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= psy3959
(431 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3DZX|A Chain A, Crystal Structure Of The Rabgap Domain Of Human Tbc1d22b
Length = 346
Score = 422 bits (1085), Expect = e-118, Method: Compositional matrix adjust.
Identities = 194/301 (64%), Positives = 244/301 (81%), Gaps = 2/301 (0%)
Query: 123 RSLAWSGIPNQVRPDAWRLLAGYLPTSSERRQQVLERKRTEYWVFVKQYYDTDRDETYQD 182
R +W G+P +VRP WRLL+GYLP ++ERR+ L+RKR EY+ F++QYYD+ +E +QD
Sbjct: 45 RKCSWPGVPREVRPITWRLLSGYLPANTERRKLTLQRKREEYFGFIEQYYDSRNEEHHQD 104
Query: 183 IYRQIHIDIPRMSPLMMLFQQKLVQEMFERILFIWAIRHPASGYVQGINDLVTPFFVVFL 242
YRQIHIDIPR +PL+ LFQQ LVQE+FERILFIWAIRHPASGYVQGINDLVTPFFVVFL
Sbjct: 105 TYRQIHIDIPRTNPLIPLFQQPLVQEIFERILFIWAIRHPASGYVQGINDLVTPFFVVFL 164
Query: 243 QEFLPVGTDLEQLDLSTLPKEQRDIIEADSFCCLSKFLDGIQDNYIFAQLGIQQKVNQLK 302
E+ V D+E D++ L ++ IEADSF C+SK LDGIQDNY FAQ GIQ+KV L+
Sbjct: 165 SEY--VEEDVENFDVTNLSQDMLRSIEADSFWCMSKLLDGIQDNYTFAQPGIQKKVKALE 222
Query: 303 DLIQRIDTNLHNHLLKHGVDYLQFSFRWMNNLLTREVPLRCSIRLWDTYLAESDDFAAFQ 362
+L+ RID +HNH ++ V+YLQF+FRWMNNLL RE+PLRC+IRLWDTY +E + F+ F
Sbjct: 223 ELVSRIDEQVHNHFRRYEVEYLQFAFRWMNNLLMRELPLRCTIRLWDTYQSEPEGFSHFH 282
Query: 363 LYVCAAFLLHWRQKLLRERDFQGLMLMLQNLPTSNWSDHDIGVLVAEAYRLKVAFADAPN 422
LYVCAAFL+ WR+++L E DFQGL+++LQNLPT +W + +IG+L+AEAYRLK FADAPN
Sbjct: 283 LYVCAAFLIKWRKEILDEEDFQGLLMLLQNLPTIHWGNEEIGLLLAEAYRLKYMFADAPN 342
Query: 423 H 423
H
Sbjct: 343 H 343
>pdb|2QFZ|A Chain A, Crystal Structure Of Human Tbc1 Domain Family Member 22a
pdb|2QFZ|B Chain B, Crystal Structure Of Human Tbc1 Domain Family Member 22a
Length = 345
Score = 409 bits (1052), Expect = e-114, Method: Compositional matrix adjust.
Identities = 192/301 (63%), Positives = 238/301 (79%), Gaps = 2/301 (0%)
Query: 123 RSLAWSGIPNQVRPDAWRLLAGYLPTSSERRQQVLERKRTEYWVFVKQYYDTDRDETYQD 182
R L+WSGIP VRP W+LL+GYLP + +RR L+RK+ EY+ F++ YYD+ DE +QD
Sbjct: 44 RRLSWSGIPKPVRPMTWKLLSGYLPANVDRRPATLQRKQKEYFAFIEHYYDSRNDEVHQD 103
Query: 183 IYRQIHIDIPRMSPLMMLFQQKLVQEMFERILFIWAIRHPASGYVQGINDLVTPFFVVFL 242
YRQIHIDIPRMSP ++ Q K V E+FERILFIWAIRHPASGYVQGINDLVTPFFVVF+
Sbjct: 104 TYRQIHIDIPRMSPEALILQPK-VTEIFERILFIWAIRHPASGYVQGINDLVTPFFVVFI 162
Query: 243 QEFLPVGTDLEQLDLSTLPKEQRDIIEADSFCCLSKFLDGIQDNYIFAQLGIQQKVNQLK 302
E++ +++ +D+S +P E IEAD++ C+SK LDGIQDNY FAQ GIQ KV L+
Sbjct: 163 CEYIE-AEEVDTVDVSGVPAEVLCNIEADTYWCMSKLLDGIQDNYTFAQPGIQMKVKMLE 221
Query: 303 DLIQRIDTNLHNHLLKHGVDYLQFSFRWMNNLLTREVPLRCSIRLWDTYLAESDDFAAFQ 362
+L+ RID +H HL +H V YLQF+FRWMNNLL REVPLRC+IRLWDTY +E D F+ F
Sbjct: 222 ELVSRIDEQVHRHLDQHEVRYLQFAFRWMNNLLMREVPLRCTIRLWDTYQSEPDGFSHFH 281
Query: 363 LYVCAAFLLHWRQKLLRERDFQGLMLMLQNLPTSNWSDHDIGVLVAEAYRLKVAFADAPN 422
LYVCAAFL+ WR+++L E+DFQ L+L LQNLPT++W D DI +L+AEAYRLK AFADAPN
Sbjct: 282 LYVCAAFLVRWRKEILEEKDFQELLLFLQNLPTAHWDDEDISLLLAEAYRLKFAFADAPN 341
Query: 423 H 423
H
Sbjct: 342 H 342
>pdb|2G77|A Chain A, Crystal Structure Of Gyp1 Tbc Domain In Complex With Rab33
Gtpase Bound To Gdp And Alf3
Length = 410
Score = 253 bits (645), Expect = 2e-67, Method: Compositional matrix adjust.
Identities = 145/366 (39%), Positives = 206/366 (56%), Gaps = 69/366 (18%)
Query: 123 RSLAWSGIPNQVRPDAWRLLAGYLPTSSERRQQVLERKRTEYWVFVKQYYDTDRDETYQD 182
R ++W+GIP RP W+LL GYLP +++R++ L+RKR EY +K + D+ +D
Sbjct: 47 RQISWNGIPKIHRPVVWKLLIGYLPVNTKRQEGFLQRKRKEYRDSLKHTFS---DQHSRD 103
Query: 183 I--YRQIHIDIPRMSPLMMLFQQKLVQEMFERILFIWAIRHPASGYVQGINDLVTPFFVV 240
I + QI IDIPR +P + L+Q K VQ +RIL++WAIRHPASGYVQGINDLVTPFF
Sbjct: 104 IPTWHQIEIDIPRTNPHIPLYQFKSVQNSLQRILYLWAIRHPASGYVQGINDLVTPFFET 163
Query: 241 FLQEFLPVGT--DLEQLDLST-LPKEQRDIIEADSFCCLSKFLDGIQDNYIFAQLGIQQK 297
FL E+LP D++ D ST + EQ +EAD+F CL+K L+ I DNYI Q GI ++
Sbjct: 164 FLTEYLPPSQIDDVKIKDPSTYMVDEQITDLEADTFWCLTKLLEQITDNYIHGQPGILRQ 223
Query: 298 VNQLKDLIQRIDTNLHNHLLKHGVDYLQFSFRWMNNLLTREVPLRCSIRLWDT------- 350
V L L++RID +L+NH V+++QF+FRWMN LL RE + IR+WDT
Sbjct: 224 VKNLSQLVKRIDADLYNHFQNEHVEFIQFAFRWMNCLLMREFQMGTVIRMWDTYLSETSQ 283
Query: 351 --------------------------YLAESDDFAA------------------------ 360
++ + DF +
Sbjct: 284 EVTSSYSMSSNDIKPPVTPTEPRVASFVTPTKDFQSPTTALSNMTPNNAVEDSGKMRQSS 343
Query: 361 ---FQLYVCAAFLLHWRQKLLRERDFQGLMLMLQNLPTSNWSDHDIGVLVAEAYRLKVAF 417
F ++VCAAFL+ W +L+ E DFQ + LQN PT +W++ DI +L++EA+ + +
Sbjct: 344 LNEFHVFVCAAFLIKWSDQLM-EMDFQETITFLQNPPTKDWTETDIEMLLSEAFIWQSLY 402
Query: 418 ADAPNH 423
DA +H
Sbjct: 403 KDATSH 408
>pdb|1FKM|A Chain A, Crystal Structure Of The YptRAB-Gap Domain Of Gyp1p
Length = 396
Score = 246 bits (627), Expect = 2e-65, Method: Compositional matrix adjust.
Identities = 144/366 (39%), Positives = 200/366 (54%), Gaps = 69/366 (18%)
Query: 123 RSLAWSGIPNQVRPDAWRLLAGYLPTSSERRQQVLERKRTEYWVFVKQYYDTDRDETYQD 182
R ++W+GIP RP W+LL GYLP +++R++ L+RKR EY +K + D+ +D
Sbjct: 27 RQISWNGIPKIHRPVVWKLLIGYLPVNTKRQEGFLQRKRKEYRDSLKHTFS---DQHSRD 83
Query: 183 I--YRQIHIDIPRMSPLMMLFQQKLVQEMFERILFIWAIRHPASGYVQGINDLVTPFFVV 240
I + QI IDIPR +P + L+Q K VQ +RIL++WAIRHPASGYVQGINDLVTPFF
Sbjct: 84 IPTWHQIEIDIPRTNPHIPLYQFKSVQNSLQRILYLWAIRHPASGYVQGINDLVTPFFET 143
Query: 241 FLQEFLPVGT--DLEQLDLSTLP-KEQRDIIEADSFCCLSKFLDGIQDNYIFAQLGIQQK 297
FL E+LP D+E D ST EQ +EAD+F CL+K L+ I DNYI Q GI ++
Sbjct: 144 FLTEYLPPSQIDDVEIKDPSTYXVDEQITDLEADTFWCLTKLLEQITDNYIHGQPGILRQ 203
Query: 298 VNQLKDLIQRIDTNLHNHLLKHGVDYLQFSFRWMNNLLTREVPLRCSIRLWD-------- 349
V L L++RID +L+NH V+++QF+FRW N LL RE IR WD
Sbjct: 204 VKNLSQLVKRIDADLYNHFQNEHVEFIQFAFRWXNCLLXREFQXGTVIRXWDTYLSETSQ 263
Query: 350 -------------------------TYLAESDDFAA------------------------ 360
+++ + DF +
Sbjct: 264 EVTSSYSXSSNDIKPPVTPTEPRVASFVTPTKDFQSPTTALSNXTPNNAVEDSGKXRQSS 323
Query: 361 ---FQLYVCAAFLLHWRQKLLRERDFQGLMLMLQNLPTSNWSDHDIGVLVAEAYRLKVAF 417
F ++VCAAFL+ W +L E DFQ + LQN PT +W++ DI L++EA+ + +
Sbjct: 324 LNEFHVFVCAAFLIKWSDQL-XEXDFQETITFLQNPPTKDWTETDIEXLLSEAFIWQSLY 382
Query: 418 ADAPNH 423
DA +H
Sbjct: 383 KDATSH 388
>pdb|2QQ8|A Chain A, Crystal Structure Of The Putative Rabgap Domain Of Human
Tbc1 Domain Family Member 14
Length = 334
Score = 51.6 bits (122), Expect = 9e-07, Method: Compositional matrix adjust.
Identities = 64/282 (22%), Positives = 105/282 (37%), Gaps = 40/282 (14%)
Query: 123 RSLAWSGIPNQVRPDAWRLLAG-YLPTSSERRQQVLERKRTEYWVFVKQYYDTD-RDETY 180
R L W GIP VR W L G L + E L R + + + + D +
Sbjct: 42 RDLWWQGIPPSVRGKVWSLAIGNELNITHELFDICLARAKERWRSLSTGGSEVENEDAGF 101
Query: 181 QDIYRQ-----IHIDIPRMSPLMMLFQQ-KLVQEMFERILFIWAIRHPASGYVQGINDLV 234
R+ I +DI R P + +FQQ +M IL + P GYVQG++
Sbjct: 102 SAADREASLELIKLDISRTFPNLCIFQQGGPYHDMLHSILGAYTCYRPDVGYVQGMS--- 158
Query: 235 TPFFVVFLQEFLPVGTDLEQLDLSTLPKEQRDIIEADSFCCLSKFLDG-IQDNYIFAQLG 293
F+ L + D AD+F S L+ Q + G
Sbjct: 159 ------FIAAVLILNLD-----------------TADAFIAFSNLLNKPCQMAFFRVDHG 195
Query: 294 IQ-QKVNQLKDLIQRIDTNLHNHLLKHGVDYLQFSFRWMNNLLTREVPLRCSIRLWDTYL 352
+ + + L H K+ + + W+ L ++ +PL + R+WD +
Sbjct: 196 LMLTYFAAFEVFFEENLPKLFAHFKKNNLTPDIYLIDWIFTLYSKSLPLDLACRIWDVFC 255
Query: 353 AESDDFAAFQLYVCAAFLLHWRQKLLRERDFQGLMLMLQNLP 394
+ ++F L+ A +L + +L + DF + L LP
Sbjct: 256 RDGEEF----LFRTALGILKLFEDILTKMDFIHMAQFLTRLP 293
>pdb|3HZJ|A Chain A, Crystal Structure Of The Rabgap Domain Of The Rabgap1l
Protein
pdb|3HZJ|B Chain B, Crystal Structure Of The Rabgap Domain Of The Rabgap1l
Protein
pdb|3HZJ|C Chain C, Crystal Structure Of The Rabgap Domain Of The Rabgap1l
Protein
Length = 310
Score = 45.1 bits (105), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 71/297 (23%), Positives = 118/297 (39%), Gaps = 53/297 (17%)
Query: 124 SLAWSGIPNQVRPDAWRLLAGYLPTSSERRQQVLERKRTEYWVFVKQYYDTDRDETYQDI 183
+L SG+P +R + W+LLAG Q L+R Y + + +D + +
Sbjct: 28 TLVKSGVPEALRAEVWQLLAG-----CHDNQAXLDR----YRILIT------KDSAQESV 72
Query: 184 YRQIHIDIPRMSPLMMLFQQKL--VQEMFERILFIWAIRHPASGYVQGINDLVTPFFVVF 241
I DI R P F+ QE +I +++ GY QG
Sbjct: 73 ---ITRDIHRTFPAHDYFKDTGGDGQESLYKICKAYSVYDEDIGYCQG------------ 117
Query: 242 LQEFLPVGTDLEQLDLSTLPKEQRDIIEADSFCCLSK--FLDGIQDNYIFAQLGIQQKVN 299
Q FL + L P+EQ +FC L K + G++D Y + K
Sbjct: 118 -QSFLAA------VLLLHXPEEQ-------AFCVLVKIXYDYGLRDLYRNNFEDLHCKFY 163
Query: 300 QLKDLIQRIDTNLHNHLLKHGVDYLQFSFRWMNNLLTREVPLRCSIRLWDTYLAESDDFA 359
QL+ L Q +LH+H ++ ++ +W L T + PL + D L E +
Sbjct: 164 QLERLXQEQLPDLHSHFSDLNLEAHXYASQWFLTLFTAKFPLCXVFHIIDLLLCEGLNI- 222
Query: 360 AFQLYVCAAFLLHWRQKLLRERDFQGLMLMLQ-NLPTSNWSDHDIGVLVAEAYRLKV 415
++ A LL ++ L + DF+G + + LP ++ + L +A +KV
Sbjct: 223 ---IFHVALALLKTSKEDLLQADFEGALKFFRVQLPKRYRAEENARRLXEQACNIKV 276
>pdb|4HLQ|A Chain A, Crystal Structure Of Human Rab1b Bound To Gdp And Bef3 In
Complex With The Gap Domain Of Tbc1d20 From Homo Sapiens
pdb|4HLQ|C Chain C, Crystal Structure Of Human Rab1b Bound To Gdp And Bef3 In
Complex With The Gap Domain Of Tbc1d20 From Homo Sapiens
pdb|4HLQ|E Chain E, Crystal Structure Of Human Rab1b Bound To Gdp And Bef3 In
Complex With The Gap Domain Of Tbc1d20 From Homo Sapiens
pdb|4HLQ|G Chain G, Crystal Structure Of Human Rab1b Bound To Gdp And Bef3 In
Complex With The Gap Domain Of Tbc1d20 From Homo Sapiens
pdb|4HLQ|I Chain I, Crystal Structure Of Human Rab1b Bound To Gdp And Bef3 In
Complex With The Gap Domain Of Tbc1d20 From Homo Sapiens
Length = 305
Score = 37.0 bits (84), Expect = 0.020, Method: Compositional matrix adjust.
Identities = 50/202 (24%), Positives = 86/202 (42%), Gaps = 34/202 (16%)
Query: 180 YQDIYRQIHIDIPRMSPLMMLFQQKLVQEMFERILFIWAIRHPASGYVQGINDLVTPFFV 239
YQ + + + R P M Q++ +QE I+ + R+P Y QG +D+V F +
Sbjct: 96 YQQVLLDVRRSLRRFPPGMPEEQREGLQEELIDIILLILERNPQLHYYQGYHDIVVTFLL 155
Query: 240 VFLQEFLPVGTDLEQLDLSTLPKEQRDIIEADSFCCLSKFLDGIQDNYIFAQLGIQQKVN 299
V VG E+L S ++E S L F+D DN + +N
Sbjct: 156 V-------VG---ERLATS--------LVEKLSTHHLRDFMDPTMDN-------TKHILN 190
Query: 300 QLKDLIQRIDTNLHNHLLKHGVDY---LQFSFRWMNNLLTREVPLRCSIRLWDTYLAESD 356
L +I +++ LH+ + V L + W ++L+ R +RL+D +LA
Sbjct: 191 YLMPIIDQVNPELHDFMQSAEVGTIFALSWLITWFGHVLSD---FRHVVRLYDFFLACH- 246
Query: 357 DFAAFQLYVCAAFLLHWRQKLL 378
+Y A +L+ Q++L
Sbjct: 247 --PLMPIYFAAVIVLYREQEVL 266
>pdb|4HL4|A Chain A, Crystal Structure Of The Human Tbc1d20 Rabgap Domain
Length = 292
Score = 36.6 bits (83), Expect = 0.024, Method: Compositional matrix adjust.
Identities = 53/219 (24%), Positives = 93/219 (42%), Gaps = 35/219 (15%)
Query: 180 YQDIYRQIHIDIPRMSPLMMLFQQKLVQEMFERILFIWAIRHPASGYVQGINDLVTPFFV 239
YQ + + + R P M Q++ +QE I+ + R+P Y QG +D+V F +
Sbjct: 83 YQQVLLDVRRSLRRFPPGMPEEQREGLQEELIDIILLILERNPQLHYYQGYHDIVVTFLL 142
Query: 240 VFLQEFLPVGTDLEQLDLSTLPKEQRDIIEADSFCCLSKFLDGIQDNYIFAQLGIQQKVN 299
V VG E+L S ++E S L F+D DN + +N
Sbjct: 143 V-------VG---ERLATS--------LVEKLSTHHLRDFMDPTMDN-------TKHILN 177
Query: 300 QLKDLIQRIDTNLHNHLLKHGVDY---LQFSFRWMNNLLTREVPLRCSIRLWDTYLAESD 356
L +I +++ LH+ + V L + W ++L+ R +RL+D +LA
Sbjct: 178 YLMPIIDQVNPELHDFMQSAEVGTIFALSWLITWFGHVLSD---FRHVVRLYDFFLACH- 233
Query: 357 DFAAFQLYVCAAFLLHWRQKLLR-ERDFQGLMLMLQNLP 394
+Y A +L+ Q++L + D + +L +P
Sbjct: 234 --PLMPIYFAAVIVLYREQEVLDCDCDMASVHHLLSQIP 270
>pdb|2GSH|A Chain A, Crystal Structure Of L-Rhamnonate Dehydratase From
Salmonella Typhimurium
pdb|2GSH|B Chain B, Crystal Structure Of L-Rhamnonate Dehydratase From
Salmonella Typhimurium
Length = 414
Score = 30.8 bits (68), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 13/58 (22%), Positives = 28/58 (48%), Gaps = 3/58 (5%)
Query: 342 RCSIRLW---DTYLAESDDFAAFQLYVCAAFLLHWRQKLLRERDFQGLMLMLQNLPTS 396
+C W D ++++ ++A + CA F L W ++ L + ++G + +N P
Sbjct: 217 KCGPDFWLMLDCWMSQDVNYATKLAHACAPFNLKWIEECLPPQQYEGYRELKRNAPAG 274
>pdb|3D46|A Chain A, Crystal Structure Of L-Rhamnonate Dehydratase From
Salmonella Typhimurium Complexed With Mg And L-Tartrate
pdb|3D46|B Chain B, Crystal Structure Of L-Rhamnonate Dehydratase From
Salmonella Typhimurium Complexed With Mg And L-Tartrate
pdb|3D46|C Chain C, Crystal Structure Of L-Rhamnonate Dehydratase From
Salmonella Typhimurium Complexed With Mg And L-Tartrate
pdb|3D46|D Chain D, Crystal Structure Of L-Rhamnonate Dehydratase From
Salmonella Typhimurium Complexed With Mg And L-Tartrate
pdb|3D46|E Chain E, Crystal Structure Of L-Rhamnonate Dehydratase From
Salmonella Typhimurium Complexed With Mg And L-Tartrate
pdb|3D46|F Chain F, Crystal Structure Of L-Rhamnonate Dehydratase From
Salmonella Typhimurium Complexed With Mg And L-Tartrate
pdb|3D46|G Chain G, Crystal Structure Of L-Rhamnonate Dehydratase From
Salmonella Typhimurium Complexed With Mg And L-Tartrate
pdb|3D46|H Chain H, Crystal Structure Of L-Rhamnonate Dehydratase From
Salmonella Typhimurium Complexed With Mg And L-Tartrate
pdb|3D47|A Chain A, Crystal Structure Of L-Rhamnonate Dehydratase From
Salmonella Typhimurium Complexed With Mg And D-Malate
pdb|3D47|B Chain B, Crystal Structure Of L-Rhamnonate Dehydratase From
Salmonella Typhimurium Complexed With Mg And D-Malate
pdb|3D47|C Chain C, Crystal Structure Of L-Rhamnonate Dehydratase From
Salmonella Typhimurium Complexed With Mg And D-Malate
pdb|3D47|D Chain D, Crystal Structure Of L-Rhamnonate Dehydratase From
Salmonella Typhimurium Complexed With Mg And D-Malate
pdb|3D47|E Chain E, Crystal Structure Of L-Rhamnonate Dehydratase From
Salmonella Typhimurium Complexed With Mg And D-Malate
pdb|3D47|F Chain F, Crystal Structure Of L-Rhamnonate Dehydratase From
Salmonella Typhimurium Complexed With Mg And D-Malate
pdb|3D47|G Chain G, Crystal Structure Of L-Rhamnonate Dehydratase From
Salmonella Typhimurium Complexed With Mg And D-Malate
pdb|3D47|H Chain H, Crystal Structure Of L-Rhamnonate Dehydratase From
Salmonella Typhimurium Complexed With Mg And D-Malate
Length = 405
Score = 30.4 bits (67), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 13/58 (22%), Positives = 28/58 (48%), Gaps = 3/58 (5%)
Query: 342 RCSIRLW---DTYLAESDDFAAFQLYVCAAFLLHWRQKLLRERDFQGLMLMLQNLPTS 396
+C W D ++++ ++A + CA F L W ++ L + ++G + +N P
Sbjct: 216 KCGPDFWLMLDCWMSQDVNYATKLAHACAPFNLKWIEECLPPQQYEGYRELKRNAPAG 273
>pdb|2P3Z|A Chain A, Crystal Structure Of L-Rhamnonate Dehydratase From
Salmonella Typhimurium
pdb|2P3Z|B Chain B, Crystal Structure Of L-Rhamnonate Dehydratase From
Salmonella Typhimurium
pdb|3BOX|A Chain A, Crystal Structure Of L-Rhamnonate Dehydratase From
Salmonella Typhimurium Complexed With Mg
pdb|3BOX|B Chain B, Crystal Structure Of L-Rhamnonate Dehydratase From
Salmonella Typhimurium Complexed With Mg
pdb|3CXO|A Chain A, Crystal Structure Of L-Rhamnonate Dehydratase From
Salmonella Typhimurium Complexed With Mg And 3-Deoxy-L-
Rhamnonate
pdb|3CXO|B Chain B, Crystal Structure Of L-Rhamnonate Dehydratase From
Salmonella Typhimurium Complexed With Mg And 3-Deoxy-L-
Rhamnonate
Length = 415
Score = 30.4 bits (67), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 13/58 (22%), Positives = 28/58 (48%), Gaps = 3/58 (5%)
Query: 342 RCSIRLW---DTYLAESDDFAAFQLYVCAAFLLHWRQKLLRERDFQGLMLMLQNLPTS 396
+C W D ++++ ++A + CA F L W ++ L + ++G + +N P
Sbjct: 218 KCGPDFWLMLDCWMSQDVNYATKLAHACAPFNLKWIEECLPPQQYEGYRELKRNAPAG 275
>pdb|2JTD|A Chain A, Skelemin Immunoglobulin C2 Like Domain 4
Length = 142
Score = 29.3 bits (64), Expect = 4.5, Method: Composition-based stats.
Identities = 17/70 (24%), Positives = 36/70 (51%), Gaps = 9/70 (12%)
Query: 146 LPTSSERRQQVLERKRTEYWVFVKQY-------YDTDRDETYQDIYRQIHIDIPRMSPLM 198
+PT SE ++LE+ + +W+ ++ Y + E ++ ++HID R + ++
Sbjct: 39 VPTKSELAVEILEKGQVRFWMQAEKLSSNAKVSYIFNEKEIFEGPKYKMHID--RNTGII 96
Query: 199 MLFQQKLVQE 208
+F +KL E
Sbjct: 97 EMFMEKLQDE 106
>pdb|2I5Q|A Chain A, Crystal Structure Of Apo L-Rhamnonate Dehydratase From
Escherichia Coli
pdb|2I5Q|B Chain B, Crystal Structure Of Apo L-Rhamnonate Dehydratase From
Escherichia Coli
Length = 415
Score = 28.9 bits (63), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 12/58 (20%), Positives = 28/58 (48%), Gaps = 3/58 (5%)
Query: 342 RCSIRLW---DTYLAESDDFAAFQLYVCAAFLLHWRQKLLRERDFQGLMLMLQNLPTS 396
+C W D ++++ ++A + CA + L W ++ L + ++G + +N P
Sbjct: 218 KCGEDFWLMLDCWMSQDVNYATKLAHACAPYNLKWIEECLPPQQYEGYRELKRNAPVG 275
>pdb|1EF1|A Chain A, Crystal Structure Of The Moesin Ferm DomainTAIL DOMAIN
COMPLEX
pdb|1EF1|B Chain B, Crystal Structure Of The Moesin Ferm DomainTAIL DOMAIN
COMPLEX
Length = 294
Score = 28.5 bits (62), Expect = 7.1, Method: Compositional matrix adjust.
Identities = 18/64 (28%), Positives = 33/64 (51%), Gaps = 10/64 (15%)
Query: 163 EYWVFVKQYYDTDRDETYQDIYRQIHI-DIPRMSPLMMLFQQK---------LVQEMFER 212
E W F QY DT T+ + +++ D+ + SPL+ F+ K L+Q++ +R
Sbjct: 38 EVWFFGLQYQDTKGFSTWLKLNKKVTAQDVRKESPLLFKFRAKFYPEDVSEELIQDITQR 97
Query: 213 ILFI 216
+ F+
Sbjct: 98 LFFL 101
>pdb|1SGH|A Chain A, Moesin Ferm Domain Bound To Ebp50 C-Terminal Peptide
Length = 297
Score = 28.1 bits (61), Expect = 9.2, Method: Compositional matrix adjust.
Identities = 18/64 (28%), Positives = 33/64 (51%), Gaps = 10/64 (15%)
Query: 163 EYWVFVKQYYDTDRDETYQDIYRQIHI-DIPRMSPLMMLFQQK---------LVQEMFER 212
E W F QY DT T+ + +++ D+ + SPL+ F+ K L+Q++ +R
Sbjct: 41 EVWFFGLQYQDTKGFSTWLKLNKKVTAQDVRKESPLLFKFRAKFYPEDVSEELIQDITQR 100
Query: 213 ILFI 216
+ F+
Sbjct: 101 LFFL 104
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
0.324 0.137 0.426
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 11,426,421
Number of Sequences: 62578
Number of extensions: 420641
Number of successful extensions: 1225
Number of sequences better than 100.0: 19
Number of HSP's better than 100.0 without gapping: 10
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 1200
Number of HSP's gapped (non-prelim): 24
length of query: 431
length of database: 14,973,337
effective HSP length: 102
effective length of query: 329
effective length of database: 8,590,381
effective search space: 2826235349
effective search space used: 2826235349
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 53 (25.0 bits)