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= 012425
(464 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3KJO|A Chain A, Crystal Structure Of Hpot1v2-Dtrud(Agggttag)
pdb|3KJP|A Chain A, Crystal Structure Of Hpot1v2-Ggttagggttag
Length = 299
Score = 70.5 bits (171), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 44/173 (25%), Positives = 82/173 (47%), Gaps = 5/173 (2%)
Query: 24 VSFVGVILEVGSPKQSKGTDSFCTIKVTDESHTKDGISVNIFAESMEKLPYIVSVGDIIL 83
V+ GV+ P SKGTD + + D+++ K ++ +F+ + E LP I GDI+
Sbjct: 23 VNVYGVVKFFKPPYLSKGTDYCSVVTIVDQTNVK--LTCLLFSGNYEALPIIYKNGDIVR 80
Query: 84 LSHVVMKAHNKQAYALFNKKFSSFALYDGKGGEDFLPYQVSSRFFVRDQDKRIIAAVRKW 143
+ ++ + K+ + + F+S ++G G +P S F +D +++ A+R W
Sbjct: 81 FHRLKIQVYKKETQGITSSGFASLT-FEGTLGAPIIPRTSSKYFNFTTEDHKMVEALRVW 139
Query: 144 LLNFQFKEDSKKFLLLREIKDGQRINMACKVFHICEVAKGEWMAFVWDGTDAP 196
S L L +++ Q ++ C++ EV ++ VWDGT P
Sbjct: 140 ASTHM--SPSWTLLKLCDVQPMQYFDLTCQLLGKAEVDGASFLLKVWDGTRTP 190
>pdb|1XJV|A Chain A, Crystal Structure Of Human Pot1 Bound To Telomeric Single-
Stranded Dna (Ttagggttag)
Length = 294
Score = 70.5 bits (171), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 44/173 (25%), Positives = 82/173 (47%), Gaps = 5/173 (2%)
Query: 24 VSFVGVILEVGSPKQSKGTDSFCTIKVTDESHTKDGISVNIFAESMEKLPYIVSVGDIIL 83
V+ GV+ P SKGTD + + D+++ K ++ +F+ + E LP I GDI+
Sbjct: 18 VNVYGVVKFFKPPYLSKGTDYCSVVTIVDQTNVK--LTCLLFSGNYEALPIIYKNGDIVR 75
Query: 84 LSHVVMKAHNKQAYALFNKKFSSFALYDGKGGEDFLPYQVSSRFFVRDQDKRIIAAVRKW 143
+ ++ + K+ + + F+S ++G G +P S F +D +++ A+R W
Sbjct: 76 FHRLKIQVYKKETQGITSSGFASLT-FEGTLGAPIIPRTSSKYFNFTTEDHKMVEALRVW 134
Query: 144 LLNFQFKEDSKKFLLLREIKDGQRINMACKVFHICEVAKGEWMAFVWDGTDAP 196
S L L +++ Q ++ C++ EV ++ VWDGT P
Sbjct: 135 ASTHM--SPSWTLLKLCDVQPMQYFDLTCQLLGKAEVDGASFLLKVWDGTRTP 185
>pdb|1K8G|A Chain A, Crystal Structure Of The N-Terminal Domain Of Oxytricha
Nova Telomere End Binding Protein Alpha Subunit Both
Uncomplexed And Complexed With Telomeric Ssdna
pdb|1K8G|B Chain B, Crystal Structure Of The N-Terminal Domain Of Oxytricha
Nova Telomere End Binding Protein Alpha Subunit Both
Uncomplexed And Complexed With Telomeric Ssdna
pdb|1K8G|C Chain C, Crystal Structure Of The N-Terminal Domain Of Oxytricha
Nova Telomere End Binding Protein Alpha Subunit Both
Uncomplexed And Complexed With Telomeric Ssdna
Length = 320
Score = 43.1 bits (100), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 35/163 (21%), Positives = 73/163 (44%), Gaps = 24/163 (14%)
Query: 5 GEDYRFLKIKDAILSINQKVSFVGVILEVGSPKQSKGTDSFCTIKVTDES---------- 54
G Y ++++ A L+ Q F V+++ P ++ C++K+ D +
Sbjct: 33 GHKYEYVELAKASLTSAQPQHFYAVVIDATFPYKTNQERYICSLKIVDPTLYLKQQKGAG 92
Query: 55 HTKDGISVNIFAESMEKLPYIVSVGDIILLSHVVMKAHNKQ-----------AYALF--N 101
D ++ ++A+ E LP I GDII + ++ +N Q ++ALF +
Sbjct: 93 DASDYATLVLYAKRFEDLPIIHRAGDIIRVHRATLRLYNGQRQFNANVFYSSSWALFSTD 152
Query: 102 KKFSSFALYDGKGGEDFLPYQVSSRFFVRDQDK-RIIAAVRKW 143
K+ + + + D P+ SS+ ++++ I+ +RKW
Sbjct: 153 KRSVTQEINNQDAVSDTTPFSFSSKHATIEKNEISILQNLRKW 195
>pdb|1OTC|A Chain A, The O. Nova Telomere End Binding Protein Complexed With
Single Strand Dna
pdb|1JB7|A Chain A, Dna G-Quartets In A 1.86 A Resolution Structure Of An
Oxytricha Nova Telomeric Protein-Dna Complex
pdb|1KIX|A Chain A, Dimeric Structure Of The O. Nova Telomere End Binding
Protein Alpha Subunit With Bound Ssdna
pdb|2I0Q|A Chain A, Crystal Structure Of A Telomere Single-Strand Dna-Protein
Complex From O. Nova With Full-Length Alpha And Beta
Telomere Proteins
Length = 495
Score = 42.7 bits (99), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 35/163 (21%), Positives = 73/163 (44%), Gaps = 24/163 (14%)
Query: 5 GEDYRFLKIKDAILSINQKVSFVGVILEVGSPKQSKGTDSFCTIKVTDES---------- 54
G Y ++++ A L+ Q F V+++ P ++ C++K+ D +
Sbjct: 33 GHKYEYVELAKASLTSAQPQHFYAVVIDATFPYKTNQERYICSLKIVDPTLYLKQQKGAG 92
Query: 55 HTKDGISVNIFAESMEKLPYIVSVGDIILLSHVVMKAHNKQ-----------AYALF--N 101
D ++ ++A+ E LP I GDII + ++ +N Q ++ALF +
Sbjct: 93 DASDYATLVLYAKRFEDLPIIHRAGDIIRVHRATLRLYNGQRQFNANVFYSSSWALFSTD 152
Query: 102 KKFSSFALYDGKGGEDFLPYQVSSRFFVRDQDK-RIIAAVRKW 143
K+ + + + D P+ SS+ ++++ I+ +RKW
Sbjct: 153 KRSVTQEINNQDAVSDTTPFSFSSKHATIEKNEISILQNLRKW 195
>pdb|1PH2|A Chain A, Crystal Structure Of The Oxytricha Nova Telomere End-
Binding Protein Complexed With Noncognate Ssdna
Ggggttttg
pdb|1PH5|A Chain A, Crystal Structure Of The Oxytricha Nova Telomere End-
Binding Protein Complexed With Noncognate Ssdna
Ggggttttg(3dr)gg
Length = 459
Score = 41.2 bits (95), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 34/160 (21%), Positives = 72/160 (45%), Gaps = 24/160 (15%)
Query: 8 YRFLKIKDAILSINQKVSFVGVILEVGSPKQSKGTDSFCTIKVTDES----------HTK 57
Y ++++ A L+ Q F V+++ P ++ C++K+ D +
Sbjct: 1 YEYVELAKASLTSAQPQHFYAVVIDATFPYKTNQERYICSLKIVDPTLYLKQQKGAGDAS 60
Query: 58 DGISVNIFAESMEKLPYIVSVGDIILLSHVVMKAHNKQ-----------AYALF--NKKF 104
D ++ ++A+ E LP I GDII + ++ +N Q ++ALF +K+
Sbjct: 61 DYATLVLYAKRFEDLPIIHRAGDIIRVHRATLRLYNGQRQFNANVFYSSSWALFSTDKRS 120
Query: 105 SSFALYDGKGGEDFLPYQVSSRFFVRDQDK-RIIAAVRKW 143
+ + + D P+ SS+ ++++ I+ +RKW
Sbjct: 121 VTQEINNQDAVSDTTPFSFSSKHATIEKNEISILQNLRKW 160
>pdb|1PA6|A Chain A, Crystal Structure Of The Oxytricha Nova Telomere
End-Binding Protein Complexed With Noncognate Ssdna
Ggggttttgagg
pdb|1PH3|A Chain A, Crystal Structure Of The Oxytricha Nova Telomere
End-Binding Protein Complexed With Noncognate Ssdna
Ggggttttggtg
pdb|1PH4|A Chain A, Crystal Structure Of The Oxytricha Nova Telomere
End-Binding Protein Complexed With Noncognate Ssdna
Ggggttttggcg
pdb|1PH7|A Chain A, Crystal Structure Of The Oxytricha Nova Telomere
End-Binding Protein Complexed With Noncognate Ssdna
Ggggttttgigg
pdb|1PH8|A Chain A, Crystal Structure Of The Oxytricha Nova Telomere End-
Binding Protein Complexed With Noncognate Ssdna
Ggggttttgcgg
pdb|1PH9|A Chain A, Crystal Structure Of The Oxytricha Nova Telomere
End-Binding Protein Complexed With Noncognate Ssdna
Ggggttttgagg
Length = 460
Score = 41.2 bits (95), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 34/160 (21%), Positives = 72/160 (45%), Gaps = 24/160 (15%)
Query: 8 YRFLKIKDAILSINQKVSFVGVILEVGSPKQSKGTDSFCTIKVTDES----------HTK 57
Y ++++ A L+ Q F V+++ P ++ C++K+ D +
Sbjct: 1 YEYVELAKASLTSAQPQHFYAVVIDATFPYKTNQERYICSLKIVDPTLYLKQQKGAGDAS 60
Query: 58 DGISVNIFAESMEKLPYIVSVGDIILLSHVVMKAHNKQ-----------AYALF--NKKF 104
D ++ ++A+ E LP I GDII + ++ +N Q ++ALF +K+
Sbjct: 61 DYATLVLYAKRFEDLPIIHRAGDIIRVHRATLRLYNGQRQFNANVFYSSSWALFSTDKRS 120
Query: 105 SSFALYDGKGGEDFLPYQVSSRFFVRDQDK-RIIAAVRKW 143
+ + + D P+ SS+ ++++ I+ +RKW
Sbjct: 121 VTQEINNQDAVSDTTPFSFSSKHATIEKNEISILQNLRKW 160
>pdb|1PH1|A Chain A, Crystal Structure Of The Oxytricha Nova Telomere End-
Binding Protein Complexed With Noncognate Ssdna
Ggggttttggggt
pdb|1PH6|A Chain A, Crystal Structure Of The Oxytricha Nova Telomere End-
Binding Protein Complexed With Noncognate Ssdna
Ggggttttgtgg
pdb|1PHJ|A Chain A, Crystal Structure Of The Oxytricha Nova Telomere End-
Binding Protein Complexed With Noncognate Ssdna Gg(3dr)
Gttttgggg
Length = 461
Score = 40.8 bits (94), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 34/160 (21%), Positives = 72/160 (45%), Gaps = 24/160 (15%)
Query: 8 YRFLKIKDAILSINQKVSFVGVILEVGSPKQSKGTDSFCTIKVTDES----------HTK 57
Y ++++ A L+ Q F V+++ P ++ C++K+ D +
Sbjct: 2 YEYVELAKASLTSAQPQHFYAVVIDATFPYKTNQERYICSLKIVDPTLYLKQQKGAGDAS 61
Query: 58 DGISVNIFAESMEKLPYIVSVGDIILLSHVVMKAHNKQ-----------AYALF--NKKF 104
D ++ ++A+ E LP I GDII + ++ +N Q ++ALF +K+
Sbjct: 62 DYATLVLYAKRFEDLPIIHRAGDIIRVHRATLRLYNGQRQFNANVFYSSSWALFSTDKRS 121
Query: 105 SSFALYDGKGGEDFLPYQVSSRFFVRDQDK-RIIAAVRKW 143
+ + + D P+ SS+ ++++ I+ +RKW
Sbjct: 122 VTQEINNQDAVSDTTPFSFSSKHATIEKNEISILQNLRKW 161
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
0.323 0.140 0.435
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 14,586,913
Number of Sequences: 62578
Number of extensions: 625354
Number of successful extensions: 1205
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 1199
Number of HSP's gapped (non-prelim): 7
length of query: 464
length of database: 14,973,337
effective HSP length: 102
effective length of query: 362
effective length of database: 8,590,381
effective search space: 3109717922
effective search space used: 3109717922
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 53 (25.0 bits)