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= psy4433
(211 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2FH5|B Chain B, The Structure Of The Mammalian Srp Receptor
pdb|2GO5|2 Chain 2, Structure Of Signal Recognition Particle Receptor (Sr) In
Complex With Signal Recognition Particle (Srp) And
Ribosome Nascent Chain Complex
Length = 214
Score = 115 bits (289), Expect = 1e-26, Method: Compositional matrix adjust.
Identities = 61/190 (32%), Positives = 109/190 (57%), Gaps = 6/190 (3%)
Query: 28 FARLVYSKYFESCTSLKENVGNFTY---EKKNIKIVDLPGEDRLRNKFFDQYKSSAKGIV 84
F RL+ +Y ++ TS+ ++ + ++ ++DLPG + LR + D++KSSA+ +V
Sbjct: 24 FVRLLTGQYRDTQTSITDSSAIYKVNNNRGNSLTLIDLPGHESLRFQLLDRFKSSARAVV 83
Query: 85 YVLDSSTVQKTLRDVAESLYVILADPQVQSSRVNILVCCNKQDQTLAKSSSVVKTLLQKE 144
+V+DS+ Q+ ++DVAE LY +L D + ++L+ CNKQD +AKS+ +++ L+KE
Sbjct: 84 FVVDSAAFQREVKDVAEFLYQVLIDSMALKNSPSLLIACNKQDIAMAKSAKLIQQQLEKE 143
Query: 145 LNLVRRTKSNQLEDTNDVAANQTFLGNPDKDFEFSDLYNQVSFCDTT---GLDSASEYDV 201
LN +R T+S + + LG K+FEFS L +V F + + G D+
Sbjct: 144 LNTLRVTRSAAPSTLDSSSTAPAQLGKKGKEFEFSQLPLKVEFLECSAKGGRGDTGSADI 203
Query: 202 EQLQDWMVTL 211
+ L+ W+ +
Sbjct: 204 QDLEKWLAKI 213
>pdb|1NRJ|B Chain B, Signal Recognition Particle Receptor Beta-Subunit In
Complex With The Srx Domain From The Alpha-Subunit
Length = 218
Score = 57.8 bits (138), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 50/167 (29%), Positives = 86/167 (51%), Gaps = 14/167 (8%)
Query: 52 YEKKNIKIVDLPGEDRLRNKFFDQYKSSAK---GIVYVLDSSTVQKTLRDVAESLYVILA 108
Y+ + +VD PG +LR K D K+ AK G+++++DS+ K L AE L IL+
Sbjct: 52 YDGSGVTLVDFPGHVKLRYKLSDYLKTRAKFVKGLIFMVDSTVDPKKLTTTAEFLVDILS 111
Query: 109 DPQVQ-SSRVNILVCCNKQDQTLAKSSSVVKTLLQKELNLV--RRTKS-NQLE---DTND 161
+ + ++IL+ CNK + A+ S +K L+ E+ V RR KS N++E + D
Sbjct: 112 ITESSCENGIDILIACNKSELFTARPPSKIKDALESEIQKVIERRKKSLNEVERKINEED 171
Query: 162 VAANQTFLGNPDKDFEFSDLYNQVSFCDTTGLDSASEYDVEQLQDWM 208
A N + F+F++L + S G S ++ + Q ++W+
Sbjct: 172 YAENTLDVLQSTDGFKFANL--EASVVAFEG--SINKRKISQWREWI 214
>pdb|2GED|A Chain A, Signal Recognition Particle Receptor Beta-subunit In
Nucleotide-free Dimerized Form
pdb|2GED|B Chain B, Signal Recognition Particle Receptor Beta-subunit In
Nucleotide-free Dimerized Form
Length = 193
Score = 52.8 bits (125), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 34/109 (31%), Positives = 58/109 (53%), Gaps = 4/109 (3%)
Query: 44 KENVGNFTYEKKNIKIVDLPGEDRLRNKFFDQYKSSA---KGIVYVLDSSTVQKTLRDVA 100
+E + Y+ + +VD PG +LR K D K+ A KG+++++DS+ K L A
Sbjct: 80 QEPLSAADYDGSGVTLVDFPGHVKLRYKLSDYLKTRAKFVKGLIFMVDSTVDPKKLTTTA 139
Query: 101 ESLYVILADPQVQ-SSRVNILVCCNKQDQTLAKSSSVVKTLLQKELNLV 148
E L IL+ + + ++IL+ CNK + A+ S +K L+ E+ V
Sbjct: 140 EFLVDILSITESSCENGIDILIACNKSELFTARPPSKIKDALESEIQKV 188
>pdb|1MOZ|A Chain A, Adp-Ribosylation Factor-Like 1 (Arl1) From Saccharomyces
Cerevisiae
pdb|1MOZ|B Chain B, Adp-Ribosylation Factor-Like 1 (Arl1) From Saccharomyces
Cerevisiae
Length = 183
Score = 44.3 bits (103), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 34/119 (28%), Positives = 64/119 (53%), Gaps = 8/119 (6%)
Query: 30 RLVYSKYFESCTSLKENVGNFTYEKKNIKIVDLPGEDRLRNKFFDQYKSSAKGIVYVLDS 89
RL + + ++ NV +Y+ + + DL G+ +R ++ Y + +++V+DS
Sbjct: 37 RLQIGEVVTTKPTIGFNVETLSYKNLKLNVWDLGGQTSIR-PYWRCYYADTAAVIFVVDS 95
Query: 90 STVQKTLRDVAESLYVILADPQVQSSRVNILVCCNKQDQTLAKSSSVVKTLLQKELNLV 148
T + + ++ L+++L + ++Q + +LV NKQDQ A S+S V KELNLV
Sbjct: 96 -TDKDRMSTASKELHLMLQEEELQDAA--LLVFANKQDQPGALSASEV----SKELNLV 147
>pdb|3DOE|A Chain A, Complex Of Arl2 And Bart, Crystal Form 1
pdb|3DOF|A Chain A, Complex Of Arl2 And Bart, Crystal Form 2
Length = 192
Score = 40.8 bits (94), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 29/108 (26%), Positives = 59/108 (54%), Gaps = 6/108 (5%)
Query: 42 SLKENVGNFTYEKKNIKIVDLPGEDRLRNKFFDQYKSSAKGIVYVLDSSTVQKTLRDVAE 101
+L N+ + + I D+ G+ LR+ ++ Y S G+++V+DS+ Q+ ++D
Sbjct: 47 TLGFNIKTLEHRGFKLNIWDVGGQKSLRS-YWRNYFESTDGLIWVVDSADRQR-MQDCQR 104
Query: 102 SLYVILADPQVQSSRVNILVCCNKQDQTLAKSSSVVKTLLQKELNLVR 149
L +L + ++ + +L+ NKQD A SS+ ++ +L EL+ +R
Sbjct: 105 ELQSLLVEERLAGA--TLLIFANKQDLPGALSSNAIREVL--ELDSIR 148
>pdb|1KSH|A Chain A, Complex Of Arl2 And Pde Delta, Crystal Form 2 (Native)
Length = 186
Score = 38.1 bits (87), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 34/148 (22%), Positives = 72/148 (48%), Gaps = 10/148 (6%)
Query: 42 SLKENVGNFTYEKKNIKIVDLPGEDRLRNKFFDQYKSSAKGIVYVLDSSTVQKTLRDVAE 101
+L N+ + + I D+ G+ LR+ ++ Y S G+++V+DS+ Q+ ++D
Sbjct: 49 TLGFNIKTLEHRGFKLNIWDVGGQKSLRS-YWRNYFESTDGLIWVVDSADRQR-MQDCQR 106
Query: 102 SLYVILADPQVQSSRVNILVCCNKQDQTLAKSSSVVKTLLQKELNLVRRTKSNQLEDTND 161
L +L + ++ + +L+ NKQD A S + ++ L EL+ + R+ +++ +
Sbjct: 107 ELQSLLVEERLAGA--TLLIFANKQDLPGALSXNAIQEAL--ELDSI-RSHHWRIQGCSA 161
Query: 162 VAANQTFLGNPDKDFEFSDLYNQVSFCD 189
V P D+ D+ ++V D
Sbjct: 162 VTGEDLL---PGIDWLLDDISSRVFTAD 186
>pdb|1KSG|A Chain A, Complex Of Arl2 And Pde Delta, Crystal Form 1
Length = 186
Score = 38.1 bits (87), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 34/148 (22%), Positives = 72/148 (48%), Gaps = 10/148 (6%)
Query: 42 SLKENVGNFTYEKKNIKIVDLPGEDRLRNKFFDQYKSSAKGIVYVLDSSTVQKTLRDVAE 101
+L N+ + + I D+ G+ LR+ ++ Y S G+++V+DS+ Q+ ++D
Sbjct: 49 TLGFNIKTLEHRGFKLNIWDVGGQKSLRS-YWRNYFESTDGLIWVVDSADRQR-MQDCQR 106
Query: 102 SLYVILADPQVQSSRVNILVCCNKQDQTLAKSSSVVKTLLQKELNLVRRTKSNQLEDTND 161
L +L + ++ + +L+ NKQD A S + ++ L EL+ + R+ +++ +
Sbjct: 107 ELQSLLVEERLAGA--TLLIFANKQDLPGALSCNAIQEAL--ELDSI-RSHHWRIQGCSA 161
Query: 162 VAANQTFLGNPDKDFEFSDLYNQVSFCD 189
V P D+ D+ ++V D
Sbjct: 162 VTGEDLL---PGIDWLLDDISSRVFTAD 186
>pdb|4FME|C Chain C, Espg-Rab1-Arf6 Complex
pdb|4FME|F Chain F, Espg-Rab1-Arf6 Complex
Length = 160
Score = 37.4 bits (85), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 26/104 (25%), Positives = 54/104 (51%), Gaps = 8/104 (7%)
Query: 46 NVGNFTYEKKNIKIVDLPGEDRLRNKFFDQYKSSAKGIVYVLDSSTVQKTLRDVAESLYV 105
NV TY+ + D+ G+D++R + Y + +G+++V+D + + + + + L+
Sbjct: 35 NVETVTYKNVKFNVWDVGGQDKIR-PLWRHYYTGTQGLIFVVDCADRDR-IDEARQELHR 92
Query: 106 ILADPQVQSSRVNILVCCNKQDQTLAKSSSVVKTLLQKELNLVR 149
I+ D +++ + IL+ NKQD A + Q++L L R
Sbjct: 93 IINDREMRDA--IILIFANKQDLPDAMKPHEI----QEKLGLTR 130
>pdb|3N5C|A Chain A, Crystal Structure Of Arf6delta13 Complexed With Gdp
pdb|3N5C|B Chain B, Crystal Structure Of Arf6delta13 Complexed With Gdp
Length = 162
Score = 37.4 bits (85), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 26/104 (25%), Positives = 54/104 (51%), Gaps = 8/104 (7%)
Query: 46 NVGNFTYEKKNIKIVDLPGEDRLRNKFFDQYKSSAKGIVYVLDSSTVQKTLRDVAESLYV 105
NV TY+ + D+ G+D++R + Y + +G+++V+D + + + + + L+
Sbjct: 35 NVETVTYKNVKFNVWDVGGQDKIR-PLWRHYYTGTQGLIFVVDCADRDR-IDEARQELHR 92
Query: 106 ILADPQVQSSRVNILVCCNKQDQTLAKSSSVVKTLLQKELNLVR 149
I+ D +++ + IL+ NKQD A + Q++L L R
Sbjct: 93 IINDREMRDA--IILIFANKQDLPDAMKPHEI----QEKLGLTR 130
>pdb|1E0S|A Chain A, Small G Protein Arf6-Gdp
Length = 174
Score = 37.0 bits (84), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 26/104 (25%), Positives = 54/104 (51%), Gaps = 8/104 (7%)
Query: 46 NVGNFTYEKKNIKIVDLPGEDRLRNKFFDQYKSSAKGIVYVLDSSTVQKTLRDVAESLYV 105
NV TY+ + D+ G+D++R + Y + +G+++V+D + + + + + L+
Sbjct: 47 NVETVTYKNVKFNVWDVGGQDKIR-PLWRHYYTGTQGLIFVVDCADRDR-IDEARQELHR 104
Query: 106 ILADPQVQSSRVNILVCCNKQDQTLAKSSSVVKTLLQKELNLVR 149
I+ D +++ + IL+ NKQD A + Q++L L R
Sbjct: 105 IINDREMRDA--IILIFANKQDLPDAMKPHEI----QEKLGLTR 142
>pdb|1KSJ|A Chain A, Complex Of Arl2 And Pde Delta, Crystal Form 2 (Semet)
Length = 186
Score = 37.0 bits (84), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 28/108 (25%), Positives = 56/108 (51%), Gaps = 6/108 (5%)
Query: 42 SLKENVGNFTYEKKNIKIVDLPGEDRLRNKFFDQYKSSAKGIVYVLDSSTVQKTLRDVAE 101
+L N+ + + I D+ G+ LR+ ++ Y S G+++V+DS+ Q+ +D
Sbjct: 49 TLGFNIKTLEHRGFKLNIWDVGGQKSLRS-YWRNYFESTDGLIWVVDSADRQRX-QDCQR 106
Query: 102 SLYVILADPQVQSSRVNILVCCNKQDQTLAKSSSVVKTLLQKELNLVR 149
L +L + ++ + +L+ NKQD A S + ++ L EL+ +R
Sbjct: 107 ELQSLLVEERLAGA--TLLIFANKQDLPGALSXNAIQEAL--ELDSIR 150
>pdb|2A5D|A Chain A, Structural Basis For The Activation Of Cholera Toxin By
Human Arf6-Gtp
pdb|2A5F|A Chain A, Cholera Toxin A1 Subunit Bound To Its Substrate, Nad+, And
Its Human Protein Activator, Arf6
pdb|2J5X|A Chain A, Structure Of The Small G Protein Arf6 In Complex With
Gtpgammas
pdb|2J5X|B Chain B, Structure Of The Small G Protein Arf6 In Complex With
Gtpgammas
Length = 175
Score = 37.0 bits (84), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 26/104 (25%), Positives = 54/104 (51%), Gaps = 8/104 (7%)
Query: 46 NVGNFTYEKKNIKIVDLPGEDRLRNKFFDQYKSSAKGIVYVLDSSTVQKTLRDVAESLYV 105
NV TY+ + D+ G+D++R + Y + +G+++V+D + + + + + L+
Sbjct: 48 NVETVTYKNVKFNVWDVGGQDKIR-PLWRHYYTGTQGLIFVVDCADRDR-IDEARQELHR 105
Query: 106 ILADPQVQSSRVNILVCCNKQDQTLAKSSSVVKTLLQKELNLVR 149
I+ D +++ + IL+ NKQD A + Q++L L R
Sbjct: 106 IINDREMRDA--IILIFANKQDLPDAMKPHEI----QEKLGLTR 143
>pdb|3PCR|B Chain B, Structure Of Espg-Arf6 Complex
Length = 162
Score = 36.6 bits (83), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 26/104 (25%), Positives = 53/104 (50%), Gaps = 8/104 (7%)
Query: 46 NVGNFTYEKKNIKIVDLPGEDRLRNKFFDQYKSSAKGIVYVLDSSTVQKTLRDVAESLYV 105
NV TY+ + D+ G+D++R + Y + +G+++V+D + + + + + L+
Sbjct: 35 NVETVTYKNVKFNVWDVGGQDKIR-PLWRHYYTGTQGLIFVVDCADRDR-IDEARQELHR 92
Query: 106 ILADPQVQSSRVNILVCCNKQDQTLAKSSSVVKTLLQKELNLVR 149
I+ D + + + IL+ NKQD A + Q++L L R
Sbjct: 93 IINDREXRDA--IILIFANKQDLPDAXKPHEI----QEKLGLTR 130
>pdb|4GOK|B Chain B, The Crystal Structure Of Arl2gppnhp In Complex With
Unc119a
pdb|4GOK|A Chain A, The Crystal Structure Of Arl2gppnhp In Complex With
Unc119a
Length = 169
Score = 36.2 bits (82), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 34/148 (22%), Positives = 71/148 (47%), Gaps = 10/148 (6%)
Query: 42 SLKENVGNFTYEKKNIKIVDLPGEDRLRNKFFDQYKSSAKGIVYVLDSSTVQKTLRDVAE 101
+L N+ + + I D+ G LR+ ++ Y S G+++V+DS+ Q+ ++D
Sbjct: 32 TLGFNIKTLEHRGFKLNIWDVGGLKSLRS-YWRNYFESTDGLIWVVDSADRQR-MQDCQR 89
Query: 102 SLYVILADPQVQSSRVNILVCCNKQDQTLAKSSSVVKTLLQKELNLVRRTKSNQLEDTND 161
L +L + ++ + +L+ NKQD A S + ++ L EL+ + R+ +++ +
Sbjct: 90 ELQSLLVEERLAGA--TLLIFANKQDLPGALSCNAIQEAL--ELDSI-RSHHWRIQGCSA 144
Query: 162 VAANQTFLGNPDKDFEFSDLYNQVSFCD 189
V P D+ D+ ++V D
Sbjct: 145 VTGEDLL---PGIDWLLDDISSRVFTAD 169
>pdb|3LVQ|E Chain E, The Crystal Structure Of Asap3 In Complex With Arf6 In
Trans State
pdb|3LVR|E Chain E, The Crystal Structure Of Asap3 In Complex With Arf6 In
Trans State Soaked With Calcium
Length = 497
Score = 36.2 bits (82), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 26/104 (25%), Positives = 54/104 (51%), Gaps = 8/104 (7%)
Query: 46 NVGNFTYEKKNIKIVDLPGEDRLRNKFFDQYKSSAKGIVYVLDSSTVQKTLRDVAESLYV 105
NV TY+ + D+ G+D++R + Y + +G+++V+D + + + + + L+
Sbjct: 357 NVETVTYKNVKFNVWDVGGQDKIR-PLWRHYYTGTQGLIFVVDCADRDR-IDEARQELHR 414
Query: 106 ILADPQVQSSRVNILVCCNKQDQTLAKSSSVVKTLLQKELNLVR 149
I+ D +++ + IL+ NKQD A + Q++L L R
Sbjct: 415 IINDREMRDAI--ILIFANKQDLPDAMKPHEI----QEKLGLTR 452
>pdb|2K5U|A Chain A, Solution Structure Of Myirstoylated Yeast Arf1 Protein,
Gdp- Bound
Length = 181
Score = 35.0 bits (79), Expect = 0.026, Method: Compositional matrix adjust.
Identities = 23/92 (25%), Positives = 52/92 (56%), Gaps = 4/92 (4%)
Query: 46 NVGNFTYEKKNIKIVDLPGEDRLRNKFFDQYKSSAKGIVYVLDSSTVQKTLRDVAESLYV 105
NV Y+ + + D+ G+DR+R+ + Y + +G+++V+DS+ + + + E +
Sbjct: 52 NVETVQYKNISFTVWDVGGQDRIRS-LWRHYYRNTEGVIFVVDSND-RSRIGEAREVMQR 109
Query: 106 ILADPQVQSSRVNILVCCNKQDQTLAKSSSVV 137
+L + +++++ LV NKQD A S++ +
Sbjct: 110 MLNEDELRNAA--WLVFANKQDLPEAMSAAEI 139
>pdb|3TJZ|A Chain A, Crystal Structure Of Arf1 Bound To The GammaZETA-Cop Core
Complex
pdb|3TJZ|D Chain D, Crystal Structure Of Arf1 Bound To The GammaZETA-Cop Core
Complex
Length = 164
Score = 35.0 bits (79), Expect = 0.030, Method: Compositional matrix adjust.
Identities = 23/90 (25%), Positives = 51/90 (56%), Gaps = 4/90 (4%)
Query: 46 NVGNFTYEKKNIKIVDLPGEDRLRNKFFDQYKSSAKGIVYVLDSSTVQKTLRDVAESLYV 105
NV Y+ + + D+ G+DR+R+ + Y + +G+++V+DS+ + + + E +
Sbjct: 35 NVETVQYKNISFTVWDVGGQDRIRS-LWRHYYRNTEGVIFVVDSND-RSRIGEAREVMQR 92
Query: 106 ILADPQVQSSRVNILVCCNKQDQTLAKSSS 135
+L + +++++ LV NKQD A S++
Sbjct: 93 MLNEDELRNA--AWLVFANKQDLPEAMSAA 120
>pdb|1MR3|F Chain F, Saccharomyces Cerevisiae Adp-Ribosylation Factor 2
(Scarf2) Complexed With Gdp-3'p At 1.6a Resolution
Length = 181
Score = 35.0 bits (79), Expect = 0.032, Method: Compositional matrix adjust.
Identities = 23/92 (25%), Positives = 52/92 (56%), Gaps = 4/92 (4%)
Query: 46 NVGNFTYEKKNIKIVDLPGEDRLRNKFFDQYKSSAKGIVYVLDSSTVQKTLRDVAESLYV 105
NV Y+ + + D+ G+DR+R+ + Y + +G+++V+DS+ + + + E +
Sbjct: 52 NVETVQYKNISFTVWDVGGQDRIRS-LWRHYYRNTEGVIFVIDSND-RSRIGEAREVMQR 109
Query: 106 ILADPQVQSSRVNILVCCNKQDQTLAKSSSVV 137
+L + +++++ LV NKQD A S++ +
Sbjct: 110 MLNEDELRNAV--WLVFANKQDLPEAMSAAEI 139
>pdb|1OIL|A Chain A, Structure Of Lipase
pdb|1OIL|B Chain B, Structure Of Lipase
pdb|4LIP|D Chain D, Pseudomonas Lipase Complexed With Rc-(rp, Sp)-
Dibutylcarbamoylglycero-3-o-butylphosphonate
pdb|4LIP|E Chain E, Pseudomonas Lipase Complexed With Rc-(rp, Sp)-
Dibutylcarbamoylglycero-3-o-butylphosphonate
pdb|1HQD|A Chain A, Pseudomonas Cepacia Lipase Complexed With Transition State
Analogue Of 1-Phenoxy-2-Acetoxy Butane
pdb|2LIP|A Chain A, Pseudomonas Lipase Open Conformation
pdb|3LIP|A Chain A, Open Conformation Of Pseudomonas Cepacia Lipase
pdb|5LIP|A Chain A, Pseudomonas Lipase Complexed With Rc-(Rp, Sp)-1,2-
Dioctylcarbamoylglycero-3-O-Octylphosphonate
pdb|2NW6|A Chain A, Burkholderia Cepacia Lipase Complexed With S-Inhibitor
Length = 320
Score = 32.0 bits (71), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 21/77 (27%), Positives = 34/77 (44%), Gaps = 5/77 (6%)
Query: 124 NKQDQTLAKSSSVVKTLLQKELNLVRRTKSNQLED-----TNDVAANQTFLGNPDKDFEF 178
+ +Q LA +V+ ++NLV ++ D+ A+ T +G P + EF
Sbjct: 60 GRGEQLLAYVKTVLAATGATKVNLVGHSQGGLTSRYVAAVAPDLVASVTTIGTPHRGSEF 119
Query: 179 SDLYNQVSFCDTTGLDS 195
+D V D TGL S
Sbjct: 120 ADFVQGVLAYDPTGLSS 136
>pdb|1YS1|X Chain X, Burkholderia Cepacia Lipase Complexed With Hexylphosphonic
Acid (R)-2-Methyl-3-Phenylpropyl Ester
pdb|1YS2|X Chain X, Burkholderia Cepacia Lipase Complexed With Hexylphosphonic
Acid (s) 2-methyl-3-phenylpropyl Ester
Length = 320
Score = 32.0 bits (71), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 21/77 (27%), Positives = 34/77 (44%), Gaps = 5/77 (6%)
Query: 124 NKQDQTLAKSSSVVKTLLQKELNLVRRTKSNQLED-----TNDVAANQTFLGNPDKDFEF 178
+ +Q LA +V+ ++NLV ++ D+ A+ T +G P + EF
Sbjct: 60 GRGEQLLAYVKTVLAATGATKVNLVGHSQGGLTSRYVAAVAPDLVASVTTIGTPHRGSEF 119
Query: 179 SDLYNQVSFCDTTGLDS 195
+D V D TGL S
Sbjct: 120 ADFVQGVLAYDPTGLSS 136
>pdb|2WJI|A Chain A, Structure And Function Of The Feob G-Domain From
Methanococcus Jannaschii
pdb|2WJI|B Chain B, Structure And Function Of The Feob G-Domain From
Methanococcus Jannaschii
Length = 165
Score = 31.2 bits (69), Expect = 0.46, Method: Compositional matrix adjust.
Identities = 32/112 (28%), Positives = 52/112 (46%), Gaps = 20/112 (17%)
Query: 32 VYSKYFESCTSLKENVGNFTYEKKNIKIVDLPGEDRLRNKFFDQ-----YKSSAKG--IV 84
VY + T K+ G F Y + K+VDLPG L D+ Y + K +V
Sbjct: 28 VYIGNWPGVTVEKKE-GEFEYNGEKFKVVDLPGVYSLTANSIDEIIARDYIINEKPDLVV 86
Query: 85 YVLDSSTVQKTLRDVAESLYVILADPQVQSSRVNILVCCNKQDQTLAKSSSV 136
++D++ +++ +LY+ L Q+ N+L+ NK D LAKS +
Sbjct: 87 NIVDATALER-------NLYLTL---QLMEMGANLLLALNKMD--LAKSLGI 126
>pdb|2WJH|A Chain A, Structure And Function Of The Feob G-Domain From
Methanococcus Jannaschii
pdb|2WJH|B Chain B, Structure And Function Of The Feob G-Domain From
Methanococcus Jannaschii
Length = 166
Score = 31.2 bits (69), Expect = 0.46, Method: Compositional matrix adjust.
Identities = 32/112 (28%), Positives = 52/112 (46%), Gaps = 20/112 (17%)
Query: 32 VYSKYFESCTSLKENVGNFTYEKKNIKIVDLPGEDRLRNKFFDQ-----YKSSAKG--IV 84
VY + T K+ G F Y + K+VDLPG L D+ Y + K +V
Sbjct: 28 VYIGNWPGVTVEKKE-GEFEYNGEKFKVVDLPGVYSLTANSIDEIIARDYIINEKPDLVV 86
Query: 85 YVLDSSTVQKTLRDVAESLYVILADPQVQSSRVNILVCCNKQDQTLAKSSSV 136
++D++ +++ +LY+ L Q+ N+L+ NK D LAKS +
Sbjct: 87 NIVDATALER-------NLYLTL---QLMEMGANLLLALNKMD--LAKSLGI 126
>pdb|2WJG|A Chain A, Structure And Function Of The Feob G-Domain From
Methanococcus Jannaschii
pdb|2WJG|B Chain B, Structure And Function Of The Feob G-Domain From
Methanococcus Jannaschii
Length = 188
Score = 30.8 bits (68), Expect = 0.57, Method: Compositional matrix adjust.
Identities = 28/96 (29%), Positives = 46/96 (47%), Gaps = 19/96 (19%)
Query: 48 GNFTYEKKNIKIVDLPGEDRLRNKFFDQ-----YKSSAKG--IVYVLDSSTVQKTLRDVA 100
G F Y + K+VDLPG L D+ Y + K +V ++D++ +++
Sbjct: 47 GEFEYNGEKFKVVDLPGVYSLTANSIDEIIARDYIINEKPDLVVNIVDATALER------ 100
Query: 101 ESLYVILADPQVQSSRVNILVCCNKQDQTLAKSSSV 136
+LY+ L Q+ N+L+ NK D LAKS +
Sbjct: 101 -NLYLTL---QLMEMGANLLLALNKMD--LAKSLGI 130
>pdb|2WJJ|A Chain A, Structure And Function Of The Feob G-Domain From
Methanococcus Jannaschii
pdb|2WJJ|B Chain B, Structure And Function Of The Feob G-Domain From
Methanococcus Jannaschii
Length = 168
Score = 30.4 bits (67), Expect = 0.83, Method: Compositional matrix adjust.
Identities = 32/112 (28%), Positives = 52/112 (46%), Gaps = 20/112 (17%)
Query: 32 VYSKYFESCTSLKENVGNFTYEKKNIKIVDLPGEDRLRNKFFDQ-----YKSSAKG--IV 84
VY + T K+ G F Y + K+VDLPG L D+ Y + K +V
Sbjct: 29 VYIGNWPGVTVEKKE-GEFEYNGEKFKVVDLPGVYSLTANSIDEIIARDYIINEKPDLVV 87
Query: 85 YVLDSSTVQKTLRDVAESLYVILADPQVQSSRVNILVCCNKQDQTLAKSSSV 136
++D++ +++ +LY+ L Q+ N+L+ NK D LAKS +
Sbjct: 88 NIVDATALER-------NLYLTL---QLXEXGANLLLALNKXD--LAKSLGI 127
>pdb|3K53|A Chain A, Crystal Structure Of Nfeob From P. Furiosus
pdb|3K53|B Chain B, Crystal Structure Of Nfeob From P. Furiosus
pdb|3K53|C Chain C, Crystal Structure Of Nfeob From P. Furiosus
pdb|3K53|D Chain D, Crystal Structure Of Nfeob From P. Furiosus
Length = 271
Score = 28.9 bits (63), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 33/130 (25%), Positives = 59/130 (45%), Gaps = 28/130 (21%)
Query: 37 FESCTSLKENVGNFT------------YEKKNIKIVDLPGEDRLRNKFFDQYKS------ 78
F + T L+++VGN+ Y +K +VDLPG L D+ +
Sbjct: 20 FNALTGLRQHVGNWPGVTVEKKEGIMEYREKEFLVVDLPGIYSLTAHSIDELIARNFILD 79
Query: 79 -SAKGIVYVLDSSTVQKTLRDVAESLYVILADPQVQSSRVNILVCCNKQDQTLAKSSSVV 137
+A IV ++DS+ + + L L + L + +V+ NI++ NK D K + +
Sbjct: 80 GNADVIVDIVDSTCLMRNL-----FLTLELFEMEVK----NIILVLNKFDLLKKKGAKID 130
Query: 138 KTLLQKELNL 147
++KEL +
Sbjct: 131 IKKMRKELGV 140
>pdb|1QGE|D Chain D, New Crystal Form Of Pseudomonas Glumae (Formerly
Chromobacterium Viscosum Atcc 6918) Lipase
Length = 222
Score = 27.7 bits (60), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 20/77 (25%), Positives = 31/77 (40%), Gaps = 5/77 (6%)
Query: 124 NKQDQTLAKSSSVVKTLLQKELNLVRRTKSNQLEDTNDVAANQ-----TFLGNPDKDFEF 178
+ +Q LA V+ ++NL+ ++ A Q T +G P + EF
Sbjct: 60 GRGEQLLAYVKQVLAATGATKVNLIGHSQGGLTSRYVAAVAPQLVASVTTIGTPHRGSEF 119
Query: 179 SDLYNQVSFCDTTGLDS 195
+D V D TGL S
Sbjct: 120 ADFVQDVLKTDPTGLSS 136
>pdb|3PIH|A Chain A, T. Maritima Uvra In Complex With Fluorescein-Modified Dna
Length = 916
Score = 27.7 bits (60), Expect = 4.5, Method: Composition-based stats.
Identities = 18/64 (28%), Positives = 28/64 (43%), Gaps = 13/64 (20%)
Query: 62 LPGEDRLRNKFFDQYKSSAKGIVYVLDSSTVQ-------------KTLRDVAESLYVILA 108
L G + R + Q S G++YVLD T+ K LRD+ ++ V+
Sbjct: 465 LSGGESQRIRLATQIGSGLTGVIYVLDEPTIGLHPRDTERLIKTLKKLRDLGNTVIVVEH 524
Query: 109 DPQV 112
D +V
Sbjct: 525 DEEV 528
>pdb|2IL1|A Chain A, Crystal Structure Of A Predicted Human Gtpase In Complex
With Gdp
Length = 192
Score = 27.3 bits (59), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 27/96 (28%), Positives = 43/96 (44%), Gaps = 13/96 (13%)
Query: 40 CTSLKENVG--------NFTYEKKNIKIVDLPGEDRLRNKFFDQYKSSAKGIVYVLDSST 91
C + K VG +K ++I D G++R N Y SAKGI+ V D T
Sbjct: 52 CEACKSTVGVDFKIKTVELRGKKIRLQIWDTAGQERF-NSITSAYYRSAKGIILVYD-IT 109
Query: 92 VQKTLRDVAESLYVILADPQVQSSRVNILVCCNKQD 127
++T D+ + + +I + S +L+ NK D
Sbjct: 110 KKETFDDLPKWMKMI---DKYASEDAELLLVGNKLD 142
>pdb|1TAH|B Chain B, The Crystal Structure Of Triacylglycerol Lipase From
Pseudomonas Glumae Reveals A Partially Redundant
Catalytic Aspartate
pdb|1TAH|A Chain A, The Crystal Structure Of Triacylglycerol Lipase From
Pseudomonas Glumae Reveals A Partially Redundant
Catalytic Aspartate
pdb|1TAH|C Chain C, The Crystal Structure Of Triacylglycerol Lipase From
Pseudomonas Glumae Reveals A Partially Redundant
Catalytic Aspartate
pdb|1TAH|D Chain D, The Crystal Structure Of Triacylglycerol Lipase From
Pseudomonas Glumae Reveals A Partially Redundant
Catalytic Aspartate
Length = 318
Score = 27.3 bits (59), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 20/77 (25%), Positives = 31/77 (40%), Gaps = 5/77 (6%)
Query: 124 NKQDQTLAKSSSVVKTLLQKELNLVRRTKSNQLEDTNDVAANQ-----TFLGNPDKDFEF 178
+ +Q LA V+ ++NL+ ++ A Q T +G P + EF
Sbjct: 59 GRGEQLLAYVKQVLAATGATKVNLIGHSQGGLTSRYVAAVAPQLVASVTTIGTPHRGSEF 118
Query: 179 SDLYNQVSFCDTTGLDS 195
+D V D TGL S
Sbjct: 119 ADFVQDVLKTDPTGLSS 135
>pdb|2ES4|A Chain A, Crystal Structure Of The Burkholderia Glumae Lipase-
Specific Foldase In Complex With Its Cognate Lipase
pdb|2ES4|B Chain B, Crystal Structure Of The Burkholderia Glumae Lipase-
Specific Foldase In Complex With Its Cognate Lipase
pdb|1CVL|A Chain A, Crystal Structure Of Bacterial Lipase From Chromobacterium
Viscosum Atcc 6918
Length = 319
Score = 27.3 bits (59), Expect = 5.9, Method: Compositional matrix adjust.
Identities = 20/77 (25%), Positives = 31/77 (40%), Gaps = 5/77 (6%)
Query: 124 NKQDQTLAKSSSVVKTLLQKELNLVRRTKSNQLEDTNDVAANQ-----TFLGNPDKDFEF 178
+ +Q LA V+ ++NL+ ++ A Q T +G P + EF
Sbjct: 60 GRGEQLLAYVKQVLAATGATKVNLIGHSQGGLTSRYVAAVAPQLVASVTTIGTPHRGSEF 119
Query: 179 SDLYNQVSFCDTTGLDS 195
+D V D TGL S
Sbjct: 120 ADFVQDVLKTDPTGLSS 136
>pdb|3A1T|A Chain A, Crystal Structue Of The Cytosolic Domain Of T. Maritima
Feob Iron Iransporter In Gdp Form Ii
pdb|3A1U|A Chain A, Crystal Structue Of The Cytosolic Domain Of T. Maritima
Feob Iron Iransporter In Gmppnp Form
pdb|3A1U|B Chain B, Crystal Structue Of The Cytosolic Domain Of T. Maritima
Feob Iron Iransporter In Gmppnp Form
pdb|3A1V|A Chain A, Crystal Structue Of The Cytosolic Domain Of T. Maritima
Feob Iron Iransporter In Apo Form
pdb|3A1V|B Chain B, Crystal Structue Of The Cytosolic Domain Of T. Maritima
Feob Iron Iransporter In Apo Form
Length = 258
Score = 26.9 bits (58), Expect = 9.2, Method: Compositional matrix adjust.
Identities = 25/107 (23%), Positives = 44/107 (41%), Gaps = 17/107 (15%)
Query: 48 GNFTYEKKNIKIVDLPGEDRLRNKFFDQ-------YKSSAKGIVYVLDSSTVQKTLRDVA 100
G FTY+ I ++DLPG L D+ K A ++ V DS +
Sbjct: 45 GVFTYKGYTINLIDLPGTYSLGYSSIDEKIARDYLLKGDADLVILVADSVNPE------- 97
Query: 101 ESLYVILADPQVQSSRVNILVCCNKQDQTLAKSSSVVKTLLQKELNL 147
+SLY++L ++ +++ D+ + + LQK L +
Sbjct: 98 QSLYLLL---EILEMEKKVILAMTAIDEAKKTGMKIDRYELQKHLGI 141
>pdb|3A1W|A Chain A, Crystal Structue Of The G Domain Of T. Maritima Feob Iron
Iransporter
Length = 168
Score = 26.6 bits (57), Expect = 10.0, Method: Compositional matrix adjust.
Identities = 25/107 (23%), Positives = 44/107 (41%), Gaps = 17/107 (15%)
Query: 48 GNFTYEKKNIKIVDLPGEDRLRNKFFDQ-------YKSSAKGIVYVLDSSTVQKTLRDVA 100
G FTY+ I ++DLPG L D+ K A ++ V DS +
Sbjct: 45 GVFTYKGYTINLIDLPGTYSLGYSSIDEKIARDYLLKGDADLVILVADSVNPE------- 97
Query: 101 ESLYVILADPQVQSSRVNILVCCNKQDQTLAKSSSVVKTLLQKELNL 147
+SLY++L ++ +++ D+ + + LQK L +
Sbjct: 98 QSLYLLL---EILEMEKKVILAMTAIDEAKKTGMKIDRYELQKHLGI 141
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
0.318 0.132 0.372
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,941,626
Number of Sequences: 62578
Number of extensions: 176016
Number of successful extensions: 438
Number of sequences better than 100.0: 38
Number of HSP's better than 100.0 without gapping: 9
Number of HSP's successfully gapped in prelim test: 29
Number of HSP's that attempted gapping in prelim test: 424
Number of HSP's gapped (non-prelim): 39
length of query: 211
length of database: 14,973,337
effective HSP length: 95
effective length of query: 116
effective length of database: 9,028,427
effective search space: 1047297532
effective search space used: 1047297532
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 49 (23.5 bits)