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= psy9352
(146 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 166 bits (419), Expect = 5e-42, Method: Compositional matrix adjust.
Identities = 76/138 (55%), Positives = 97/138 (70%)
Query: 9 VHWIRKGMRLHDNPALLSAINYKNEKGQNILLKPLYILDPHFRKFMRVGPNRWRFLQQSL 68
VHW RKG+RLHDNPAL N ++P++ILDP +M+VG NRWRFLQQ+L
Sbjct: 32 VHWFRKGLRLHDNPALSHIFTAANAAPGRYFVRPIFILDPGILDWMQVGANRWRFLQQTL 91
Query: 69 ADLDQKFRALGSRLYVVQGKPEEVFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKE 128
DLD + R L SRL+VV+GKP EVFP IFK+W +++LT+E DIEPY+ RD V+ +AK
Sbjct: 92 EDLDNQLRKLNSRLFVVRGKPAEVFPRIFKSWRVEMLTFETDIEPYSVTRDAAVQKLAKA 151
Query: 129 YKVKVEQHVSHTLYNTNL 146
V+VE H SHT+YN L
Sbjct: 152 EGVRVETHCSHTIYNPEL 169
>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 = 166 bits (419), Expect = 5e-42, Method: Compositional matrix adjust.
Identities = 76/138 (55%), Positives = 97/138 (70%)
Query: 9 VHWIRKGMRLHDNPALLSAINYKNEKGQNILLKPLYILDPHFRKFMRVGPNRWRFLQQSL 68
VHW RKG+RLHDNPAL N ++P++ILDP +M+VG NRWRFLQQ+L
Sbjct: 32 VHWFRKGLRLHDNPALSHIFTAANAAPGRYFVRPIFILDPGILDWMQVGANRWRFLQQTL 91
Query: 69 ADLDQKFRALGSRLYVVQGKPEEVFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKE 128
DLD + R L SRL+VV+GKP EVFP IFK+W +++LT+E DIEPY+ RD V+ +AK
Sbjct: 92 EDLDNQLRKLNSRLFVVRGKPAEVFPRIFKSWRVEMLTFETDIEPYSVTRDAAVQKLAKA 151
Query: 129 YKVKVEQHVSHTLYNTNL 146
V+VE H SHT+YN L
Sbjct: 152 EGVRVETHCSHTIYNPEL 169
>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 = 166 bits (419), Expect = 5e-42, Method: Compositional matrix adjust.
Identities = 76/138 (55%), Positives = 97/138 (70%)
Query: 9 VHWIRKGMRLHDNPALLSAINYKNEKGQNILLKPLYILDPHFRKFMRVGPNRWRFLQQSL 68
VHW RKG+RLHDNPAL N ++P++ILDP +M+VG NRWRFLQQ+L
Sbjct: 32 VHWFRKGLRLHDNPALSHIFTAANAAPGRYFVRPIFILDPGILDWMQVGANRWRFLQQTL 91
Query: 69 ADLDQKFRALGSRLYVVQGKPEEVFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKE 128
DLD + R L SRL+VV+GKP EVFP IFK+W +++LT+E DIEPY+ RD V+ +AK
Sbjct: 92 EDLDNQLRKLNSRLFVVRGKPAEVFPRIFKSWRVEMLTFETDIEPYSVTRDAAVQKLAKA 151
Query: 129 YKVKVEQHVSHTLYNTNL 146
V+VE H SHT+YN L
Sbjct: 152 EGVRVETHCSHTIYNPEL 169
>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 = 108 bits (269), Expect = 1e-24, Method: Compositional matrix adjust.
Identities = 61/150 (40%), Positives = 84/150 (56%), Gaps = 15/150 (10%)
Query: 3 GTPECAVHWIRKGMRLHDNPALLSAINYKNEKGQNILLKPLYILDPHFRKF--------- 53
T ++ W RKG+R+HDNPAL A KG + P++++DPH+ +
Sbjct: 2 ATGSGSLIWFRKGLRVHDNPALEYA-----SKGSEFMY-PVFVIDPHYMESDPSAFSPGS 55
Query: 54 MRVGPNRWRFLQQSLADLDQKFRALGSRLYVVQGKPEEVFPDIFKTWNIKLLTWEYDIEP 113
R G NR RFL +SL DLD + LGSRL V +G+P EV + W +K L +EYD +P
Sbjct: 56 SRAGVNRIRFLLESLKDLDSSLKKLGSRLLVFKGEPGEVLVRCLQEWKVKRLCFEYDTDP 115
Query: 114 YAKKRDGLVEDMAKEYKVKVEQHVSHTLYN 143
Y + D V+D A V+V VSHTL+N
Sbjct: 116 YYQALDVKVKDYASSTGVEVFSPVSHTLFN 145
>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 = 90.5 bits (223), Expect = 3e-19, Method: Compositional matrix adjust.
Identities = 52/141 (36%), Positives = 76/141 (53%), Gaps = 6/141 (4%)
Query: 9 VHWIRKGMRLHDNPALLSAINYKNEKGQNILLKPLYILDPHFRKFMRVGPNRWRFLQQSL 68
V W R G+RLHDNPALL+A+ +K Q I L P++I D VG NR RFL SL
Sbjct: 8 VIWFRHGLRLHDNPALLAALA---DKDQGIALIPVFIFDGESAGTKNVGYNRMRFLLDSL 64
Query: 69 ADLDQKFRALG---SRLYVVQGKPEEVFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDM 125
D+D + +A RL V +G+P +F + + + + E D EP +RD + +
Sbjct: 65 QDIDDQLQAATDGRGRLLVFEGEPAYIFRRLHEQVRLHRICIEQDCEPIWNERDESIRSL 124
Query: 126 AKEYKVKVEQHVSHTLYNTNL 146
+E + + VSHTL++ L
Sbjct: 125 CRELNIDFVEKVSHTLWDPQL 145
>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 = 77.0 bits (188), Expect = 4e-15, Method: Composition-based stats.
Identities = 41/125 (32%), Positives = 65/125 (52%), Gaps = 6/125 (4%)
Query: 11 WIRKGMRLHDNPALLSAINYKNEKGQNILLKPLYILDPHFRKFMRVGPNRWRFLQQSLAD 70
W R+ +RL DN L +A + Q+ L L+ LDP + + P R +LQ L +
Sbjct: 7 WHRRDLRLSDNIGLAAA------RAQSAQLIGLFCLDPQILQSADMAPARVAYLQGCLQE 60
Query: 71 LDQKFRALGSRLYVVQGKPEEVFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYK 130
L Q+++ GSRL ++QG P+ + P + + + + W DIEPY + RDG V K
Sbjct: 61 LQQRYQQAGSRLLLLQGDPQHLIPQLAQQLQAEAVYWNQDIEPYGRDRDGQVAAALKTAG 120
Query: 131 VKVEQ 135
++ Q
Sbjct: 121 IRAVQ 125
>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 = 77.0 bits (188), Expect = 4e-15, Method: Composition-based stats.
Identities = 41/125 (32%), Positives = 65/125 (52%), Gaps = 6/125 (4%)
Query: 11 WIRKGMRLHDNPALLSAINYKNEKGQNILLKPLYILDPHFRKFMRVGPNRWRFLQQSLAD 70
W R+ +RL DN L +A + Q+ L L+ LDP + + P R +LQ L +
Sbjct: 8 WHRRDLRLSDNIGLAAA------RAQSAQLIGLFCLDPQILQSADMAPARVAYLQGCLQE 61
Query: 71 LDQKFRALGSRLYVVQGKPEEVFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYK 130
L Q+++ GSRL ++QG P+ + P + + + + W DIEPY + RDG V K
Sbjct: 62 LQQRYQQAGSRLLLLQGDPQHLIPQLAQQLQAEAVYWNQDIEPYGRDRDGQVAAALKTAG 121
Query: 131 VKVEQ 135
++ Q
Sbjct: 122 IRAVQ 126
>pdb|1NP7|A Chain A, Crystal Structure Analysis Of Synechocystis Sp. Pcc6803
Cryptochrome
pdb|1NP7|B Chain B, Crystal Structure Analysis Of Synechocystis Sp. Pcc6803
Cryptochrome
Length = 489
Score = 58.9 bits (141), Expect = 9e-10, Method: Compositional matrix adjust.
Identities = 35/116 (30%), Positives = 56/116 (48%), Gaps = 11/116 (9%)
Query: 1 MGGTPECAVHWIRKGMRLHDNPALLSAINYKNEKGQNILLKPLYILDPH-----FRKFMR 55
M P + W R +RLHD+ L A+ + + +Y DP + F +
Sbjct: 1 MKHVPPTVLVWFRNDLRLHDHEPLHRALK------SGLAITAVYCYDPRQFAQTHQGFAK 54
Query: 56 VGPNRWRFLQQSLADLDQKFRALGSRLYVVQGKPEEVFPDIFKTWNIKLLTWEYDI 111
GP R FLQQS+ +L + + +G++L V G PE+V P I K N K + + ++
Sbjct: 55 TGPWRSNFLQQSVQNLAESLQKVGNKLLVTTGLPEQVIPQIAKQINAKTIYYHREV 110
>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 = 53.9 bits (128), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 34/104 (32%), Positives = 49/104 (47%), Gaps = 12/104 (11%)
Query: 8 AVHWIRKGMRLHDNPALLSAINYKNEKGQNILLKPLYILDP------HFRKFMRVGPNRW 61
+ W R +R+ DN AL YK + +L P+Y LDP HF F + G R
Sbjct: 43 TILWFRNDLRVLDNDAL-----YKAWSSSDTIL-PVYCLDPRLFHTTHFFNFPKTGALRG 96
Query: 62 RFLQQSLADLDQKFRALGSRLYVVQGKPEEVFPDIFKTWNIKLL 105
FL + L DL + G L + GKPEE+ P + K + + +
Sbjct: 97 GFLMECLVDLRKNLMKRGLNLLIRSGKPEEILPSLAKDFGARTV 140
>pdb|2VTB|B Chain B, Structure Of Cryptochrome 3 - Dna Complex
Length = 525
Score = 53.9 bits (128), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 34/104 (32%), Positives = 49/104 (47%), Gaps = 12/104 (11%)
Query: 8 AVHWIRKGMRLHDNPALLSAINYKNEKGQNILLKPLYILDP------HFRKFMRVGPNRW 61
+ W R +R+ DN AL YK + +L P+Y LDP HF F + G R
Sbjct: 43 TILWFRNDLRVLDNDAL-----YKAWSSSDTIL-PVYCLDPRLFHTTHFFNFPKTGALRG 96
Query: 62 RFLQQSLADLDQKFRALGSRLYVVQGKPEEVFPDIFKTWNIKLL 105
FL + L DL + G L + GKPEE+ P + K + + +
Sbjct: 97 GFLMECLVDLRKNLMKRGLNLLIRSGKPEEILPSLAKDFGARTV 140
>pdb|2J4D|A Chain A, Cryptochrome 3 From Arabidopsis Thaliana
pdb|2J4D|B Chain B, Cryptochrome 3 From Arabidopsis Thaliana
Length = 525
Score = 53.9 bits (128), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 34/104 (32%), Positives = 49/104 (47%), Gaps = 12/104 (11%)
Query: 8 AVHWIRKGMRLHDNPALLSAINYKNEKGQNILLKPLYILDP------HFRKFMRVGPNRW 61
+ W R +R+ DN AL YK + +L P+Y LDP HF F + G R
Sbjct: 42 TILWFRNDLRVLDNDAL-----YKAWSSSDTIL-PVYCLDPRLFHTTHFFNFPKTGALRG 95
Query: 62 RFLQQSLADLDQKFRALGSRLYVVQGKPEEVFPDIFKTWNIKLL 105
FL + L DL + G L + GKPEE+ P + K + + +
Sbjct: 96 GFLMECLVDLRKNLMKRGLNLLIRSGKPEEILPSLAKDFGARTV 139
>pdb|1IQR|A Chain A, Crystal Structure Of Dna Photolyase From Thermus
Thermophilus
pdb|1IQU|A Chain A, Crystal Structure Of Photolyase-Thymine Complex
pdb|2J07|A Chain A, Thermus Dna Photolyase With 8-Hdf Antenna Chromophore
pdb|2J08|A Chain A, Thermus Dna Photolyase With 8-Iod-Riboflavin Antenna
Chromophore
pdb|2J09|A Chain A, Thermus Dna Photolyase With Fmn Antenna Chromophore
Length = 420
Score = 51.2 bits (121), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 35/114 (30%), Positives = 56/114 (49%), Gaps = 10/114 (8%)
Query: 11 WIRKGMRLHDNPALLSAINYKNEKGQNILLKPLYILDPHFRKFMRVGPNRWRFLQQSLAD 70
W R +RLHD+PALL A+ G L +LDP+ ++ P R + +++
Sbjct: 7 WHRGDLRLHDHPALLEALARGPVVG-------LVVLDPNN---LKTTPRRRAWFLENVRA 56
Query: 71 LDQKFRALGSRLYVVQGKPEEVFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVED 124
L + +RA G L+V++G P E P+ + K + PY + RDG V +
Sbjct: 57 LREAYRARGGALWVLEGLPWEKVPEAARRLKAKAVYALTSHTPYGRYRDGRVRE 110
>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 = 40.4 bits (93), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 34/140 (24%), Positives = 61/140 (43%), Gaps = 19/140 (13%)
Query: 8 AVHWIRKGMRLHDNPALLSAINYKNEKGQNILLKPLYILDPH------FRKFMRVGPNRW 61
+ R+ +RL DN L NY + ++ P++I DP ++ V
Sbjct: 3 CIFIFRRDLRLEDNTGL----NYALSECDRVI--PVFIADPRQLINNPYKSEFAVS---- 52
Query: 62 RFLQQSLADLDQKFRALGSRLYVVQGKPEEVFPDIFKTWNIKLLTWEYDIEPYAKKRDGL 121
F+ SL +LD + R GSRL V G+ E+V F + + D P++ RD
Sbjct: 53 -FMINSLLELDDELRKKGSRLNVFFGEAEKVVSRFFN--KVDAIYVNEDYTPFSISRDEK 109
Query: 122 VEDMAKEYKVKVEQHVSHTL 141
+ + +E ++ + + + L
Sbjct: 110 IRKVCEENGIEFKAYEDYLL 129
>pdb|1U3C|A Chain A, Crystal Structure Of The Phr Domain Of Cryptochrome 1 From
Arabidopsis Thaliana
pdb|1U3D|A Chain A, Crystal Structure Of The Phr Domain Of Cryptochrome 1 From
Arabidopsis Thaliana With Amppnp Bound
Length = 509
Score = 40.0 bits (92), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 36/137 (26%), Positives = 63/137 (45%), Gaps = 12/137 (8%)
Query: 9 VHWIRKGMRLHDNPALLSAINYKNEKGQNILLKPLYILDPHFRKFMRVG-PNRWRFLQQS 67
+ W R+ +R+ DNPAL +A+ G I L++ P G +RW +L+ S
Sbjct: 15 IVWFRRDLRVEDNPALAAAV----RAGPVIA---LFVWAPEEEGHYHPGRVSRW-WLKNS 66
Query: 68 LADLDQKFRALGSRLYVVQGKPEEVFP--DIFKTWNIKLLTWEYDIEPYAKKRDGLVEDM 125
LA LD R+LG+ L + + + V D+ K+ + + + +P + RD +D+
Sbjct: 67 LAQLDSSLRSLGTCL-ITKRSTDSVASLLDVVKSTGASQIFFNHLYDPLSLVRDHRAKDV 125
Query: 126 AKEYKVKVEQHVSHTLY 142
+ V + LY
Sbjct: 126 LTAQGIAVRSFNADLLY 142
>pdb|2XRY|A Chain A, X-Ray Structure Of Archaeal Class Ii Cpd Photolyase From
Methanosarcina Mazei
pdb|2XRZ|A Chain A, X-Ray Structure Of Archaeal Class Ii Cpd Photolyase From
Methanosarcina Mazei In Complex With Intact Cpd-Lesion
pdb|2XRZ|B Chain B, X-Ray Structure Of Archaeal Class Ii Cpd Photolyase From
Methanosarcina Mazei In Complex With Intact Cpd-Lesion
Length = 482
Score = 29.6 bits (65), Expect = 0.71, Method: Compositional matrix adjust.
Identities = 22/102 (21%), Positives = 44/102 (43%), Gaps = 5/102 (4%)
Query: 9 VHWIRKGMRLHDNPALLSAINYKNEKGQNILLKPLYILDPHFRKFMRVGPNRWRFLQQSL 68
V+W+ + R DN ALL + E N+ P+ ++ +F+ G ++ F+ + L
Sbjct: 40 VYWMSRDQRAEDNWALLFSRAIAKE--ANV---PVVVVFCLTDEFLEAGIRQYEFMLKGL 94
Query: 69 ADLDQKFRALGSRLYVVQGKPEEVFPDIFKTWNIKLLTWEYD 110
+L+ + ++G P E K +N L ++
Sbjct: 95 QELEVSLSRKKIPSFFLRGDPGEKISRFVKDYNAGTLVTDFS 136
>pdb|2BW0|A Chain A, Crystal Structure Of The Hydrolase Domain Of Human 10-
Formyltetrahydrofolate 2 Dehydrogenase
pdb|2CFI|A Chain A, The Hydrolase Domain Of Human 10-Fthfd In Complex With 6-
Formyltetrahydropterin
Length = 329
Score = 28.5 bits (62), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 12/27 (44%), Positives = 19/27 (70%)
Query: 59 NRWRFLQQSLADLDQKFRALGSRLYVV 85
+RWR Q+L D+ K++ALG+ L V+
Sbjct: 79 SRWRAKGQALPDVVAKYQALGAELNVL 105
>pdb|1DNP|A Chain A, Structure Of Deoxyribodipyrimidine Photolyase
pdb|1DNP|B Chain B, Structure Of Deoxyribodipyrimidine Photolyase
Length = 471
Score = 27.3 bits (59), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 17/61 (27%), Positives = 26/61 (42%), Gaps = 5/61 (8%)
Query: 11 WIRKGMRLHDNPALLSAINYKNEKGQNILLKPLYILDPHFRKFMRVGPNRWRFLQQSLAD 70
W R+ +RLHDN AL +A + + + LYI P + P + + L
Sbjct: 6 WFRQDLRLHDNLALAAACRNSSAR-----VLALYIATPRQWATHNMSPRQAELINAQLNG 60
Query: 71 L 71
L
Sbjct: 61 L 61
>pdb|3Q33|B Chain B, Structure Of The Rtt109-AccoaVPS75 COMPLEX AND
IMPLICATIONS FOR Chaperone-Mediated Histone Acetylation
pdb|3Q35|B Chain B, Structure Of The Rtt109-AccoaVPS75 COMPLEX AND
IMPLICATIONS FOR Chaperone-Mediated Histone Acetylation
Length = 232
Score = 26.9 bits (58), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 11/32 (34%), Positives = 22/32 (68%)
Query: 111 IEPYAKKRDGLVEDMAKEYKVKVEQHVSHTLY 142
++P +KRD ++++A+ +K+ + QHVS Y
Sbjct: 40 MKPVYEKRDAYIDEIAEFWKIVLSQHVSFANY 71
>pdb|3C9D|A Chain A, Crystal Structure Of Vps75
pdb|3C9D|B Chain B, Crystal Structure Of Vps75
Length = 259
Score = 26.9 bits (58), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 11/32 (34%), Positives = 22/32 (68%)
Query: 111 IEPYAKKRDGLVEDMAKEYKVKVEQHVSHTLY 142
++P +KRD ++++A+ +K+ + QHVS Y
Sbjct: 40 MKPVYEKRDAYIDEIAEFWKIVLSQHVSFANY 71
>pdb|2ZD7|A Chain A, The Structure Of Vps75 (Vacuolar Protein
Sorting-Associated Protein 75)
pdb|2ZD7|B Chain B, The Structure Of Vps75 (Vacuolar Protein
Sorting-Associated Protein 75)
pdb|3Q66|A Chain A, Structure Of The Vps75-Rtt109 Histone Chaperone-Lysine
Acetyltransferase Complex (Full-Length Proteins In Space
Group P6122)
pdb|3Q66|B Chain B, Structure Of The Vps75-Rtt109 Histone Chaperone-Lysine
Acetyltransferase Complex (Full-Length Proteins In Space
Group P6122)
pdb|3Q68|A Chain A, Structure Of The Vps75-Rtt109 Histone Chaperone-Lysine
Acetyltransferase Complex (Full-Length Proteins In Space
Group P212121)
pdb|3Q68|B Chain B, Structure Of The Vps75-Rtt109 Histone Chaperone-Lysine
Acetyltransferase Complex (Full-Length Proteins In Space
Group P212121)
Length = 264
Score = 26.9 bits (58), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 11/32 (34%), Positives = 22/32 (68%)
Query: 111 IEPYAKKRDGLVEDMAKEYKVKVEQHVSHTLY 142
++P +KRD ++++A+ +K+ + QHVS Y
Sbjct: 40 MKPVYEKRDAYIDEIAEFWKIVLSQHVSFANY 71
>pdb|3C9B|A Chain A, Crystal Structure Of Semet Vps75
pdb|3C9B|B Chain B, Crystal Structure Of Semet Vps75
Length = 259
Score = 26.6 bits (57), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 11/30 (36%), Positives = 20/30 (66%)
Query: 113 PYAKKRDGLVEDMAKEYKVKVEQHVSHTLY 142
P +KRD ++++A+ +K+ + QHVS Y
Sbjct: 42 PVYEKRDAYIDEIAEFWKIVLSQHVSFANY 71
>pdb|1PCF|A Chain A, Human Transcriptional Coactivator Pc4 C-Terminal Domain
pdb|1PCF|B Chain B, Human Transcriptional Coactivator Pc4 C-Terminal Domain
pdb|1PCF|C Chain C, Human Transcriptional Coactivator Pc4 C-Terminal Domain
pdb|1PCF|D Chain D, Human Transcriptional Coactivator Pc4 C-Terminal Domain
pdb|1PCF|E Chain E, Human Transcriptional Coactivator Pc4 C-Terminal Domain
pdb|1PCF|F Chain F, Human Transcriptional Coactivator Pc4 C-Terminal Domain
pdb|1PCF|G Chain G, Human Transcriptional Coactivator Pc4 C-Terminal Domain
pdb|1PCF|H Chain H, Human Transcriptional Coactivator Pc4 C-Terminal Domain
pdb|2C62|A Chain A, Crystal Structure Of The Human Transcription Cofactor
Pc4 In Complex With Single-Stranded Dna
pdb|2C62|B Chain B, Crystal Structure Of The Human Transcription Cofactor
Pc4 In Complex With Single-Stranded Dna
pdb|2PHE|A Chain A, Model For Vp16 Binding To Pc4
pdb|2PHE|B Chain B, Model For Vp16 Binding To Pc4
Length = 66
Score = 26.6 bits (57), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 14/56 (25%), Positives = 30/56 (53%), Gaps = 5/56 (8%)
Query: 28 INYKNEKGQNILLKPLYILDPHF-----RKFMRVGPNRWRFLQQSLADLDQKFRAL 78
++ ++ KG+ ++ Y +DP RK + + P +W L++ ++D+D R L
Sbjct: 11 VSVRDFKGKVLIDIREYWMDPEGEMKPGRKGISLNPEQWSQLKEQISDIDDAVRKL 66
>pdb|3DM7|A Chain A, Crystal Structure Of The Vps75 Histone Chaperone
pdb|3DM7|B Chain B, Crystal Structure Of The Vps75 Histone Chaperone
Length = 234
Score = 26.6 bits (57), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 11/30 (36%), Positives = 20/30 (66%)
Query: 113 PYAKKRDGLVEDMAKEYKVKVEQHVSHTLY 142
P +KRD ++++A+ +K+ + QHVS Y
Sbjct: 44 PVYEKRDAYIDEIAEFWKIVLSQHVSFANY 73
>pdb|2H9A|A Chain A, Corrinoid Iron-Sulfur Protein
pdb|2YCL|A Chain A, Complete Structure Of The Corrinoid,Iron-Sulfur Protein
Including The N-Terminal Domain With A 4fe-4s Cluster
Length = 445
Score = 26.6 bits (57), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 14/49 (28%), Positives = 25/49 (51%)
Query: 67 SLADLDQKFRALGSRLYVVQGKPEEVFPDIFKTWNIKLLTWEYDIEPYA 115
+LA+L QK ALG + ++ +PE + +F I+ L + P+
Sbjct: 212 ALAELVQKITALGYKNLILDPQPENISEGLFYQTQIRRLAIKKLFRPFG 260
>pdb|1XE4|A Chain A, Crystal Structure Of Weissella Viridescens Femx (K36m)
Mutant
Length = 335
Score = 26.6 bits (57), Expect = 5.9, Method: Compositional matrix adjust.
Identities = 11/29 (37%), Positives = 17/29 (58%)
Query: 71 LDQKFRALGSRLYVVQGKPEEVFPDIFKT 99
+D+ +AL R YV++ PE + D F T
Sbjct: 91 VDEAVKALDGRAYVLRFDPEVAYSDEFNT 119
>pdb|2ZNS|A Chain A, Crystal Structure Of The Ligand-Binding Core Of The Human
Ionotropic Glutamate Receptor, Glur5, In Complex With
Glutamate
pdb|2ZNT|A Chain A, Crystal Structure Of The Ligand-Binding Core Of The Human
Ionotropic Glutamate Receptor, Glur5, In Complex With A
Novel Selective Agonist, Dysiherbaine
pdb|2ZNU|A Chain A, Crystal Structure Of The Ligand-Binding Core Of The Human
Ionotropic Glutamate Receptor, Glur5, In Complex With A
Novel Selective Agonist, Neodysiherbaine A
pdb|3FUZ|A Chain A, Crystal Structure Of The Human Glutamate Receptor, Glur5,
Ligand- Binding Core In Complex With L-Glutamate In
Space Group P1
pdb|3FUZ|B Chain B, Crystal Structure Of The Human Glutamate Receptor, Glur5,
Ligand- Binding Core In Complex With L-Glutamate In
Space Group P1
pdb|3FV1|A Chain A, Crystal Structure Of The Human Glutamate Receptor, Glur5,
Ligand- Binding Core In Complex With Dysiherbaine In
Space Group P1
pdb|3FV1|B Chain B, Crystal Structure Of The Human Glutamate Receptor, Glur5,
Ligand- Binding Core In Complex With Dysiherbaine In
Space Group P1
pdb|3FV2|A Chain A, Crystal Structure Of The Human Glutamate Receptor, Glur5,
Ligand- Binding Core In Complex With Neodysiherbaine A
In Space Group P1
pdb|3FV2|B Chain B, Crystal Structure Of The Human Glutamate Receptor, Glur5,
Ligand- Binding Core In Complex With Neodysiherbaine A
In Space Group P1
pdb|3FVG|A Chain A, Crystal Structure Of The Human Glutamate Receptor, Glur5,
Ligand- Binding Core In Complex With Msviii-19 In Space
Group P1
pdb|3FVG|B Chain B, Crystal Structure Of The Human Glutamate Receptor, Glur5,
Ligand- Binding Core In Complex With Msviii-19 In Space
Group P1
pdb|3FVK|A Chain A, Crystal Structure Of The Human Glutamate Receptor, Glur5,
Ligand- Binding Core In Complex With
8-Deoxy-Neodysiherbaine A In Space Group P1
pdb|3FVK|B Chain B, Crystal Structure Of The Human Glutamate Receptor, Glur5,
Ligand- Binding Core In Complex With
8-Deoxy-Neodysiherbaine A In Space Group P1
pdb|3FVN|A Chain A, Crystal Structure Of The Human Glutamate Receptor, Glur5,
Ligand- Binding Core In Complex With
9-Deoxy-Neodysiherbaine A In Space Group P1
pdb|3FVN|B Chain B, Crystal Structure Of The Human Glutamate Receptor, Glur5,
Ligand- Binding Core In Complex With
9-Deoxy-Neodysiherbaine A In Space Group P1
pdb|3FVO|A Chain A, Crystal Structure Of The Human Glutamate Receptor, Glur5,
Ligand-Binding Core In Complex With
8-Epi-Neodysiherbaine A In Space Group P1
pdb|3FVO|B Chain B, Crystal Structure Of The Human Glutamate Receptor, Glur5,
Ligand-Binding Core In Complex With
8-Epi-Neodysiherbaine A In Space Group P1
Length = 256
Score = 26.6 bits (57), Expect = 5.9, Method: Compositional matrix adjust.
Identities = 24/104 (23%), Positives = 43/104 (41%), Gaps = 15/104 (14%)
Query: 31 KNEKGQ-NILLKPLYILDPHFRKFMRVGPNRWRFLQQSLADLDQKFRALGSRLYVVQGKP 89
+N+KG+ N ++K L R + V P ++++ + D + F LG + +G P
Sbjct: 63 QNDKGEWNGMVKELI----DHRADLAVAPLTITYVREKVIDFSKPFMTLGISILYRKGTP 118
Query: 90 EEVFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKV 133
+ D+ K I+ Y RDG K+ K+
Sbjct: 119 IDSADDLAKQTKIE----------YGAVRDGSTMTFFKKSKIST 152
>pdb|3GKR|A Chain A, Crystal Structure Of Weissella Viridescens
Femx:udp-Murnac-Hexapeptide Complex
Length = 336
Score = 26.6 bits (57), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 11/29 (37%), Positives = 17/29 (58%)
Query: 71 LDQKFRALGSRLYVVQGKPEEVFPDIFKT 99
+D+ +AL R YV++ PE + D F T
Sbjct: 92 VDEAVKALDGRAYVLRFDPEVAYSDEFNT 120
>pdb|2F34|A Chain A, Crystal Structure Of The Glur5 Ligand Binding Core Dimer
With Ubp310 At 1.74 Angstroms Resolution
pdb|2F34|B Chain B, Crystal Structure Of The Glur5 Ligand Binding Core Dimer
With Ubp310 At 1.74 Angstroms Resolution
pdb|2F35|A Chain A, Crystal Structure Of The Glur5 Ligand Binding Core With
Ubp302 At 1.87 Angstroms Resolution
pdb|2F35|B Chain B, Crystal Structure Of The Glur5 Ligand Binding Core With
Ubp302 At 1.87 Angstroms Resolution
pdb|2F36|A Chain A, Crystal Structure Of The Glur5 Ligand Binding Core Dimer
With Glutamate At 2.1 Angstroms Resolution
pdb|2F36|B Chain B, Crystal Structure Of The Glur5 Ligand Binding Core Dimer
With Glutamate At 2.1 Angstroms Resolution
pdb|2F36|C Chain C, Crystal Structure Of The Glur5 Ligand Binding Core Dimer
With Glutamate At 2.1 Angstroms Resolution
pdb|2F36|D Chain D, Crystal Structure Of The Glur5 Ligand Binding Core Dimer
With Glutamate At 2.1 Angstroms Resolution
pdb|2OJT|A Chain A, Structure And Mechanism Of Kainate Receptor Modulation By
Anions
pdb|2OJT|B Chain B, Structure And Mechanism Of Kainate Receptor Modulation By
Anions
pdb|2QS1|A Chain A, Crystal Structure Of The Glur5 Ligand Binding Core Dimer
In Complex With Ubp315 At 1.80 Angstroms Resolution
pdb|2QS1|B Chain B, Crystal Structure Of The Glur5 Ligand Binding Core Dimer
In Complex With Ubp315 At 1.80 Angstroms Resolution
pdb|2QS2|A Chain A, Crystal Structure Of The Glur5 Ligand Binding Core Dimer
In Complex With Ubp318 At 1.80 Angstroms Resolution
pdb|2QS2|B Chain B, Crystal Structure Of The Glur5 Ligand Binding Core Dimer
In Complex With Ubp318 At 1.80 Angstroms Resolution
pdb|2QS3|A Chain A, Crystal Structure Of The Glur5 Ligand Binding Core Dimer
In Complex With Ubp316 At 1.76 Angstroms Resolution
pdb|2QS3|B Chain B, Crystal Structure Of The Glur5 Ligand Binding Core Dimer
In Complex With Ubp316 At 1.76 Angstroms Resolution
pdb|2QS4|A Chain A, Crystal Structure Of The Glur5 Ligand Binding Core Dimer
In Complex With Ly466195 At 1.58 Angstroms Resolution
pdb|2QS4|B Chain B, Crystal Structure Of The Glur5 Ligand Binding Core Dimer
In Complex With Ly466195 At 1.58 Angstroms Resolution
pdb|2QS4|C Chain C, Crystal Structure Of The Glur5 Ligand Binding Core Dimer
In Complex With Ly466195 At 1.58 Angstroms Resolution
pdb|2QS4|D Chain D, Crystal Structure Of The Glur5 Ligand Binding Core Dimer
In Complex With Ly466195 At 1.58 Angstroms Resolution
Length = 258
Score = 26.6 bits (57), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 24/104 (23%), Positives = 43/104 (41%), Gaps = 15/104 (14%)
Query: 31 KNEKGQ-NILLKPLYILDPHFRKFMRVGPNRWRFLQQSLADLDQKFRALGSRLYVVQGKP 89
+N+KG+ N ++K L R + V P ++++ + D + F LG + +G P
Sbjct: 64 QNDKGEWNGMVKELI----DHRADLAVAPLTITYVREKVIDFSKPFMTLGISILYRKGTP 119
Query: 90 EEVFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKV 133
+ D+ K I+ Y RDG K+ K+
Sbjct: 120 IDSADDLAKQTKIE----------YGAVRDGSTMTFFKKSKIST 153
>pdb|1NE9|A Chain A, Crystal Structure Of Weissella Viridescens Femx At 1.7 Ang
Resolution
pdb|1P4N|A Chain A, Crystal Structure Of Weissella Viridescens
Femx:udp-Murnac- Pentapeptide Complex
pdb|1XIX|A Chain A, Crystal Structure Of Weissella Viridescens Femx Form Ii
Length = 335
Score = 26.2 bits (56), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 11/29 (37%), Positives = 17/29 (58%)
Query: 71 LDQKFRALGSRLYVVQGKPEEVFPDIFKT 99
+D+ +AL R YV++ PE + D F T
Sbjct: 91 VDEAVKALDGRAYVLRFDPEVAYSDEFNT 119
>pdb|1TXF|A Chain A, Crystal Structure Of The Glur5 Ligand Binding Core In
Complex With Glutamate At 2.1 Angstrom Resolution
pdb|3C31|A Chain A, Crystal Structure Of Glur5 Ligand-Binding Core In Complex
With Lithium At 1.49 Angstrom Resolution
pdb|3C31|B Chain B, Crystal Structure Of Glur5 Ligand-Binding Core In Complex
With Lithium At 1.49 Angstrom Resolution
pdb|3C32|A Chain A, Crystal Structure Of Glur5 Ligand-Binding Core In Complex
With Sodium At 1.72 Angstrom Resolution
pdb|3C32|B Chain B, Crystal Structure Of Glur5 Ligand-Binding Core In Complex
With Sodium At 1.72 Angstrom Resolution
pdb|3C33|A Chain A, Crystal Structure Of Glur5 Ligand-Binding Core In Complex
With Potassium At 1.78 Angstrom Resolution
pdb|3C33|B Chain B, Crystal Structure Of Glur5 Ligand-Binding Core In Complex
With Potassium At 1.78 Angstrom Resolution
pdb|3C34|A Chain A, Crystal Structure Of Glur5 Ligand-Binding Core In Complex
With Rubidium At 1.82 Angstrom Resolution
pdb|3C34|B Chain B, Crystal Structure Of Glur5 Ligand-Binding Core In Complex
With Rubidium At 1.82 Angstrom Resolution
pdb|3C35|A Chain A, Crystal Structure Of Glur5 Ligand-Binding Core In Complex
With Cesium At 1.97 Angstrom Resolution
pdb|3C35|B Chain B, Crystal Structure Of Glur5 Ligand-Binding Core In Complex
With Cesium At 1.97 Angstrom Resolution
pdb|3C36|A Chain A, Crystal Structure Of Glur5 Ligand-Binding Core In Complex
With Ammonium Ions At 1.68 Angstrom Resolution
pdb|3C36|B Chain B, Crystal Structure Of Glur5 Ligand-Binding Core In Complex
With Ammonium Ions At 1.68 Angstrom Resolution
Length = 258
Score = 26.2 bits (56), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 24/104 (23%), Positives = 43/104 (41%), Gaps = 15/104 (14%)
Query: 31 KNEKGQ-NILLKPLYILDPHFRKFMRVGPNRWRFLQQSLADLDQKFRALGSRLYVVQGKP 89
+N+KG+ N ++K L R + V P ++++ + D + F LG + +G P
Sbjct: 64 QNDKGEWNGMVKELI----DHRADLAVAPLTITYVREKVIDFSKPFMTLGISILYRKGTP 119
Query: 90 EEVFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKV 133
+ D+ K I+ Y RDG K+ K+
Sbjct: 120 IDSADDLAKQTKIE----------YGAVRDGSTMTFFKKSKIST 153
>pdb|1YCJ|A Chain A, Crystal Structure Of The Kainate Receptor Glur5 Ligand-
Binding Core In Complex With (S)-Glutamate
pdb|1YCJ|B Chain B, Crystal Structure Of The Kainate Receptor Glur5 Ligand-
Binding Core In Complex With (S)-Glutamate
pdb|1VSO|A Chain A, Crystal Structure Of The Ligand-Binding Core Of Iglur5 In
Complex With The Antagonist (S)-Atpo At 1.85 A
Resolution
pdb|2PBW|A Chain A, Crystal Structure Of The Ligand-Binding Core Of Iglur5 In
Complex With The Partial Agonist Domoic Acid At 2.5 A
Resolution
pdb|2PBW|B Chain B, Crystal Structure Of The Ligand-Binding Core Of Iglur5 In
Complex With The Partial Agonist Domoic Acid At 2.5 A
Resolution
pdb|3GBA|A Chain A, X-Ray Structure Of Iglur5 Ligand-Binding Core (S1s2) In
Complex With Dysiherbaine At 1.35a Resolution
pdb|3GBA|B Chain B, X-Ray Structure Of Iglur5 Ligand-Binding Core (S1s2) In
Complex With Dysiherbaine At 1.35a Resolution
pdb|3GBA|C Chain C, X-Ray Structure Of Iglur5 Ligand-Binding Core (S1s2) In
Complex With Dysiherbaine At 1.35a Resolution
pdb|3GBA|D Chain D, X-Ray Structure Of Iglur5 Ligand-Binding Core (S1s2) In
Complex With Dysiherbaine At 1.35a Resolution
pdb|3GBB|A Chain A, X-Ray Strucutre Of Iglur5 Ligand-Binding Core (S1s2) In
Complex With Msviii-19 At 2.10a Resolution
pdb|3GBB|B Chain B, X-Ray Strucutre Of Iglur5 Ligand-Binding Core (S1s2) In
Complex With Msviii-19 At 2.10a Resolution
pdb|3S2V|A Chain A, Crystal Structure Of The Ligand Binding Domain Of Gluk1 In
Complex With An Antagonist
(S)-1-(2'-Amino-2'-Carboxyethyl)-3-[(2-
Carboxythien-3-Yl)methyl]thieno[3,4-D]pyrimidin-2,
4-Dione At 2.5 A Resolution
pdb|3S2V|B Chain B, Crystal Structure Of The Ligand Binding Domain Of Gluk1 In
Complex With An Antagonist
(S)-1-(2'-Amino-2'-Carboxyethyl)-3-[(2-
Carboxythien-3-Yl)methyl]thieno[3,4-D]pyrimidin-2,
4-Dione At 2.5 A Resolution
pdb|4E0X|A Chain A, Crystal Structure Of The Kainate Receptor Gluk1
Ligand-Binding Domain In Complex With Kainate In The
Absence Of Glycerol
pdb|4E0X|B Chain B, Crystal Structure Of The Kainate Receptor Gluk1
Ligand-Binding Domain In Complex With Kainate In The
Absence Of Glycerol
pdb|4DLD|A Chain A, Crystal Structure Of The Gluk1 Ligand-Binding Domain
(S1s2) In Complex With The Antagonist
(S)-2-Amino-3-(2-(2-Carboxyethyl)-5-Chloro-4-
Nitrophenyl)propionic Acid At 2.0 A Resolution
pdb|4DLD|B Chain B, Crystal Structure Of The Gluk1 Ligand-Binding Domain
(S1s2) In Complex With The Antagonist
(S)-2-Amino-3-(2-(2-Carboxyethyl)-5-Chloro-4-
Nitrophenyl)propionic Acid At 2.0 A Resolution
Length = 257
Score = 26.2 bits (56), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 24/104 (23%), Positives = 43/104 (41%), Gaps = 15/104 (14%)
Query: 31 KNEKGQ-NILLKPLYILDPHFRKFMRVGPNRWRFLQQSLADLDQKFRALGSRLYVVQGKP 89
+N+KG+ N ++K L R + V P ++++ + D + F LG + +G P
Sbjct: 64 QNDKGEWNGMVKELI----DHRADLAVAPLTITYVREKVIDFSKPFMTLGISILYRKGTP 119
Query: 90 EEVFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKV 133
+ D+ K I+ Y RDG K+ K+
Sbjct: 120 IDSADDLAKQTKIE----------YGAVRDGSTMTFFKKSKIST 153
>pdb|2WKY|A Chain A, Crystal Structure Of The Ligand-Binding Core Of Glur5 In
Complex With The Agonist 4-Ahcp
pdb|2WKY|B Chain B, Crystal Structure Of The Ligand-Binding Core Of Glur5 In
Complex With The Agonist 4-Ahcp
Length = 258
Score = 26.2 bits (56), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 24/104 (23%), Positives = 43/104 (41%), Gaps = 15/104 (14%)
Query: 31 KNEKGQ-NILLKPLYILDPHFRKFMRVGPNRWRFLQQSLADLDQKFRALGSRLYVVQGKP 89
+N+KG+ N ++K L R + V P ++++ + D + F LG + +G P
Sbjct: 64 QNDKGEWNGMVKELI----DHRADLAVAPLTITYVREKVIDFSKPFMTLGISILYRKGTP 119
Query: 90 EEVFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKV 133
+ D+ K I+ Y RDG K+ K+
Sbjct: 120 IDSADDLAKQTKIE----------YGAVRDGSTMTFFKKSKIST 153
>pdb|1XF8|A Chain A, Crystal Structure Of Weissella Viridescens Femx (Y254f)
Mutant
Length = 335
Score = 26.2 bits (56), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 11/29 (37%), Positives = 17/29 (58%)
Query: 71 LDQKFRALGSRLYVVQGKPEEVFPDIFKT 99
+D+ +AL R YV++ PE + D F T
Sbjct: 91 VDEAVKALDGRAYVLRFDPEVAYSDEFNT 119
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
0.322 0.139 0.438
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,914,223
Number of Sequences: 62578
Number of extensions: 197303
Number of successful extensions: 448
Number of sequences better than 100.0: 40
Number of HSP's better than 100.0 without gapping: 26
Number of HSP's successfully gapped in prelim test: 14
Number of HSP's that attempted gapping in prelim test: 407
Number of HSP's gapped (non-prelim): 40
length of query: 146
length of database: 14,973,337
effective HSP length: 90
effective length of query: 56
effective length of database: 9,341,317
effective search space: 523113752
effective search space used: 523113752
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: 46 (22.3 bits)