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= 022046
(303 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 152 bits (384), Expect = 2e-37, Method: Compositional matrix adjust.
Identities = 95/244 (38%), Positives = 131/244 (53%), Gaps = 25/244 (10%)
Query: 40 RPPISKFHVGAVGLGSSGRIFLGGNVEFPGLPLHQSIHAEQFLITNLILNAEPRLQHLAV 99
R P+S F+VGA+ G SG + G N+EF G + Q++HAEQ I++ L+ E L + V
Sbjct: 65 RTPLSNFNVGAIARGVSGTWYFGANMEFIGATMQQTVHAEQSAISHAWLSGEKALAAITV 124
Query: 100 SAAPCGHCRQFLQELRNTSDINICITSINSNERKYHPLSHLLPDRFGPNDLLDKDVPLLL 159
+ PCGHCRQF+ EL + D+ I + R+ H L LPD FGP DL K LL+
Sbjct: 125 NYTPCGHCRQFMNELNSGLDLRIHLPG-----REAHALRDYLPDAFGPKDLEIK--TLLM 177
Query: 160 ETHQNGMSFNLCNGQIPETENPKERLKYAALEAANKSHAPYSKCPSGVAIMDCEGNIYKG 219
+ +G + + L AA+ AAN+SH PYSK PSGVA+ +G I+ G
Sbjct: 178 DEQDHGYALT------------GDALSQAAIAAANRSHMPYSKSPSGVALECKDGRIFSG 225
Query: 220 SYMESAAYNPSLGPVQAALVAYLAAXXXXXXXXXYERIVAAALVEKEDAVVRQEHAARLL 279
SY E+AA+NP+L P+Q AL+ Y I A L EK DA + Q A
Sbjct: 226 SYAENAAFNPTLPPLQGALI------LLNLKGYDYPDIQRAVLAEKADAPLIQWDATSAT 279
Query: 280 LQVI 283
L+ +
Sbjct: 280 LKAL 283
>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 = 148 bits (373), Expect = 4e-36, Method: Compositional matrix adjust.
Identities = 101/268 (37%), Positives = 141/268 (52%), Gaps = 26/268 (9%)
Query: 20 SGLTVLQLLPTLVKSAQTLARPPISKFHVGAVGLGSSGRIFLGGNVEFPGLPLHQSIHAE 79
SGL L L+ A + PIS+F+VGA+ G SGR++LG N EF G L Q++HAE
Sbjct: 48 SGLEDADLRVALLPIAAAYSYAPISEFYVGAIVRGISGRLYLGANXEFTGAQLGQTVHAE 107
Query: 80 QFLITNLILNAEPRLQHLAVSAAPCGHCRQFLQELRNTSDINICITSINSNERKYHPLSH 139
Q I++ E + + ++ +PCGHCRQF EL S + I + +R L
Sbjct: 108 QCAISHAWXKGEKGVADITINFSPCGHCRQFXNELTTASSLKIQLP-----KRAAKTLQE 162
Query: 140 LLPDRFGPNDL-LDKDVPLLLETHQNGMSFNLCNGQIPETENPKERLKYAALEAANKSHA 198
LP+ FGP DL +D +G+ + +G+ T + E L AL A N SH+
Sbjct: 163 YLPESFGPADLGID-----------SGLXSPVNHGK---TSDDDEELIQQALRAXNISHS 208
Query: 199 PYSKCPSGVAIMDCEGNIYKGSYMESAAYNPSLGPVQAALVAYLAAXXXXXXXXXYERIV 258
PY++ SGVA+ G IY G+Y E+AA+NPSL P+Q AL +E I
Sbjct: 209 PYTQNFSGVALKXRSGAIYLGAYAENAAFNPSLPPLQVALA------QAXXXGESFEDIE 262
Query: 259 AAALVEKEDAVVRQEHAARLLLQVISPK 286
AAALVE + + L+VI+P
Sbjct: 263 AAALVESATGKISHLADTQATLEVINPD 290
>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 = 67.0 bits (162), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 45/134 (33%), Positives = 66/134 (49%), Gaps = 10/134 (7%)
Query: 26 QLLPTLVKSAQTLARPPISKFHVGAVGLGSSGRIFLGGNVEFPGLPLHQSIHAEQFLITN 85
Q L T A+ +A P SKF VGA L G+++ G N+E + HAEQ +
Sbjct: 4 QELITEALKARDMAYAPYSKFQVGAALLTKDGKVYRGCNIENAAYSMCN--HAEQTALFK 61
Query: 86 LILNAEPRLQHLAVSA------APCGHCRQFLQELRNTSDINICITSINSNERKYHPLSH 139
+ + Q LAV+A +PCG CRQ + EL T D+ + +T++ + K +
Sbjct: 62 AVSEGDTEFQMLAVAADTPGPVSPCGACRQVISEL-CTKDVIVVLTNLQ-GQIKEMTVEE 119
Query: 140 LLPDRFGPNDLLDK 153
LLP F DL D+
Sbjct: 120 LLPGAFSSEDLHDE 133
Score = 40.4 bits (93), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 18/47 (38%), Positives = 32/47 (68%)
Query: 182 KERLKYAALEAANKSHAPYSKCPSGVAIMDCEGNIYKGSYMESAAYN 228
++ L AL+A + ++APYSK G A++ +G +Y+G +E+AAY+
Sbjct: 3 RQELITEALKARDMAYAPYSKFQVGAALLTKDGKVYRGCNIENAAYS 49
>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 = 63.9 bits (154), Expect = 9e-11, Method: Compositional matrix adjust.
Identities = 44/134 (32%), Positives = 65/134 (48%), Gaps = 10/134 (7%)
Query: 26 QLLPTLVKSAQTLARPPISKFHVGAVGLGSSGRIFLGGNVEFPGLPLHQSIHAEQFLITN 85
Q L T A+ +A P SKF VGA L G+++ G N+E + AEQ +
Sbjct: 4 QELITEALKARDMAYAPYSKFQVGAALLTKDGKVYRGCNIENAAYSMCNC--AEQTALFK 61
Query: 86 LILNAEPRLQHLAVSA------APCGHCRQFLQELRNTSDINICITSINSNERKYHPLSH 139
+ + Q LAV+A +PCG CRQ + EL T D+ + +T++ + K +
Sbjct: 62 AVSEGDTEFQMLAVAADTPGPVSPCGACRQVISEL-CTKDVIVVLTNLQ-GQIKEMTVEE 119
Query: 140 LLPDRFGPNDLLDK 153
LLP F DL D+
Sbjct: 120 LLPGAFSSEDLHDE 133
Score = 40.4 bits (93), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 21/57 (36%), Positives = 35/57 (61%)
Query: 182 KERLKYAALEAANKSHAPYSKCPSGVAIMDCEGNIYKGSYMESAAYNPSLGPVQAAL 238
++ L AL+A + ++APYSK G A++ +G +Y+G +E+AAY+ Q AL
Sbjct: 3 RQELITEALKARDMAYAPYSKFQVGAALLTKDGKVYRGCNIENAAYSMCNCAEQTAL 59
>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 = 62.4 bits (150), Expect = 3e-10, Method: Compositional matrix adjust.
Identities = 43/134 (32%), Positives = 65/134 (48%), Gaps = 10/134 (7%)
Query: 26 QLLPTLVKSAQTLARPPISKFHVGAVGLGSSGRIFLGGNVEFPGLPLHQSIHAEQFLITN 85
Q L T A+ +A P SKF VGA L G+++ G N+E + AE+ +
Sbjct: 4 QELITEALKARDMAYAPYSKFQVGAALLTKDGKVYRGCNIENAAYSMCNC--AERTALFK 61
Query: 86 LILNAEPRLQHLAVSA------APCGHCRQFLQELRNTSDINICITSINSNERKYHPLSH 139
+ + Q LAV+A +PCG CRQ + EL T D+ + +T++ + K +
Sbjct: 62 AVSEGDTEFQMLAVAADTPGPVSPCGACRQVISEL-CTKDVIVVLTNLQ-GQIKEMTVEE 119
Query: 140 LLPDRFGPNDLLDK 153
LLP F DL D+
Sbjct: 120 LLPGAFSSEDLHDE 133
Score = 40.4 bits (93), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 18/47 (38%), Positives = 32/47 (68%)
Query: 182 KERLKYAALEAANKSHAPYSKCPSGVAIMDCEGNIYKGSYMESAAYN 228
++ L AL+A + ++APYSK G A++ +G +Y+G +E+AAY+
Sbjct: 3 RQELITEALKARDMAYAPYSKFQVGAALLTKDGKVYRGCNIENAAYS 49
>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 = 61.6 bits (148), Expect = 5e-10, Method: Compositional matrix adjust.
Identities = 43/134 (32%), Positives = 64/134 (47%), Gaps = 10/134 (7%)
Query: 26 QLLPTLVKSAQTLARPPISKFHVGAVGLGSSGRIFLGGNVEFPGLPLHQSIHAEQFLITN 85
Q L T A+ +A P SKF VGA L G+++ G N+E + AE +
Sbjct: 4 QELITEALKARDMAYAPYSKFQVGAALLTKDGKVYRGCNIENAAYSMCNC--AEATALFK 61
Query: 86 LILNAEPRLQHLAVSA------APCGHCRQFLQELRNTSDINICITSINSNERKYHPLSH 139
+ + Q LAV+A +PCG CRQ + EL T D+ + +T++ + K +
Sbjct: 62 AVSEGDTEFQMLAVAADTPGPVSPCGACRQVISEL-CTKDVIVVLTNLQ-GQIKEMTVEE 119
Query: 140 LLPDRFGPNDLLDK 153
LLP F DL D+
Sbjct: 120 LLPGAFSSEDLHDE 133
Score = 40.4 bits (93), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 18/47 (38%), Positives = 32/47 (68%)
Query: 182 KERLKYAALEAANKSHAPYSKCPSGVAIMDCEGNIYKGSYMESAAYN 228
++ L AL+A + ++APYSK G A++ +G +Y+G +E+AAY+
Sbjct: 3 RQELITEALKARDMAYAPYSKFQVGAALLTKDGKVYRGCNIENAAYS 49
>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 = 57.4 bits (137), Expect = 9e-09, Method: Compositional matrix adjust.
Identities = 41/125 (32%), Positives = 59/125 (47%), Gaps = 12/125 (9%)
Query: 33 KSAQTLARPPISKFHVGAVGLGSSGRIFLGGNVEFPGLPLHQSIHAEQFLITNLILNAEP 92
+ A+ A P S+F VGA L GRIF G N+E PL + AE+ I I
Sbjct: 23 REAKKSAYCPYSRFPVGAALLTGDGRIFSGCNIENACYPL--GVCAERTAIQKAISEGYK 80
Query: 93 RLQHLAVSA-------APCGHCRQFLQELRNTSDINICITSINSNERKYHPLSHLLPDRF 145
+ +A+S+ +PCG CRQ ++E +D + +T + + LLP F
Sbjct: 81 DFRAIAISSDLQEEFISPCGACRQVMREF--GTDWAVYMTKPDGT-FVVRTVQELLPASF 137
Query: 146 GPNDL 150
GP DL
Sbjct: 138 GPEDL 142
Score = 37.4 bits (85), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 16/45 (35%), Positives = 28/45 (62%)
Query: 183 ERLKYAALEAANKSHAPYSKCPSGVAIMDCEGNIYKGSYMESAAY 227
+RL ++ EA ++ PYS+ P G A++ +G I+ G +E+A Y
Sbjct: 16 QRLLLSSREAKKSAYCPYSRFPVGAALLTGDGRIFSGCNIENACY 60
>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 = 53.5 bits (127), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 40/133 (30%), Positives = 58/133 (43%), Gaps = 12/133 (9%)
Query: 25 LQLLPTLVKSAQTLARPPISKFHVGAVGLGSSGRIFLGGNVEFPGLPLHQSIHAEQFLIT 84
+Q L + A+ A P S F VGA L GRIF G N+E PL I AE+ I
Sbjct: 9 VQQLLVCSQEAKQSAYCPYSHFPVGAALLTQEGRIFKGCNIENACYPL--GICAERTAIQ 66
Query: 85 NLILNAEPRLQHLAVSA-------APCGHCRQFLQELRNTSDINICITSINSNERKYHPL 137
+ + +A+++ +PCG CRQ ++E + + + +
Sbjct: 67 KAVSEGYKDFRAIAIASDMQDDFISPCGACRQVMREFGTNWPVYM---TKPDGTYIVMTV 123
Query: 138 SHLLPDRFGPNDL 150
LLP FGP DL
Sbjct: 124 QELLPSSFGPEDL 136
Score = 36.2 bits (82), Expect = 0.021, Method: Compositional matrix adjust.
Identities = 17/45 (37%), Positives = 27/45 (60%)
Query: 183 ERLKYAALEAANKSHAPYSKCPSGVAIMDCEGNIYKGSYMESAAY 227
++L + EA ++ PYS P G A++ EG I+KG +E+A Y
Sbjct: 10 QQLLVCSQEAKQSAYCPYSHFPVGAALLTQEGRIFKGCNIENACY 54
>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 = 45.8 bits (107), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 38/134 (28%), Positives = 54/134 (40%), Gaps = 11/134 (8%)
Query: 25 LQLLPTLVKSAQTLARPPISKFHVGAVGLGSSGRIFLGGNVEFPGLPLHQSIHAEQFLIT 84
L+ L A L+ P S F VG L ++ IF G NVE I AE+ +
Sbjct: 11 LEALKRAALKACELSYSPYSHFRVGCSILTNNDVIFTGANVE--NASYSNCICAERSAMI 68
Query: 85 NLILNAEPRLQHLAV--------SAAPCGHCRQFLQELRNTSDINICITSINSNERKYHP 136
+++ V +PCG CRQF+ E D I + + + K
Sbjct: 69 QVLMAGHRSGWKCMVICGDSEDQCVSPCGVCRQFINEFV-VKDFPIVMLNSTGSRSKVMT 127
Query: 137 LSHLLPDRFGPNDL 150
+ LLP FGP+ L
Sbjct: 128 MGELLPMAFGPSHL 141
Score = 37.7 bits (86), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 21/62 (33%), Positives = 37/62 (59%)
Query: 183 ERLKYAALEAANKSHAPYSKCPSGVAIMDCEGNIYKGSYMESAAYNPSLGPVQAALVAYL 242
E LK AAL+A S++PYS G +I+ I+ G+ +E+A+Y+ + ++A++ L
Sbjct: 12 EALKRAALKACELSYSPYSHFRVGCSILTNNDVIFTGANVENASYSNCICAERSAMIQVL 71
Query: 243 AA 244
A
Sbjct: 72 MA 73
>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 = 44.7 bits (104), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 35/122 (28%), Positives = 56/122 (45%), Gaps = 10/122 (8%)
Query: 35 AQTLARPPISKFHVGAVGLGSSGRIFLGGNVEFPGLPLHQSIHAEQFLITNLILNAEPRL 94
A+ A P SKF VGA L G+++ G NVE L AE+ + + +
Sbjct: 22 ARKQAYVPYSKFQVGAALLTQDGKVYRGCNVENASYGLCNC--AERTALFKAVSEGDKEF 79
Query: 95 QHLAVSAA------PCGHCRQFLQELRNTSDINICITSINSNERKYHPLSHLLPDRFGPN 148
+A+ A PCG CRQ + EL D + +++++ + ++ + LLP F
Sbjct: 80 VAIAIVADTKRPVPPCGACRQVMVEL-CKQDTKVYLSNLHGDVQE-TTVGELLPGAFLAE 137
Query: 149 DL 150
DL
Sbjct: 138 DL 139
Score = 37.4 bits (85), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 16/46 (34%), Positives = 30/46 (65%)
Query: 183 ERLKYAALEAANKSHAPYSKCPSGVAIMDCEGNIYKGSYMESAAYN 228
++L A+EA +++ PYSK G A++ +G +Y+G +E+A+Y
Sbjct: 13 KQLIQEAIEARKQAYVPYSKFQVGAALLTQDGKVYRGCNVENASYG 58
>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 = 44.7 bits (104), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 41/118 (34%), Positives = 49/118 (41%), Gaps = 15/118 (12%)
Query: 39 ARPPISKFHVGAVGLGSSGRIFLGGNVEFPGLPLHQSIHAEQFLITNLILNAEPRLQHLA 98
A P S F VGA L GR G NVE L + AE ++ L RL L+
Sbjct: 39 AYAPYSGFPVGAAALVDDGRTVTGCNVENVSYGL--GLCAECAVVCALHSGGGGRLVALS 96
Query: 99 VSA------APCGHCRQFLQELRNTSDINICITSINSNERKYHPLSHLLPDRFGPNDL 150
PCG CRQ L E ++ I + PL LLPD FGP+DL
Sbjct: 97 CVGPDGGVLMPCGRCRQVLLE-HGGPELLI------DHAHGPRPLRELLPDAFGPDDL 147
Score = 30.8 bits (68), Expect = 0.89, Method: Compositional matrix adjust.
Identities = 17/60 (28%), Positives = 29/60 (48%), Gaps = 5/60 (8%)
Query: 177 ETENPKERLKYAAL-----EAANKSHAPYSKCPSGVAIMDCEGNIYKGSYMESAAYNPSL 231
+T+ P + + AL E + ++APYS P G A + +G G +E+ +Y L
Sbjct: 15 QTQGPGSMVNWNALRSKAIEVSRHAYAPYSGFPVGAAALVDDGRTVTGCNVENVSYGLGL 74
>pdb|3IJF|X Chain X, Crystal Structure Of Cytidine Deaminase From Mycobacterium
Tuberculosis
Length = 133
Score = 44.7 bits (104), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 40/115 (34%), Positives = 51/115 (44%), Gaps = 15/115 (13%)
Query: 42 PISKFHVGAVGLGSSGRIFLGGNVEFPGLPLHQSIHAEQFLITNLILNAEPRLQHLAVSA 101
P S+F VGA L GR+ G NVE L ++ AE ++ L RL LA
Sbjct: 23 PYSRFAVGAAALVDDGRVVTGCNVENVSYGL--TLCAECAVVCALHSTGGGRLLALACVD 80
Query: 102 A------PCGHCRQFLQELRNTSDINICITSINSNERKYHPLSHLLPDRFGPNDL 150
PCG CRQ L E S++ I + + L LLPD FG +DL
Sbjct: 81 GHGSVLMPCGRCRQVLLE-HGGSELLI------DHPVRPRRLGDLLPDAFGLDDL 128
>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 = 39.7 bits (91), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 35/122 (28%), Positives = 51/122 (41%), Gaps = 15/122 (12%)
Query: 34 SAQTLARPPISKFHVGAVGLGSSGRIFLGGNVEFPGLPLHQSIHAEQFLITNLILNAEPR 93
+A+ + P S F VG G + GR+ G NVE L ++ AE +I+ L R
Sbjct: 19 AARANSYAPYSNFPVGVAGFVNDGRLITGVNVENASYGL--ALCAECSMISALYATGGGR 76
Query: 94 LQHL------AVSAAPCGHCRQFLQELRNTSDINICITSINSNERKYHPLSHLLPDRFGP 147
L + S PCG CRQ L E ++ I + ++ LLP F P
Sbjct: 77 LVAVYCVDGNGDSLMPCGRCRQLLYE-HGGPELKI------MTPKGVQTMAQLLPQAFNP 129
Query: 148 ND 149
+
Sbjct: 130 QE 131
Score = 34.3 bits (77), Expect = 0.096, Method: Compositional matrix adjust.
Identities = 19/49 (38%), Positives = 29/49 (59%)
Query: 183 ERLKYAALEAANKSHAPYSKCPSGVAIMDCEGNIYKGSYMESAAYNPSL 231
+ L+ AA+ A S+APYS P GVA +G + G +E+A+Y +L
Sbjct: 11 DTLQKAAVAARANSYAPYSNFPVGVAGFVNDGRLITGVNVENASYGLAL 59
>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 = 38.5 bits (88), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 34/111 (30%), Positives = 48/111 (43%), Gaps = 10/111 (9%)
Query: 42 PISKFHVGAVGLGSSGRIFLGGNVEFPGLPLHQSIHAEQFLITNLILNAEP-RLQHLAVS 100
P S F VGA + + G++F G NVE L L + L P +AV
Sbjct: 28 PYSNFKVGAALVTNDGKVFHGCNVENASYGLCNCAE-RTALFSALAAGYRPGEFAAIAVV 86
Query: 101 A------APCGHCRQFLQELRNTSDINICITSINSNERKYHPLSHLLPDRF 145
APCG CRQ + EL + + + +T++ + R LLPD F
Sbjct: 87 GETHGPIAPCGACRQVMIELGKPT-LEVVLTNMQGDVRVTSA-GDLLPDAF 135
>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 = 37.0 bits (84), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 28/78 (35%), Positives = 35/78 (44%), Gaps = 8/78 (10%)
Query: 42 PISKFHVGAVGLGSSGRIFLGGNVEFPGLPLHQSIHAEQFLITNLILNAEPRLQHLAVSA 101
P S+F VGA L GR+ G NVE + ++ AE ++ L RL LA
Sbjct: 27 PYSRFPVGAAALVDDGRVVTGCNVE--NVSYGLALCAECGVVCALHATGGGRLVALACVD 84
Query: 102 A------PCGHCRQFLQE 113
PCG CRQ L E
Sbjct: 85 GRGAPLMPCGRCRQLLFE 102
Score = 33.9 bits (76), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 17/59 (28%), Positives = 34/59 (57%), Gaps = 2/59 (3%)
Query: 173 GQIPETENPKERLKYAALEAANKSHAPYSKCPSGVAIMDCEGNIYKGSYMESAAYNPSL 231
G +P+ + ++L+ A + A ++APYS+ P G A + +G + G +E+ +Y +L
Sbjct: 3 GSMPDID--WKQLRDKATQVAAGAYAPYSRFPVGAAALVDDGRVVTGCNVENVSYGLAL 59
>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 = 34.7 bits (78), Expect = 0.071, Method: Compositional matrix adjust.
Identities = 26/82 (31%), Positives = 37/82 (45%), Gaps = 14/82 (17%)
Query: 42 PISKFH-VGAVGLGSSGRIFLGGNV-EFPGLPLHQSIHAEQFLITNLILNAEPRLQHLAV 99
P+S F+ V + + GR+F G NV F G P AE ++ +L H+
Sbjct: 46 PVSDFYSVASAAISDDGRVFSGVNVYHFNGGPC-----AELVVLGVAAAAGATKLTHIVA 100
Query: 100 SA-------APCGHCRQFLQEL 114
A +PCG CRQ L +L
Sbjct: 101 IANEGRGILSPCGRCRQVLADL 122
>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 = 33.9 bits (76), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 32/91 (35%), Positives = 44/91 (48%), Gaps = 7/91 (7%)
Query: 30 TLVKSAQ-TLARPPISK-FHVGAVGLGSSGRIFLGGNV-EFPGLPLHQSI---HAEQFLI 83
TL++ A T+ PIS+ + V + L S GRIF G NV F G P Q + A
Sbjct: 9 TLIERATATINSIPISEDYSVASAALSSDGRIFTGVNVYHFTGGPCAQLVVLGTAAAAAA 68
Query: 84 TNLILNAEPRLQHLAVSAAPCGHCRQFLQEL 114
NL ++ + +PCG CRQ L +L
Sbjct: 69 GNLTCIVAIGNENRGI-LSPCGRCRQVLLDL 98
>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 = 33.5 bits (75), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 32/95 (33%), Positives = 43/95 (45%), Gaps = 15/95 (15%)
Query: 30 TLVKSAQ-TLARPPISK-FHVGAVGLGSSGRIFLGGNV-EFPGLPLHQSIHAEQFLITNL 86
TL++ A T+ PIS+ + V + L S GRIF G NV F G P AE ++
Sbjct: 9 TLIERATATINSIPISEDYSVASAALSSDGRIFTGVNVYHFTGGPC-----AELVVLGTA 63
Query: 87 ILNAEPRLQHLAVSA-------APCGHCRQFLQEL 114
A L + +PCG CRQ L +L
Sbjct: 64 AAAAAGNLTCIVAIGNENRGILSPCGRCRQVLLDL 98
>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 = 33.5 bits (75), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 32/95 (33%), Positives = 43/95 (45%), Gaps = 15/95 (15%)
Query: 30 TLVKSAQ-TLARPPISK-FHVGAVGLGSSGRIFLGGNV-EFPGLPLHQSIHAEQFLITNL 86
TL++ A T+ PIS+ + V + L S GRIF G NV F G P AE ++
Sbjct: 9 TLIERATATINSIPISEDYSVASAALSSDGRIFTGVNVYHFTGGPC-----AELVVLGTA 63
Query: 87 ILNAEPRLQHLAVSA-------APCGHCRQFLQEL 114
A L + +PCG CRQ L +L
Sbjct: 64 AAAAAGNLTCIVAIGNENRGILSPCGKCRQVLLDL 98
>pdb|1VL0|A Chain A, Crystal Structure Of A Dtdp-4-Dehydrorhamnose Reductase,
Rfbd Ortholog (Ca_c2315) From Clostridium Acetobutylicum
Atcc 824 At 2.05 A Resolution
pdb|1VL0|B Chain B, Crystal Structure Of A Dtdp-4-Dehydrorhamnose Reductase,
Rfbd Ortholog (Ca_c2315) From Clostridium Acetobutylicum
Atcc 824 At 2.05 A Resolution
pdb|1VL0|C Chain C, Crystal Structure Of A Dtdp-4-Dehydrorhamnose Reductase,
Rfbd Ortholog (Ca_c2315) From Clostridium Acetobutylicum
Atcc 824 At 2.05 A Resolution
Length = 292
Score = 31.6 bits (70), Expect = 0.55, Method: Compositional matrix adjust.
Identities = 13/28 (46%), Positives = 18/28 (64%), Gaps = 1/28 (3%)
Query: 276 ARLLLQVISPKCEFNVFHCGCKKSCSRF 303
AR++L+VI K + FHC CK CS +
Sbjct: 201 ARVVLKVIDEK-NYGTFHCTCKGICSWY 227
>pdb|1I10|A Chain A, Human Muscle L-Lactate Dehydrogenase M Chain, Ternary
Complex With Nadh And Oxamate
pdb|1I10|B Chain B, Human Muscle L-Lactate Dehydrogenase M Chain, Ternary
Complex With Nadh And Oxamate
pdb|1I10|C Chain C, Human Muscle L-Lactate Dehydrogenase M Chain, Ternary
Complex With Nadh And Oxamate
pdb|1I10|D Chain D, Human Muscle L-Lactate Dehydrogenase M Chain, Ternary
Complex With Nadh And Oxamate
pdb|1I10|E Chain E, Human Muscle L-Lactate Dehydrogenase M Chain, Ternary
Complex With Nadh And Oxamate
pdb|1I10|F Chain F, Human Muscle L-Lactate Dehydrogenase M Chain, Ternary
Complex With Nadh And Oxamate
pdb|1I10|G Chain G, Human Muscle L-Lactate Dehydrogenase M Chain, Ternary
Complex With Nadh And Oxamate
pdb|1I10|H Chain H, Human Muscle L-Lactate Dehydrogenase M Chain, Ternary
Complex With Nadh And Oxamate
Length = 331
Score = 29.6 bits (65), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 22/64 (34%), Positives = 35/64 (54%), Gaps = 5/64 (7%)
Query: 126 SINSNERKYHPLSHLLPDRFGPNDLLDKDVPLLLETHQNGMSFNLCNGQIPETENPKERL 185
SI N R+ HP+S ++ +G D + VP +L QNG+S +L ++ T + RL
Sbjct: 261 SIMKNLRRVHPVSTMIKGLYGIKDDVFLSVPCIL--GQNGIS-DLV--KVTLTSEEEARL 315
Query: 186 KYAA 189
K +A
Sbjct: 316 KKSA 319
>pdb|4AJP|A Chain A, Human Ldha In Complex With 2-((4-(4-((3-((2-Methyl-1,3-
Benzothiazol-6yl)amino)-3-Oxo-Propyl)amino)-4-Oxo-Butyl)
Phenyl)methyl)propanedioic Acid
pdb|4AJP|B Chain B, Human Ldha In Complex With 2-((4-(4-((3-((2-Methyl-1,3-
Benzothiazol-6yl)amino)-3-Oxo-Propyl)amino)-4-Oxo-Butyl)
Phenyl)methyl)propanedioic Acid
pdb|4AJP|C Chain C, Human Ldha In Complex With 2-((4-(4-((3-((2-Methyl-1,3-
Benzothiazol-6yl)amino)-3-Oxo-Propyl)amino)-4-Oxo-Butyl)
Phenyl)methyl)propanedioic Acid
pdb|4AJP|D Chain D, Human Ldha In Complex With 2-((4-(4-((3-((2-Methyl-1,3-
Benzothiazol-6yl)amino)-3-Oxo-Propyl)amino)-4-Oxo-Butyl)
Phenyl)methyl)propanedioic Acid
Length = 337
Score = 29.6 bits (65), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 22/64 (34%), Positives = 35/64 (54%), Gaps = 5/64 (7%)
Query: 126 SINSNERKYHPLSHLLPDRFGPNDLLDKDVPLLLETHQNGMSFNLCNGQIPETENPKERL 185
SI N R+ HP+S ++ +G D + VP +L QNG+S +L ++ T + RL
Sbjct: 261 SIMKNLRRVHPVSTMIKGLYGIKDDVFLSVPCIL--GQNGIS-DLV--KVTLTSEEEARL 315
Query: 186 KYAA 189
K +A
Sbjct: 316 KKSA 319
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
0.319 0.134 0.398
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,292,891
Number of Sequences: 62578
Number of extensions: 321174
Number of successful extensions: 745
Number of sequences better than 100.0: 22
Number of HSP's better than 100.0 without gapping: 15
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 691
Number of HSP's gapped (non-prelim): 34
length of query: 303
length of database: 14,973,337
effective HSP length: 98
effective length of query: 205
effective length of database: 8,840,693
effective search space: 1812342065
effective search space used: 1812342065
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: 51 (24.3 bits)