV+P NP SSCQ + G+L LC +LMA GVP
Sbjct: 215 DENSGWSAQKVTNLHLMLQLVRVLVSPTNPPGATSSCQKAMFQCGLLQQLCTILMATGVP 274
Query: 68 ACILTETINTVAEIIRSNHENQEHFANVYAPSDPPRQAIVVLLMSMVNQKQSYPLRCSVL 127
A ILTETINTV+E+IR NQ++FA+V APS+PPR AIVVLLMSMVN++Q + LRC+VL
Sbjct: 275 ADILTETINTVSEVIRGCQVNQDYFASVNAPSNPPRPAIVVLLMSMVNERQPFVLRCAVL 334
Query: 128 YCFLCYLYRNENNQAKIIATLLPSA 152
YCF C+LY+N+ Q +I++TLLPS
Sbjct: 335 YCFQCFLYKNQKGQGEIVSTLLPST 359
>pdb|1DLW|A Chain A, X-Ray Crystal Structure Of Truncated Hemoglobin From
P.Caudatum.
pdb|1UVY|A Chain A, Heme-ligand Tunneling In Group I Truncated Hemoglobins
Length = 116
Score = 27.7 bits (60), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 16/45 (35%), Positives = 26/45 (57%), Gaps = 5/45 (11%)
Query: 41 VSSCQFVLQVSGILGSLCNLLMAAGVPACILTETINTVAEIIRSN 85
VS+ QF ++G L + L AGV A ++ +T+ VAE +R +
Sbjct: 73 VSNAQFTT----VIGHLRSALTGAGVAAALVEQTV-AVAETVRGD 112
>pdb|2FZP|A Chain A, Crystal Structure Of The Usp8 Interaction Domain Of Human
Nrdp1
Length = 144
Score = 27.3 bits (59), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 20/82 (24%), Positives = 36/82 (43%), Gaps = 9/82 (10%)
Query: 37 PAQVVSSCQFVLQVSGILGSLCNL-LMAAGVPACILTETINTVAE--------IIRSNHE 87
PA+V + +L ++ L+ +G PA I+ E I E + +
Sbjct: 35 PARVTRWGGMISTPDAVLQAVIKRSLVESGCPASIVNELIENAHERSWPQGLATLETRQM 94
Query: 88 NQEHFANVYAPSDPPRQAIVVL 109
N+ ++ N A P +QA+VV+
Sbjct: 95 NRRYYENYVAKRIPGKQAVVVM 116
>pdb|2GWF|B Chain B, Structure Of A Usp8-Nrdp1 Complex
pdb|2GWF|D Chain D, Structure Of A Usp8-Nrdp1 Complex
pdb|2GWF|F Chain F, Structure Of A Usp8-Nrdp1 Complex
Length = 134
Score = 27.3 bits (59), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 20/82 (24%), Positives = 36/82 (43%), Gaps = 9/82 (10%)
Query: 37 PAQVVSSCQFVLQVSGILGSLCNL-LMAAGVPACILTETINTVAE--------IIRSNHE 87
PA+V + +L ++ L+ +G PA I+ E I E + +
Sbjct: 25 PARVTRWGGMISTPDAVLQAVIKRSLVESGCPASIVNELIENAHERSWPQGLATLETRQM 84
Query: 88 NQEHFANVYAPSDPPRQAIVVL 109
N+ ++ N A P +QA+VV+
Sbjct: 85 NRRYYENYVAKRIPGKQAVVVM 106
>pdb|1IDR|A Chain A, Crystal Structure Of The Truncated-Hemoglobin-N From
Mycobacterium Tuberculosis
pdb|1IDR|B Chain B, Crystal Structure Of The Truncated-Hemoglobin-N From
Mycobacterium Tuberculosis
pdb|1S56|A Chain A, Crystal Structure Of "truncated" Hemoglobin N (Hbn) From
Mycobacterium Tuberculosis, Soaked With Xe Atoms
pdb|1S56|B Chain B, Crystal Structure Of "truncated" Hemoglobin N (Hbn) From
Mycobacterium Tuberculosis, Soaked With Xe Atoms
pdb|1S61|A Chain A, Crystal Structure Of "truncated" Hemoglobin N (Hbn) From
Mycobacterium Tuberculosis, Soaked With Butyl-Isocyanide
pdb|1S61|B Chain B, Crystal Structure Of "truncated" Hemoglobin N (Hbn) From
Mycobacterium Tuberculosis, Soaked With Butyl-Isocyanide
pdb|1RTE|A Chain A, X-Ray Structure Of Cyanide Derivative Of Truncated
Hemoglobin N (Trhbn) From Mycobacterium Tuberculosis
pdb|1RTE|B Chain B, X-Ray Structure Of Cyanide Derivative Of Truncated
Hemoglobin N (Trhbn) From Mycobacterium Tuberculosis
Length = 136
Score = 26.9 bits (58), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 11/27 (40%), Positives = 17/27 (62%)
Query: 53 ILGSLCNLLMAAGVPACILTETINTVA 79
+ G L + L AAGVP+ +TE + +A
Sbjct: 94 VAGHLADALTAAGVPSETITEILGVIA 120
>pdb|2GKM|A Chain A, Crystal Structure Of Mycobacterium Tuberculosis Trhbn
Tyrb10phe Mutant
pdb|2GKM|B Chain B, Crystal Structure Of Mycobacterium Tuberculosis Trhbn
Tyrb10phe Mutant
Length = 136
Score = 26.9 bits (58), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 11/27 (40%), Positives = 17/27 (62%)
Query: 53 ILGSLCNLLMAAGVPACILTETINTVA 79
+ G L + L AAGVP+ +TE + +A
Sbjct: 94 VAGHLADALTAAGVPSETITEILGVIA 120
>pdb|2GLN|A Chain A, Crystal Structure Of Mycobacterium Tuberculosis Trhbn,
Glne11ala Mutant
pdb|2GLN|B Chain B, Crystal Structure Of Mycobacterium Tuberculosis Trhbn,
Glne11ala Mutant
Length = 136
Score = 26.9 bits (58), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 11/27 (40%), Positives = 17/27 (62%)
Query: 53 ILGSLCNLLMAAGVPACILTETINTVA 79
+ G L + L AAGVP+ +TE + +A
Sbjct: 94 VAGHLADALTAAGVPSETITEILGVIA 120
>pdb|2GKN|A Chain A, Crystal Structure Of Mycobacterium Tuberculosis Trhbn,
Glne11val Mutant
pdb|2GKN|B Chain B, Crystal Structure Of Mycobacterium Tuberculosis Trhbn,
Glne11val Mutant
Length = 136
Score = 26.9 bits (58), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 11/27 (40%), Positives = 17/27 (62%)
Query: 53 ILGSLCNLLMAAGVPACILTETINTVA 79
+ G L + L AAGVP+ +TE + +A
Sbjct: 94 VAGHLADALTAAGVPSETITEILGVIA 120
>pdb|2GL3|A Chain A, Crystal Structure Of Mycobacterium Tuberculosis Trhbn,
Tyrb10phe Glne11val Mutant
pdb|2GL3|B Chain B, Crystal Structure Of Mycobacterium Tuberculosis Trhbn,
Tyrb10phe Glne11val Mutant
Length = 136
Score = 26.9 bits (58), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 11/27 (40%), Positives = 17/27 (62%)
Query: 53 ILGSLCNLLMAAGVPACILTETINTVA 79
+ G L + L AAGVP+ +TE + +A
Sbjct: 94 VAGHLADALTAAGVPSETITEILGVIA 120
>pdb|2OGB|A Chain A, Crystal Structure Of The C-Terminal Domain Of Mouse Nrdp1
pdb|2OGB|B Chain B, Crystal Structure Of The C-Terminal Domain Of Mouse Nrdp1
Length = 126
Score = 26.9 bits (58), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 16/56 (28%), Positives = 26/56 (46%), Gaps = 8/56 (14%)
Query: 61 LMAAGVPACILTETINTVAE--------IIRSNHENQEHFANVYAPSDPPRQAIVV 108
L+ +G PA I+ E I E + + N+ ++ N A P +QA+VV
Sbjct: 42 LVESGCPASIVNELIENAHERSWPQGLATLETRQXNRRYYENYVAKRIPGKQAVVV 97
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
0.321 0.132 0.392
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,038,563
Number of Sequences: 62578
Number of extensions: 131774
Number of successful extensions: 246
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 239
Number of HSP's gapped (non-prelim): 11
length of query: 154
length of database: 14,973,337
effective HSP length: 90
effective length of query: 64
effective length of database: 9,341,317
effective search space: 597844288
effective search space used: 597844288
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 47 (22.7 bits)