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= psy17626
(184 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4GU5|A Chain A, Structure Of Full-Length Drosophila Cryptochrome
pdb|4GU5|B Chain B, Structure Of Full-Length Drosophila Cryptochrome
Length = 539
Score = 139 bits (351), Expect = 7e-34, Method: Compositional matrix adjust.
Identities = 61/122 (50%), Positives = 88/122 (72%), Gaps = 3/122 (2%)
Query: 4 GTMHIGYNRFRFLLECLADLDRQLKSHG---GQLFIVQGSPISIFQKLKRELNFTKLCFE 60
GT ++GYNR RFLL+ L D+D QL++ G+L + +G P IF++L ++ ++C E
Sbjct: 48 GTKNVGYNRMRFLLDSLQDIDDQLQAATDGRGRLLVFEGEPAYIFRRLHEQVRLHRICIE 107
Query: 61 QDCEALWHKRDKKVKKWCAENNITVKEFVSHTLWDPEVVIQTNGNVPPLTYKMYLHTVSC 120
QDCE +W++RD+ ++ C E NI E VSHTLWDP++VI+TNG +PPLTY+M+LHTV
Sbjct: 108 QDCEPIWNERDESIRSLCRELNIDFVEKVSHTLWDPQLVIETNGGIPPLTYQMFLHTVQI 167
Query: 121 IG 122
IG
Sbjct: 168 IG 169
Score = 64.3 bits (155), Expect = 4e-11, Method: Compositional matrix adjust.
Identities = 28/64 (43%), Positives = 43/64 (67%), Gaps = 3/64 (4%)
Query: 122 GTMHIGYNRFRFLLECLADLDRQLKSHG---GQLFIVQGSPISIFQKLKRELNFTKLCFE 178
GT ++GYNR RFLL+ L D+D QL++ G+L + +G P IF++L ++ ++C E
Sbjct: 48 GTKNVGYNRMRFLLDSLQDIDDQLQAATDGRGRLLVFEGEPAYIFRRLHEQVRLHRICIE 107
Query: 179 QDCE 182
QDCE
Sbjct: 108 QDCE 111
>pdb|3FY4|A Chain A, (6-4) Photolyase Crystal Structure
pdb|3FY4|B Chain B, (6-4) Photolyase Crystal Structure
pdb|3FY4|C Chain C, (6-4) Photolyase Crystal Structure
Length = 537
Score = 94.7 bits (234), Expect = 3e-20, Method: Compositional matrix adjust.
Identities = 45/116 (38%), Positives = 65/116 (56%)
Query: 3 PGTMHIGYNRFRFLLECLADLDRQLKSHGGQLFIVQGSPISIFQKLKRELNFTKLCFEQD 62
PG+ G NR RFLLE L DLD LK G +L + +G P + + +E +LCFE D
Sbjct: 53 PGSSRAGVNRIRFLLESLKDLDSSLKKLGSRLLVFKGEPGEVLVRCLQEWKVKRLCFEYD 112
Query: 63 CEALWHKRDKKVKKWCAENNITVKEFVSHTLWDPEVVIQTNGNVPPLTYKMYLHTV 118
+ + D KVK + + + V VSHTL++P +I+ NG PPL+Y+ +L
Sbjct: 113 TDPYYQALDVKVKDYASSTGVEVFSPVSHTLFNPAHIIEKNGGKPPLSYQSFLKVA 168
Score = 56.6 bits (135), Expect = 7e-09, Method: Compositional matrix adjust.
Identities = 26/63 (41%), Positives = 35/63 (55%)
Query: 122 GTMHIGYNRFRFLLECLADLDRQLKSHGGQLFIVQGSPISIFQKLKRELNFTKLCFEQDC 181
G+ G NR RFLLE L DLD LK G +L + +G P + + +E +LCFE D
Sbjct: 54 GSSRAGVNRIRFLLESLKDLDSSLKKLGSRLLVFKGEPGEVLVRCLQEWKVKRLCFEYDT 113
Query: 182 EAY 184
+ Y
Sbjct: 114 DPY 116
>pdb|3CVX|A Chain A, Drosophila Melanogaster (6-4) Photolyase H369m Mutant
Bound To Ds Dna With A T-T (6-4) Photolesion
Length = 543
Score = 85.5 bits (210), Expect = 2e-17, Method: Compositional matrix adjust.
Identities = 42/113 (37%), Positives = 63/113 (55%)
Query: 6 MHIGYNRFRFLLECLADLDRQLKSHGGQLFIVQGSPISIFQKLKRELNFTKLCFEQDCEA 65
M +G NR+RFL + L DLD QL+ +LF+V+G P +F ++ + L FE D E
Sbjct: 77 MQVGANRWRFLQQTLEDLDNQLRKLNSRLFVVRGKPAEVFPRIFKSWRVEMLTFETDIEP 136
Query: 66 LWHKRDKKVKKWCAENNITVKEFVSHTLWDPEVVIQTNGNVPPLTYKMYLHTV 118
RD V+K + V+ SHT+++PE+VI N P+TY+ +L V
Sbjct: 137 YSVTRDAAVQKLAKAEGVRVETHCSHTIYNPELVIAKNLGKAPITYQKFLGIV 189
Score = 59.7 bits (143), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 30/88 (34%), Positives = 45/88 (51%), Gaps = 3/88 (3%)
Query: 100 IQTNGNVPPLTY---KMYLHTVSCIGTMHIGYNRFRFLLECLADLDRQLKSHGGQLFIVQ 156
I T N P Y +++ + M +G NR+RFL + L DLD QL+ +LF+V+
Sbjct: 50 IFTAANAAPGRYFVRPIFILDPGILDWMQVGANRWRFLQQTLEDLDNQLRKLNSRLFVVR 109
Query: 157 GSPISIFQKLKRELNFTKLCFEQDCEAY 184
G P +F ++ + L FE D E Y
Sbjct: 110 GKPAEVFPRIFKSWRVEMLTFETDIEPY 137
>pdb|3CVW|A Chain A, Drosophila Melanogaster (6-4) Photolyase H365n Mutant
Bound To Ds Dna With A T-T (6-4) Photolesion And
Cofactor F0
Length = 543
Score = 85.5 bits (210), Expect = 2e-17, Method: Compositional matrix adjust.
Identities = 42/113 (37%), Positives = 63/113 (55%)
Query: 6 MHIGYNRFRFLLECLADLDRQLKSHGGQLFIVQGSPISIFQKLKRELNFTKLCFEQDCEA 65
M +G NR+RFL + L DLD QL+ +LF+V+G P +F ++ + L FE D E
Sbjct: 77 MQVGANRWRFLQQTLEDLDNQLRKLNSRLFVVRGKPAEVFPRIFKSWRVEMLTFETDIEP 136
Query: 66 LWHKRDKKVKKWCAENNITVKEFVSHTLWDPEVVIQTNGNVPPLTYKMYLHTV 118
RD V+K + V+ SHT+++PE+VI N P+TY+ +L V
Sbjct: 137 YSVTRDAAVQKLAKAEGVRVETHCSHTIYNPELVIAKNLGKAPITYQKFLGIV 189
Score = 59.7 bits (143), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 30/88 (34%), Positives = 45/88 (51%), Gaps = 3/88 (3%)
Query: 100 IQTNGNVPPLTY---KMYLHTVSCIGTMHIGYNRFRFLLECLADLDRQLKSHGGQLFIVQ 156
I T N P Y +++ + M +G NR+RFL + L DLD QL+ +LF+V+
Sbjct: 50 IFTAANAAPGRYFVRPIFILDPGILDWMQVGANRWRFLQQTLEDLDNQLRKLNSRLFVVR 109
Query: 157 GSPISIFQKLKRELNFTKLCFEQDCEAY 184
G P +F ++ + L FE D E Y
Sbjct: 110 GKPAEVFPRIFKSWRVEMLTFETDIEPY 137
>pdb|3CVU|A Chain A, Drosophila Melanogaster (6-4) Photolyase Bound To Ds Dna
With A T-T (6-4) Photolesion
pdb|3CVY|A Chain A, Drosophila Melanogaster (6-4) Photolyase Bound To Repaired
Ds Dna
pdb|2WB2|A Chain A, Drosophila Melanogaster (6-4) Photolyase Bound To Double
Stranded Dna Containing A T(6-4)c Photolesion
pdb|3CVV|A Chain A, Drosophila Melanogaster (6-4) Photolyase Bound To Ds Dna
With A T-T (6-4) Photolesion And F0 Cofactor
pdb|2WQ6|A Chain A, Structure Of The 6-4 Photolyase Of D. Melanogaster In
Complex With The Non-Natural N4-Methyl T(Dewar)c Lesion
pdb|2WQ7|A Chain A, Structure Of The 6-4 Photolyase Of D. Melanogaster In
Complex With The Non-Natural N4-Methyl T(6-4)c Lesion
Length = 543
Score = 85.5 bits (210), Expect = 2e-17, Method: Compositional matrix adjust.
Identities = 42/113 (37%), Positives = 63/113 (55%)
Query: 6 MHIGYNRFRFLLECLADLDRQLKSHGGQLFIVQGSPISIFQKLKRELNFTKLCFEQDCEA 65
M +G NR+RFL + L DLD QL+ +LF+V+G P +F ++ + L FE D E
Sbjct: 77 MQVGANRWRFLQQTLEDLDNQLRKLNSRLFVVRGKPAEVFPRIFKSWRVEMLTFETDIEP 136
Query: 66 LWHKRDKKVKKWCAENNITVKEFVSHTLWDPEVVIQTNGNVPPLTYKMYLHTV 118
RD V+K + V+ SHT+++PE+VI N P+TY+ +L V
Sbjct: 137 YSVTRDAAVQKLAKAEGVRVETHCSHTIYNPELVIAKNLGKAPITYQKFLGIV 189
Score = 59.3 bits (142), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 30/88 (34%), Positives = 45/88 (51%), Gaps = 3/88 (3%)
Query: 100 IQTNGNVPPLTY---KMYLHTVSCIGTMHIGYNRFRFLLECLADLDRQLKSHGGQLFIVQ 156
I T N P Y +++ + M +G NR+RFL + L DLD QL+ +LF+V+
Sbjct: 50 IFTAANAAPGRYFVRPIFILDPGILDWMQVGANRWRFLQQTLEDLDNQLRKLNSRLFVVR 109
Query: 157 GSPISIFQKLKRELNFTKLCFEQDCEAY 184
G P +F ++ + L FE D E Y
Sbjct: 110 GKPAEVFPRIFKSWRVEMLTFETDIEPY 137
>pdb|1OWL|A Chain A, Structure Of Apophotolyase From Anacystis Nidulans
pdb|1OWM|A Chain A, Data1:dna Photolyase RECEIVED X-Rays Dose 1.2 Exp15
PhotonsMM2
pdb|1OWN|A Chain A, Data3:dna Photolyase RECEIVED X-Rays Dose 4.8 Exp15
PhotonsMM2
pdb|1OWO|A Chain A, Data4:photoreduced Dna Photolyase RECEIVED X-Rays Dose
1.2 Exp15 PhotonsMM2
pdb|1OWP|A Chain A, Data6:photoreduced Dna Pholyase RECEIVED X-Rays Dose 4.8
Exp15 PhotonsMM2
pdb|1QNF|A Chain A, Structure Of Photolyase
Length = 484
Score = 44.7 bits (104), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 25/110 (22%), Positives = 48/110 (43%), Gaps = 4/110 (3%)
Query: 5 TMHIGYNRFRFLLECLADLDRQLKSHGGQLFIVQGSPISIFQKLKRELNFTKLCFEQDCE 64
+ + R +L CL +L ++ + G +L ++QG P + +L ++L + + QD E
Sbjct: 44 SADMAPARVAYLQGCLQELQQRYQQAGSRLLLLQGDPQHLIPQLAQQLQAEAVYWNQDIE 103
Query: 65 ALWHKRDKKVKKWCAENNITVKEFVSHTLWDPEVVIQTNGNVPPLTYKMY 114
RD +V I + L P+ ++ +GN Y +Y
Sbjct: 104 PYGRDRDGQVAAALKTAGIRAVQLWDQLLHSPDQILSGSGN----PYSVY 149
Score = 37.0 bits (84), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 16/62 (25%), Positives = 32/62 (51%)
Query: 123 TMHIGYNRFRFLLECLADLDRQLKSHGGQLFIVQGSPISIFQKLKRELNFTKLCFEQDCE 182
+ + R +L CL +L ++ + G +L ++QG P + +L ++L + + QD E
Sbjct: 44 SADMAPARVAYLQGCLQELQQRYQQAGSRLLLLQGDPQHLIPQLAQQLQAEAVYWNQDIE 103
Query: 183 AY 184
Y
Sbjct: 104 PY 105
>pdb|1TEZ|A Chain A, Complex Between Dna And The Dna Photolyase From Anacystis
Nidulans
pdb|1TEZ|B Chain B, Complex Between Dna And The Dna Photolyase From Anacystis
Nidulans
pdb|1TEZ|C Chain C, Complex Between Dna And The Dna Photolyase From Anacystis
Nidulans
pdb|1TEZ|D Chain D, Complex Between Dna And The Dna Photolyase From Anacystis
Nidulans
Length = 474
Score = 44.7 bits (104), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 25/110 (22%), Positives = 48/110 (43%), Gaps = 4/110 (3%)
Query: 5 TMHIGYNRFRFLLECLADLDRQLKSHGGQLFIVQGSPISIFQKLKRELNFTKLCFEQDCE 64
+ + R +L CL +L ++ + G +L ++QG P + +L ++L + + QD E
Sbjct: 43 SADMAPARVAYLQGCLQELQQRYQQAGSRLLLLQGDPQHLIPQLAQQLQAEAVYWNQDIE 102
Query: 65 ALWHKRDKKVKKWCAENNITVKEFVSHTLWDPEVVIQTNGNVPPLTYKMY 114
RD +V I + L P+ ++ +GN Y +Y
Sbjct: 103 PYGRDRDGQVAAALKTAGIRAVQLWDQLLHSPDQILSGSGN----PYSVY 148
Score = 37.0 bits (84), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 16/62 (25%), Positives = 32/62 (51%)
Query: 123 TMHIGYNRFRFLLECLADLDRQLKSHGGQLFIVQGSPISIFQKLKRELNFTKLCFEQDCE 182
+ + R +L CL +L ++ + G +L ++QG P + +L ++L + + QD E
Sbjct: 43 SADMAPARVAYLQGCLQELQQRYQQAGSRLLLLQGDPQHLIPQLAQQLQAEAVYWNQDIE 102
Query: 183 AY 184
Y
Sbjct: 103 PY 104
>pdb|2E0I|A Chain A, Crystal Structure Of Archaeal Photolyase From Sulfolobus
Tokodaii With Two Fad Molecules: Implication Of A Novel
Light-Harvesting Cofactor
pdb|2E0I|B Chain B, Crystal Structure Of Archaeal Photolyase From Sulfolobus
Tokodaii With Two Fad Molecules: Implication Of A Novel
Light-Harvesting Cofactor
pdb|2E0I|C Chain C, Crystal Structure Of Archaeal Photolyase From Sulfolobus
Tokodaii With Two Fad Molecules: Implication Of A Novel
Light-Harvesting Cofactor
pdb|2E0I|D Chain D, Crystal Structure Of Archaeal Photolyase From Sulfolobus
Tokodaii With Two Fad Molecules: Implication Of A Novel
Light-Harvesting Cofactor
Length = 440
Score = 35.4 bits (80), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 19/79 (24%), Positives = 38/79 (48%), Gaps = 2/79 (2%)
Query: 15 FLLECLADLDRQLKSHGGQLFIVQGSPISIFQKLKRELNFTKLCFEQDCEALWHKRDKKV 74
F++ L +LD +L+ G +L + G + + +++ + +D RD+K+
Sbjct: 53 FMINSLLELDDELRKKGSRLNVFFGEAEKVVSRFFNKVD--AIYVNEDYTPFSISRDEKI 110
Query: 75 KKWCAENNITVKEFVSHTL 93
+K C EN I K + + L
Sbjct: 111 RKVCEENGIEFKAYEDYLL 129
>pdb|2VTB|B Chain B, Structure Of Cryptochrome 3 - Dna Complex
Length = 525
Score = 34.3 bits (77), Expect = 0.041, Method: Compositional matrix adjust.
Identities = 19/57 (33%), Positives = 23/57 (40%)
Query: 115 LHTVSCIGTMHIGYNRFRFLLECLADLDRQLKSHGGQLFIVQGSPISIFQKLKRELN 171
HT G R FL+ECL DL + L G L I G P I L ++
Sbjct: 80 FHTTHFFNFPKTGALRGGFLMECLVDLRKNLMKRGLNLLIRSGKPEEILPSLAKDFG 136
Score = 33.5 bits (75), Expect = 0.065, Method: Compositional matrix adjust.
Identities = 20/52 (38%), Positives = 24/52 (46%), Gaps = 3/52 (5%)
Query: 2 FPGTMHIGYNRFRFLLECLADLDRQLKSHGGQLFIVQGSPISIFQKLKRELN 53
FP T G R FL+ECL DL + L G L I G P I L ++
Sbjct: 88 FPKT---GALRGGFLMECLVDLRKNLMKRGLNLLIRSGKPEEILPSLAKDFG 136
>pdb|2IJG|X Chain X, Crystal Structure Of Cryptochrome 3 From Arabidopsis
Thaliana
pdb|2VTB|A Chain A, Structure Of Cryptochrome 3 - Dna Complex
pdb|2VTB|C Chain C, Structure Of Cryptochrome 3 - Dna Complex
pdb|2VTB|D Chain D, Structure Of Cryptochrome 3 - Dna Complex
pdb|2VTB|E Chain E, Structure Of Cryptochrome 3 - Dna Complex
pdb|2VTB|F Chain F, Structure Of Cryptochrome 3 - Dna Complex
Length = 526
Score = 34.3 bits (77), Expect = 0.041, Method: Compositional matrix adjust.
Identities = 19/57 (33%), Positives = 23/57 (40%)
Query: 115 LHTVSCIGTMHIGYNRFRFLLECLADLDRQLKSHGGQLFIVQGSPISIFQKLKRELN 171
HT G R FL+ECL DL + L G L I G P I L ++
Sbjct: 80 FHTTHFFNFPKTGALRGGFLMECLVDLRKNLMKRGLNLLIRSGKPEEILPSLAKDFG 136
Score = 33.5 bits (75), Expect = 0.065, Method: Compositional matrix adjust.
Identities = 20/52 (38%), Positives = 24/52 (46%), Gaps = 3/52 (5%)
Query: 2 FPGTMHIGYNRFRFLLECLADLDRQLKSHGGQLFIVQGSPISIFQKLKRELN 53
FP T G R FL+ECL DL + L G L I G P I L ++
Sbjct: 88 FPKT---GALRGGFLMECLVDLRKNLMKRGLNLLIRSGKPEEILPSLAKDFG 136
>pdb|2J4D|A Chain A, Cryptochrome 3 From Arabidopsis Thaliana
pdb|2J4D|B Chain B, Cryptochrome 3 From Arabidopsis Thaliana
Length = 525
Score = 34.3 bits (77), Expect = 0.042, Method: Compositional matrix adjust.
Identities = 19/57 (33%), Positives = 23/57 (40%)
Query: 115 LHTVSCIGTMHIGYNRFRFLLECLADLDRQLKSHGGQLFIVQGSPISIFQKLKRELN 171
HT G R FL+ECL DL + L G L I G P I L ++
Sbjct: 79 FHTTHFFNFPKTGALRGGFLMECLVDLRKNLMKRGLNLLIRSGKPEEILPSLAKDFG 135
Score = 33.5 bits (75), Expect = 0.066, Method: Compositional matrix adjust.
Identities = 20/52 (38%), Positives = 24/52 (46%), Gaps = 3/52 (5%)
Query: 2 FPGTMHIGYNRFRFLLECLADLDRQLKSHGGQLFIVQGSPISIFQKLKRELN 53
FP T G R FL+ECL DL + L G L I G P I L ++
Sbjct: 87 FPKT---GALRGGFLMECLVDLRKNLMKRGLNLLIRSGKPEEILPSLAKDFG 135
>pdb|2Y1H|A Chain A, Crystal Structure Of The Human Tatd-Domain Protein 3
(Tatdn3)
pdb|2Y1H|B Chain B, Crystal Structure Of The Human Tatd-Domain Protein 3
(Tatdn3)
Length = 272
Score = 28.5 bits (62), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 14/48 (29%), Positives = 26/48 (54%), Gaps = 5/48 (10%)
Query: 46 QKLKRELNFTKLCFEQDCEALWHKRDKKVKKWCAENNITVK-EFVSHT 92
QKL ++L T +C E D AL ++ + + W NI++ E+++
Sbjct: 200 QKLVKQLPLTSICLETDSPALGPEKQVRNEPW----NISISAEYIAQV 243
>pdb|2VH1|A Chain A, Crystal Structure Of Bacterial Cell Division Protein Ftsq
From E.Coli
pdb|2VH1|B Chain B, Crystal Structure Of Bacterial Cell Division Protein Ftsq
From E.Coli
Length = 220
Score = 26.9 bits (58), Expect = 6.8, Method: Compositional matrix adjust.
Identities = 17/64 (26%), Positives = 30/64 (46%), Gaps = 5/64 (7%)
Query: 48 LKRELNFTKLCFEQDCEALWHKRDKKVKKWCAENNITVKEFVSHTLWDPEVVIQTNGN-- 105
+ +++N + EQ W K+ K+W E I + E+V W+ + ++ GN
Sbjct: 32 MTQDVNIIQTQIEQRLP--WIKQVSVRKQWPDELKIHLVEYVPIARWNDQHMVDAEGNTF 89
Query: 106 -VPP 108
VPP
Sbjct: 90 SVPP 93
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
0.327 0.142 0.455
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,690,456
Number of Sequences: 62578
Number of extensions: 222642
Number of successful extensions: 651
Number of sequences better than 100.0: 14
Number of HSP's better than 100.0 without gapping: 12
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 625
Number of HSP's gapped (non-prelim): 26
length of query: 184
length of database: 14,973,337
effective HSP length: 93
effective length of query: 91
effective length of database: 9,153,583
effective search space: 832976053
effective search space used: 832976053
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 48 (23.1 bits)