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= psy10925
(214 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1JPI|A Chain A, Phe232leu Mutant Of Human Urod, Human Uroporphyrinogen Iii
Decarboxylase
Length = 388
Score = 254 bits (648), Expect = 4e-68, Method: Compositional matrix adjust.
Identities = 118/192 (61%), Positives = 146/192 (76%), Gaps = 2/192 (1%)
Query: 11 FPPLKNDRLL--PRGEEVDKIPIWIMRQAGRYLPEFRELRSKHDFFTICQTPELAAEITL 68
FP LKND L GEE D P+W MRQAGRYLPEFRE R+ DFF+ C++PE E+TL
Sbjct: 32 FPELKNDTFLRAAWGEETDYTPVWCMRQAGRYLPEFRETRAAQDFFSTCRSPEACCELTL 91
Query: 69 QPIRRFNLDASIIFSDILVIPQALGMVVEMKPAVGPVLPEPLVIPEDIKKLKTSVDVYKE 128
QP+RRF LDA+IIFSDILV+PQALGM V M P GP PEPL +D+++L+ V E
Sbjct: 92 QPLRRFPLDAAIIFSDILVVPQALGMEVTMVPGKGPSFPEPLREEQDLERLRDPEVVASE 151
Query: 129 LNYVFEAITLTRHKLEGKVPLIGFSGAPWTLMSYMIEGGGSKTMSKSKHWLYKYPEESKK 188
L YVF+AITLTR +L G+VPLIGF+GAPWTLM+YM+EGGGS TM+++K WLY+ P+ S +
Sbjct: 152 LGYVFQAITLTRQRLAGRVPLIGFAGAPWTLMTYMVEGGGSSTMAQAKRWLYQRPQASHQ 211
Query: 189 LLEILTNVIVDY 200
LL ILT+ +V Y
Sbjct: 212 LLRILTDALVPY 223
>pdb|3GW0|A Chain A, Urod Mutant G318r
Length = 367
Score = 253 bits (647), Expect = 4e-68, Method: Compositional matrix adjust.
Identities = 118/192 (61%), Positives = 146/192 (76%), Gaps = 2/192 (1%)
Query: 11 FPPLKNDRLL--PRGEEVDKIPIWIMRQAGRYLPEFRELRSKHDFFTICQTPELAAEITL 68
FP LKND L GEE D P+W MRQAGRYLPEFRE R+ DFF+ C++PE E+TL
Sbjct: 11 FPELKNDTFLRAAWGEETDYTPVWCMRQAGRYLPEFRETRAAQDFFSTCRSPEACCELTL 70
Query: 69 QPIRRFNLDASIIFSDILVIPQALGMVVEMKPAVGPVLPEPLVIPEDIKKLKTSVDVYKE 128
QP+RRF LDA+IIFSDILV+PQALGM V M P GP PEPL +D+++L+ V E
Sbjct: 71 QPLRRFPLDAAIIFSDILVVPQALGMEVTMVPGKGPSFPEPLREEQDLERLRDPEVVASE 130
Query: 129 LNYVFEAITLTRHKLEGKVPLIGFSGAPWTLMSYMIEGGGSKTMSKSKHWLYKYPEESKK 188
L YVF+AITLTR +L G+VPLIGF+GAPWTLM+YM+EGGGS TM+++K WLY+ P+ S +
Sbjct: 131 LGYVFQAITLTRQRLAGRVPLIGFAGAPWTLMTYMVEGGGSSTMAQAKRWLYQRPQASHQ 190
Query: 189 LLEILTNVIVDY 200
LL ILT+ +V Y
Sbjct: 191 LLRILTDALVPY 202
>pdb|1URO|A Chain A, Uroporphyrinogen Decarboxylase
pdb|1R3Q|A Chain A, Uroporphyrinogen Decarboxylase In Complex With
Coproporphyrinogen-I
pdb|1R3Y|A Chain A, Uroporphyrinogen Decarboxylase In Complex With
Coproporphyrinogen-Iii
pdb|3GVQ|A Chain A, Urod Single-Chain Dimer
pdb|3GVR|A Chain A, Single-Chain Urod Y164g (Gy) Mutation
Length = 367
Score = 253 bits (647), Expect = 4e-68, Method: Compositional matrix adjust.
Identities = 118/192 (61%), Positives = 146/192 (76%), Gaps = 2/192 (1%)
Query: 11 FPPLKNDRLL--PRGEEVDKIPIWIMRQAGRYLPEFRELRSKHDFFTICQTPELAAEITL 68
FP LKND L GEE D P+W MRQAGRYLPEFRE R+ DFF+ C++PE E+TL
Sbjct: 11 FPELKNDTFLRAAWGEETDYTPVWCMRQAGRYLPEFRETRAAQDFFSTCRSPEACCELTL 70
Query: 69 QPIRRFNLDASIIFSDILVIPQALGMVVEMKPAVGPVLPEPLVIPEDIKKLKTSVDVYKE 128
QP+RRF LDA+IIFSDILV+PQALGM V M P GP PEPL +D+++L+ V E
Sbjct: 71 QPLRRFPLDAAIIFSDILVVPQALGMEVTMVPGKGPSFPEPLREEQDLERLRDPEVVASE 130
Query: 129 LNYVFEAITLTRHKLEGKVPLIGFSGAPWTLMSYMIEGGGSKTMSKSKHWLYKYPEESKK 188
L YVF+AITLTR +L G+VPLIGF+GAPWTLM+YM+EGGGS TM+++K WLY+ P+ S +
Sbjct: 131 LGYVFQAITLTRQRLAGRVPLIGFAGAPWTLMTYMVEGGGSSTMAQAKRWLYQRPQASHQ 190
Query: 189 LLEILTNVIVDY 200
LL ILT+ +V Y
Sbjct: 191 LLRILTDALVPY 202
>pdb|3GW3|A Chain A, Human Urod Mutant K297n
Length = 367
Score = 253 bits (647), Expect = 4e-68, Method: Compositional matrix adjust.
Identities = 118/192 (61%), Positives = 146/192 (76%), Gaps = 2/192 (1%)
Query: 11 FPPLKNDRLL--PRGEEVDKIPIWIMRQAGRYLPEFRELRSKHDFFTICQTPELAAEITL 68
FP LKND L GEE D P+W MRQAGRYLPEFRE R+ DFF+ C++PE E+TL
Sbjct: 11 FPELKNDTFLRAAWGEETDYTPVWCMRQAGRYLPEFRETRAAQDFFSTCRSPEACCELTL 70
Query: 69 QPIRRFNLDASIIFSDILVIPQALGMVVEMKPAVGPVLPEPLVIPEDIKKLKTSVDVYKE 128
QP+RRF LDA+IIFSDILV+PQALGM V M P GP PEPL +D+++L+ V E
Sbjct: 71 QPLRRFPLDAAIIFSDILVVPQALGMEVTMVPGKGPSFPEPLREEQDLERLRDPEVVASE 130
Query: 129 LNYVFEAITLTRHKLEGKVPLIGFSGAPWTLMSYMIEGGGSKTMSKSKHWLYKYPEESKK 188
L YVF+AITLTR +L G+VPLIGF+GAPWTLM+YM+EGGGS TM+++K WLY+ P+ S +
Sbjct: 131 LGYVFQAITLTRQRLAGRVPLIGFAGAPWTLMTYMVEGGGSSTMAQAKRWLYQRPQASHQ 190
Query: 189 LLEILTNVIVDY 200
LL ILT+ +V Y
Sbjct: 191 LLRILTDALVPY 202
>pdb|3GVV|A Chain A, Single-Chain Urod Y164g (Gy) Mutation
pdb|3GVW|A Chain A, Single-Chain Urod F217y (Yf) Mutation
Length = 367
Score = 253 bits (647), Expect = 4e-68, Method: Compositional matrix adjust.
Identities = 118/192 (61%), Positives = 146/192 (76%), Gaps = 2/192 (1%)
Query: 11 FPPLKNDRLL--PRGEEVDKIPIWIMRQAGRYLPEFRELRSKHDFFTICQTPELAAEITL 68
FP LKND L GEE D P+W MRQAGRYLPEFRE R+ DFF+ C++PE E+TL
Sbjct: 11 FPELKNDTFLRAAWGEETDYTPVWCMRQAGRYLPEFRETRAAQDFFSTCRSPEACCELTL 70
Query: 69 QPIRRFNLDASIIFSDILVIPQALGMVVEMKPAVGPVLPEPLVIPEDIKKLKTSVDVYKE 128
QP+RRF LDA+IIFSDILV+PQALGM V M P GP PEPL +D+++L+ V E
Sbjct: 71 QPLRRFPLDAAIIFSDILVVPQALGMEVTMVPGKGPSFPEPLREEQDLERLRDPEVVASE 130
Query: 129 LNYVFEAITLTRHKLEGKVPLIGFSGAPWTLMSYMIEGGGSKTMSKSKHWLYKYPEESKK 188
L YVF+AITLTR +L G+VPLIGF+GAPWTLM+YM+EGGGS TM+++K WLY+ P+ S +
Sbjct: 131 LGYVFQAITLTRQRLAGRVPLIGFAGAPWTLMTYMVEGGGSSTMAQAKRWLYQRPQASHQ 190
Query: 189 LLEILTNVIVDY 200
LL ILT+ +V Y
Sbjct: 191 LLRILTDALVPY 202
>pdb|1JPH|A Chain A, Ile260thr Mutant Of Human Urod, Human Uroporphyrinogen Iii
Decarboxylase
Length = 388
Score = 253 bits (647), Expect = 4e-68, Method: Compositional matrix adjust.
Identities = 118/192 (61%), Positives = 146/192 (76%), Gaps = 2/192 (1%)
Query: 11 FPPLKNDRLL--PRGEEVDKIPIWIMRQAGRYLPEFRELRSKHDFFTICQTPELAAEITL 68
FP LKND L GEE D P+W MRQAGRYLPEFRE R+ DFF+ C++PE E+TL
Sbjct: 32 FPELKNDTFLRAAWGEETDYTPVWCMRQAGRYLPEFRETRAAQDFFSTCRSPEACCELTL 91
Query: 69 QPIRRFNLDASIIFSDILVIPQALGMVVEMKPAVGPVLPEPLVIPEDIKKLKTSVDVYKE 128
QP+RRF LDA+IIFSDILV+PQALGM V M P GP PEPL +D+++L+ V E
Sbjct: 92 QPLRRFPLDAAIIFSDILVVPQALGMEVTMVPGKGPSFPEPLREEQDLERLRDPEVVASE 151
Query: 129 LNYVFEAITLTRHKLEGKVPLIGFSGAPWTLMSYMIEGGGSKTMSKSKHWLYKYPEESKK 188
L YVF+AITLTR +L G+VPLIGF+GAPWTLM+YM+EGGGS TM+++K WLY+ P+ S +
Sbjct: 152 LGYVFQAITLTRQRLAGRVPLIGFAGAPWTLMTYMVEGGGSSTMAQAKRWLYQRPQASHQ 211
Query: 189 LLEILTNVIVDY 200
LL ILT+ +V Y
Sbjct: 212 LLRILTDALVPY 223
>pdb|1R3W|A Chain A, Uroporphyrinogen Decarboxylase Y164f Mutant In Complex
With Coproporphyrinogen-Iii
Length = 367
Score = 252 bits (643), Expect = 1e-67, Method: Compositional matrix adjust.
Identities = 117/192 (60%), Positives = 146/192 (76%), Gaps = 2/192 (1%)
Query: 11 FPPLKNDRLL--PRGEEVDKIPIWIMRQAGRYLPEFRELRSKHDFFTICQTPELAAEITL 68
FP LKND L GEE D P+W MRQAGRYLPEFRE R+ DFF+ C++PE E+TL
Sbjct: 11 FPELKNDTFLRAAWGEETDYTPVWCMRQAGRYLPEFRETRAAQDFFSTCRSPEACCELTL 70
Query: 69 QPIRRFNLDASIIFSDILVIPQALGMVVEMKPAVGPVLPEPLVIPEDIKKLKTSVDVYKE 128
QP+RRF LDA+IIFSDILV+PQALGM V M P GP PEPL +D+++L+ V E
Sbjct: 71 QPLRRFPLDAAIIFSDILVVPQALGMEVTMVPGKGPSFPEPLREEQDLERLRDPEVVASE 130
Query: 129 LNYVFEAITLTRHKLEGKVPLIGFSGAPWTLMSYMIEGGGSKTMSKSKHWLYKYPEESKK 188
L YVF+AITLTR +L G+VPLIGF+GAPWTLM++M+EGGGS TM+++K WLY+ P+ S +
Sbjct: 131 LGYVFQAITLTRQRLAGRVPLIGFAGAPWTLMTFMVEGGGSSTMAQAKRWLYQRPQASHQ 190
Query: 189 LLEILTNVIVDY 200
LL ILT+ +V Y
Sbjct: 191 LLRILTDALVPY 202
>pdb|1R3R|A Chain A, Uroporphyrinogen Decarboxylase With Mutation D86n
Length = 367
Score = 252 bits (643), Expect = 1e-67, Method: Compositional matrix adjust.
Identities = 117/192 (60%), Positives = 146/192 (76%), Gaps = 2/192 (1%)
Query: 11 FPPLKNDRLL--PRGEEVDKIPIWIMRQAGRYLPEFRELRSKHDFFTICQTPELAAEITL 68
FP LKND L GEE D P+W MRQAGRYLPEFRE R+ DFF+ C++PE E+TL
Sbjct: 11 FPELKNDTFLRAAWGEETDYTPVWCMRQAGRYLPEFRETRAAQDFFSTCRSPEACCELTL 70
Query: 69 QPIRRFNLDASIIFSDILVIPQALGMVVEMKPAVGPVLPEPLVIPEDIKKLKTSVDVYKE 128
QP+RRF LDA+IIFS+ILV+PQALGM V M P GP PEPL +D+++L+ V E
Sbjct: 71 QPLRRFPLDAAIIFSNILVVPQALGMEVTMVPGKGPSFPEPLREEQDLERLRDPEVVASE 130
Query: 129 LNYVFEAITLTRHKLEGKVPLIGFSGAPWTLMSYMIEGGGSKTMSKSKHWLYKYPEESKK 188
L YVF+AITLTR +L G+VPLIGF+GAPWTLM+YM+EGGGS TM+++K WLY+ P+ S +
Sbjct: 131 LGYVFQAITLTRQRLAGRVPLIGFAGAPWTLMTYMVEGGGSSTMAQAKRWLYQRPQASHQ 190
Query: 189 LLEILTNVIVDY 200
LL ILT+ +V Y
Sbjct: 191 LLRILTDALVPY 202
>pdb|1R3V|A Chain A, Uroporphyrinogen Decarboxylase Single Mutant D86e In
Complex With Coproporphyrinogen-I
Length = 367
Score = 251 bits (642), Expect = 1e-67, Method: Compositional matrix adjust.
Identities = 117/192 (60%), Positives = 146/192 (76%), Gaps = 2/192 (1%)
Query: 11 FPPLKNDRLL--PRGEEVDKIPIWIMRQAGRYLPEFRELRSKHDFFTICQTPELAAEITL 68
FP LKND L GEE D P+W MRQAGRYLPEFRE R+ DFF+ C++PE E+TL
Sbjct: 11 FPELKNDTFLRAAWGEETDYTPVWCMRQAGRYLPEFRETRAAQDFFSTCRSPEACCELTL 70
Query: 69 QPIRRFNLDASIIFSDILVIPQALGMVVEMKPAVGPVLPEPLVIPEDIKKLKTSVDVYKE 128
QP+RRF LDA+IIFS+ILV+PQALGM V M P GP PEPL +D+++L+ V E
Sbjct: 71 QPLRRFPLDAAIIFSEILVVPQALGMEVTMVPGKGPSFPEPLREEQDLERLRDPEVVASE 130
Query: 129 LNYVFEAITLTRHKLEGKVPLIGFSGAPWTLMSYMIEGGGSKTMSKSKHWLYKYPEESKK 188
L YVF+AITLTR +L G+VPLIGF+GAPWTLM+YM+EGGGS TM+++K WLY+ P+ S +
Sbjct: 131 LGYVFQAITLTRQRLAGRVPLIGFAGAPWTLMTYMVEGGGSSTMAQAKRWLYQRPQASHQ 190
Query: 189 LLEILTNVIVDY 200
LL ILT+ +V Y
Sbjct: 191 LLRILTDALVPY 202
>pdb|1R3S|A Chain A, Uroporphyrinogen Decarboxylase Single Mutant D86g In
Complex With Coproporphyrinogen-I
pdb|1R3T|A Chain A, Uroporphyrinogen Decarboxylase Single Mutant D86g In
Complex With Coproporphyrinogen-Iii
Length = 367
Score = 251 bits (641), Expect = 2e-67, Method: Compositional matrix adjust.
Identities = 117/192 (60%), Positives = 145/192 (75%), Gaps = 2/192 (1%)
Query: 11 FPPLKNDRLL--PRGEEVDKIPIWIMRQAGRYLPEFRELRSKHDFFTICQTPELAAEITL 68
FP LKND L GEE D P+W MRQAGRYLPEFRE R+ DFF+ C++PE E+TL
Sbjct: 11 FPELKNDTFLRAAWGEETDYTPVWCMRQAGRYLPEFRETRAAQDFFSTCRSPEACCELTL 70
Query: 69 QPIRRFNLDASIIFSDILVIPQALGMVVEMKPAVGPVLPEPLVIPEDIKKLKTSVDVYKE 128
QP+RRF LDA+IIFS ILV+PQALGM V M P GP PEPL +D+++L+ V E
Sbjct: 71 QPLRRFPLDAAIIFSGILVVPQALGMEVTMVPGKGPSFPEPLREEQDLERLRDPEVVASE 130
Query: 129 LNYVFEAITLTRHKLEGKVPLIGFSGAPWTLMSYMIEGGGSKTMSKSKHWLYKYPEESKK 188
L YVF+AITLTR +L G+VPLIGF+GAPWTLM+YM+EGGGS TM+++K WLY+ P+ S +
Sbjct: 131 LGYVFQAITLTRQRLAGRVPLIGFAGAPWTLMTYMVEGGGSSTMAQAKRWLYQRPQASHQ 190
Query: 189 LLEILTNVIVDY 200
LL ILT+ +V Y
Sbjct: 191 LLRILTDALVPY 202
>pdb|1JPK|A Chain A, Gly156asp Mutant Of Human Urod, Human Uroporphyrinogen Iii
Decarboxylase
Length = 388
Score = 251 bits (640), Expect = 3e-67, Method: Compositional matrix adjust.
Identities = 117/192 (60%), Positives = 145/192 (75%), Gaps = 2/192 (1%)
Query: 11 FPPLKNDRLLPR--GEEVDKIPIWIMRQAGRYLPEFRELRSKHDFFTICQTPELAAEITL 68
FP LKND L GEE D P+W MRQAGRYLPEFRE R+ DFF+ C++PE E+TL
Sbjct: 32 FPELKNDTFLRAAWGEETDYTPVWCMRQAGRYLPEFRETRAAQDFFSTCRSPEACCELTL 91
Query: 69 QPIRRFNLDASIIFSDILVIPQALGMVVEMKPAVGPVLPEPLVIPEDIKKLKTSVDVYKE 128
QP+RRF LDA+IIFSDILV+PQALGM V M P GP PEPL +D+++L+ V E
Sbjct: 92 QPLRRFPLDAAIIFSDILVVPQALGMEVTMVPGKGPSFPEPLREEQDLERLRDPEVVASE 151
Query: 129 LNYVFEAITLTRHKLEGKVPLIGFSGAPWTLMSYMIEGGGSKTMSKSKHWLYKYPEESKK 188
L YVF+AITLTR +L G+VPLIGF+ APWTLM+YM+EGGGS TM+++K WLY+ P+ S +
Sbjct: 152 LGYVFQAITLTRQRLAGRVPLIGFADAPWTLMTYMVEGGGSSTMAQAKRWLYQRPQASHQ 211
Query: 189 LLEILTNVIVDY 200
LL ILT+ +V Y
Sbjct: 212 LLRILTDALVPY 223
>pdb|2Q71|A Chain A, Uroporphyrinogen Decarboxylase G168r Single Mutant Enzyme
In Complex With Coproporphyrinogen-Iii
pdb|2Q6Z|A Chain A, Uroporphyrinogen Decarboxylase G168r Single Mutant Apo-
Enzyme
Length = 356
Score = 250 bits (639), Expect = 4e-67, Method: Compositional matrix adjust.
Identities = 117/192 (60%), Positives = 145/192 (75%), Gaps = 2/192 (1%)
Query: 11 FPPLKNDRLL--PRGEEVDKIPIWIMRQAGRYLPEFRELRSKHDFFTICQTPELAAEITL 68
FP LKND L GEE D P+W MRQAGRYLPEFRE R+ DFF+ C++PE E+TL
Sbjct: 1 FPELKNDTFLRAAWGEETDYTPVWCMRQAGRYLPEFRETRAAQDFFSTCRSPEACCELTL 60
Query: 69 QPIRRFNLDASIIFSDILVIPQALGMVVEMKPAVGPVLPEPLVIPEDIKKLKTSVDVYKE 128
QP+RRF LDA+IIFSDILV+PQALGM V M P GP PEPL +D+++L+ V E
Sbjct: 61 QPLRRFPLDAAIIFSDILVVPQALGMEVTMVPGKGPSFPEPLREEQDLERLRDPEVVASE 120
Query: 129 LNYVFEAITLTRHKLEGKVPLIGFSGAPWTLMSYMIEGGGSKTMSKSKHWLYKYPEESKK 188
L YVF+AITLTR +L G+VPLIGF+GAPWTLM+YM+E GGS TM+++K WLY+ P+ S +
Sbjct: 121 LGYVFQAITLTRQRLAGRVPLIGFAGAPWTLMTYMVERGGSSTMAQAKRWLYQRPQASHQ 180
Query: 189 LLEILTNVIVDY 200
LL ILT+ +V Y
Sbjct: 181 LLRILTDALVPY 192
>pdb|3CYV|A Chain A, Crystal Structure Of Uroporphyrinogen Decarboxylase From
Shigella Flexineri: New Insights Into Its Catalytic
Mechanism
Length = 354
Score = 176 bits (446), Expect = 9e-45, Method: Compositional matrix adjust.
Identities = 88/190 (46%), Positives = 122/190 (64%), Gaps = 4/190 (2%)
Query: 14 LKNDRLLPR--GEEVDKIPIWIMRQAGRYLPEFRELRSK-HDFFTICQTPELAAEITLQP 70
LKNDR L + VD P+W+MRQAGRYLPE++ R++ DF ++C+ ELA E+TLQP
Sbjct: 4 LKNDRYLRALLRQPVDVTPVWMMRQAGRYLPEYKATRAQAGDFMSLCKNAELACEVTLQP 63
Query: 71 IRRFNLDASIIFSDILVIPQALGMVVEMKPAVGPVLPEPLVIPEDIKKLKTSVDVYKELN 130
+RR+ LDA+I+FSDIL +P A+G+ + + GP P+ D+ KL D EL
Sbjct: 64 LRRYPLDAAILFSDILTVPDAMGLGLYFEAGEGPRFTSPVTCKADVDKLPIP-DPEDELG 122
Query: 131 YVFEAITLTRHKLEGKVPLIGFSGAPWTLMSYMIEGGGSKTMSKSKHWLYKYPEESKKLL 190
YV A+ RH+L+G+VPLIGFSG+PWTL +YM+EGG SK + K +Y P+ LL
Sbjct: 123 YVMNAVRTIRHELKGEVPLIGFSGSPWTLATYMVEGGSSKAFTVIKKMMYADPQALHALL 182
Query: 191 EILTNVIVDY 200
+ L + Y
Sbjct: 183 DKLAKSVTLY 192
>pdb|4EXQ|A Chain A, Crystal Structure Of Uroporphyrinogen Decarboxylase (Upd)
From Burkholderia Thailandensis E264
Length = 368
Score = 153 bits (387), Expect = 6e-38, Method: Compositional matrix adjust.
Identities = 78/183 (42%), Positives = 107/183 (58%), Gaps = 7/183 (3%)
Query: 24 EEVDKIPIWIMRQAGRYLPEFRELRSK-HDFFTICQTPELAAEITLQPIRRFNLDASIIF 82
E D PIW+MRQAGRYLPE+ R++ F + + P+ A E+TLQP+ RF LDA+I+F
Sbjct: 21 EPTDYTPIWLMRQAGRYLPEYNATRARAGSFLGLAKHPDYATEVTLQPLERFPLDAAILF 80
Query: 83 SDILVIPQALGMVVEMKPAVGPVLPEPLVIPEDIKKLKTSVDVYKELNYVFEAITLTRHK 142
SDIL IP A+G+ ++ GP P+ D+ KL D+ L YV +A+ R
Sbjct: 81 SDILTIPDAMGLGLDFAAGEGPKFAHPVRTEADVAKLAVP-DIGATLGYVTDAVREIRRA 139
Query: 143 L---EG--KVPLIGFSGAPWTLMSYMIEGGGSKTMSKSKHWLYKYPEESKKLLEILTNVI 197
L EG +VPLIGFSG+PWTL YM+EGGGS K Y P+ ++L++ +
Sbjct: 140 LTDGEGRQRVPLIGFSGSPWTLACYMVEGGGSDDFRTVKSMAYARPDLMHRILDVNAQAV 199
Query: 198 VDY 200
Y
Sbjct: 200 AAY 202
>pdb|2INF|A Chain A, Crystal Structure Of Uroporphyrinogen Decarboxylase From
Bacillus Subtilis
pdb|2INF|B Chain B, Crystal Structure Of Uroporphyrinogen Decarboxylase From
Bacillus Subtilis
pdb|2INF|C Chain C, Crystal Structure Of Uroporphyrinogen Decarboxylase From
Bacillus Subtilis
pdb|2INF|D Chain D, Crystal Structure Of Uroporphyrinogen Decarboxylase From
Bacillus Subtilis
Length = 359
Score = 148 bits (374), Expect = 2e-36, Method: Compositional matrix adjust.
Identities = 76/179 (42%), Positives = 117/179 (65%), Gaps = 2/179 (1%)
Query: 22 RGEEVDKIPIWIMRQAGRYLPEFRELRSKHDFFTICQTPELAAEITLQPIRRFNLDASII 81
RGE+ D P+W MRQAGR PE+R+L+ K+ F I PEL A +T P+ ++ +DA+I+
Sbjct: 22 RGEKADHTPVWYMRQAGRSQPEYRKLKEKYGLFEITHQPELCAYVTRLPVEQYGVDAAIL 81
Query: 82 FSDILVIPQALGMVVEMKPAVGPVLPEPLVIPEDIKKLKTSVDVYKELNYVFEAITLTRH 141
+ DI+ ++G+ VE+K +GPV+ +P+ DI+KL +D +++ YV E I L +
Sbjct: 82 YKDIMTPLPSIGVDVEIKNGIGPVIDQPIRSLADIEKL-GQIDPEQDVPYVLETIKLLVN 140
Query: 142 KLEGKVPLIGFSGAPWTLMSYMIEGGGSKTMSKSKHWLYKYPEESKKLLEILTNVIVDY 200
+ + VPLIGFSGAP+TL SYM EGG SK +K+K ++Y P+ L+ L ++I+ Y
Sbjct: 141 E-QLNVPLIGFSGAPFTLASYMTEGGPSKNYNKTKAFMYSMPDAWNLLMSKLADMIIVY 198
>pdb|2EJA|A Chain A, Crystal Structure Of Uroporphyrinogen Decarboxylase From
Aquifex Aeolicus
pdb|2EJA|B Chain B, Crystal Structure Of Uroporphyrinogen Decarboxylase From
Aquifex Aeolicus
Length = 338
Score = 146 bits (369), Expect = 7e-36, Method: Compositional matrix adjust.
Identities = 81/189 (42%), Positives = 124/189 (65%), Gaps = 10/189 (5%)
Query: 15 KNDRLLP--RGEEVDKIPIWIMRQAGRYLPEFRELRSK-HDFFTICQTPELAAEITLQPI 71
KND LL RGE + + P+W+MRQAGRY+PE+R++R++ +F +C+ +LA EI+L P+
Sbjct: 3 KNDLLLRSLRGEPIGRFPVWLMRQAGRYMPEYRKIRNRVKNFLELCKNVDLATEISLLPL 62
Query: 72 RRFNLDASIIFSDILVIPQALGMVVEMKPAVGPVLPEPLVIPEDIKKLKTSVDVYKELNY 131
+ +DA IIFSDILV + LG+ VE GP L + D+KK S + Y
Sbjct: 63 KILGVDAIIIFSDILVPLEPLGVKVEFVEGEGPKLSWSGKV-SDLKKYDPSQNAY----- 116
Query: 132 VFEAITLTRHKLEGKVPLIGFSGAPWTLMSYMIEGGGSKTMSKSKHWLYKYPEESKKLLE 191
V+E I + + +VP+IGF+GAP+TL+SY+IEGG SK +K ++++ P+E K+L++
Sbjct: 117 VYEIIKRVKEA-QDEVPVIGFAGAPFTLLSYLIEGGASKDFKSTKLFMWENPKEYKRLMD 175
Query: 192 ILTNVIVDY 200
ILT ++ Y
Sbjct: 176 ILTETVLAY 184
>pdb|1J93|A Chain A, Crystal Structure And Substrate Binding Modeling Of The
Uroporphyrinogen-Iii Decarboxylase From Nicotiana
Tabacum: Implications For The Catalytic Mechanism
Length = 353
Score = 117 bits (293), Expect = 5e-27, Method: Compositional matrix adjust.
Identities = 64/180 (35%), Positives = 105/180 (58%), Gaps = 2/180 (1%)
Query: 22 RGEEVDKIPIWIMRQAGRYLPEFRELRSKHDFF-TICQTPELAAEITLQPIRRFNLDASI 80
RG+EV++ P+W+MRQAGRY+ ++ L K+ F + +L EI+LQP + F D I
Sbjct: 20 RGKEVERPPVWLMRQAGRYMKSYQLLCEKYPLFRDRSENVDLVVEISLQPWKVFRPDGVI 79
Query: 81 IFSDILVIPQALGMVVEMKPAVGPVLPEPLVIPEDIKKLKTSVDVYKELNYVFEAITLTR 140
+FSDIL + + ++ GPV+ +PL D++K++ + K + YV EA+T+ R
Sbjct: 80 LFSDILTPLSGMNIPFDIIKGKGPVIFDPLRTAADVEKVREFIP-EKSVPYVGEALTILR 138
Query: 141 HKLEGKVPLIGFSGAPWTLMSYMIEGGGSKTMSKSKHWLYKYPEESKKLLEILTNVIVDY 200
++ + ++GF GAP+TL SY++EGG SK +K K + P+ LL+ + Y
Sbjct: 139 KEVNNQAAVLGFVGAPFTLASYVVEGGSSKNFTKIKRLAFAEPKVLHALLQKFATSMAKY 198
>pdb|4AY7|A Chain A, Methyltransferase From Methanosarcina Mazei
pdb|4AY7|B Chain B, Methyltransferase From Methanosarcina Mazei
Length = 348
Score = 37.7 bits (86), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 47/195 (24%), Positives = 86/195 (44%), Gaps = 21/195 (10%)
Query: 18 RLLP--RGEEVDKIPIWIMRQAGRYLPEFRELRSKHDFFTICQTPELAAEITLQPIRRFN 75
RLL +GE VDK+P+ + Q G + E ++ + PEL A++ L
Sbjct: 18 RLLAALKGEPVDKVPVCSVTQTG--IVELMDVVGAP-WPEAHTNPELMAKLALANHELSG 74
Query: 76 LDASIIFSDILVIPQALGMVVEMKPAVGPVLPEPLVI----PEDIKKLKTSVDVYKE--L 129
L+A + + V+ +A+G + M G +P V P+D++ D+ + +
Sbjct: 75 LEAVRLPYXLTVLVEAMGCEINM----GTKNRQPSVTGHPYPKDLEGAAVPADLLQRGRI 130
Query: 130 NYVFEAITLTRHKLEGKVPLIGFSGAPWTLMSYMIEGGGSKTMSKSKHWLYKYPEESKKL 189
V EAI + R K+ VP++G P T+ S ++ ++ W K + ++
Sbjct: 131 PVVLEAIKIIREKVGPDVPIVGGMEGPVTVASDLV------SVKSFMKWSIKKTDLLEQA 184
Query: 190 LEILTNVIVDYPTRL 204
L+I T + Y +
Sbjct: 185 LDIATEASIIYANAM 199
>pdb|4AY8|A Chain A, Semet-Derivative Of A Methyltransferase From M. Mazei
pdb|4AY8|B Chain B, Semet-Derivative Of A Methyltransferase From M. Mazei
Length = 348
Score = 35.8 bits (81), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 46/191 (24%), Positives = 83/191 (43%), Gaps = 21/191 (10%)
Query: 18 RLLP--RGEEVDKIPIWIMRQAGRYLPEFRELRSKHDFFTICQTPELAAEITLQPIRRFN 75
RLL +GE VDK+P+ + Q G + E ++ + PEL A++ L
Sbjct: 18 RLLAALKGEPVDKVPVCSVTQTG--IVELXDVVGAP-WPEAHTNPELXAKLALANHELSG 74
Query: 76 LDASIIFSDILVIPQALGMVVEMKPAVGPVLPEPLVI----PEDIKKLKTSVDVYKE--L 129
L+A + + V+ +A G + G +P V P+D++ D+ + +
Sbjct: 75 LEAVRLPYXLTVLVEAXGCEINX----GTKNRQPSVTGHPYPKDLEGAAVPADLLQRGRI 130
Query: 130 NYVFEAITLTRHKLEGKVPLIGFSGAPWTLMSYMIEGGGSKTMSKSKHWLYKYPEESKKL 189
V EAI + R K+ VP++G P T+ S ++ ++ W K + ++
Sbjct: 131 PVVLEAIKIIREKVGPDVPIVGGXEGPVTVASDLV------SVKSFXKWSIKKTDLLEQA 184
Query: 190 LEILTNVIVDY 200
L+I T + Y
Sbjct: 185 LDIATEASIIY 195
>pdb|1OGQ|A Chain A, The Crystal Structure Of Pgip (Polygalacturonase
Inhibiting Protein), A Leucine Rich Repeat Protein
Involved In Plant Defense
Length = 313
Score = 30.8 bits (68), Expect = 0.63, Method: Compositional matrix adjust.
Identities = 20/75 (26%), Positives = 37/75 (49%), Gaps = 3/75 (4%)
Query: 106 LPEPLVIPEDIKKLKTSV-DVYKELNYVFEAITLTRHKLEGKVP--LIGFSGAPWTLMSY 162
LP + I D ++ ++ D Y + +F ++T++R++L GK+P + A L
Sbjct: 148 LPNLVGITFDGNRISGAIPDSYGSFSKLFTSMTISRNRLTGKIPPTFANLNLAFVDLSRN 207
Query: 163 MIEGGGSKTMSKSKH 177
M+EG S K+
Sbjct: 208 MLEGDASVLFGSDKN 222
>pdb|1B89|A Chain A, Clathrin Heavy Chain Proximal Leg Segment (Bovine)
Length = 449
Score = 30.0 bits (66), Expect = 0.94, Method: Compositional matrix adjust.
Identities = 16/58 (27%), Positives = 26/58 (44%)
Query: 86 LVIPQALGMVVEMKPAVGPVLPEPLVIPEDIKKLKTSVDVYKELNYVFEAITLTRHKL 143
LV P + +V L + ED + L+TS+D Y + + A L +H+L
Sbjct: 374 LVKPYLRSVQNHNNKSVNESLNNLFITEEDYQALRTSIDAYDNFDNISLAQRLEKHEL 431
>pdb|3LVG|A Chain A, Crystal Structure Of A Clathrin Heavy Chain And Clathrin
Lig Complex
pdb|3LVG|B Chain B, Crystal Structure Of A Clathrin Heavy Chain And Clathrin
Lig Complex
pdb|3LVG|C Chain C, Crystal Structure Of A Clathrin Heavy Chain And Clathrin
Lig Complex
pdb|3LVH|A Chain A, Crystal Structure Of A Clathrin Heavy Chain And Clathrin
Light Chain Complex
pdb|3LVH|B Chain B, Crystal Structure Of A Clathrin Heavy Chain And Clathrin
Light Chain Complex
pdb|3LVH|C Chain C, Crystal Structure Of A Clathrin Heavy Chain And Clathrin
Light Chain Complex
Length = 624
Score = 29.6 bits (65), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 16/58 (27%), Positives = 26/58 (44%)
Query: 86 LVIPQALGMVVEMKPAVGPVLPEPLVIPEDIKKLKTSVDVYKELNYVFEAITLTRHKL 143
LV P + +V L + ED + L+TS+D Y + + A L +H+L
Sbjct: 396 LVKPYLRSVQNHNNKSVNESLNNLFITEEDYQALRTSIDAYDNFDNISLAQRLEKHEL 453
>pdb|3GQB|A Chain A, Crystal Structure Of The A3b3 Complex From V-atpase
pdb|3GQB|C Chain C, Crystal Structure Of The A3b3 Complex From V-atpase
Length = 578
Score = 28.5 bits (62), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 17/36 (47%), Positives = 22/36 (61%)
Query: 85 ILVIPQALGMVVEMKPAVGPVLPEPLVIPEDIKKLK 120
ILV P G V E+KPA + EP+V+ ED +LK
Sbjct: 147 ILVPPDVRGRVKEVKPAGEYTVEEPVVVLEDGTELK 182
>pdb|3A5C|A Chain A, Inter-Subunit Interaction And Quaternary Rearrangement
Defined By The Central Stalk Of Prokaryotic V1-Atpase
pdb|3A5C|B Chain B, Inter-Subunit Interaction And Quaternary Rearrangement
Defined By The Central Stalk Of Prokaryotic V1-Atpase
pdb|3A5C|C Chain C, Inter-Subunit Interaction And Quaternary Rearrangement
Defined By The Central Stalk Of Prokaryotic V1-Atpase
pdb|3A5C|I Chain I, Inter-Subunit Interaction And Quaternary Rearrangement
Defined By The Central Stalk Of Prokaryotic V1-Atpase
pdb|3A5C|J Chain J, Inter-Subunit Interaction And Quaternary Rearrangement
Defined By The Central Stalk Of Prokaryotic V1-Atpase
pdb|3A5C|K Chain K, Inter-Subunit Interaction And Quaternary Rearrangement
Defined By The Central Stalk Of Prokaryotic V1-Atpase
pdb|3A5D|A Chain A, Inter-Subunit Interaction And Quaternary Rearrangement
Defined By The Central Stalk Of Prokaryotic V1-Atpase
pdb|3A5D|B Chain B, Inter-Subunit Interaction And Quaternary Rearrangement
Defined By The Central Stalk Of Prokaryotic V1-Atpase
pdb|3A5D|C Chain C, Inter-Subunit Interaction And Quaternary Rearrangement
Defined By The Central Stalk Of Prokaryotic V1-Atpase
pdb|3A5D|I Chain I, Inter-Subunit Interaction And Quaternary Rearrangement
Defined By The Central Stalk Of Prokaryotic V1-Atpase
pdb|3A5D|J Chain J, Inter-Subunit Interaction And Quaternary Rearrangement
Defined By The Central Stalk Of Prokaryotic V1-Atpase
pdb|3A5D|K Chain K, Inter-Subunit Interaction And Quaternary Rearrangement
Defined By The Central Stalk Of Prokaryotic V1-Atpase
pdb|3J0J|A Chain A, Fitted Atomic Models Of Thermus Thermophilus V-Atpase
Subunits Into Cryo-Em Map
pdb|3J0J|B Chain B, Fitted Atomic Models Of Thermus Thermophilus V-Atpase
Subunits Into Cryo-Em Map
pdb|3J0J|C Chain C, Fitted Atomic Models Of Thermus Thermophilus V-Atpase
Subunits Into Cryo-Em Map
Length = 578
Score = 28.5 bits (62), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 17/36 (47%), Positives = 22/36 (61%)
Query: 85 ILVIPQALGMVVEMKPAVGPVLPEPLVIPEDIKKLK 120
ILV P G V E+KPA + EP+V+ ED +LK
Sbjct: 147 ILVPPDVRGRVKEVKPAGEYTVEEPVVVLEDGTELK 182
>pdb|3QE5|A Chain A, Complete Structure Of Streptococcus Mutans Antigen III
CARBOXY- Terminus
pdb|3QE5|B Chain B, Complete Structure Of Streptococcus Mutans Antigen III
CARBOXY- Terminus
Length = 516
Score = 27.3 bits (59), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 22/80 (27%), Positives = 34/80 (42%), Gaps = 14/80 (17%)
Query: 143 LEGKVPLIGFSG---APWTLMSYMIEGGGSKTMSKSKHWLYKYPEESKKLLEIL------ 193
++GK L G + W L Y + + T+ K +++ YPEE+ +L + L
Sbjct: 193 IDGKTVLAGSTNYYELTWDLDQYKNDRSSADTIQKGFYYVDDYPEEALELRQDLVKITDA 252
Query: 194 -----TNVIVDYPTRLHYFP 208
T V VD T L P
Sbjct: 253 NGNEVTGVSVDNYTNLEAAP 272
>pdb|2X3M|A Chain A, Crystal Structure Of Hypothetical Protein Orf239 From
Pyrobaculum Spherical Virus
Length = 239
Score = 26.9 bits (58), Expect = 7.6, Method: Compositional matrix adjust.
Identities = 12/40 (30%), Positives = 23/40 (57%)
Query: 21 PRGEEVDKIPIWIMRQAGRYLPEFRELRSKHDFFTICQTP 60
P+G E ++I +W +A + + E RE+ + D+ +TP
Sbjct: 44 PKGSEPEEIRVWAEEKARKAVEEGREVTNWADWIMGWRTP 83
>pdb|2VEA|A Chain A, The Complete Sensory Module Of The Cyanobacterial
Phytochrome Cph1 In The Pr-State
Length = 520
Score = 26.9 bits (58), Expect = 8.3, Method: Compositional matrix adjust.
Identities = 17/48 (35%), Positives = 22/48 (45%), Gaps = 5/48 (10%)
Query: 69 QPIRRFNLDASIIFSDILVIPQALGMVVEMKPAVGPVLPEPLVIPEDI 116
QP RR I + I VIP G+ V + PAV P + + E I
Sbjct: 210 QPARRL-----FIHNPIRVIPDVYGVAVPLTPAVNPSTNRAVDLTESI 252
>pdb|3ZQ5|A Chain A, Structure Of The Y263f Mutant Of The Cyanobacterial
Phytochrome Cph1
Length = 520
Score = 26.9 bits (58), Expect = 8.4, Method: Compositional matrix adjust.
Identities = 17/48 (35%), Positives = 22/48 (45%), Gaps = 5/48 (10%)
Query: 69 QPIRRFNLDASIIFSDILVIPQALGMVVEMKPAVGPVLPEPLVIPEDI 116
QP RR I + I VIP G+ V + PAV P + + E I
Sbjct: 210 QPARRL-----FIHNPIRVIPDVYGVAVPLTPAVNPSTNRAVDLTESI 252
>pdb|1XI4|A Chain A, Clathrin D6 Coat
pdb|1XI4|B Chain B, Clathrin D6 Coat
pdb|1XI4|C Chain C, Clathrin D6 Coat
pdb|1XI4|D Chain D, Clathrin D6 Coat
pdb|1XI4|E Chain E, Clathrin D6 Coat
pdb|1XI4|F Chain F, Clathrin D6 Coat
pdb|1XI4|G Chain G, Clathrin D6 Coat
pdb|1XI4|H Chain H, Clathrin D6 Coat
pdb|1XI4|I Chain I, Clathrin D6 Coat
pdb|1XI5|A Chain A, Clathrin D6 Coat With Auxilin J-Domain
pdb|1XI5|B Chain B, Clathrin D6 Coat With Auxilin J-Domain
pdb|1XI5|C Chain C, Clathrin D6 Coat With Auxilin J-Domain
pdb|1XI5|D Chain D, Clathrin D6 Coat With Auxilin J-Domain
pdb|1XI5|E Chain E, Clathrin D6 Coat With Auxilin J-Domain
pdb|1XI5|F Chain F, Clathrin D6 Coat With Auxilin J-Domain
pdb|1XI5|G Chain G, Clathrin D6 Coat With Auxilin J-Domain
pdb|1XI5|H Chain H, Clathrin D6 Coat With Auxilin J-Domain
pdb|1XI5|I Chain I, Clathrin D6 Coat With Auxilin J-Domain
pdb|3IYV|A Chain A, Clathrin D6 Coat As Full-Length Triskelions
pdb|3IYV|B Chain B, Clathrin D6 Coat As Full-Length Triskelions
pdb|3IYV|C Chain C, Clathrin D6 Coat As Full-Length Triskelions
pdb|3IYV|D Chain D, Clathrin D6 Coat As Full-Length Triskelions
pdb|3IYV|E Chain E, Clathrin D6 Coat As Full-Length Triskelions
pdb|3IYV|F Chain F, Clathrin D6 Coat As Full-Length Triskelions
pdb|3IYV|G Chain G, Clathrin D6 Coat As Full-Length Triskelions
pdb|3IYV|H Chain H, Clathrin D6 Coat As Full-Length Triskelions
pdb|3IYV|I Chain I, Clathrin D6 Coat As Full-Length Triskelions
Length = 1630
Score = 26.6 bits (57), Expect = 9.6, Method: Composition-based stats.
Identities = 13/43 (30%), Positives = 22/43 (51%)
Query: 101 AVGPVLPEPLVIPEDIKKLKTSVDVYKELNYVFEAITLTRHKL 143
+V L + ED + L+TS+D Y + + A L +H+L
Sbjct: 1462 SVNESLNNLFITEEDYQALRTSIDAYDNFDNISLAQRLEKHEL 1504
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
0.321 0.139 0.414
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,688,670
Number of Sequences: 62578
Number of extensions: 283870
Number of successful extensions: 731
Number of sequences better than 100.0: 32
Number of HSP's better than 100.0 without gapping: 26
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 694
Number of HSP's gapped (non-prelim): 32
length of query: 214
length of database: 14,973,337
effective HSP length: 95
effective length of query: 119
effective length of database: 9,028,427
effective search space: 1074382813
effective search space used: 1074382813
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: 49 (23.5 bits)