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= psy6731
(258 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 223 bits (569), Expect = 6e-59, Method: Compositional matrix adjust.
Identities = 103/143 (72%), Positives = 120/143 (83%)
Query: 2 SDAGNWCLIESDPGVFTELIRGFGVQGVQVEELWSLEPENLKILQPVHGLIFLFKLREDT 61
+AG WCL+ESDPGVFTELI+GFG +G QVEE+WSLEPEN + L+PVHGLIFLFK +
Sbjct: 8 GNAGEWCLMESDPGVFTELIKGFGCRGAQVEEIWSLEPENFEKLKPVHGLIFLFKWQPGE 67
Query: 62 EPAGSIVQDSRLETIFFAKQVVNNACATQAILSILLNNSDPEVKLGSVLTEFKDFCQSFD 121
EPAGS+VQDSRL+TIFFAKQV+NNACATQAI+S+LLN + +V LG L+EFK+F QSFD
Sbjct: 68 EPAGSVVQDSRLDTIFFAKQVINNACATQAIVSVLLNCTHQDVHLGETLSEFKEFSQSFD 127
Query: 122 PTMKGYALSNSQPIRTVHNSFAR 144
MKG ALSNS IR VHNSFAR
Sbjct: 128 AAMKGLALSNSDVIRQVHNSFAR 150
Score = 40.0 bits (92), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 18/42 (42%), Positives = 29/42 (69%), Gaps = 2/42 (4%)
Query: 129 LSNSQPIRTVHNSFARYSSEEIRFNLLAVVCDKKMKYEKELA 170
+S +P+ + +YS EIRFNL+A+V D+KM YE+++A
Sbjct: 202 ISAVRPV--IEKRIQKYSEGEIRFNLMAIVSDRKMIYEQKIA 241
>pdb|3IHR|A Chain A, Crystal Structure Of Uch37
Length = 328
Score = 222 bits (566), Expect = 1e-58, Method: Compositional matrix adjust.
Identities = 102/143 (71%), Positives = 118/143 (82%)
Query: 2 SDAGNWCLIESDPGVFTELIRGFGVQGVQVEELWSLEPENLKILQPVHGLIFLFKLREDT 61
+AG WCL ESDPGVFTELI+GFG +G QVEE+WSLEPEN + L+PVHGLIFLFK +
Sbjct: 3 GNAGEWCLXESDPGVFTELIKGFGCRGAQVEEIWSLEPENFEKLKPVHGLIFLFKWQPGE 62
Query: 62 EPAGSIVQDSRLETIFFAKQVVNNACATQAILSILLNNSDPEVKLGSVLTEFKDFCQSFD 121
EPAGS+VQDSRL+TIFFAKQV+NNACATQAI+S+LLN + +V LG L+EFK+F QSFD
Sbjct: 63 EPAGSVVQDSRLDTIFFAKQVINNACATQAIVSVLLNCTHQDVHLGETLSEFKEFSQSFD 122
Query: 122 PTMKGYALSNSQPIRTVHNSFAR 144
KG ALSNS IR VHNSFAR
Sbjct: 123 AAXKGLALSNSDVIRQVHNSFAR 145
Score = 98.6 bits (244), Expect = 3e-21, Method: Compositional matrix adjust.
Identities = 57/129 (44%), Positives = 81/129 (62%), Gaps = 6/129 (4%)
Query: 129 LSNSQPIRTVHNSFARYSSEEIRFNLLAVVCDKKMKYEKELAAATQALKDPSLDA----A 184
+S +P+ + +YS EIRFNL A+V D+K YE+++A + L + D +
Sbjct: 197 ISAVRPV--IEKRIQKYSEGEIRFNLXAIVSDRKXIYEQKIAELQRQLAEEPXDTDQGNS 254
Query: 185 TKTAKQNEVVQLKILIEEEAAKLESYRIENIRRKHNYLPLIMNLLKLLAKQGQLVNLYQK 244
+A Q+EV + + LIEEE KL+ Y+IENIRRKHNYLP I LLK LA+ QL+ L +K
Sbjct: 255 XLSAIQSEVAKNQXLIEEEVQKLKRYKIENIRRKHNYLPFIXELLKTLAEHQQLIPLVEK 314
Query: 245 AVELNSSKK 253
A E ++KK
Sbjct: 315 AKEKQNAKK 323
>pdb|3A7S|A Chain A, Catalytic Domain Of Uch37
Length = 228
Score = 220 bits (560), Expect = 7e-58, Method: Compositional matrix adjust.
Identities = 102/143 (71%), Positives = 119/143 (83%)
Query: 2 SDAGNWCLIESDPGVFTELIRGFGVQGVQVEELWSLEPENLKILQPVHGLIFLFKLREDT 61
+AG WCL+ESDPGVFTELI+GFG +G QVEE+WSLEPEN + L+PVHGLIFLFK +
Sbjct: 3 GNAGEWCLMESDPGVFTELIKGFGCRGAQVEEIWSLEPENFEKLKPVHGLIFLFKWQPGE 62
Query: 62 EPAGSIVQDSRLETIFFAKQVVNNACATQAILSILLNNSDPEVKLGSVLTEFKDFCQSFD 121
EPAGS+VQDSRL+TIFFAKQV+NNA ATQAI+S+LLN + +V LG L+EFK+F QSFD
Sbjct: 63 EPAGSVVQDSRLDTIFFAKQVINNAAATQAIVSVLLNCTHQDVHLGETLSEFKEFSQSFD 122
Query: 122 PTMKGYALSNSQPIRTVHNSFAR 144
MKG ALSNS IR VHNSFAR
Sbjct: 123 AAMKGLALSNSDVIRQVHNSFAR 145
Score = 31.2 bits (69), Expect = 0.55, Method: Compositional matrix adjust.
Identities = 12/19 (63%), Positives = 16/19 (84%)
Query: 144 RYSSEEIRFNLLAVVCDKK 162
+YS EIRFNL+A+V D+K
Sbjct: 210 KYSEGEIRFNLMAIVSDRK 228
>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 = 219 bits (559), Expect = 9e-58, Method: Compositional matrix adjust.
Identities = 102/143 (71%), Positives = 119/143 (83%)
Query: 2 SDAGNWCLIESDPGVFTELIRGFGVQGVQVEELWSLEPENLKILQPVHGLIFLFKLREDT 61
+AG WCL+ESDPGVFTELI+GFG +G QVEE+WSLEPEN + L+PVHGLIFLFK +
Sbjct: 5 GNAGEWCLMESDPGVFTELIKGFGCRGAQVEEIWSLEPENFEKLKPVHGLIFLFKWQPGE 64
Query: 62 EPAGSIVQDSRLETIFFAKQVVNNACATQAILSILLNNSDPEVKLGSVLTEFKDFCQSFD 121
EPAGS+VQDSRL+TIFFAKQV+NNA ATQAI+S+LLN + +V LG L+EFK+F QSFD
Sbjct: 65 EPAGSVVQDSRLDTIFFAKQVINNAAATQAIVSVLLNCTHQDVHLGETLSEFKEFSQSFD 124
Query: 122 PTMKGYALSNSQPIRTVHNSFAR 144
MKG ALSNS IR VHNSFAR
Sbjct: 125 AAMKGLALSNSDVIRQVHNSFAR 147
Score = 29.6 bits (65), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 11/18 (61%), Positives = 15/18 (83%)
Query: 144 RYSSEEIRFNLLAVVCDK 161
+YS EIRFNL+A+V D+
Sbjct: 212 KYSEGEIRFNLMAIVSDR 229
>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 = 215 bits (547), Expect = 2e-56, Method: Compositional matrix adjust.
Identities = 101/143 (70%), Positives = 117/143 (81%)
Query: 2 SDAGNWCLIESDPGVFTELIRGFGVQGVQVEELWSLEPENLKILQPVHGLIFLFKLREDT 61
+AG WCL ESDPGVFTELI+GFG +G QVEE+WSLEPEN + L+PVHGLIFLFK +
Sbjct: 8 GNAGEWCLXESDPGVFTELIKGFGCRGAQVEEIWSLEPENFEKLKPVHGLIFLFKWQPGE 67
Query: 62 EPAGSIVQDSRLETIFFAKQVVNNACATQAILSILLNNSDPEVKLGSVLTEFKDFCQSFD 121
EPAGS+VQDSRL+TIFFAKQV+NNA ATQAI+S+LLN + +V LG L+EFK+F QSFD
Sbjct: 68 EPAGSVVQDSRLDTIFFAKQVINNASATQAIVSVLLNCTHQDVHLGETLSEFKEFSQSFD 127
Query: 122 PTMKGYALSNSQPIRTVHNSFAR 144
KG ALSNS IR VHNSFAR
Sbjct: 128 AAXKGLALSNSDVIRQVHNSFAR 150
Score = 30.0 bits (66), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 12/19 (63%), Positives = 15/19 (78%)
Query: 144 RYSSEEIRFNLLAVVCDKK 162
+YS EIRFNL A+V D+K
Sbjct: 215 KYSEGEIRFNLXAIVSDRK 233
>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 = 57.8 bits (138), Expect = 6e-09, Method: Compositional matrix adjust.
Identities = 41/154 (26%), Positives = 73/154 (47%), Gaps = 12/154 (7%)
Query: 7 WCLIESDPGVFTELIRGFGVQ-GVQVEELWSLEPENLKIL-QPVHGLIFLFKLRE----- 59
W +E++P V + ++ G+ Q +++ ++PE L ++ +PV ++ LF + E
Sbjct: 6 WLPLEANPEVTNQFLKQLGLHPNWQFVDVYGMDPELLSMVPRPVCAVLLLFPITEKYEVF 65
Query: 60 ---DTEPAGSIVQDSRLETIFFAKQVVNNACATQAILSILLNNSDP-EVKLGSVLTEFKD 115
+ E S QD +++F KQ ++NAC T ++ + NN D + GS L +F +
Sbjct: 66 RTEEEEKIKSQGQDVT-SSVYFMKQTISNACGTIGLIHAIANNKDKMHFESGSTLKKFLE 124
Query: 116 FCQSFDPTMKGYALSNSQPIRTVHNSFARYSSEE 149
S P + L N IR H + A E
Sbjct: 125 ESVSMSPEERARYLENYDAIRVTHETSAHEGQTE 158
>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 = 48.5 bits (114), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 37/93 (39%), Positives = 51/93 (54%), Gaps = 4/93 (4%)
Query: 10 IESDPGVFTELIRGFGVQGVQVE-ELWSL-EPENLKIL-QPVHGLIFLFKLREDTEPAGS 66
IES+P VFT G++ +++SL EPE L L +PV ++ LF + ED + + S
Sbjct: 11 IESNPEVFTNFAHKLGLKNEWAYFDIYSLTEPELLAFLPRPVKAIVLLFPINEDRKSSTS 70
Query: 67 IVQDSRLETIFFAKQVVNNACATQAILSILLNN 99
S + I+F KQ V NAC AIL L NN
Sbjct: 71 QQITSSYDVIWF-KQSVKNACGLYAILHSLSNN 102
>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 = 42.0 bits (97), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 34/147 (23%), Positives = 66/147 (44%), Gaps = 16/147 (10%)
Query: 10 IESDPGVFTELIRGFGVQGV-QVEELWSLEPENL-KILQPVHGLIFLFKLREDTEPAGSI 67
+E +P + +++ GV G + ++ LE E+L + P L+ LF L E
Sbjct: 11 MEINPEMLNKVLSRLGVAGQWRFVDVLGLEEESLGSVPAPACALLLLFPLTAQHEN---- 66
Query: 68 VQDSRLE---------TIFFAKQVVNNACATQAILSILLNNSDP-EVKLGSVLTEFKDFC 117
+ ++E ++F KQ + N+C T ++ + NN D + GSVL +F
Sbjct: 67 FRKKQIEELKGQEVSPKVYFMKQTIGNSCGTMGLIHAVANNQDKLGFEDGSVLKQFLSET 126
Query: 118 QSFDPTMKGYALSNSQPIRTVHNSFAR 144
+ P + ++ I+ H++ A+
Sbjct: 127 EKMSPEDRAKCFEKNEAIQAAHDAVAQ 153
>pdb|2LEN|A Chain A, Solution Structure Of Uchl1 S18y Variant
Length = 231
Score = 40.8 bits (94), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 35/147 (23%), Positives = 66/147 (44%), Gaps = 16/147 (10%)
Query: 10 IESDPGVFTELIRGFGVQGV-QVEELWSLEPENL-KILQPVHGLIFLFKL---------R 58
+E +P + +++ GV G + ++ LE E+L + P L+ LF L +
Sbjct: 6 MEINPEMLNKVLYRLGVAGQWRFVDVLGLEEESLGSVPAPACALLLLFPLTAQHENFRKK 65
Query: 59 EDTEPAGSIVQDSRLETIFFAKQVVNNACATQAILSILLNNSDP-EVKLGSVLTEFKDFC 117
+ E G V ++F KQ + N+C T ++ + NN D + GSVL +F
Sbjct: 66 QIEELKGQEVSPK----VYFMKQTIGNSCGTIGLIHAVANNQDKLGFEDGSVLKQFLSET 121
Query: 118 QSFDPTMKGYALSNSQPIRTVHNSFAR 144
+ P + ++ I+ H++ A+
Sbjct: 122 EKMSPEDRAKCFEKNEAIQAAHDAVAQ 148
>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 = 40.8 bits (94), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 34/147 (23%), Positives = 66/147 (44%), Gaps = 16/147 (10%)
Query: 10 IESDPGVFTELIRGFGVQGV-QVEELWSLEPENL-KILQPVHGLIFLFKLREDTEPAGSI 67
+E +P + +++ GV G + ++ LE E+L + P L+ LF L E
Sbjct: 11 MEINPEMLNKVLSRLGVAGQWRFVDVLGLEEESLGSVPAPACALLLLFPLTAQHEN---- 66
Query: 68 VQDSRLE---------TIFFAKQVVNNACATQAILSILLNNSDP-EVKLGSVLTEFKDFC 117
+ ++E ++F KQ + N+C T ++ + NN D + GSVL +F
Sbjct: 67 FRKKQIEELKGQEVSPKVYFMKQTIGNSCGTIGLIHAVANNQDKLGFEDGSVLKQFLSET 126
Query: 118 QSFDPTMKGYALSNSQPIRTVHNSFAR 144
+ P + ++ I+ H++ A+
Sbjct: 127 EKMSPEDRAKCFEKNEAIQAAHDAVAQ 153
>pdb|3IFW|A Chain A, Crystal Structure Of The S18y Variant Of Ubiquitin Carboxy
T Hydrolase L1 Bound To Ubiquitin Vinylmethylester
Length = 228
Score = 40.4 bits (93), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 34/147 (23%), Positives = 66/147 (44%), Gaps = 16/147 (10%)
Query: 10 IESDPGVFTELIRGFGVQGV-QVEELWSLEPENL-KILQPVHGLIFLFKLREDTEPAGSI 67
+E +P + +++ GV G + ++ LE E+L + P L+ LF L E
Sbjct: 11 MEINPEMLNKVLYRLGVAGQWRFVDVLGLEEESLGSVPAPACALLLLFPLTAQHEN---- 66
Query: 68 VQDSRLE---------TIFFAKQVVNNACATQAILSILLNNSDP-EVKLGSVLTEFKDFC 117
+ ++E ++F KQ + N+C T ++ + NN D + GSVL +F
Sbjct: 67 FRKKQIEELKGQEVSPKVYFMKQTIGNSCGTIGLIHAVANNQDKLGFEDGSVLKQFLSET 126
Query: 118 QSFDPTMKGYALSNSQPIRTVHNSFAR 144
+ P + ++ I+ H++ A+
Sbjct: 127 EKMSPEDRAKCFEKNEAIQAAHDAVAQ 153
>pdb|3K6C|A Chain A, Crystal Structure Of Protein Ne0167 From Nitrosomonas
Europaea
pdb|3K6C|B Chain B, Crystal Structure Of Protein Ne0167 From Nitrosomonas
Europaea
pdb|3K6C|C Chain C, Crystal Structure Of Protein Ne0167 From Nitrosomonas
Europaea
pdb|3K6C|D Chain D, Crystal Structure Of Protein Ne0167 From Nitrosomonas
Europaea
pdb|3K6C|E Chain E, Crystal Structure Of Protein Ne0167 From Nitrosomonas
Europaea
pdb|3K6C|F Chain F, Crystal Structure Of Protein Ne0167 From Nitrosomonas
Europaea
pdb|3K6C|G Chain G, Crystal Structure Of Protein Ne0167 From Nitrosomonas
Europaea
pdb|3K6C|H Chain H, Crystal Structure Of Protein Ne0167 From Nitrosomonas
Europaea
pdb|3K6C|I Chain I, Crystal Structure Of Protein Ne0167 From Nitrosomonas
Europaea
pdb|3K6C|J Chain J, Crystal Structure Of Protein Ne0167 From Nitrosomonas
Europaea
Length = 95
Score = 33.9 bits (76), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 22/64 (34%), Positives = 34/64 (53%), Gaps = 3/64 (4%)
Query: 73 LETIFFAKQVVNNACATQAILSILLNNSDPEVKLGSVLTEFKDFCQ-SFDPTMKGYALSN 131
LE + Q VN AC + + +IL +N D E + + L E+ C +FD +K Y +N
Sbjct: 31 LEAVDLYNQRVN-ACKDKELKAILAHNRDEEKEHAAXLLEWIRRCDPAFDKELKDYLFTN 89
Query: 132 SQPI 135
+PI
Sbjct: 90 -KPI 92
>pdb|2BO5|A Chain A, Bovine Oligomycin Sensitivity Conferral Protein N-Terminal
Domain
pdb|2JMX|A Chain A, Oscp-Nt (1-120) In Complex With N-Terminal (1-25) Alpha
Subunit From F1-Atpase
pdb|4B2Q|W Chain W, Model Of The Yeast F1fo-Atp Synthase Dimer Based On
Subtomogram Average
pdb|4B2Q|WW Chain w, Model Of The Yeast F1fo-Atp Synthase Dimer Based On
Subtomogram Average
Length = 120
Score = 31.2 bits (69), Expect = 0.62, Method: Compositional matrix adjust.
Identities = 24/75 (32%), Positives = 34/75 (45%), Gaps = 13/75 (17%)
Query: 166 EKELAAATQALKDPSLDAATKTAKQNEVVQLKILIEEEAAKLESYRIENIRRKHNYLPLI 225
EKEL Q LK+P + A+ V++K L + A K + PL
Sbjct: 36 EKELLRVGQILKEPKMAASLLNPYVKRSVKVKSLSDMTA-------------KEKFSPLT 82
Query: 226 MNLLKLLAKQGQLVN 240
NL+ LLA+ G+L N
Sbjct: 83 SNLINLLAENGRLTN 97
>pdb|2WSS|S Chain S, The Structure Of The Membrane Extrinsic Region Of Bovine
Atp Synthase
pdb|2WSS|W Chain W, The Structure Of The Membrane Extrinsic Region Of Bovine
Atp Synthase
Length = 190
Score = 30.0 bits (66), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 24/75 (32%), Positives = 33/75 (44%), Gaps = 13/75 (17%)
Query: 166 EKELAAATQALKDPSLDAATKTAKQNEVVQLKILIEEEAAKLESYRIENIRRKHNYLPLI 225
EKEL Q LK+P A+ V++K L + A K + PL
Sbjct: 36 EKELLRVGQILKEPKXAASLLNPYVKRSVKVKSLSDXTA-------------KEKFSPLT 82
Query: 226 MNLLKLLAKQGQLVN 240
NL+ LLA+ G+L N
Sbjct: 83 SNLINLLAENGRLTN 97
>pdb|1H54|A Chain A, Maltose Phosphorylase From Lactobacillus Brevis
pdb|1H54|B Chain B, Maltose Phosphorylase From Lactobacillus Brevis
Length = 754
Score = 29.6 bits (65), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 25/85 (29%), Positives = 32/85 (37%), Gaps = 16/85 (18%)
Query: 57 LREDTEPAGSIVQDSRLETIFFAKQVVNNACATQAILSILLNNSDPEVKLGSVLTEFKDF 116
L +D EP SI D R +N + IL P +K G VL DF
Sbjct: 559 LDKDIEPVSSIPADQR---------PINQNWSWDKILR------SPYIKQGDVLQGIWDF 603
Query: 117 CQSFDPTMKGYALSNSQPIRTVHNS 141
+ P K +P+ TVH S
Sbjct: 604 IDDYTPEQKKANFDFYEPL-TVHES 627
>pdb|3MXB|B Chain B, Molecular Basis Of Engineered Meganuclease Targeting Of
The Endogenous Human Rag1 Locus
pdb|3MXB|S Chain S, Molecular Basis Of Engineered Meganuclease Targeting Of
The Endogenous Human Rag1 Locus
Length = 173
Score = 28.9 bits (63), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 13/37 (35%), Positives = 20/37 (54%)
Query: 203 EAAKLESYRIENIRRKHNYLPLIMNLLKLLAKQGQLV 239
++ + YR+ I+ HN+L + LKL KQ LV
Sbjct: 70 DSGSVSDYRLSEIKPLHNFLTQLQPFLKLKQKQANLV 106
>pdb|2XE0|B Chain B, Molecular Basis Of Engineered Meganuclease Targeting Of
The Endogenous Human Rag1 Locus
Length = 152
Score = 28.9 bits (63), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 13/37 (35%), Positives = 20/37 (54%)
Query: 203 EAAKLESYRIENIRRKHNYLPLIMNLLKLLAKQGQLV 239
++ + YR+ I+ HN+L + LKL KQ LV
Sbjct: 68 DSGSVSDYRLSEIKPLHNFLTQLQPFLKLKQKQANLV 104
>pdb|3MX9|A Chain A, Molecular Basis Of Engineered Meganuclease Targeting Of
The Endogenous Human Rag1 Locus
pdb|3MXA|A Chain A, Molecular Basis Of Engineered Meganuclease Targeting Of
The Endogenous Human Rag1 Locus
Length = 362
Score = 28.9 bits (63), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 13/37 (35%), Positives = 20/37 (54%)
Query: 203 EAAKLESYRIENIRRKHNYLPLIMNLLKLLAKQGQLV 239
++ + YR+ I+ HN+L + LKL KQ LV
Sbjct: 260 DSGSVSDYRLSEIKPLHNFLTQLQPFLKLKQKQANLV 296
>pdb|4D9L|L Chain L, Fab Structure Of Anti-Hiv-1 Gp120 V2 Mab 697
pdb|4D9L|M Chain M, Fab Structure Of Anti-Hiv-1 Gp120 V2 Mab 697
pdb|4D9L|N Chain N, Fab Structure Of Anti-Hiv-1 Gp120 V2 Mab 697
pdb|4D9L|O Chain O, Fab Structure Of Anti-Hiv-1 Gp120 V2 Mab 697
Length = 215
Score = 28.9 bits (63), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 24/114 (21%), Positives = 44/114 (38%), Gaps = 10/114 (8%)
Query: 116 FCQSFDPTMKGYALSN-------SQPIRTVHNSFARYSSEEIRFNLLAVVCDKKMKYEKE 168
+CQS+D ++ GY QP + SSEE++ N +VC Y
Sbjct: 89 YCQSYDSSLSGYVFGTGTKVTVLGQPKANPTVTLFPPSSEELQANKATLVCLISDFYPGA 148
Query: 169 LAAATQALKDP---SLDAATKTAKQNEVVQLKILIEEEAAKLESYRIENIRRKH 219
+ A +A P ++ T + + N + + +S+R + + H
Sbjct: 149 VTVAWKADSSPVKAGVETTTPSKQSNNKYAASSYLSLTPEQWKSHRSYSCQVTH 202
>pdb|1XMD|A Chain A, M335v Mutant Structure Of Mouse Carnitine
Octanoyltransferase
pdb|1XMD|B Chain B, M335v Mutant Structure Of Mouse Carnitine
Octanoyltransferase
Length = 612
Score = 27.7 bits (60), Expect = 7.3, Method: Compositional matrix adjust.
Identities = 13/35 (37%), Positives = 23/35 (65%), Gaps = 1/35 (2%)
Query: 32 EELWSLEPENLKILQPVHGLIFLFKLREDTEPAGS 66
E L SL+PENL +L+ + +F++ + ED+ P +
Sbjct: 253 EYLISLDPENLTLLEKIQTSLFVYSI-EDSSPHAT 286
>pdb|1XMC|A Chain A, C323m Mutant Structure Of Mouse Carnitine
Octanoyltransferase
pdb|1XMC|B Chain B, C323m Mutant Structure Of Mouse Carnitine
Octanoyltransferase
Length = 612
Score = 27.7 bits (60), Expect = 7.4, Method: Compositional matrix adjust.
Identities = 13/35 (37%), Positives = 23/35 (65%), Gaps = 1/35 (2%)
Query: 32 EELWSLEPENLKILQPVHGLIFLFKLREDTEPAGS 66
E L SL+PENL +L+ + +F++ + ED+ P +
Sbjct: 253 EYLISLDPENLTLLEKIQTSLFVYSI-EDSSPHAT 286
>pdb|1XL7|A Chain A, Crystal Structure Of Mouse Carnitine Octanoyltransferase
pdb|1XL7|B Chain B, Crystal Structure Of Mouse Carnitine Octanoyltransferase
pdb|1XL8|A Chain A, Crystal Structure Of Mouse Carnitine Octanoyltransferase
In Complex With Octanoylcarnitine
pdb|1XL8|B Chain B, Crystal Structure Of Mouse Carnitine Octanoyltransferase
In Complex With Octanoylcarnitine
Length = 612
Score = 27.3 bits (59), Expect = 8.2, Method: Compositional matrix adjust.
Identities = 13/35 (37%), Positives = 23/35 (65%), Gaps = 1/35 (2%)
Query: 32 EELWSLEPENLKILQPVHGLIFLFKLREDTEPAGS 66
E L SL+PENL +L+ + +F++ + ED+ P +
Sbjct: 253 EYLISLDPENLTLLEKIQTSLFVYSI-EDSSPHAT 286
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
0.316 0.132 0.369
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,871,531
Number of Sequences: 62578
Number of extensions: 252724
Number of successful extensions: 935
Number of sequences better than 100.0: 46
Number of HSP's better than 100.0 without gapping: 22
Number of HSP's successfully gapped in prelim test: 24
Number of HSP's that attempted gapping in prelim test: 903
Number of HSP's gapped (non-prelim): 52
length of query: 258
length of database: 14,973,337
effective HSP length: 97
effective length of query: 161
effective length of database: 8,903,271
effective search space: 1433426631
effective search space used: 1433426631
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 50 (23.9 bits)