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= psy7629
(468 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3S4C|A Chain A, Lactose Phosphorylase In Complex With Sulfate
pdb|3S4D|A Chain A, Lactose Phosphorylase In A Ternary Complex With Cellobiose
And Sulfate
Length = 822
Score = 32.0 bits (71), Expect = 0.79, Method: Compositional matrix adjust.
Identities = 27/93 (29%), Positives = 41/93 (44%), Gaps = 7/93 (7%)
Query: 207 EQQALTTYEKLTRLPNNNFWTTYKEDPTKLKTQT-GYIQEVKKIKLLTE-IPDKKENLLH 264
+ A Y+ LT+ NN+ + + +DP L T YI+E +L E +P E
Sbjct: 398 DGSAYHQYQPLTKRGNNDIGSGFNDDPLWLIAGTAAYIKETGDFSILDEPVPFDNE---- 453
Query: 265 PPNPMDSFE-ITHSLFLEETFRKQDVAPLIAKT 296
P + + FE +T S T R PLI +
Sbjct: 454 PGSEVPLFEHLTRSFEFTVTHRGPHGLPLIGRA 486
>pdb|3RRS|A Chain A, Crystal Structure Analysis Of Cellobiose Phosphorylase
From Cellulomonas Uda
pdb|3RRS|B Chain B, Crystal Structure Analysis Of Cellobiose Phosphorylase
From Cellulomonas Uda
pdb|3RSY|A Chain A, Cellobiose Phosphorylase From Cellulomonas Uda In Complex
With Sulfate And Glycerol
pdb|3RSY|B Chain B, Cellobiose Phosphorylase From Cellulomonas Uda In Complex
With Sulfate And Glycerol
pdb|3S4A|A Chain A, Cellobiose Phosphorylase From Cellulomonas Uda In Complex
With Cellobiose
pdb|3S4A|B Chain B, Cellobiose Phosphorylase From Cellulomonas Uda In Complex
With Cellobiose
pdb|3S4B|A Chain A, Cellobiose Phosphorylase From Cellulomonas Uda In Complex
With Glucose
pdb|3S4B|B Chain B, Cellobiose Phosphorylase From Cellulomonas Uda In Complex
With Glucose
Length = 822
Score = 32.0 bits (71), Expect = 0.80, Method: Compositional matrix adjust.
Identities = 27/93 (29%), Positives = 41/93 (44%), Gaps = 7/93 (7%)
Query: 207 EQQALTTYEKLTRLPNNNFWTTYKEDPTKLKTQT-GYIQEVKKIKLLTE-IPDKKENLLH 264
+ A Y+ LT+ NN+ + + +DP L T YI+E +L E +P E
Sbjct: 398 DGSAYHQYQPLTKRGNNDIGSGFNDDPLWLIAGTAAYIKETGDFSILDEPVPFDNE---- 453
Query: 265 PPNPMDSFE-ITHSLFLEETFRKQDVAPLIAKT 296
P + + FE +T S T R PLI +
Sbjct: 454 PGSEVPLFEHLTRSFEFTVTHRGPHGLPLIGRA 486
>pdb|3MR6|A Chain A, Human Dna Polymerase Eta - Dna Ternary Complex With A Cpd
2bp Upstream Of The Active Site (Tt4)
pdb|3TQ1|A Chain A, Human Dna Polymerase Eta In Binary Complex With Dna
pdb|4EEY|A Chain A, Crystal Structure Of Human Dna Polymerase Eta In Ternary
Complex With A Cisplatin Dna Adduct
Length = 435
Score = 30.4 bits (67), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 22/67 (32%), Positives = 31/67 (46%), Gaps = 2/67 (2%)
Query: 373 AVILSDSKAAIQSITNCSEDPSIKHNKRLRNEGQG--KKWQQILNTHDIIPNLPRKAAVA 430
AVI+ + +AAI+ T I HNK L G K +Q L +H +P L + +
Sbjct: 197 AVIVEEMRAAIERETGFQCSAGISHNKVLAKLACGLNKPNRQTLVSHGSVPQLFSQMPIR 256
Query: 431 HFRLLTG 437
R L G
Sbjct: 257 KIRSLGG 263
>pdb|3MR2|A Chain A, Human Dna Polymerase Eta In Complex With Normal Dna And
Incoming Nucleotide (Nrm)
pdb|3MR3|A Chain A, Human Dna Polymerase Eta - Dna Ternary Complex With The
3't Of A Cpd In The Active Site (Tt1)
pdb|3MR5|A Chain A, Human Dna Polymerase Eta - Dna Ternary Complex With A Cpd
1bp Upstream Of The Active Site (Tt3)
pdb|3SI8|A Chain A, Human Dna Polymerase Eta - Dna Ternary Complex With The
5't Of A Cpd In The Active Site (Tt2)
pdb|4DL2|A Chain A, Human Dna Polymerase Eta Inserting Dcmpnpp Opposite Cg
Template (Gg0a)
pdb|4DL3|A Chain A, Human Dna Polymerase Eta Inserting Dcmpnpp Opposite Gg
Template (Gg0b).
pdb|4DL4|A Chain A, Human Dna Polymerase Eta Inserting Dcmpnpp Opposite The
3'g Of Cisplatin Crosslinked Gs (Pt-Gg1).
pdb|4DL5|A Chain A, Human Dna Polymerase Eta Inserting Dcmpnpp Opposite The
5'g Of Cisplatin Crosslinked Gs (Pt-Gg2).
pdb|4DL6|A Chain A, Human Dna Polymerase Eta Extending Primer Immediately
After Cisplatin Crosslink (Pt-Gg3).
pdb|4DL7|A Chain A, Human Dna Polymerase Eta Fails To Extend Primer 2
Nucleotide After Cisplatin Crosslink (Pt-Gg4).
pdb|4ECQ|A Chain A, Human Dna Polymerase Eta- Dna Ternary Complex: At Crystal
At Ph6.8(K+ Mes) With 1 Ca2+ Ion
pdb|4ECR|A Chain A, Human Dna Polymerase Eta - Dna Ternary Complex: Reaction
In The At Crystal At Ph 7.0 For 40 Sec
pdb|4ECS|A Chain A, Human Dna Polymerase Eta - Dna Ternary Complex: Reaction
In The At Crystal At Ph 7.0 For 80 Sec
pdb|4ECT|A Chain A, Human Dna Polymerase Eta - Dna Ternary Complex: Reaction
In The At Crystal At Ph 7.0 For 140 Sec
pdb|4ECU|A Chain A, Human Dna Polymerase Eta - Dna Ternary Complex: Reaction
In The At Crystal At Ph 7.0 For 200 Sec
pdb|4ECV|A Chain A, Human Dna Polymerase Eta - Dna Ternary Complex: Reaction
In The At Crystal At Ph 7.0 For 230 Sec
pdb|4ECW|A Chain A, Human Dna Polymerase Eta - Dna Ternary Complex: Reaction
In The At Crystal At Ph 7.0 For 250 Sec
pdb|4ECX|A Chain A, Human Dna Polymerase Eta - Dna Ternary Complex: Reaction
In The At Crystal At Ph 7.0 For 300 Sec
pdb|4ECY|A Chain A, Human Dna Polymerase Eta - Dna Ternary Complex: At Crystal
At Ph 6.0 (Na+ Mes) With 1 Ca2+ Ion
pdb|4ECZ|A Chain A, Human Dna Polymerase Eta - Dna Ternary Complex: At Crystal
At Ph 6.5 (Na+ Mes) With 1 Ca2+ Ion
pdb|4ED0|A Chain A, Human Dna Polymerase Eta - Dna Ternary Complex: At Crystal
At Ph 6.8 (Na+ Mes) With 1 Ca2+ Ion
pdb|4ED1|A Chain A, Human Dna Polymerase Eta - Dna Ternary Complex: At Crystal
At Ph 7.0 (Na+ Mes) With 1 Ca2+ Ion
pdb|4ED2|A Chain A, Human Dna Polymerase Eta - Dna Ternary Complex: At Crystal
At Ph 7.2 (Na+ Hepes) With 1 Ca2+ Ion
pdb|4ED3|A Chain A, Human Dna Polymerase Eta - Dna Ternary Complex: At Crystal
At Ph 7.5 (Na+ Hepes) With 1 Ca2+ Ion
pdb|4ED6|A Chain A, Human Dna Polymerase Eta - Dna Ternary Complex: Reaction
In The At Crystal At Ph 6.7 For 15 Hr, Sideway
Translocation
pdb|4ED7|A Chain A, Human Dna Polymerase Eta - Dna Ternary Complex: Tg Crystal
At Ph 7.0 (K+ Mes) With 1 Ca2+ Ion
pdb|4ED8|A Chain A, Human Dna Polymerase Eta - Dna Ternary Complex: Reaction
In The Tg Crystal At Ph 7.0, Normal Translocation
Length = 435
Score = 30.4 bits (67), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 22/67 (32%), Positives = 31/67 (46%), Gaps = 2/67 (2%)
Query: 373 AVILSDSKAAIQSITNCSEDPSIKHNKRLRNEGQG--KKWQQILNTHDIIPNLPRKAAVA 430
AVI+ + +AAI+ T I HNK L G K +Q L +H +P L + +
Sbjct: 197 AVIVEEMRAAIERETGFQCSAGISHNKVLAKLACGLNKPNRQTLVSHGSVPQLFSQMPIR 256
Query: 431 HFRLLTG 437
R L G
Sbjct: 257 KIRSLGG 263
>pdb|2YYV|A Chain A, Crystal Structure Of Uncharacterized Conserved Protein
From Thermotoga Maritima
pdb|2YYV|B Chain B, Crystal Structure Of Uncharacterized Conserved Protein
From Thermotoga Maritima
pdb|2YZO|A Chain A, Crystal Structure Of Uncharacterized Conserved Protein
From Thermotoga Maritima
pdb|2YZO|B Chain B, Crystal Structure Of Uncharacterized Conserved Protein
From Thermotoga Maritima
Length = 227
Score = 28.5 bits (62), Expect = 9.2, Method: Compositional matrix adjust.
Identities = 22/102 (21%), Positives = 42/102 (41%), Gaps = 7/102 (6%)
Query: 67 LSDTVEWRKRAAILKKEINSSKRSSFNTFVEKMDYRKDGPKAYSFISSIKKGQTSVNKPF 126
+ + +E +K ++ E N+ K FN ++YRK+ + + + G + K
Sbjct: 46 IEEALEKKKEGVLICGERNAQKPKGFNLGNSPLEYRKEKISGKTIVLTTTNGTQVIEKIR 105
Query: 127 SHNGRSISDSKKIASIFNTFYTSKYNIPKHEVLLTTSKTNKQ 168
S + AS N +Y K ++LL + TN +
Sbjct: 106 SEEIIA-------ASFLNLSAVVEYLKSKEDILLVCAGTNGR 140
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
0.315 0.130 0.371
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 13,146,987
Number of Sequences: 62578
Number of extensions: 522030
Number of successful extensions: 1280
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: 1280
Number of HSP's gapped (non-prelim): 7
length of query: 468
length of database: 14,973,337
effective HSP length: 102
effective length of query: 366
effective length of database: 8,590,381
effective search space: 3144079446
effective search space used: 3144079446
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 53 (25.0 bits)