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= psy2584
(397 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1XD3|A Chain A, Crystal Structure Of Uchl3-Ubvme Complex
pdb|1XD3|C Chain C, Crystal Structure Of Uchl3-Ubvme Complex
pdb|1UCH|A Chain A, Deubiquitinating Enzyme Uch-L3 (Human) At 1.8 Angstrom
Resolution
Length = 230
Score = 193 bits (491), Expect = 1e-49, Method: Compositional matrix adjust.
Identities = 103/245 (42%), Positives = 133/245 (54%), Gaps = 43/245 (17%)
Query: 85 FLVALGVPSKWQIVDVYGTDPDMLAIVPQPVLALIMLFPCTXXXXXXXXXXXXXXXXXGQ 144
FL LG+ WQ VDVYG DP++L++VP+PV A+++LFP T
Sbjct: 19 FLKQLGLHPNWQFVDVYGMDPELLSMVPRPVCAVLLLFPIT------------------- 59
Query: 145 TISSELFFMKQFVHNACGTIALIHSYXXXXXXXXXXXXXXGQTISSELFFMKQFVHNACG 204
Y GQ ++S ++FMKQ + NACG
Sbjct: 60 -----------------------EKYEVFRTEEEEKIKSQGQDVTSSVYFMKQTISNACG 96
Query: 205 TIALIHSVANNLNNVKLEDGK-LKSFLDEAKDLSPERRGKLLDENQSISDVHKVIAQEGQ 263
TI LIH++ANN + + E G LK FL+E+ +SPE R + L+ +I H+ A EGQ
Sbjct: 97 TIGLIHAIANNKDKMHFESGSTLKKFLEESVSMSPEERARYLENYDAIRVTHETSAHEGQ 156
Query: 264 TAPPEDREPVPYHFVALVHKEGALYELDGRKGFPINHGATSPETLLADATQVAKKYMQRD 323
T P E V HF+ALVH +G LYELDGRK FPINHG TS ETLL DA +V KK+M+RD
Sbjct: 157 TEAPSIDEKVDLHFIALVHVDGHLYELDGRKPFPINHGETSDETLLEDAIEVCKKFMERD 216
Query: 324 PDNGR 328
PD R
Sbjct: 217 PDELR 221
Score = 49.7 bits (117), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 19/31 (61%), Positives = 26/31 (83%)
Query: 365 GQTISSELFFMKQFVHNACGTIALIHSVANN 395
GQ ++S ++FMKQ + NACGTI LIH++ANN
Sbjct: 77 GQDVTSSVYFMKQTISNACGTIGLIHAIANN 107
>pdb|2LEN|A Chain A, Solution Structure Of Uchl1 S18y Variant
Length = 231
Score = 154 bits (388), Expect = 9e-38, Method: Compositional matrix adjust.
Identities = 89/244 (36%), Positives = 125/244 (51%), Gaps = 48/244 (19%)
Query: 86 LVALGVPSKWQIVDVYGTDPDMLAIVPQPVLALIMLFPCTXXXXXXXXXXXXXXXXXGQT 145
L LGV +W+ VDV G + + L VP P AL++LFP T
Sbjct: 17 LYRLGVAGQWRFVDVLGLEEESLGSVPAPACALLLLFPLTA------------------- 57
Query: 146 ISSELFFMKQFVHNACGTIALIHSYXXXXXXXXXXXXXXGQTISSELFFMKQFVHNACGT 205
E F KQ GQ +S +++FMKQ + N+CGT
Sbjct: 58 -QHENFRKKQI------------------------EELKGQEVSPKVYFMKQTIGNSCGT 92
Query: 206 IALIHSVANNLNNVKLEDGK-LKSFLDEAKDLSPERRGKLLDENQSISDVHKVIAQEGQT 264
I LIH+VANN + + EDG LK FL E + +SPE R K ++N++I H +AQEGQ
Sbjct: 93 IGLIHAVANNQDKLGFEDGSVLKQFLSETEKMSPEDRAKCFEKNEAIQAAHDAVAQEGQC 152
Query: 265 APPEDREPVPYHFVALVHKEGALYELDGRKGFPINHGATSPETLLADATQVAKKYMQRDP 324
+ V +HF+ + +G LYELDGR FP+NHGA+S +TLL DA +V +++ +R+
Sbjct: 153 RVDD---KVNFHFILFNNVDGHLYELDGRMPFPVNHGASSEDTLLKDAAKVCREFTEREQ 209
Query: 325 DNGR 328
R
Sbjct: 210 GEVR 213
Score = 47.8 bits (112), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 19/31 (61%), Positives = 26/31 (83%)
Query: 365 GQTISSELFFMKQFVHNACGTIALIHSVANN 395
GQ +S +++FMKQ + N+CGTI LIH+VANN
Sbjct: 72 GQEVSPKVYFMKQTIGNSCGTIGLIHAVANN 102
>pdb|3IFW|A Chain A, Crystal Structure Of The S18y Variant Of Ubiquitin Carboxy
T Hydrolase L1 Bound To Ubiquitin Vinylmethylester
Length = 228
Score = 154 bits (388), Expect = 1e-37, Method: Compositional matrix adjust.
Identities = 88/239 (36%), Positives = 124/239 (51%), Gaps = 48/239 (20%)
Query: 86 LVALGVPSKWQIVDVYGTDPDMLAIVPQPVLALIMLFPCTXXXXXXXXXXXXXXXXXGQT 145
L LGV +W+ VDV G + + L VP P AL++LFP T
Sbjct: 22 LYRLGVAGQWRFVDVLGLEEESLGSVPAPACALLLLFPLTA------------------- 62
Query: 146 ISSELFFMKQFVHNACGTIALIHSYXXXXXXXXXXXXXXGQTISSELFFMKQFVHNACGT 205
E F KQ GQ +S +++FMKQ + N+CGT
Sbjct: 63 -QHENFRKKQI------------------------EELKGQEVSPKVYFMKQTIGNSCGT 97
Query: 206 IALIHSVANNLNNVKLEDGK-LKSFLDEAKDLSPERRGKLLDENQSISDVHKVIAQEGQT 264
I LIH+VANN + + EDG LK FL E + +SPE R K ++N++I H +AQEGQ
Sbjct: 98 IGLIHAVANNQDKLGFEDGSVLKQFLSETEKMSPEDRAKCFEKNEAIQAAHDAVAQEGQC 157
Query: 265 APPEDREPVPYHFVALVHKEGALYELDGRKGFPINHGATSPETLLADATQVAKKYMQRD 323
+ V +HF+ + +G LYELDGR FP+NHGA+S +TLL DA +V +++ +R+
Sbjct: 158 RVDDK---VNFHFILFNNVDGHLYELDGRMPFPVNHGASSEDTLLKDAAKVCREFTERE 213
Score = 47.8 bits (112), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 19/31 (61%), Positives = 26/31 (83%)
Query: 365 GQTISSELFFMKQFVHNACGTIALIHSVANN 395
GQ +S +++FMKQ + N+CGTI LIH+VANN
Sbjct: 77 GQEVSPKVYFMKQTIGNSCGTIGLIHAVANN 107
>pdb|2ETL|A Chain A, Crystal Structure Of Ubiquitin Carboxy-terminal Hydrolase
L1 (uch-l1)
pdb|2ETL|B Chain B, Crystal Structure Of Ubiquitin Carboxy-terminal Hydrolase
L1 (uch-l1)
pdb|3KW5|A Chain A, Crystal Structure Of Ubiquitin Carboxy Terminal Hydrolase
L1 Ubiquitin Vinylmethylester
pdb|4DM9|A Chain A, The Crystal Structure Of Ubiquitin Carboxy-Terminal
Hydrolase L1 (Uchl1) Bound To A Tripeptide Fluoromethyl
Ketone Z-Vae(Ome)-Fmk
pdb|4DM9|B Chain B, The Crystal Structure Of Ubiquitin Carboxy-Terminal
Hydrolase L1 (Uchl1) Bound To A Tripeptide Fluoromethyl
Ketone Z-Vae(Ome)-Fmk
Length = 228
Score = 154 bits (388), Expect = 1e-37, Method: Compositional matrix adjust.
Identities = 88/239 (36%), Positives = 124/239 (51%), Gaps = 48/239 (20%)
Query: 86 LVALGVPSKWQIVDVYGTDPDMLAIVPQPVLALIMLFPCTXXXXXXXXXXXXXXXXXGQT 145
L LGV +W+ VDV G + + L VP P AL++LFP T
Sbjct: 22 LSRLGVAGQWRFVDVLGLEEESLGSVPAPACALLLLFPLTA------------------- 62
Query: 146 ISSELFFMKQFVHNACGTIALIHSYXXXXXXXXXXXXXXGQTISSELFFMKQFVHNACGT 205
E F KQ GQ +S +++FMKQ + N+CGT
Sbjct: 63 -QHENFRKKQI------------------------EELKGQEVSPKVYFMKQTIGNSCGT 97
Query: 206 IALIHSVANNLNNVKLEDGK-LKSFLDEAKDLSPERRGKLLDENQSISDVHKVIAQEGQT 264
I LIH+VANN + + EDG LK FL E + +SPE R K ++N++I H +AQEGQ
Sbjct: 98 IGLIHAVANNQDKLGFEDGSVLKQFLSETEKMSPEDRAKCFEKNEAIQAAHDAVAQEGQC 157
Query: 265 APPEDREPVPYHFVALVHKEGALYELDGRKGFPINHGATSPETLLADATQVAKKYMQRD 323
+ V +HF+ + +G LYELDGR FP+NHGA+S +TLL DA +V +++ +R+
Sbjct: 158 RVDDK---VNFHFILFNNVDGHLYELDGRMPFPVNHGASSEDTLLKDAAKVCREFTERE 213
Score = 47.8 bits (112), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 19/31 (61%), Positives = 26/31 (83%)
Query: 365 GQTISSELFFMKQFVHNACGTIALIHSVANN 395
GQ +S +++FMKQ + N+CGTI LIH+VANN
Sbjct: 77 GQEVSPKVYFMKQTIGNSCGTIGLIHAVANN 107
>pdb|3IRT|A Chain A, Crystal Structure Of The I93m Mutant Of Ubiquitin
Carboxy-Te Hydrolase L1
pdb|3IRT|B Chain B, Crystal Structure Of The I93m Mutant Of Ubiquitin
Carboxy-Te Hydrolase L1
pdb|3KVF|A Chain A, Crystal Structure Of The I93m Mutant Of Ubiquitin Carboxy
Te Hydrolase L1 Bound To Ubiquitin Vinylmethylester
Length = 228
Score = 152 bits (385), Expect = 3e-37, Method: Compositional matrix adjust.
Identities = 87/239 (36%), Positives = 124/239 (51%), Gaps = 48/239 (20%)
Query: 86 LVALGVPSKWQIVDVYGTDPDMLAIVPQPVLALIMLFPCTXXXXXXXXXXXXXXXXXGQT 145
L LGV +W+ VDV G + + L VP P AL++LFP T
Sbjct: 22 LSRLGVAGQWRFVDVLGLEEESLGSVPAPACALLLLFPLTA------------------- 62
Query: 146 ISSELFFMKQFVHNACGTIALIHSYXXXXXXXXXXXXXXGQTISSELFFMKQFVHNACGT 205
E F KQ GQ +S +++FMKQ + N+CGT
Sbjct: 63 -QHENFRKKQI------------------------EELKGQEVSPKVYFMKQTIGNSCGT 97
Query: 206 IALIHSVANNLNNVKLEDGK-LKSFLDEAKDLSPERRGKLLDENQSISDVHKVIAQEGQT 264
+ LIH+VANN + + EDG LK FL E + +SPE R K ++N++I H +AQEGQ
Sbjct: 98 MGLIHAVANNQDKLGFEDGSVLKQFLSETEKMSPEDRAKCFEKNEAIQAAHDAVAQEGQC 157
Query: 265 APPEDREPVPYHFVALVHKEGALYELDGRKGFPINHGATSPETLLADATQVAKKYMQRD 323
+ V +HF+ + +G LYELDGR FP+NHGA+S +TLL DA +V +++ +R+
Sbjct: 158 RVDDK---VNFHFILFNNVDGHLYELDGRMPFPVNHGASSEDTLLKDAAKVCREFTERE 213
Score = 46.6 bits (109), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 18/31 (58%), Positives = 26/31 (83%)
Query: 365 GQTISSELFFMKQFVHNACGTIALIHSVANN 395
GQ +S +++FMKQ + N+CGT+ LIH+VANN
Sbjct: 77 GQEVSPKVYFMKQTIGNSCGTMGLIHAVANN 107
>pdb|2WDT|A Chain A, Crystal Structure Of Plasmodium Falciparum Uchl3 In
Complex With The Suicide Inhibitor Ubvme
pdb|2WDT|C Chain C, Crystal Structure Of Plasmodium Falciparum Uchl3 In
Complex With The Suicide Inhibitor Ubvme
pdb|2WE6|A Chain A, Crystal Structure Of Plasmodium Falciparum Ubiquitin
Carboxyl-Terminal Hydrolase 3 (Uchl3)
pdb|2WE6|B Chain B, Crystal Structure Of Plasmodium Falciparum Ubiquitin
Carboxyl-Terminal Hydrolase 3 (Uchl3)
Length = 232
Score = 104 bits (259), Expect = 1e-22, Method: Compositional matrix adjust.
Identities = 74/253 (29%), Positives = 116/253 (45%), Gaps = 49/253 (19%)
Query: 78 STPGSLAFLVALGVPSKWQIVDVYGTDPDMLAIVPQPVLALIMLFPCTXXXXXXXXXXXX 137
S P SL SK + VD+YG + D+L ++PQPV A+I L+P
Sbjct: 12 SNPDSLYLYSCKLGQSKLKFVDIYGFNNDLLDMIPQPVQAVIFLYPVN------------ 59
Query: 138 XXXXXGQTISSELFFMKQFVHNACGTIALIHSYXXXXXXXXXXXXXXGQTISSELFFMKQ 197
I SE +N L ++ ++F+KQ
Sbjct: 60 ------DNIVSE--------NNTNDKHNLKENF-------------------DNVWFIKQ 86
Query: 198 FVHNACGTIALIHSVANNLNNVKLE-DGKLKSFLDEAKDLSPERRGKLLDENQSISDVHK 256
++ N+CGTIAL+H N N +L+ D L F ++ ++S E+RG+ L N+SI ++H
Sbjct: 87 YIPNSCGTIALLHLYGNLRNKFELDKDSVLDDFFNKVNEMSAEKRGQELKNNKSIENLHH 146
Query: 257 VIAQEGQTAPPEDREPVPYHFVALVHKEGALYELDGRKGFPINHGATSPETLLADATQVA 316
GQ +D V HF+ V EG + ELDGRK P H T+ + L D ++
Sbjct: 147 EFC--GQVENRDDILDVDTHFIVFVQIEGKIIELDGRKDHPTVHCFTNGDNFLYDTGKII 204
Query: 317 K-KYMQRDPDNGR 328
+ K++++ D+ R
Sbjct: 205 QDKFIEKCKDDLR 217
Score = 33.5 bits (75), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 12/23 (52%), Positives = 19/23 (82%)
Query: 372 LFFMKQFVHNACGTIALIHSVAN 394
++F+KQ++ N+CGTIAL+H N
Sbjct: 81 VWFIKQYIPNSCGTIALLHLYGN 103
>pdb|1CMX|A Chain A, Structural Basis For The Specificity Of Ubiquitin C-
Terminal Hydrolases
pdb|1CMX|C Chain C, Structural Basis For The Specificity Of Ubiquitin C-
Terminal Hydrolases
Length = 235
Score = 60.5 bits (145), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 58/228 (25%), Positives = 89/228 (39%), Gaps = 59/228 (25%)
Query: 85 FLVALGVPSKWQIVDVYG-TDPDMLAIVPQPVLALIMLFPCTXXXXXXXXXXXXXXXXXG 143
F LG+ ++W D+Y T+P++LA +P+PV A+++LFP
Sbjct: 21 FAHKLGLKNEWAYFDIYSLTEPELLAFLPRPVKAIVLLFPINEDRKSSTSQQ-------- 72
Query: 144 QTISSELFFMKQFVHNACGTIALIHSYXXXXXXXXXXXXXXGQTISSELFFMKQFVHNAC 203
T S ++ + KQ V NACG A++HS
Sbjct: 73 ITSSYDVIWFKQSVKNACGLYAILHSLSN------------------------------- 101
Query: 204 GTIALIHSVANNLNNVKLEDGK-LKSFLDEAKDLSPER-RGKLLDENQSISDVHKVIAQ- 260
N LE G L +FL D S + R + +Q + +V K Q
Sbjct: 102 -------------NQSLLEPGSDLDNFLKSQSDTSSSKNRFDDVTTDQFVLNVIKENVQT 148
Query: 261 --EGQTAPPEDREPVPYHFVALVHKEGALYELDGRK-GFPINHGATSP 305
GQ+ PE H++ V + G ++ELDGR P+ G + P
Sbjct: 149 FSTGQSEAPEATADTNLHYITYVEENGGIFELDGRNLSGPLYLGKSDP 196
Score = 32.7 bits (73), Expect = 0.33, Method: Compositional matrix adjust.
Identities = 12/25 (48%), Positives = 19/25 (76%)
Query: 371 ELFFMKQFVHNACGTIALIHSVANN 395
++ + KQ V NACG A++HS++NN
Sbjct: 78 DVIWFKQSVKNACGLYAILHSLSNN 102
>pdb|3RIS|A Chain A, Crystal Structure Of The Catalytic Domain Of Uchl5, A
Proteasome- Associated Human Deubiquitinating Enzyme,
Reveals An Unproductive Form Of The Enzyme
pdb|3RIS|B Chain B, Crystal Structure Of The Catalytic Domain Of Uchl5, A
Proteasome- Associated Human Deubiquitinating Enzyme,
Reveals An Unproductive Form Of The Enzyme
pdb|3RIS|C Chain C, Crystal Structure Of The Catalytic Domain Of Uchl5, A
Proteasome- Associated Human Deubiquitinating Enzyme,
Reveals An Unproductive Form Of The Enzyme
pdb|3RIS|D Chain D, Crystal Structure Of The Catalytic Domain Of Uchl5, A
Proteasome- Associated Human Deubiquitinating Enzyme,
Reveals An Unproductive Form Of The Enzyme
Length = 245
Score = 57.4 bits (137), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 40/135 (29%), Positives = 67/135 (49%), Gaps = 5/135 (3%)
Query: 192 LFFMKQFVHNACGTIALIHSVANNLNNVKLEDGK-LKSFLDEAKDLSPERRGKLLDENQS 250
+FF KQ ++NAC T A++ SV N + + G+ L F + ++ +G L +
Sbjct: 82 IFFAKQVINNACATQAIV-SVLLNCTHQDVHLGETLSEFKEFSQSFDAAMKGLALSNSDV 140
Query: 251 ISDVHKVIAQEGQ---TAPPEDREPVPYHFVALVHKEGALYELDGRKGFPINHGATSPET 307
I VH A++ +E +HFV+ V G LYELDG + PI+ GA + +
Sbjct: 141 IRQVHNSFARQQMFEFDTKTSAKEEDAFHFVSYVPVNGRLYELDGLREGPIDLGACNQDD 200
Query: 308 LLADATQVAKKYMQR 322
++ V +K +Q+
Sbjct: 201 WISAVRPVIEKRIQK 215
>pdb|3IHR|A Chain A, Crystal Structure Of Uch37
Length = 328
Score = 55.8 bits (133), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 40/135 (29%), Positives = 67/135 (49%), Gaps = 5/135 (3%)
Query: 192 LFFMKQFVHNACGTIALIHSVANNLNNVKLEDGK-LKSFLDEAKDLSPERRGKLLDENQS 250
+FF KQ ++NAC T A++ SV N + + G+ L F + ++ +G L +
Sbjct: 77 IFFAKQVINNACATQAIV-SVLLNCTHQDVHLGETLSEFKEFSQSFDAAXKGLALSNSDV 135
Query: 251 ISDVHKVIAQEGQ---TAPPEDREPVPYHFVALVHKEGALYELDGRKGFPINHGATSPET 307
I VH A++ +E +HFV+ V G LYELDG + PI+ GA + +
Sbjct: 136 IRQVHNSFARQQXFEFDTKTSAKEEDAFHFVSYVPVNGRLYELDGLREGPIDLGACNQDD 195
Query: 308 LLADATQVAKKYMQR 322
++ V +K +Q+
Sbjct: 196 WISAVRPVIEKRIQK 210
>pdb|3A7S|A Chain A, Catalytic Domain Of Uch37
Length = 228
Score = 53.9 bits (128), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 39/135 (28%), Positives = 66/135 (48%), Gaps = 5/135 (3%)
Query: 192 LFFMKQFVHNACGTIALIHSVANNLNNVKLEDGK-LKSFLDEAKDLSPERRGKLLDENQS 250
+FF KQ ++NA T A++ SV N + + G+ L F + ++ +G L +
Sbjct: 77 IFFAKQVINNAAATQAIV-SVLLNCTHQDVHLGETLSEFKEFSQSFDAAMKGLALSNSDV 135
Query: 251 ISDVHKVIAQEGQ---TAPPEDREPVPYHFVALVHKEGALYELDGRKGFPINHGATSPET 307
I VH A++ +E +HFV+ V G LYELDG + PI+ GA + +
Sbjct: 136 IRQVHNSFARQQMFEFDTKTSAKEEDAFHFVSYVPVNGRLYELDGLREGPIDLGACNQDD 195
Query: 308 LLADATQVAKKYMQR 322
++ V +K +Q+
Sbjct: 196 WISAVRPVIEKRIQK 210
>pdb|3TB3|A Chain A, Crystal Structure Of The Uch Domain Of Uch-L5 With 6
Residues Deleted
pdb|3TB3|B Chain B, Crystal Structure Of The Uch Domain Of Uch-L5 With 6
Residues Deleted
Length = 229
Score = 53.5 bits (127), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 39/135 (28%), Positives = 66/135 (48%), Gaps = 5/135 (3%)
Query: 192 LFFMKQFVHNACGTIALIHSVANNLNNVKLEDGK-LKSFLDEAKDLSPERRGKLLDENQS 250
+FF KQ ++NA T A++ SV N + + G+ L F + ++ +G L +
Sbjct: 79 IFFAKQVINNAAATQAIV-SVLLNCTHQDVHLGETLSEFKEFSQSFDAAMKGLALSNSDV 137
Query: 251 ISDVHKVIAQEGQ---TAPPEDREPVPYHFVALVHKEGALYELDGRKGFPINHGATSPET 307
I VH A++ +E +HFV+ V G LYELDG + PI+ GA + +
Sbjct: 138 IRQVHNSFARQQMFEFDTKTSAKEEDAFHFVSYVPVNGRLYELDGLREGPIDLGACNQDD 197
Query: 308 LLADATQVAKKYMQR 322
++ V +K +Q+
Sbjct: 198 WISAVRPVIEKRIQK 212
>pdb|3RII|A Chain A, Crystal Structure Of The Catalytic Domain Of Uchl5, A
Proteasome- Associated Human Deubiquitinating Enzyme,
Reveals An Unproductive Form Of The Enzyme
pdb|3RII|B Chain B, Crystal Structure Of The Catalytic Domain Of Uchl5, A
Proteasome- Associated Human Deubiquitinating Enzyme,
Reveals An Unproductive Form Of The Enzyme
Length = 233
Score = 53.1 bits (126), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 39/135 (28%), Positives = 66/135 (48%), Gaps = 5/135 (3%)
Query: 192 LFFMKQFVHNACGTIALIHSVANNLNNVKLEDGK-LKSFLDEAKDLSPERRGKLLDENQS 250
+FF KQ ++NA T A++ SV N + + G+ L F + ++ +G L +
Sbjct: 82 IFFAKQVINNASATQAIV-SVLLNCTHQDVHLGETLSEFKEFSQSFDAAXKGLALSNSDV 140
Query: 251 ISDVHKVIAQEGQ---TAPPEDREPVPYHFVALVHKEGALYELDGRKGFPINHGATSPET 307
I VH A++ +E +HFV+ V G LYELDG + PI+ GA + +
Sbjct: 141 IRQVHNSFARQQXFEFDTKTSAKEEDAFHFVSYVPVNGRLYELDGLREGPIDLGACNQDD 200
Query: 308 LLADATQVAKKYMQR 322
++ V +K +Q+
Sbjct: 201 WISAVRPVIEKRIQK 215
>pdb|3ITG|A Chain A, Structure The Proline Utilization A Proline Dehydrogenase
Domain (Puta86-630) Inactivated With N-Propargylglycine
pdb|3ITG|B Chain B, Structure The Proline Utilization A Proline Dehydrogenase
Domain (Puta86-630) Inactivated With N-Propargylglycine
Length = 602
Score = 28.1 bits (61), Expect = 9.7, Method: Compositional matrix adjust.
Identities = 20/56 (35%), Positives = 28/56 (50%), Gaps = 7/56 (12%)
Query: 221 LEDGKLKSFLDEAKDLSPERRGKLLDE--NQSISDVHKVIAQEGQTAPPEDREPVP 274
LE+G SF++ D S LDE ++ V K+ QEGQT P + P+P
Sbjct: 473 LENGANTSFVNRIADTSLP-----LDELVADPVTAVEKLAQQEGQTGLPHPKIPLP 523
>pdb|1TJ2|A Chain A, Crystal Structure Of E. Coli Puta Proline Dehydrogenase
Domain (Residues 86-669) Complexed With Acetate
Length = 584
Score = 28.1 bits (61), Expect = 9.9, Method: Compositional matrix adjust.
Identities = 20/56 (35%), Positives = 28/56 (50%), Gaps = 7/56 (12%)
Query: 221 LEDGKLKSFLDEAKDLSPERRGKLLDE--NQSISDVHKVIAQEGQTAPPEDREPVP 274
LE+G SF++ D S LDE ++ V K+ QEGQT P + P+P
Sbjct: 473 LENGANTSFVNRIADTSLP-----LDELVADPVTAVEKLAQQEGQTGLPHPKIPLP 523
>pdb|3E2Q|A Chain A, Crystal Structure Reduced Puta86-630 Mutant Y540s
Complexed With Trans-4-Hydroxy-L-Proline
pdb|3E2R|A Chain A, Crystal Structure Puta86-630 Mutant Y540s Complexed With
L-Tetrahydro- 2-Furoic Acid
pdb|3E2S|A Chain A, Crystal Structure Reduced Puta86-630 Mutant Y540s
Complexed With L- Proline
Length = 551
Score = 28.1 bits (61), Expect = 9.9, Method: Compositional matrix adjust.
Identities = 20/56 (35%), Positives = 28/56 (50%), Gaps = 7/56 (12%)
Query: 221 LEDGKLKSFLDEAKDLSPERRGKLLDE--NQSISDVHKVIAQEGQTAPPEDREPVP 274
LE+G SF++ D S LDE ++ V K+ QEGQT P + P+P
Sbjct: 473 LENGANTSFVNRIADTSLP-----LDELVADPVTAVEKLAQQEGQTGLPHPKIPLP 523
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 0.137 0.412
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,576,433
Number of Sequences: 62578
Number of extensions: 403747
Number of successful extensions: 919
Number of sequences better than 100.0: 27
Number of HSP's better than 100.0 without gapping: 14
Number of HSP's successfully gapped in prelim test: 13
Number of HSP's that attempted gapping in prelim test: 852
Number of HSP's gapped (non-prelim): 56
length of query: 397
length of database: 14,973,337
effective HSP length: 101
effective length of query: 296
effective length of database: 8,652,959
effective search space: 2561275864
effective search space used: 2561275864
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: 52 (24.6 bits)