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= psy15387
(273 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3C98|B Chain B, Revised Structure Of The Munc18a-Syntaxin1 Complex
Length = 279
Score = 177 bits (449), Expect = 6e-45, Method: Compositional matrix adjust.
Identities = 105/238 (44%), Positives = 155/238 (65%), Gaps = 4/238 (1%)
Query: 34 YHDCFMDTVEDSRALIANIQEHVKAMRNLHSDLLSSPRQDENMKLELDARTETVKKIAKK 93
+ D F + VE+ R I I E+V+ ++ HS +L+SP DE K EL+ +KK A K
Sbjct: 41 FMDEFFEQVEEIRGFIDKIAENVEEVKRKHSAILASPNPDEKTKEELEELMSDIKKTANK 100
Query: 94 VSNSLKKLERSIKKEEDEIEDGHIPASLRIRKTQQSTTLHLLVEAITEFNQEQLDYKEKC 153
V + LK +E+SI++EE A LRIRKTQ ST VE ++E+N Q DY+E+C
Sbjct: 101 VRSKLKSIEQSIEQEEGL---NRSSADLRIRKTQHSTLSRKFVEVMSEYNATQSDYRERC 157
Query: 154 EERIQRVVSIARAEISDEKLEELLEQGNYASIFNADIVTETLEARKALEDVQIRHQELLK 213
+ RIQR + I + E+LE++LE GN A IF + I+ ++ +++AL +++ RH E++K
Sbjct: 158 KGRIQRQLEITGRTTTSEELEDMLESGNPA-IFASGIIMDSSISKQALSEIETRHSEIIK 216
Query: 214 LEKSIQELRDLFVEMALLVEQQGDIIDSIEHHVMEAGEAVETARVQTKKAIVYQKKAR 271
LE SI+EL D+F++MA+LVE QG++ID IE++V A + VE A TKKA+ YQ KAR
Sbjct: 217 LENSIRELHDMFMDMAMLVESQGEMIDRIEYNVEHAVDYVERAVSDTKKAVKYQSKAR 274
>pdb|1S94|A Chain A, Crystal Structure Of The Habc Domain Of Neuronal Syntaxin
From The Squid Loligo Pealei
pdb|1S94|B Chain B, Crystal Structure Of The Habc Domain Of Neuronal Syntaxin
From The Squid Loligo Pealei
Length = 180
Score = 103 bits (258), Expect = 8e-23, Method: Compositional matrix adjust.
Identities = 57/143 (39%), Positives = 91/143 (63%), Gaps = 3/143 (2%)
Query: 38 FMDTVEDSRALIANIQEHVKAMRNLHSDLLSSPRQDENMKLELDARTETVKKIAKKVSNS 97
F + VE+ RA+I I ++V A++ HSD+LS+P+ D+ MK EL+ +K+ A KV
Sbjct: 41 FFEQVEEIRAMIDKISDNVDAVKKKHSDILSAPQTDDQMKEELEELMTDIKRTANKVRGK 100
Query: 98 LKKLERSIKKEEDEIEDGHIPASLRIRKTQQSTTLHLLVEAITEFNQEQLDYKEKCEERI 157
LK +E +I++EE A LRIRKTQ ST VE ++++N Q+DY+++C+ RI
Sbjct: 101 LKTIELNIEQEE---HSNKSSADLRIRKTQYSTISRKFVEVMSDYNTTQIDYRDRCKARI 157
Query: 158 QRVVSIARAEISDEKLEELLEQG 180
+R + I ++E+LE++LE G
Sbjct: 158 KRQMEITGRTTTNEELEDMLESG 180
>pdb|2XHE|B Chain B, Crystal Structure Of The Unc18-Syntaxin 1 Complex From
Monosiga Brevicollis
Length = 279
Score = 93.6 bits (231), Expect = 1e-19, Method: Compositional matrix adjust.
Identities = 68/238 (28%), Positives = 133/238 (55%), Gaps = 8/238 (3%)
Query: 38 FMDTVEDSRALIANIQEHVKAMRNLHSDLLSSPRQDENMKL--ELDARTETVKKIAKKVS 95
F + V+ R I +I++ ++ + LH++ L + +++ +L +L + + K+
Sbjct: 46 FFNRVKRIRDNIEDIEQAIEQVAQLHTESLVAVSKEDRDRLNEKLQDTMARISALGNKIR 105
Query: 96 NSLKKLERSIKK--EEDEIEDGHIPASLRIRKTQQSTTLHLLVEAITEFNQEQLDYKEKC 153
LK++E+ K+ +E EDG + LRIR++Q S+ V+ +T +N Q + K +
Sbjct: 106 ADLKQIEKENKRAQQEGTFEDGTVSTDLRIRQSQHSSLSRKFVKVMTRYNDVQAENKRRY 165
Query: 154 EERIQRVVSIARAEISDEKLEELLEQGNYASIFNADIVTETLEARKALEDVQIRHQELLK 213
E + R + +SD+ +++++E G IF+ + E EA+ L +++ RH+++ +
Sbjct: 166 GENVARQCRVVEPSLSDDAIQKVIEHGTEG-IFSG-MRLEGAEAK--LNEIRDRHKDIQQ 221
Query: 214 LEKSIQELRDLFVEMALLVEQQGDIIDSIEHHVMEAGEAVETARVQTKKAIVYQKKAR 271
LE+S+ EL ++F +M+ LV QG++ID IE V ++ V+ A Q +A YQ+ AR
Sbjct: 222 LERSLLELHEMFTDMSTLVASQGEMIDRIEFSVEQSHNYVKKATEQVVQARHYQESAR 279
>pdb|1L4A|B Chain B, X-Ray Structure Of The Neuronal ComplexinSNARE COMPLEX
From The Squid Loligo Pealei
Length = 88
Score = 91.3 bits (225), Expect = 5e-19, Method: Compositional matrix adjust.
Identities = 43/84 (51%), Positives = 66/84 (78%)
Query: 188 ADIVTETLEARKALEDVQIRHQELLKLEKSIQELRDLFVEMALLVEQQGDIIDSIEHHVM 247
+ I+ ET +A++ L D++ RH +++KLE SI+EL D+F++MA+LVE QG++ID IE++V
Sbjct: 5 SGIIMETQQAKQTLADIEARHADIMKLETSIRELHDMFMDMAMLVESQGEMIDRIEYNVE 64
Query: 248 EAGEAVETARVQTKKAIVYQKKAR 271
A + +ETA+V TKKA+ YQ KAR
Sbjct: 65 AAVDYIETAKVDTKKAVKYQSKAR 88
>pdb|1EZ3|A Chain A, Crystal Structure Of The Neuronal T-Snare Syntaxin-1a
pdb|1EZ3|B Chain B, Crystal Structure Of The Neuronal T-Snare Syntaxin-1a
pdb|1EZ3|C Chain C, Crystal Structure Of The Neuronal T-Snare Syntaxin-1a
Length = 127
Score = 83.2 bits (204), Expect = 1e-16, Method: Compositional matrix adjust.
Identities = 53/125 (42%), Positives = 75/125 (60%), Gaps = 3/125 (2%)
Query: 34 YHDCFMDTVEDSRALIANIQEHVKAMRNLHSDLLSSPRQDENMKLELDARTETVKKIAKK 93
+ D F + VE+ R I I E+V+ ++ HS +L+SP DE K EL+ +KK A K
Sbjct: 6 FMDEFFEQVEEIRGFIDKIAENVEEVKRKHSAILASPNPDEKTKEELEELMSDIKKTANK 65
Query: 94 VSNSLKKLERSIKKEEDEIEDGHIPASLRIRKTQQSTTLHLLVEAITEFNQEQLDYKEKC 153
V + LK +E+SI++EE A LRIRKTQ ST VE ++E+N Q DY+E+C
Sbjct: 66 VRSKLKSIEQSIEQEEGL---NRSSADLRIRKTQHSTLSRKFVEVMSEYNATQSDYRERC 122
Query: 154 EERIQ 158
+ RIQ
Sbjct: 123 KGRIQ 127
>pdb|1SFC|B Chain B, Neuronal Synaptic Fusion Complex
pdb|1SFC|F Chain F, Neuronal Synaptic Fusion Complex
pdb|1SFC|J Chain J, Neuronal Synaptic Fusion Complex
Length = 83
Score = 81.3 bits (199), Expect = 6e-16, Method: Compositional matrix adjust.
Identities = 40/82 (48%), Positives = 62/82 (75%)
Query: 190 IVTETLEARKALEDVQIRHQELLKLEKSIQELRDLFVEMALLVEQQGDIIDSIEHHVMEA 249
I+ ++ +++AL +++ RH E++KLE SI+EL D+F++MA+LVE QG++ID IE++V A
Sbjct: 2 IIMDSSISKQALSEIETRHSEIIKLENSIRELHDMFMDMAMLVESQGEMIDRIEYNVEHA 61
Query: 250 GEAVETARVQTKKAIVYQKKAR 271
+ VE A TKKA+ YQ KAR
Sbjct: 62 VDYVERAVSDTKKAVKYQSKAR 83
>pdb|3HD7|B Chain B, Helical Extension Of The Neuronal Snare Complex Into The
Membrane, Spacegroup C 1 2 1
pdb|3HD7|F Chain F, Helical Extension Of The Neuronal Snare Complex Into The
Membrane, Spacegroup C 1 2 1
pdb|3IPD|B Chain B, Helical Extension Of The Neuronal Snare Complex Into The
Membrane, Spacegroup I 21 21 21
pdb|3IPD|F Chain F, Helical Extension Of The Neuronal Snare Complex Into The
Membrane, Spacegroup I 21 21 21
Length = 109
Score = 79.7 bits (195), Expect = 2e-15, Method: Compositional matrix adjust.
Identities = 39/75 (52%), Positives = 58/75 (77%)
Query: 197 ARKALEDVQIRHQELLKLEKSIQELRDLFVEMALLVEQQGDIIDSIEHHVMEAGEAVETA 256
+++AL +++ RH E++KLE SI+EL D+F++MA+LVE QG++ID IE++V A + VE A
Sbjct: 9 SKQALSEIETRHSEIIKLENSIRELHDMFMDMAMLVESQGEMIDRIEYNVEHAVDYVERA 68
Query: 257 RVQTKKAIVYQKKAR 271
TKKA+ YQ KAR
Sbjct: 69 VSDTKKAVKYQSKAR 83
>pdb|1HVV|A Chain A, Self-Association Of The H3 Region Of Syntaxin 1a:
Implications For Snare Complex Assembly
pdb|1HVV|B Chain B, Self-Association Of The H3 Region Of Syntaxin 1a:
Implications For Snare Complex Assembly
pdb|1HVV|C Chain C, Self-Association Of The H3 Region Of Syntaxin 1a:
Implications For Snare Complex Assembly
pdb|1HVV|D Chain D, Self-Association Of The H3 Region Of Syntaxin 1a:
Implications For Snare Complex Assembly
Length = 75
Score = 79.0 bits (193), Expect = 3e-15, Method: Compositional matrix adjust.
Identities = 39/73 (53%), Positives = 56/73 (76%)
Query: 199 KALEDVQIRHQELLKLEKSIQELRDLFVEMALLVEQQGDIIDSIEHHVMEAGEAVETARV 258
+AL +++ RH E++KLE SI+EL D+F++MA+LVE QG++ID IE++V A + VE A
Sbjct: 1 QALSEIETRHSEIIKLENSIRELHDMFMDMAMLVESQGEMIDRIEYNVEHAVDYVERAVS 60
Query: 259 QTKKAIVYQKKAR 271
TKKA+ YQ KAR
Sbjct: 61 DTKKAVKYQSKAR 73
>pdb|1JTH|B Chain B, Crystal Structure And Biophysical Properties Of A Complex
Between The N-Terminal Region Of Snap25 And The Snare
Region Of Syntaxin 1a
pdb|1JTH|D Chain D, Crystal Structure And Biophysical Properties Of A Complex
Between The N-Terminal Region Of Snap25 And The Snare
Region Of Syntaxin 1a
Length = 77
Score = 79.0 bits (193), Expect = 3e-15, Method: Compositional matrix adjust.
Identities = 39/72 (54%), Positives = 55/72 (76%)
Query: 200 ALEDVQIRHQELLKLEKSIQELRDLFVEMALLVEQQGDIIDSIEHHVMEAGEAVETARVQ 259
AL +++ RH E++KLE SI+EL D+F++MA+LVE QG++ID IE++V A + VE A
Sbjct: 1 ALSEIETRHSEIIKLENSIRELHDMFMDMAMLVESQGEMIDRIEYNVEHAVDYVERAVSD 60
Query: 260 TKKAIVYQKKAR 271
TKKA+ YQ KAR
Sbjct: 61 TKKAVKYQSKAR 72
>pdb|1URQ|B Chain B, Crystal Structure Of Neuronal Q-Snares In Complex With
R-Snare Motif Of Tomosyn
Length = 75
Score = 74.7 bits (182), Expect = 5e-14, Method: Compositional matrix adjust.
Identities = 36/71 (50%), Positives = 55/71 (77%)
Query: 197 ARKALEDVQIRHQELLKLEKSIQELRDLFVEMALLVEQQGDIIDSIEHHVMEAGEAVETA 256
+++AL +++ RH E++KLE SI+EL D+F++MA+LVE QG++ID IE++V A + VE A
Sbjct: 4 SKQALSEIETRHSEIIKLENSIRELHDMFMDMAMLVESQGEMIDRIEYNVEHAVDYVERA 63
Query: 257 RVQTKKAIVYQ 267
TKKA+ YQ
Sbjct: 64 VSDTKKAVKYQ 74
>pdb|1BR0|A Chain A, Three Dimensional Structure Of The N-Terminal Domain Of
Syntaxin 1a
Length = 120
Score = 74.3 bits (181), Expect = 7e-14, Method: Compositional matrix adjust.
Identities = 49/120 (40%), Positives = 70/120 (58%), Gaps = 3/120 (2%)
Query: 34 YHDCFMDTVEDSRALIANIQEHVKAMRNLHSDLLSSPRQDENMKLELDARTETVKKIAKK 93
+ D F + VE+ R I I E+V+ ++ HS +L+SP DE K EL+ +KK A K
Sbjct: 3 FMDEFFEQVEEIRGFIDKIAENVEEVKRKHSAILASPNPDEKTKEELEELMSDIKKTANK 62
Query: 94 VSNSLKKLERSIKKEEDEIEDGHIPASLRIRKTQQSTTLHLLVEAITEFNQEQLDYKEKC 153
V + LK +E+SI++EE A LRIRKTQ ST VE ++E+N Q DY+E+
Sbjct: 63 VRSKLKSIEQSIEQEEGL---NRSSADLRIRKTQHSTLSRKFVEVMSEYNATQSDYRERS 119
>pdb|1N7S|B Chain B, High Resolution Structure Of A Truncated Neuronal Snare
Complex
Length = 68
Score = 69.3 bits (168), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 34/65 (52%), Positives = 50/65 (76%)
Query: 200 ALEDVQIRHQELLKLEKSIQELRDLFVEMALLVEQQGDIIDSIEHHVMEAGEAVETARVQ 259
AL +++ RH E++KLE SI+EL D+F++MA+LVE QG++ID IE++V A + VE A
Sbjct: 3 ALSEIETRHSEIIKLENSIRELHDMFMDMAMLVESQGEMIDRIEYNVEHAVDYVERAVSD 62
Query: 260 TKKAI 264
TKKA+
Sbjct: 63 TKKAV 67
>pdb|3RK2|B Chain B, Truncated Snare Complex
pdb|3RK2|F Chain F, Truncated Snare Complex
pdb|3RK3|B Chain B, Truncated Snare Complex With Complexin
pdb|3RL0|B Chain B, Truncated Snare Complex With Complexin (P1)
pdb|3RL0|F Chain F, Truncated Snare Complex With Complexin (P1)
pdb|3RL0|J Chain J, Truncated Snare Complex With Complexin (P1)
pdb|3RL0|N Chain N, Truncated Snare Complex With Complexin (P1)
pdb|3RL0|R Chain R, Truncated Snare Complex With Complexin (P1)
pdb|3RL0|V Chain V, Truncated Snare Complex With Complexin (P1)
pdb|3RL0|Z Chain Z, Truncated Snare Complex With Complexin (P1)
pdb|3RL0|DD Chain d, Truncated Snare Complex With Complexin (P1)
Length = 65
Score = 66.6 bits (161), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 33/63 (52%), Positives = 48/63 (76%)
Query: 200 ALEDVQIRHQELLKLEKSIQELRDLFVEMALLVEQQGDIIDSIEHHVMEAGEAVETARVQ 259
AL +++ RH E++KLE SI+EL D+F++MA+LVE QG++ID IE++V A + VE A
Sbjct: 3 ALSEIETRHSEIIKLENSIRELHDMFMDMAMLVESQGEMIDRIEYNVEHAVDYVERAVSD 62
Query: 260 TKK 262
TKK
Sbjct: 63 TKK 65
>pdb|1KIL|B Chain B, Three-Dimensional Structure Of The ComplexinSNARE COMPLEX
Length = 62
Score = 62.4 bits (150), Expect = 3e-10, Method: Compositional matrix adjust.
Identities = 30/58 (51%), Positives = 45/58 (77%)
Query: 199 KALEDVQIRHQELLKLEKSIQELRDLFVEMALLVEQQGDIIDSIEHHVMEAGEAVETA 256
AL +++ RH E++KLE SI+EL D+F++MA+LVE QG++ID IE++V A + VE A
Sbjct: 2 SALSEIETRHSEIIKLENSIRELHDMFMDMAMLVESQGEMIDRIEYNVEHAVDYVERA 59
>pdb|1FIO|A Chain A, Crystal Structure Of Yeast T-Snare Protein Sso1
Length = 196
Score = 53.9 bits (128), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 36/91 (39%), Positives = 57/91 (62%), Gaps = 3/91 (3%)
Query: 148 DYKEKCEERIQRVVSIARAEISDEKLEELLEQGNYASIFNADIVTETL--EARKALEDVQ 205
+YKE+ +E+ +R I + E +++++E + IF+ ++ EA+ AL +VQ
Sbjct: 106 NYKEENKEQAKRQYMIIQPEATEDEVEAAISDVGGQQIFSQALLNANRRGEAKTALAEVQ 165
Query: 206 IRHQELLKLEKSIQELRDLFVEM-ALLVEQQ 235
RHQELLKLEKS+ EL LF +M L++EQQ
Sbjct: 166 ARHQELLKLEKSMAELTQLFNDMEELVIEQQ 196
>pdb|3B5N|B Chain B, Structure Of The Yeast Plasma Membrane Snare Complex
pdb|3B5N|F Chain F, Structure Of The Yeast Plasma Membrane Snare Complex
pdb|3B5N|J Chain J, Structure Of The Yeast Plasma Membrane Snare Complex
Length = 69
Score = 49.7 bits (117), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 35/72 (48%), Positives = 45/72 (62%), Gaps = 3/72 (4%)
Query: 200 ALEDVQIRHQELLKLEKSIQELRDLFVEMALLVEQQGDIIDSIEHHVMEAGEAVETARVQ 259
AL +VQ RHQELLKLEKS+ EL LF +M LV +Q + +D I+ +V +A VE
Sbjct: 1 ALAEVQARHQELLKLEKSMAELTQLFNDMEELVIEQQENVDVIDKNVEDAQLDVEQGVGH 60
Query: 260 TKKAIVYQKKAR 271
T KA+ K AR
Sbjct: 61 TDKAV---KSAR 69
>pdb|2NPS|B Chain B, Crystal Structure Of The Early Endosomal Snare Complex
Length = 71
Score = 47.0 bits (110), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 25/66 (37%), Positives = 42/66 (63%)
Query: 206 IRHQELLKLEKSIQELRDLFVEMALLVEQQGDIIDSIEHHVMEAGEAVETARVQTKKAIV 265
+R + +LE I ++ +F ++A+++ QGD+IDSIE +V + VE A Q ++A
Sbjct: 3 MRETAIQQLEADILDVNQIFKDLAMMIHDQGDLIDSIEANVESSEVHVERASDQLQRAAY 62
Query: 266 YQKKAR 271
YQKK+R
Sbjct: 63 YQKKSR 68
>pdb|1GL2|B Chain B, Crystal Structure Of An Endosomal Snare Core Complex
Length = 65
Score = 38.5 bits (88), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 19/57 (33%), Positives = 35/57 (61%)
Query: 207 RHQELLKLEKSIQELRDLFVEMALLVEQQGDIIDSIEHHVMEAGEAVETARVQTKKA 263
R + +LE I ++ ++F ++ +++ +QGD+IDSIE +V A V+ A Q +A
Sbjct: 7 RESSIRQLEADIMDINEIFKDLGMMIHEQGDVIDSIEANVESAEVHVQQANQQLSRA 63
>pdb|3LG7|A Chain A, Crystal Structure Of Hiv Epitope-Scaffold
4e10_s0_1ez3a_002_c
pdb|3LG7|B Chain B, Crystal Structure Of Hiv Epitope-Scaffold
4e10_s0_1ez3a_002_c
pdb|3LG7|C Chain C, Crystal Structure Of Hiv Epitope-Scaffold
4e10_s0_1ez3a_002_c
Length = 133
Score = 35.8 bits (81), Expect = 0.029, Method: Compositional matrix adjust.
Identities = 35/123 (28%), Positives = 56/123 (45%), Gaps = 3/123 (2%)
Query: 34 YHDCFMDTVEDSRALIANIQEHVKAMRNLHSDLLSSPRQDENMKLELDARTETVKKIAKK 93
+ D F VE+ R I I E+V+ + H +L+SP + +L +K+ A +
Sbjct: 5 FMDEFFKQVEEIRQYIDRIAENVEEVARQHQAILASPNPNWFDISQLLWLMADIKETANE 64
Query: 94 VSNSLKKLERSIKKEEDEIEDGHIPASLRIRKTQQSTTLHLLVEAITEFNQEQLDYKEKC 153
V KKL+ + E E A L+IRK Q E + E+N Q DY+++
Sbjct: 65 VR---KKLKEIEQSIEQEEGKNKSSADLKIRKRQHEELERKFREVMKEYNATQQDYRKRA 121
Query: 154 EER 156
+R
Sbjct: 122 RKR 124
>pdb|2GDJ|A Chain A, Delta-62 Rada Recombinase In Complex With Amp-Pnp And
Magnesium
Length = 264
Score = 29.6 bits (65), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 25/82 (30%), Positives = 41/82 (50%), Gaps = 13/82 (15%)
Query: 163 IARAEISD------EKLEELLEQGNYASIFNADIVTETLE----ARKALEDVQIRHQELL 212
+ARA SD EK+E+L+++GN + D +T T R L + R Q+L
Sbjct: 121 VARAYNSDMQMLFAEKIEDLIQEGNNIKLVVIDSLTSTFRNEYTGRGKLAE---RQQKLG 177
Query: 213 KLEKSIQELRDLFVEMALLVEQ 234
+ ++ +L DLF + L+ Q
Sbjct: 178 RHMATLNKLADLFNCVVLVTNQ 199
>pdb|4DC9|A Chain A, Hexameric Ring Of Methanococcus Voltae Rada
pdb|4DC9|B Chain B, Hexameric Ring Of Methanococcus Voltae Rada
pdb|4DC9|C Chain C, Hexameric Ring Of Methanococcus Voltae Rada
pdb|4DC9|D Chain D, Hexameric Ring Of Methanococcus Voltae Rada
pdb|4DC9|E Chain E, Hexameric Ring Of Methanococcus Voltae Rada
pdb|4DC9|F Chain F, Hexameric Ring Of Methanococcus Voltae Rada
Length = 266
Score = 29.3 bits (64), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 25/82 (30%), Positives = 41/82 (50%), Gaps = 13/82 (15%)
Query: 163 IARAEISD------EKLEELLEQGNYASIFNADIVTETLE----ARKALEDVQIRHQELL 212
+ARA SD EK+E+L+++GN + D +T T R L + R Q+L
Sbjct: 123 VARAYNSDMQMLFAEKIEDLIQEGNNIKLVVIDSLTSTFRNEYTGRGKLAE---RQQKLG 179
Query: 213 KLEKSIQELRDLFVEMALLVEQ 234
+ ++ +L DLF + L+ Q
Sbjct: 180 RHMATLNKLADLFNCVVLVTNQ 201
>pdb|2F1H|A Chain A, Recombinase In Complex With Amp-pnp And Potassium
pdb|2F1I|A Chain A, Recombinase In Complex With Amp-pnp
pdb|2F1J|A Chain A, Recombinase In Complex With Adp
Length = 322
Score = 29.3 bits (64), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 25/82 (30%), Positives = 41/82 (50%), Gaps = 13/82 (15%)
Query: 163 IARAEISD------EKLEELLEQGNYASIFNADIVTETLE----ARKALEDVQIRHQELL 212
+ARA SD EK+E+L+++GN + D +T T R L + R Q+L
Sbjct: 179 VARAYNSDMQMLFAEKIEDLIQEGNNIKLVVIDSLTSTFRNEYTGRGKLAE---RQQKLG 235
Query: 213 KLEKSIQELRDLFVEMALLVEQ 234
+ ++ +L DLF + L+ Q
Sbjct: 236 RHMATLNKLADLFNCVVLVTNQ 257
>pdb|1T4G|A Chain A, Atpase In Complex With Amp-pnp
pdb|1XU4|A Chain A, Atpase In Complex With Amp-Pnp, Magnesium And Potassium
Co-F
pdb|2FPK|A Chain A, Rada Recombinase In Complex With Adp
pdb|2FPL|A Chain A, Rada Recombinase In Complex With Amp-Pnp And Low
Concentration Of K+
pdb|2FPM|A Chain A, Rada Recombinase In Complex With Amp-Pnp And High
Concentration Of K+
pdb|2B21|A Chain A, Rada Recombinase In Complex With Amppnp At Ph 6.0
pdb|2I1Q|A Chain A, Rada Recombinase In Complex With Calcium
pdb|3FYH|A Chain A, Recombinase In Complex With Adp And Metatungstate
Length = 322
Score = 29.3 bits (64), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 25/82 (30%), Positives = 41/82 (50%), Gaps = 13/82 (15%)
Query: 163 IARAEISD------EKLEELLEQGNYASIFNADIVTETLE----ARKALEDVQIRHQELL 212
+ARA SD EK+E+L+++GN + D +T T R L + R Q+L
Sbjct: 179 VARAYNSDMQMLFAEKIEDLIQEGNNIKLVVIDSLTSTFRNEYTGRGKLAE---RQQKLG 235
Query: 213 KLEKSIQELRDLFVEMALLVEQ 234
+ ++ +L DLF + L+ Q
Sbjct: 236 RHMATLNKLADLFNCVVLVTNQ 257
>pdb|3NTU|A Chain A, Rada Recombinase D302k Mutant In Complex With Amp-Pnp
Length = 319
Score = 29.3 bits (64), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 25/82 (30%), Positives = 41/82 (50%), Gaps = 13/82 (15%)
Query: 163 IARAEISD------EKLEELLEQGNYASIFNADIVTETLE----ARKALEDVQIRHQELL 212
+ARA SD EK+E+L+++GN + D +T T R L + R Q+L
Sbjct: 176 VARAYNSDMQMLFAEKIEDLIQEGNNIKLVVIDSLTSTFRNEYTGRGKLAE---RQQKLG 232
Query: 213 KLEKSIQELRDLFVEMALLVEQ 234
+ ++ +L DLF + L+ Q
Sbjct: 233 RHMATLNKLADLFNCVVLVTNQ 254
>pdb|3QQ5|A Chain A, Crystal Structure Of The [fefe]-Hydrogenase Maturation
Protein Hydf
Length = 423
Score = 28.9 bits (63), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 21/71 (29%), Positives = 36/71 (50%), Gaps = 2/71 (2%)
Query: 154 EERIQRVVSIARAEISDEKLEELLEQGNYASIFNADIVTETLEARKALEDVQIRHQELLK 213
E I VV + + ++ EK EEL +G Y S + A ++ + +K +D+ E+L
Sbjct: 138 EMEIPFVVVVNKIDVLGEKAEEL--KGLYESRYEAKVLLVSALQKKGFDDIGKTISEILP 195
Query: 214 LEKSIQELRDL 224
++ I L DL
Sbjct: 196 GDEEIPYLGDL 206
>pdb|3LWJ|A Chain A, Crystal Structure Of Putative Tetr-family Transcriptional
Regulator (yp_752756.1) From Syntrophomonas Wolfei Str.
Goettingen At 2.07 A Resolution
Length = 202
Score = 28.5 bits (62), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 21/90 (23%), Positives = 48/90 (53%), Gaps = 9/90 (10%)
Query: 28 TITYSEYH----DCFMDTVED-SRALIANIQEHVKAMRNLHSDLLSSPRQDENMKLELDA 82
T T+ Y D + +ED ++ +I++I E+ ++L+ + + R + E+ A
Sbjct: 46 TGTFYNYFVDKEDILKNLLEDFAKQIISSISEYYLVEKDLYERFIETKR----LTXEVFA 101
Query: 83 RTETVKKIAKKVSNSLKKLERSIKKEEDEI 112
+ ET+ +I +V+ S +++ +K+ ED +
Sbjct: 102 QNETLSEIYSRVAGSSAPIDQCLKQFEDRL 131
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 0.130 0.346
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,894,682
Number of Sequences: 62578
Number of extensions: 247783
Number of successful extensions: 1193
Number of sequences better than 100.0: 98
Number of HSP's better than 100.0 without gapping: 31
Number of HSP's successfully gapped in prelim test: 67
Number of HSP's that attempted gapping in prelim test: 1133
Number of HSP's gapped (non-prelim): 118
length of query: 273
length of database: 14,973,337
effective HSP length: 97
effective length of query: 176
effective length of database: 8,903,271
effective search space: 1566975696
effective search space used: 1566975696
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: 51 (24.3 bits)