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= psy2494
(166 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1JTK|A Chain A, Crystal Structure Of Cytidine Deaminase From Bacillus
Subtilis In Complex With The Inhibitor
Tetrahydrodeoxyuridine
pdb|1JTK|B Chain B, Crystal Structure Of Cytidine Deaminase From Bacillus
Subtilis In Complex With The Inhibitor
Tetrahydrodeoxyuridine
Length = 136
Score = 115 bits (287), Expect = 1e-26, Method: Compositional matrix adjust.
Identities = 59/124 (47%), Positives = 86/124 (69%), Gaps = 8/124 (6%)
Query: 17 QNLANLSIQARDNAYCPYSKLQVGAALLCQDDTIFTGCNVENASYGMTICAEKTAISKAI 76
Q L +++ARD AY PYSK QVGAALL +D ++ GCN+ENA+Y M CAE+TA+ KA+
Sbjct: 4 QELITEALKARDMAYAPYSKFQVGAALLTKDGKVYRGCNIENAAYSMCNCAERTALFKAV 63
Query: 77 SEGQTKFKRIAVSAILPDSNKFVSPCGSCRQVIAEFSSPACDIQVLIVKSD-RSQVGLIT 135
SEG T+F+ +AV+A P VSPCG+CRQVI+E C V++V ++ + Q+ +T
Sbjct: 64 SEGDTEFQMLAVAADTPGP---VSPCGACRQVISEL----CTKDVIVVLTNLQGQIKEMT 116
Query: 136 IDGM 139
++ +
Sbjct: 117 VEEL 120
>pdb|1UX0|A Chain A, Bacillus Subtilis Cytidine Deaminase With An Arg56 - Gln
Substitution
pdb|1UX0|B Chain B, Bacillus Subtilis Cytidine Deaminase With An Arg56 - Gln
Substitution
Length = 136
Score = 114 bits (286), Expect = 2e-26, Method: Compositional matrix adjust.
Identities = 59/124 (47%), Positives = 86/124 (69%), Gaps = 8/124 (6%)
Query: 17 QNLANLSIQARDNAYCPYSKLQVGAALLCQDDTIFTGCNVENASYGMTICAEKTAISKAI 76
Q L +++ARD AY PYSK QVGAALL +D ++ GCN+ENA+Y M CAE+TA+ KA+
Sbjct: 4 QELITEALKARDMAYAPYSKFQVGAALLTKDGKVYRGCNIENAAYSMCNCAEQTALFKAV 63
Query: 77 SEGQTKFKRIAVSAILPDSNKFVSPCGSCRQVIAEFSSPACDIQVLIVKSD-RSQVGLIT 135
SEG T+F+ +AV+A P VSPCG+CRQVI+E C V++V ++ + Q+ +T
Sbjct: 64 SEGDTEFQMLAVAADTPGP---VSPCGACRQVISEL----CTKDVIVVLTNLQGQIKEMT 116
Query: 136 IDGM 139
++ +
Sbjct: 117 VEEL 120
>pdb|1ZAB|A Chain A, Crystal Structure Of Mouse Cytidine Deaminase Complexed
With 3-Deazauridine
pdb|1ZAB|B Chain B, Crystal Structure Of Mouse Cytidine Deaminase Complexed
With 3-Deazauridine
pdb|1ZAB|C Chain C, Crystal Structure Of Mouse Cytidine Deaminase Complexed
With 3-Deazauridine
pdb|1ZAB|D Chain D, Crystal Structure Of Mouse Cytidine Deaminase Complexed
With 3-Deazauridine
pdb|2FR5|A Chain A, Crystal Structure Of Mouse Cytidine Deaminase Complexed
With Tetrahydrouridine
pdb|2FR5|B Chain B, Crystal Structure Of Mouse Cytidine Deaminase Complexed
With Tetrahydrouridine
pdb|2FR5|C Chain C, Crystal Structure Of Mouse Cytidine Deaminase Complexed
With Tetrahydrouridine
pdb|2FR5|D Chain D, Crystal Structure Of Mouse Cytidine Deaminase Complexed
With Tetrahydrouridine
pdb|2FR6|A Chain A, Crystal Structure Of Mouse Cytidine Deaminase Complexed
With Cytidine
pdb|2FR6|B Chain B, Crystal Structure Of Mouse Cytidine Deaminase Complexed
With Cytidine
pdb|2FR6|C Chain C, Crystal Structure Of Mouse Cytidine Deaminase Complexed
With Cytidine
pdb|2FR6|D Chain D, Crystal Structure Of Mouse Cytidine Deaminase Complexed
With Cytidine
Length = 146
Score = 114 bits (285), Expect = 2e-26, Method: Compositional matrix adjust.
Identities = 58/111 (52%), Positives = 76/111 (68%), Gaps = 5/111 (4%)
Query: 17 QNLANLSIQARDNAYCPYSKLQVGAALLCQDDTIFTGCNVENASYGMTICAEKTAISKAI 76
Q L S +A+ +AYCPYS+ VGAALL D IF+GCN+ENA Y + +CAE+TAI KAI
Sbjct: 16 QRLLLSSREAKKSAYCPYSRFPVGAALLTGDGRIFSGCNIENACYPLGVCAERTAIQKAI 75
Query: 77 SEGQTKFKRIAVSAILPDSNKFVSPCGSCRQVIAEFSSPACDIQVLIVKSD 127
SEG F+ IA+S+ L +F+SPCG+CRQV+ EF + D V + K D
Sbjct: 76 SEGYKDFRAIAISSDL--QEEFISPCGACRQVMREFGT---DWAVYMTKPD 121
>pdb|1UWZ|A Chain A, Bacillus Subtilis Cytidine Deaminase With An Arg56 - Ala
Substitution
pdb|1UWZ|B Chain B, Bacillus Subtilis Cytidine Deaminase With An Arg56 - Ala
Substitution
Length = 136
Score = 114 bits (284), Expect = 4e-26, Method: Compositional matrix adjust.
Identities = 59/124 (47%), Positives = 85/124 (68%), Gaps = 8/124 (6%)
Query: 17 QNLANLSIQARDNAYCPYSKLQVGAALLCQDDTIFTGCNVENASYGMTICAEKTAISKAI 76
Q L +++ARD AY PYSK QVGAALL +D ++ GCN+ENA+Y M CAE TA+ KA+
Sbjct: 4 QELITEALKARDMAYAPYSKFQVGAALLTKDGKVYRGCNIENAAYSMCNCAEATALFKAV 63
Query: 77 SEGQTKFKRIAVSAILPDSNKFVSPCGSCRQVIAEFSSPACDIQVLIVKSD-RSQVGLIT 135
SEG T+F+ +AV+A P VSPCG+CRQVI+E C V++V ++ + Q+ +T
Sbjct: 64 SEGDTEFQMLAVAADTPGP---VSPCGACRQVISEL----CTKDVIVVLTNLQGQIKEMT 116
Query: 136 IDGM 139
++ +
Sbjct: 117 VEEL 120
>pdb|1UX1|A Chain A, Bacillus Subtilis Cytidine Deaminase With A Cys53his And
An Arg56gln Substitution
pdb|1UX1|B Chain B, Bacillus Subtilis Cytidine Deaminase With A Cys53his And
An Arg56gln Substitution
pdb|1UX1|C Chain C, Bacillus Subtilis Cytidine Deaminase With A Cys53his And
An Arg56gln Substitution
pdb|1UX1|D Chain D, Bacillus Subtilis Cytidine Deaminase With A Cys53his And
An Arg56gln Substitution
Length = 136
Score = 111 bits (277), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 58/124 (46%), Positives = 85/124 (68%), Gaps = 8/124 (6%)
Query: 17 QNLANLSIQARDNAYCPYSKLQVGAALLCQDDTIFTGCNVENASYGMTICAEKTAISKAI 76
Q L +++ARD AY PYSK QVGAALL +D ++ GCN+ENA+Y M AE+TA+ KA+
Sbjct: 4 QELITEALKARDMAYAPYSKFQVGAALLTKDGKVYRGCNIENAAYSMCNHAEQTALFKAV 63
Query: 77 SEGQTKFKRIAVSAILPDSNKFVSPCGSCRQVIAEFSSPACDIQVLIVKSD-RSQVGLIT 135
SEG T+F+ +AV+A P VSPCG+CRQVI+E C V++V ++ + Q+ +T
Sbjct: 64 SEGDTEFQMLAVAADTPGP---VSPCGACRQVISEL----CTKDVIVVLTNLQGQIKEMT 116
Query: 136 IDGM 139
++ +
Sbjct: 117 VEEL 120
>pdb|1MQ0|A Chain A, Crystal Structure Of Human Cytidine Deaminase
pdb|1MQ0|B Chain B, Crystal Structure Of Human Cytidine Deaminase
Length = 140
Score = 111 bits (277), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 56/115 (48%), Positives = 77/115 (66%), Gaps = 5/115 (4%)
Query: 17 QNLANLSIQARDNAYCPYSKLQVGAALLCQDDTIFTGCNVENASYGMTICAEKTAISKAI 76
Q L S +A+ +AYCPYS VGAALL Q+ IF GCN+ENA Y + ICAE+TAI KA+
Sbjct: 10 QQLLVCSQEAKQSAYCPYSHFPVGAALLTQEGRIFKGCNIENACYPLGICAERTAIQKAV 69
Query: 77 SEGQTKFKRIAVSAILPDSNKFVSPCGSCRQVIAEFSSPACDIQVLIVKSDRSQV 131
SEG F+ IA+++ + D F+SPCG+CRQV+ EF + + V + K D + +
Sbjct: 70 SEGYKDFRAIAIASDMQDD--FISPCGACRQVMREFGT---NWPVYMTKPDGTYI 119
>pdb|2D30|A Chain A, Crystal Structure Of Cytidine Deaminase Cdd-2 (Ba4525)
From Bacillus Anthracis At 2.40a Resolution
pdb|2D30|B Chain B, Crystal Structure Of Cytidine Deaminase Cdd-2 (Ba4525)
From Bacillus Anthracis At 2.40a Resolution
Length = 141
Score = 109 bits (272), Expect = 8e-25, Method: Compositional matrix adjust.
Identities = 53/96 (55%), Positives = 68/96 (70%), Gaps = 3/96 (3%)
Query: 17 QNLANLSIQARDNAYCPYSKLQVGAALLCQDDTIFTGCNVENASYGMTICAEKTAISKAI 76
+ L +I+AR AY PYSK QVGAALL QD ++ GCNVENASYG+ CAE+TA+ KA+
Sbjct: 13 KQLIQEAIEARKQAYVPYSKFQVGAALLTQDGKVYRGCNVENASYGLCNCAERTALFKAV 72
Query: 77 SEGQTKFKRIAVSAILPDSNKFVSPCGSCRQVIAEF 112
SEG +F I AI+ D+ + V PCG+CRQV+ E
Sbjct: 73 SEGDKEFVAI---AIVADTKRPVPPCGACRQVMVEL 105
>pdb|3DMO|A Chain A, 1.6 A Crystal Structure Of Cytidine Deaminase From
Burkholderia Pseudomallei
pdb|3DMO|B Chain B, 1.6 A Crystal Structure Of Cytidine Deaminase From
Burkholderia Pseudomallei
pdb|3DMO|C Chain C, 1.6 A Crystal Structure Of Cytidine Deaminase From
Burkholderia Pseudomallei
pdb|3DMO|D Chain D, 1.6 A Crystal Structure Of Cytidine Deaminase From
Burkholderia Pseudomallei
Length = 138
Score = 86.7 bits (213), Expect = 6e-18, Method: Compositional matrix adjust.
Identities = 43/111 (38%), Positives = 68/111 (61%), Gaps = 3/111 (2%)
Query: 33 PYSKLQVGAALLCQDDTIFTGCNVENASYGMTICAEKTAISKAISEGQTKFKRIAVSAIL 92
PYS +VGAAL+ D +F GCNVENASYG+ CAE+TA+ A++ G + A A++
Sbjct: 28 PYSNFKVGAALVTNDGKVFHGCNVENASYGLCNCAERTALFSALAAGY-RPGEFAAIAVV 86
Query: 93 PDSNKFVSPCGSCRQVIAEFSSPACDIQVLIVKSD--RSQVGLITIDGMYL 141
+++ ++PCG+CRQV+ E P ++ + ++ D + G + D YL
Sbjct: 87 GETHGPIAPCGACRQVMIELGKPTLEVVLTNMQGDVRVTSAGDLLPDAFYL 137
>pdb|3MPZ|A Chain A, Crystal Structure Of Cytidine Deaminase From Mycobacterium
S
pdb|3MPZ|B Chain B, Crystal Structure Of Cytidine Deaminase From Mycobacterium
S
pdb|3MPZ|C Chain C, Crystal Structure Of Cytidine Deaminase From Mycobacterium
S
pdb|3MPZ|D Chain D, Crystal Structure Of Cytidine Deaminase From Mycobacterium
S
Length = 150
Score = 79.3 bits (194), Expect = 1e-15, Method: Compositional matrix adjust.
Identities = 41/97 (42%), Positives = 54/97 (55%), Gaps = 3/97 (3%)
Query: 19 LANLSIQARDNAYCPYSKLQVGAALLCQDDTIFTGCNVENASYGMTICAEKTAISKAISE 78
L + +I+ +AY PYS VGAA L D TGCNVEN SYG+ +CAE + S
Sbjct: 28 LRSKAIEVSRHAYAPYSGFPVGAAALVDDGRTVTGCNVENVSYGLGLCAECAVVCALHSG 87
Query: 79 GQTKFKRIAVSAILPDSNKFVSPCGSCRQVIAEFSSP 115
G + +A+S + PD + PCG CRQV+ E P
Sbjct: 88 GGGRL--VALSCVGPDGGVLM-PCGRCRQVLLEHGGP 121
>pdb|1R5T|A Chain A, The Crystal Structure Of Cytidine Deaminase Cdd1, An
Orphan C To U Editase From Yeast
pdb|1R5T|B Chain B, The Crystal Structure Of Cytidine Deaminase Cdd1, An
Orphan C To U Editase From Yeast
pdb|1R5T|C Chain C, The Crystal Structure Of Cytidine Deaminase Cdd1, An
Orphan C To U Editase From Yeast
pdb|1R5T|D Chain D, The Crystal Structure Of Cytidine Deaminase Cdd1, An
Orphan C To U Editase From Yeast
Length = 142
Score = 77.8 bits (190), Expect = 3e-15, Method: Compositional matrix adjust.
Identities = 47/116 (40%), Positives = 67/116 (57%), Gaps = 3/116 (2%)
Query: 17 QNLANLSIQARDNAYCPYSKLQVGAALLCQDDTIFTGCNVENASYGMTICAEKTAISKAI 76
+ L +++A + +Y PYS +VG ++L +D IFTG NVENASY ICAE++A+ + +
Sbjct: 12 EALKRAALKACELSYSPYSHFRVGCSILTNNDVIFTGANVENASYSNCICAERSAMIQVL 71
Query: 77 SEGQTKFKRIAVSAILPDS-NKFVSPCGSCRQVIAEFSSPACDIQVLIVKSDRSQV 131
G + V I DS ++ VSPCG CRQ I EF I +L RS+V
Sbjct: 72 MAGHRSGWKCMV--ICGDSEDQCVSPCGVCRQFINEFVVKDFPIVMLNSTGSRSKV 125
>pdb|3IJF|X Chain X, Crystal Structure Of Cytidine Deaminase From Mycobacterium
Tuberculosis
Length = 133
Score = 75.5 bits (184), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 39/92 (42%), Positives = 49/92 (53%), Gaps = 3/92 (3%)
Query: 23 SIQARDNAYCPYSKLQVGAALLCQDDTIFTGCNVENASYGMTICAEKTAISKAISEGQTK 82
+ QA AY PYS+ VGAA L D + TGCNVEN SYG+T+CAE + S G
Sbjct: 13 ATQAAAGAYVPYSRFAVGAAALVDDGRVVTGCNVENVSYGLTLCAECAVVCALHSTGG-- 70
Query: 83 FKRIAVSAILPDSNKFVSPCGSCRQVIAEFSS 114
R+ A + + PCG CRQV+ E
Sbjct: 71 -GRLLALACVDGHGSVLMPCGRCRQVLLEHGG 101
>pdb|3R2N|A Chain A, Crystal Structure Of Cytidine Deaminase From Mycobacterium
Leprae
pdb|3R2N|B Chain B, Crystal Structure Of Cytidine Deaminase From Mycobacterium
Leprae
pdb|3R2N|C Chain C, Crystal Structure Of Cytidine Deaminase From Mycobacterium
Leprae
pdb|3R2N|D Chain D, Crystal Structure Of Cytidine Deaminase From Mycobacterium
Leprae
Length = 138
Score = 74.3 bits (181), Expect = 3e-14, Method: Compositional matrix adjust.
Identities = 40/116 (34%), Positives = 64/116 (55%), Gaps = 5/116 (4%)
Query: 19 LANLSIQARDNAYCPYSKLQVGAALLCQDDTIFTGCNVENASYGMTICAEKTAISKAISE 78
L ++ AR N+Y PYS VG A D + TG NVENASYG+ +CAE + IS +
Sbjct: 13 LQKAAVAARANSYAPYSNFPVGVAGFVNDGRLITGVNVENASYGLALCAECSMISALYAT 72
Query: 79 GQTKFKRIAVSAILPDSNKFVSPCGSCRQVIAEFSSPACDIQVLIVKSDRSQVGLI 134
G + +AV + + + + PCG CRQ++ E P +++++ K ++ L+
Sbjct: 73 GGGRL--VAVYCVDGNGDSLM-PCGRCRQLLYEHGGP--ELKIMTPKGVQTMAQLL 123
>pdb|4F3W|A Chain A, Crystal Structure Of Cytidine Deaminase Cdd From
Mycobacterium Marinum
pdb|4F3W|B Chain B, Crystal Structure Of Cytidine Deaminase Cdd From
Mycobacterium Marinum
pdb|4F3W|C Chain C, Crystal Structure Of Cytidine Deaminase Cdd From
Mycobacterium Marinum
pdb|4F3W|D Chain D, Crystal Structure Of Cytidine Deaminase Cdd From
Mycobacterium Marinum
Length = 135
Score = 72.8 bits (177), Expect = 9e-14, Method: Compositional matrix adjust.
Identities = 37/99 (37%), Positives = 51/99 (51%), Gaps = 3/99 (3%)
Query: 17 QNLANLSIQARDNAYCPYSKLQVGAALLCQDDTIFTGCNVENASYGMTICAEKTAISKAI 76
+ L + + Q AY PYS+ VGAA L D + TGCNVEN SYG+ +CAE +
Sbjct: 11 KQLRDKATQVAAGAYAPYSRFPVGAAALVDDGRVVTGCNVENVSYGLALCAECGVVCALH 70
Query: 77 SEGQTKFKRIAVSAILPDSNKFVSPCGSCRQVIAEFSSP 115
+ G R+ A + + PCG CRQ++ E P
Sbjct: 71 ATGG---GRLVALACVDGRGAPLMPCGRCRQLLFEHGGP 106
>pdb|4EG2|A Chain A, 2.2 Angstrom Crystal Structure Of Cytidine Deaminase From
Vibrio Cholerae In Complex With Zinc And Uridine
pdb|4EG2|B Chain B, 2.2 Angstrom Crystal Structure Of Cytidine Deaminase From
Vibrio Cholerae In Complex With Zinc And Uridine
pdb|4EG2|C Chain C, 2.2 Angstrom Crystal Structure Of Cytidine Deaminase From
Vibrio Cholerae In Complex With Zinc And Uridine
pdb|4EG2|D Chain D, 2.2 Angstrom Crystal Structure Of Cytidine Deaminase From
Vibrio Cholerae In Complex With Zinc And Uridine
pdb|4EG2|E Chain E, 2.2 Angstrom Crystal Structure Of Cytidine Deaminase From
Vibrio Cholerae In Complex With Zinc And Uridine
pdb|4EG2|F Chain F, 2.2 Angstrom Crystal Structure Of Cytidine Deaminase From
Vibrio Cholerae In Complex With Zinc And Uridine
pdb|4EG2|G Chain G, 2.2 Angstrom Crystal Structure Of Cytidine Deaminase From
Vibrio Cholerae In Complex With Zinc And Uridine
pdb|4EG2|H Chain H, 2.2 Angstrom Crystal Structure Of Cytidine Deaminase From
Vibrio Cholerae In Complex With Zinc And Uridine
Length = 298
Score = 46.6 bits (109), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 36/124 (29%), Positives = 58/124 (46%), Gaps = 13/124 (10%)
Query: 4 HDIMEFSALDPIEQNLANLSIQARDNAYCPYSKLQVGAALLCQDDTIFTGCNVE--NASY 61
++ S L+ + +A L I A +Y P S+ VGA + ++ G N E A
Sbjct: 42 QQLLTLSGLEDADLRVALLPIAAA-YSYAPISEFYVGAIVRGISGRLYLGANXEFTGAQL 100
Query: 62 GMTICAEKTAISKAISEGQTKFKRIAVSAILPDSNKFVSPCGSCRQVIAEFSSPACDIQV 121
G T+ AE+ AIS A +G+ I ++ SPCG CRQ E ++ A +++
Sbjct: 101 GQTVHAEQCAISHAWXKGEKGVADITIN---------FSPCGHCRQFXNELTT-ASSLKI 150
Query: 122 LIVK 125
+ K
Sbjct: 151 QLPK 154
Score = 34.7 bits (78), Expect = 0.028, Method: Compositional matrix adjust.
Identities = 19/85 (22%), Positives = 47/85 (55%), Gaps = 1/85 (1%)
Query: 16 EQNLANLSIQARDNAYCPYSKLQVGAALLCQDDTIFTGCNVENASYGMTICAEKTAISKA 75
++ L +++A + ++ PY++ G AL + I+ G ENA++ ++ + A+++A
Sbjct: 192 DEELIQQALRAXNISHSPYTQNFSGVALKXRSGAIYLGAYAENAAFNPSLPPLQVALAQA 251
Query: 76 ISEGQTKFKRIAVSAILPDSNKFVS 100
G++ F+ I +A++ + +S
Sbjct: 252 XXXGES-FEDIEAAALVESATGKIS 275
>pdb|1AF2|A Chain A, Crystal Structure Of Cytidine Deaminase Complexed With
Uridine
pdb|1ALN|A Chain A, Crystal Structure Of Cytidine Deaminase Complexed With
3-deazacytidine
pdb|1CTT|A Chain A, Transition-state Selectivity For A Single Oh Group During
Catalysis By Cytidine Deaminase
pdb|1CTU|A Chain A, Transition-State Selectivity For A Single Oh Group During
Catalysis By Cytidine Deaminase
Length = 294
Score = 43.5 bits (101), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 29/92 (31%), Positives = 43/92 (46%), Gaps = 12/92 (13%)
Query: 32 CPYSKLQVGAALLCQDDTIFTGCNVE--NASYGMTICAEKTAISKAISEGQTKFKRIAVS 89
P S VGA T + G N+E A+ T+ AE++AIS A G+ I V+
Sbjct: 66 TPLSNFNVGAIARGVSGTWYFGANMEFIGATMQQTVHAEQSAISHAWLSGEKALAAITVN 125
Query: 90 AILPDSNKFVSPCGSCRQVIAEFSSPACDIQV 121
+PCG CRQ + E +S D+++
Sbjct: 126 ---------YTPCGHCRQFMNELNS-GLDLRI 147
Score = 37.7 bits (86), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 16/38 (42%), Positives = 24/38 (63%)
Query: 28 DNAYCPYSKLQVGAALLCQDDTIFTGCNVENASYGMTI 65
+ ++ PYSK G AL C+D IF+G ENA++ T+
Sbjct: 200 NRSHMPYSKSPSGVALECKDGRIFSGSYAENAAFNPTL 237
>pdb|3OJ6|A Chain A, Crystal Structure Of Blasticidin S Deaminase From
Coccidioides Immitis
pdb|3OJ6|B Chain B, Crystal Structure Of Blasticidin S Deaminase From
Coccidioides Immitis
pdb|3OJ6|C Chain C, Crystal Structure Of Blasticidin S Deaminase From
Coccidioides Immitis
pdb|3OJ6|D Chain D, Crystal Structure Of Blasticidin S Deaminase From
Coccidioides Immitis
Length = 158
Score = 41.2 bits (95), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 27/74 (36%), Positives = 39/74 (52%), Gaps = 4/74 (5%)
Query: 39 VGAALLCQDDTIFTGCNVENASYGMTICAEKTAISKAISEGQTKFKRIAVSAILPDSNKF 98
V +A + D +F+G NV + + G CAE + A + G TK I AI +
Sbjct: 53 VASAAISDDGRVFSGVNVYHFNGGP--CAELVVLGVAAAAGATKLTHIV--AIANEGRGI 108
Query: 99 VSPCGSCRQVIAEF 112
+SPCG CRQV+A+
Sbjct: 109 LSPCGRCRQVLADL 122
>pdb|2Z3J|A Chain A, Crystal Structure Of Blasticidin S Deaminase (Bsd) R90k
Mutant
pdb|2Z3J|B Chain B, Crystal Structure Of Blasticidin S Deaminase (Bsd) R90k
Mutant
pdb|2Z3J|C Chain C, Crystal Structure Of Blasticidin S Deaminase (Bsd) R90k
Mutant
pdb|2Z3J|D Chain D, Crystal Structure Of Blasticidin S Deaminase (Bsd) R90k
Mutant
Length = 130
Score = 36.6 bits (83), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 29/89 (32%), Positives = 42/89 (47%), Gaps = 7/89 (7%)
Query: 39 VGAALLCQDDTIFTGCNVENASYGMTICAEKTAISKAISEGQTKFKRIAVSAILPDSNKF 98
V +A L D IFTG NV + + G CAE + A + I AI ++
Sbjct: 29 VASAALSSDGRIFTGVNVYHFTGGP--CAELVVLGTAAAAAAGNLTCIV--AIGNENRGI 84
Query: 99 VSPCGSCRQVIAEFSSPACDIQVLIVKSD 127
+SPCG CRQV+ + I+ ++ SD
Sbjct: 85 LSPCGKCRQVLLDLHP---GIKAIVKDSD 110
>pdb|1WN5|A Chain A, Crystal Structure Of Blasticidin S Deaminase (Bsd)
Complexed With Cacodylic Acid
pdb|1WN5|B Chain B, Crystal Structure Of Blasticidin S Deaminase (Bsd)
Complexed With Cacodylic Acid
pdb|1WN5|C Chain C, Crystal Structure Of Blasticidin S Deaminase (Bsd)
Complexed With Cacodylic Acid
pdb|1WN5|D Chain D, Crystal Structure Of Blasticidin S Deaminase (Bsd)
Complexed With Cacodylic Acid
pdb|1WN6|A Chain A, Crystal Structure Of Blasticidin S Deaminase (Bsd)
Complexed With Tetrahedral Intermediate Of Blasticidin S
pdb|1WN6|B Chain B, Crystal Structure Of Blasticidin S Deaminase (Bsd)
Complexed With Tetrahedral Intermediate Of Blasticidin S
pdb|2Z3G|A Chain A, Crystal Structure Of Blasticidin S Deaminase (Bsd)
pdb|2Z3G|B Chain B, Crystal Structure Of Blasticidin S Deaminase (Bsd)
pdb|2Z3G|C Chain C, Crystal Structure Of Blasticidin S Deaminase (Bsd)
pdb|2Z3G|D Chain D, Crystal Structure Of Blasticidin S Deaminase (Bsd)
pdb|2Z3H|A Chain A, Crystal Structure Of Blasticidin S Deaminase (Bsd)
Complexed With Deaminohydroxy Blasticidin S
pdb|2Z3H|B Chain B, Crystal Structure Of Blasticidin S Deaminase (Bsd)
Complexed With Deaminohydroxy Blasticidin S
pdb|2Z3H|C Chain C, Crystal Structure Of Blasticidin S Deaminase (Bsd)
Complexed With Deaminohydroxy Blasticidin S
pdb|2Z3H|D Chain D, Crystal Structure Of Blasticidin S Deaminase (Bsd)
Complexed With Deaminohydroxy Blasticidin S
Length = 130
Score = 36.6 bits (83), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 29/89 (32%), Positives = 42/89 (47%), Gaps = 7/89 (7%)
Query: 39 VGAALLCQDDTIFTGCNVENASYGMTICAEKTAISKAISEGQTKFKRIAVSAILPDSNKF 98
V +A L D IFTG NV + + G CAE + A + I AI ++
Sbjct: 29 VASAALSSDGRIFTGVNVYHFTGGP--CAELVVLGTAAAAAAGNLTCIV--AIGNENRGI 84
Query: 99 VSPCGSCRQVIAEFSSPACDIQVLIVKSD 127
+SPCG CRQV+ + I+ ++ SD
Sbjct: 85 LSPCGRCRQVLLDLHP---GIKAIVKDSD 110
>pdb|2Z3I|A Chain A, Crystal Structure Of Blasticidin S Deaminase (Bsd) Mutant
E56q Complexed With Substrate
pdb|2Z3I|B Chain B, Crystal Structure Of Blasticidin S Deaminase (Bsd) Mutant
E56q Complexed With Substrate
pdb|2Z3I|C Chain C, Crystal Structure Of Blasticidin S Deaminase (Bsd) Mutant
E56q Complexed With Substrate
pdb|2Z3I|D Chain D, Crystal Structure Of Blasticidin S Deaminase (Bsd) Mutant
E56q Complexed With Substrate
Length = 130
Score = 35.4 bits (80), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 28/89 (31%), Positives = 42/89 (47%), Gaps = 7/89 (7%)
Query: 39 VGAALLCQDDTIFTGCNVENASYGMTICAEKTAISKAISEGQTKFKRIAVSAILPDSNKF 98
V +A L D IFTG NV + + G CA+ + A + I AI ++
Sbjct: 29 VASAALSSDGRIFTGVNVYHFTGGP--CAQLVVLGTAAAAAAGNLTCIV--AIGNENRGI 84
Query: 99 VSPCGSCRQVIAEFSSPACDIQVLIVKSD 127
+SPCG CRQV+ + I+ ++ SD
Sbjct: 85 LSPCGRCRQVLLDLHP---GIKAIVKDSD 110
>pdb|3DMB|A Chain A, Crystal Structure Of A Putative General Stress Family
Protein (Xcc2264) From Xanthomonas Campestris Pv.
Campestris At 2.30 A Resolution
pdb|3DMB|B Chain B, Crystal Structure Of A Putative General Stress Family
Protein (Xcc2264) From Xanthomonas Campestris Pv.
Campestris At 2.30 A Resolution
pdb|3DMB|C Chain C, Crystal Structure Of A Putative General Stress Family
Protein (Xcc2264) From Xanthomonas Campestris Pv.
Campestris At 2.30 A Resolution
Length = 147
Score = 31.6 bits (70), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 19/66 (28%), Positives = 27/66 (40%), Gaps = 2/66 (3%)
Query: 96 NKFVSPCGSCRQVIAEFSSPACDIQVLIVKSDRSQVGLITIDGMYLTLHCCWERGNLVLP 155
N ++ G R+VI FSS D+ I S R +D ++ W G
Sbjct: 57 NALIAXLGQGRRVIGAFSSKGHDLFASISGSLREDTDPAVVDRLWNPYVAAWYEGG--KD 114
Query: 156 DPKLTI 161
DPKL +
Sbjct: 115 DPKLAL 120
>pdb|3B8F|A Chain A, Crystal Structure Of The Cytidine Deaminase From Bacillus
Anthracis
pdb|3B8F|B Chain B, Crystal Structure Of The Cytidine Deaminase From Bacillus
Anthracis
pdb|3B8F|C Chain C, Crystal Structure Of The Cytidine Deaminase From Bacillus
Anthracis
pdb|3B8F|D Chain D, Crystal Structure Of The Cytidine Deaminase From Bacillus
Anthracis
Length = 142
Score = 30.0 bits (66), Expect = 0.56, Method: Compositional matrix adjust.
Identities = 29/99 (29%), Positives = 45/99 (45%), Gaps = 13/99 (13%)
Query: 15 IEQNLANLSIQARDNAYCPYSKLQVGAALLCQDDTIFTGCNVENASYGMTICAEKTAISK 74
IEQ L ++ Q + Y + AA+ +D TI+T + + +C E AI +
Sbjct: 3 IEQQLYDVVKQLIEQRYP--NDWGGAAAIRVEDGTIYTSVAPDVINASTELCMETGAILE 60
Query: 75 AISEGQTKF-KRIAVSAILPDSN-----KFVSPCGSCRQ 107
A KF K++ S L N K +SPCG C++
Sbjct: 61 A-----HKFQKKVTHSICLARENEHSELKVLSPCGVCQE 94
>pdb|3U34|A Chain A, Crystal Structure Of The General Stress Fmn/fad Binding
Protein From The Phytopathogen Xanthomonas Citri
pdb|3U34|B Chain B, Crystal Structure Of The General Stress Fmn/fad Binding
Protein From The Phytopathogen Xanthomonas Citri
pdb|3U34|C Chain C, Crystal Structure Of The General Stress Fmn/fad Binding
Protein From The Phytopathogen Xanthomonas Citri
pdb|3U34|D Chain D, Crystal Structure Of The General Stress Fmn/fad Binding
Protein From The Phytopathogen Xanthomonas Citri
pdb|3U35|A Chain A, Crystal Structure Of The General Stress Fmn/fad Binding
Protein From The Phytopathogen Xanthomonas Citri
pdb|3U35|B Chain B, Crystal Structure Of The General Stress Fmn/fad Binding
Protein From The Phytopathogen Xanthomonas Citri
pdb|3U35|C Chain C, Crystal Structure Of The General Stress Fmn/fad Binding
Protein From The Phytopathogen Xanthomonas Citri
pdb|3U35|D Chain D, Crystal Structure Of The General Stress Fmn/fad Binding
Protein From The Phytopathogen Xanthomonas Citri
Length = 182
Score = 29.3 bits (64), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 18/66 (27%), Positives = 26/66 (39%), Gaps = 2/66 (3%)
Query: 96 NKFVSPCGSCRQVIAEFSSPACDIQVLIVKSDRSQVGLITIDGMYLTLHCCWERGNLVLP 155
N ++ G R+VI FSS D+ I S R +D ++ W G
Sbjct: 76 NALIAMLGQGRRVIGAFSSKGHDLFASISGSLREDTDPAMVDRLWNPYVAAWYEGGKT-- 133
Query: 156 DPKLTI 161
DP L +
Sbjct: 134 DPNLAL 139
>pdb|2FDB|M Chain M, Crystal Structure Of Fibroblast Growth Factor (Fgf)8b In
Complex With Fgf Receptor (Fgfr) 2c
pdb|2FDB|N Chain N, Crystal Structure Of Fibroblast Growth Factor (Fgf)8b In
Complex With Fgf Receptor (Fgfr) 2c
Length = 164
Score = 26.6 bits (57), Expect = 7.3, Method: Compositional matrix adjust.
Identities = 21/66 (31%), Positives = 28/66 (42%), Gaps = 6/66 (9%)
Query: 17 QNLANLSIQARDNAYCPYSKLQVGAALLCQDDTIFTGCNVENASYGMTICAEKTAISKAI 76
Q LAN I A P++KL + + DT + V A G+ IC K A
Sbjct: 44 QVLANKRINAMAEDGDPFAKL------IVETDTFGSRVRVRGAETGLYICMNKKGKLIAK 97
Query: 77 SEGQTK 82
S G+ K
Sbjct: 98 SNGKGK 103
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
0.320 0.135 0.404
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,446,290
Number of Sequences: 62578
Number of extensions: 148350
Number of successful extensions: 272
Number of sequences better than 100.0: 24
Number of HSP's better than 100.0 without gapping: 20
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 231
Number of HSP's gapped (non-prelim): 26
length of query: 166
length of database: 14,973,337
effective HSP length: 92
effective length of query: 74
effective length of database: 9,216,161
effective search space: 681995914
effective search space used: 681995914
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 47 (22.7 bits)