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= psy10772
(378 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3AFC|A Chain A, Mouse Semaphorin 6a Extracellular Domain
pdb|3AFC|B Chain B, Mouse Semaphorin 6a Extracellular Domain
pdb|3AL8|A Chain A, Plexin A2 SEMAPHORIN 6A COMPLEX
Length = 556
Score = 185 bits (470), Expect = 3e-47, Method: Compositional matrix adjust.
Identities = 92/196 (46%), Positives = 121/196 (61%), Gaps = 13/196 (6%)
Query: 35 QPDFVGSYDIGKYVFFFFRETAVEYINCGKSVFSRVARVCKRDTGG-KNILSQNWATYLK 93
+P FV + D G Y++FFFRE AVEY GK VF RVA+VCK D GG + +L + W ++LK
Sbjct: 205 EPYFVQAVDYGDYIYFFFREIAVEYNTMGKVVFPRVAQVCKNDMGGSQRVLEKQWTSFLK 264
Query: 94 ARLNCSIPGEFPFYFNEIQ---DIYKVPGDDTKFYGVFTTSTTGLMGSAICSFSIEDIER 150
ARLNCS+PG+ FYFN +Q D+ ++ G D F+T + GSA+C++ + DI
Sbjct: 265 ARLNCSVPGDSHFYFNILQAVTDVIRINGRDV-VLATFSTPYNSIPGSAVCAYDMLDIAN 323
Query: 151 AFVGKFKEQATSTSAWLPVLSSRVPEPRPGQCVND--------TETLPDSVLNFIRSHPL 202
F G+FKEQ + S W PV RVP+PRPG C + PD LNFI++HPL
Sbjct: 324 VFTGRFKEQKSPDSTWTPVPDERVPKPRPGCCAGSSSLEKYATSNEFPDDTLNFIKTHPL 383
Query: 203 MDEAVAHRDNKPVFYR 218
MDEAV N+P F R
Sbjct: 384 MDEAVPSIINRPWFLR 399
>pdb|3OKW|A Chain A, Mouse Semaphorin 6a, Extracellular Domains 1-2
pdb|3OKW|B Chain B, Mouse Semaphorin 6a, Extracellular Domains 1-2
pdb|3OKY|B Chain B, Plexin A2 In Complex With Semaphorin 6a
Length = 565
Score = 185 bits (470), Expect = 3e-47, Method: Compositional matrix adjust.
Identities = 92/196 (46%), Positives = 121/196 (61%), Gaps = 13/196 (6%)
Query: 35 QPDFVGSYDIGKYVFFFFRETAVEYINCGKSVFSRVARVCKRDTGG-KNILSQNWATYLK 93
+P FV + D G Y++FFFRE AVEY GK VF RVA+VCK D GG + +L + W ++LK
Sbjct: 204 EPYFVQAVDYGDYIYFFFREIAVEYNTMGKVVFPRVAQVCKNDMGGSQRVLEKQWTSFLK 263
Query: 94 ARLNCSIPGEFPFYFNEIQ---DIYKVPGDDTKFYGVFTTSTTGLMGSAICSFSIEDIER 150
ARLNCS+PG+ FYFN +Q D+ ++ G D F+T + GSA+C++ + DI
Sbjct: 264 ARLNCSVPGDSHFYFNILQAVTDVIRINGRDVVL-ATFSTPYNSIPGSAVCAYDMLDIAN 322
Query: 151 AFVGKFKEQATSTSAWLPVLSSRVPEPRPGQCVND--------TETLPDSVLNFIRSHPL 202
F G+FKEQ + S W PV RVP+PRPG C + PD LNFI++HPL
Sbjct: 323 VFTGRFKEQKSPDSTWTPVPDERVPKPRPGCCAGSSSLEKYATSNEFPDDTLNFIKTHPL 382
Query: 203 MDEAVAHRDNKPVFYR 218
MDEAV N+P F R
Sbjct: 383 MDEAVPSIINRPWFLR 398
>pdb|4GZ8|A Chain A, Mouse Semaphorin 3a, Domains Sema-Psi-Ig
pdb|4GZ8|B Chain B, Mouse Semaphorin 3a, Domains Sema-Psi-Ig
Length = 667
Score = 156 bits (395), Expect = 1e-38, Method: Compositional matrix adjust.
Identities = 90/235 (38%), Positives = 128/235 (54%), Gaps = 22/235 (9%)
Query: 48 VFFFFRETAVEYINCGKSVFSRVARVCKRDTGGKNILSQNWATYLKARLNCSIPGE--FP 105
V+FFFRE A++ + GK+ +R+ ++CK D GG L W T+LKARL CS+PG
Sbjct: 226 VYFFFRENAIDGEHSGKATHARIGQICKNDFGGHRSLVNKWTTFLKARLICSVPGPNGID 285
Query: 106 FYFNEIQDIYKVPGDDTK---FYGVFTTSTTGLMGSAICSFSIEDIERAFVGKFKEQATS 162
+F+E+QD++ + D K YGVFTTS+ GSA+C +S+ D+ R F+G + +
Sbjct: 286 THFDELQDVFLMNSKDPKNPIVYGVFTTSSNIFKGSAVCMYSMSDVRRVFLGPYAHRDGP 345
Query: 163 TSAWLPVLSSRVPEPRPGQC-------VNDTETLPDSVLNFIRSHPLMDEAVAHRDNKPV 215
W+P RVP PRPG C + T+ LPD V+ F RSHP M V +N+P+
Sbjct: 346 NYQWVP-YQGRVPYPRPGTCPSKTFGGFDSTKDLPDDVITFARSHPAMYNPVFPINNRPI 404
Query: 216 FYRRDL--LFTHLVVDVVQYEVFGTTSEYIVYFAAT---TTLRTVFVKVRLLQDV 265
+ D+ FT +VVD V E +Y V F T T L+ V V D+
Sbjct: 405 MIKTDVNYQFTQIVVDRVDAE----DGQYDVMFIGTDVGTVLKVVSVPKETWHDL 455
>pdb|1Q47|A Chain A, Structure Of The Semaphorin 3a Receptor-Binding Module
pdb|1Q47|B Chain B, Structure Of The Semaphorin 3a Receptor-Binding Module
Length = 495
Score = 156 bits (395), Expect = 2e-38, Method: Compositional matrix adjust.
Identities = 90/235 (38%), Positives = 128/235 (54%), Gaps = 22/235 (9%)
Query: 48 VFFFFRETAVEYINCGKSVFSRVARVCKRDTGGKNILSQNWATYLKARLNCSIPGE--FP 105
V+FFFRE A++ + GK+ +R+ ++CK D GG L W T+LKARL CS+PG
Sbjct: 218 VYFFFRENAIDGEHSGKATHARIGQICKNDFGGHRSLVNKWTTFLKARLICSVPGPNGID 277
Query: 106 FYFNEIQDIYKVPGDDTK---FYGVFTTSTTGLMGSAICSFSIEDIERAFVGKFKEQATS 162
+F+E+QD++ + D K YGVFTTS+ GSA+C +S+ D+ R F+G + +
Sbjct: 278 THFDELQDVFLMNSKDPKNPIVYGVFTTSSNIFKGSAVCMYSMSDVRRVFLGPYAHRDGP 337
Query: 163 TSAWLPVLSSRVPEPRPGQC-------VNDTETLPDSVLNFIRSHPLMDEAVAHRDNKPV 215
W+P RVP PRPG C + T+ LPD V+ F RSHP M V +N+P+
Sbjct: 338 NYQWVP-YQGRVPYPRPGTCPSKTFGGFDSTKDLPDDVITFARSHPAMYNPVFPINNRPI 396
Query: 216 FYRRDL--LFTHLVVDVVQYEVFGTTSEYIVYFAAT---TTLRTVFVKVRLLQDV 265
+ D+ FT +VVD V E +Y V F T T L+ V V D+
Sbjct: 397 MIKTDVNYQFTQIVVDRVDAE----DGQYDVMFIGTDVGTVLKVVSVPKETWHDL 447
>pdb|4GZA|G Chain G, Complex Of Mouse Plexin A2 - Semaphorin 3a - Neuropilin-1
Length = 538
Score = 156 bits (395), Expect = 2e-38, Method: Compositional matrix adjust.
Identities = 90/235 (38%), Positives = 128/235 (54%), Gaps = 22/235 (9%)
Query: 48 VFFFFRETAVEYINCGKSVFSRVARVCKRDTGGKNILSQNWATYLKARLNCSIPGE--FP 105
V+FFFRE A++ + GK+ +R+ ++CK D GG L W T+LKARL CS+PG
Sbjct: 226 VYFFFRENAIDGEHSGKATHARIGQICKNDFGGHRSLVNKWTTFLKARLICSVPGPNGID 285
Query: 106 FYFNEIQDIYKVPGDDTK---FYGVFTTSTTGLMGSAICSFSIEDIERAFVGKFKEQATS 162
+F+E+QD++ + D K YGVFTTS+ GSA+C +S+ D+ R F+G + +
Sbjct: 286 THFDELQDVFLMNSKDPKNPIVYGVFTTSSNIFKGSAVCMYSMSDVRRVFLGPYAHRDGP 345
Query: 163 TSAWLPVLSSRVPEPRPGQC-------VNDTETLPDSVLNFIRSHPLMDEAVAHRDNKPV 215
W+P RVP PRPG C + T+ LPD V+ F RSHP M V +N+P+
Sbjct: 346 NYQWVP-YQGRVPYPRPGTCPSKTFGGFDSTKDLPDDVITFARSHPAMYNPVFPINNRPI 404
Query: 216 FYRRDL--LFTHLVVDVVQYEVFGTTSEYIVYFAAT---TTLRTVFVKVRLLQDV 265
+ D+ FT +VVD V E +Y V F T T L+ V V D+
Sbjct: 405 MIKTDVNYQFTQIVVDRVDAE----DGQYDVMFIGTDVGTVLKVVSVPKETWHDL 455
>pdb|1OLZ|A Chain A, The Ligand-Binding Face Of The Semaphorins Revealed By The
High Resolution Crystal Structure Of Sema4d
pdb|1OLZ|B Chain B, The Ligand-Binding Face Of The Semaphorins Revealed By The
High Resolution Crystal Structure Of Sema4d
pdb|3OL2|A Chain A, Receptor-Ligand Structure Of Human Semaphorin 4d With
Plexin B1
Length = 663
Score = 129 bits (325), Expect = 2e-30, Method: Compositional matrix adjust.
Identities = 84/256 (32%), Positives = 132/256 (51%), Gaps = 28/256 (10%)
Query: 48 VFFFFRETAVEYINCGKSVFSRVARVCKRDTGGKNILSQNWATYLKARLNCSIPGEFPFY 107
V+FFF E +VEY + + R+ARVCK D GG L + W ++LKARL CS P +
Sbjct: 210 VYFFFTEVSVEYEFVFRVLIPRIARVCKGDQGGLRTLQKKWTSFLKARLICSRP-DSGLV 268
Query: 108 FNEIQDIY--KVPGDDTK-FYGVFTTSTTGLMGSAICSFSIEDIERAFV-GKFKEQAT-- 161
FN ++D++ + PG FY +FT + SA+C++++ E F GK+ + T
Sbjct: 269 FNVLRDVFVLRSPGLKVPVFYALFTPQLNNVGLSAVCAYNLSTAEEVFSHGKYMQSTTVE 328
Query: 162 -STSAWLPVLSSRVPEPRPGQCVNDTE----------TLPDSVLNFIRSHPLMDEAVAHR 210
S + W+ + VP+PRPG C+ D+E LPD L F++ HPLMD++V
Sbjct: 329 QSHTKWV-RYNGPVPKPRPGACI-DSEARAANYTSSLNLPDKTLQFVKDHPLMDDSVTPI 386
Query: 211 DNKPVFYRRDLLFTHLVVDVVQ------YEVFGTTSEYIVYFAATTTLRTVFV--KVRLL 262
DN+P ++D+ +T +VVD Q Y+V +++ A + V + + +L
Sbjct: 387 DNRPRLIKKDVNYTQIVVDRTQALDGTVYDVMFVSTDRGALHKAISLEHAVHIIEETQLF 446
Query: 263 QDVSNTSDSICESSVG 278
QD + S G
Sbjct: 447 QDFEPVQTLLLSSKKG 462
>pdb|3NVQ|A Chain A, Molecular Mechanism Of Guidance Cue Recognition
pdb|3NVQ|E Chain E, Molecular Mechanism Of Guidance Cue Recognition
Length = 590
Score = 82.0 bits (201), Expect = 5e-16, Method: Compositional matrix adjust.
Identities = 53/166 (31%), Positives = 83/166 (50%), Gaps = 20/166 (12%)
Query: 48 VFFFFRETAVEYINCGKSVFSRVARVCKRDTGGKNILS-QNWATYLKARLNCSIPGEFPF 106
+++FFRE + SRVA++C+ D GG++ LS W T+LKA L CS
Sbjct: 196 IYYFFREDNPDKNPEAPLNVSRVAQLCRGDQGGESSLSVSKWNTFLKAMLVCSDAATNK- 254
Query: 107 YFNEIQDIYKVPGD-----DTKFYGVFTTSTTGLMGSAICSFSIEDIERAFVGKFKEQAT 161
FN +QD++ +P DT+ YGVF+ SA+C +S+ DI++ F
Sbjct: 255 NFNRLQDVFLLPDPSGQWRDTRVYGVFSNPWNY---SAVCVYSLGDIDKVF--------- 302
Query: 162 STSAWLPVLSSRVPEPRPGQCVNDTETLPDSVLNFIRSHPLMDEAV 207
++ L S +P PRPG+C+ D + +P HP + + V
Sbjct: 303 -RTSSLKGYHSSLPNPRPGKCLPDQQPIPTETFQVADRHPEVAQRV 347
>pdb|3NVX|A Chain A, Molecular Mechanism Of Guidance Cue Recognition
pdb|3NVX|B Chain B, Molecular Mechanism Of Guidance Cue Recognition
Length = 383
Score = 57.8 bits (138), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 38/148 (25%), Positives = 72/148 (48%), Gaps = 16/148 (10%)
Query: 70 VARVCKRDTGGKNILSQN-WATYLKARLNCSIPGEFPFYFNEIQDIYKVPGDDTKFYGVF 128
+A++C D GG + LS + W+T+LK L C I G Y I +DT Y F
Sbjct: 178 IAQMCLNDEGGPSSLSSHRWSTFLKVELECDIDGRS--YRQIIHSRTIKTDNDTILYVFF 235
Query: 129 TTSTTGLMGSAICSFSIEDIERAFVGKFKEQATSTSAWLPVLSSRVPEPRPGQCVNDTET 188
+ + SA+C++S+ I+++F +++ L + ++P P PG C+ +
Sbjct: 236 DSPYSK---SALCTYSMNTIKQSF----------STSKLEGYTKQLPSPAPGICLPAGKV 282
Query: 189 LPDSVLNFIRSHPLMDEAVAHRDNKPVF 216
+ + I + ++D+ + N+P+F
Sbjct: 283 VSHTTFEVIEKYNVLDDIIKPLSNQPIF 310
>pdb|3NVN|A Chain A, Molecular Mechanism Of Guidance Cue Recognition
Length = 389
Score = 53.5 bits (127), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 38/148 (25%), Positives = 72/148 (48%), Gaps = 17/148 (11%)
Query: 70 VARVCKRDTGGKNILSQN-WATYLKARLNCSIPGEFPFYFNEIQDIYKVPGDDTKFYGVF 128
+A++C D GG + LS + W+T+LK L C I G Y I +DT Y F
Sbjct: 178 IAQMCLNDEGGPSSLSSHRWSTFLKVELECDIDGR--SYRQIIHSKAIKTDNDTILYVFF 235
Query: 129 TTSTTGLMGSAICSFSIEDIERAFVGKFKEQATSTSAWLPVLSSRVPEPRPGQCVNDTET 188
+ + SA+C++S+ I+ +F +++ L + ++P P PG C+ +
Sbjct: 236 DSPYS---KSALCTYSMNAIKHSF----------STSKLGGYTKQLPSPAPGICLPAGKV 282
Query: 189 LPDSVLNFIRSHPLMDEAVAHRDNKPVF 216
+P + + I + +D+ + ++P+F
Sbjct: 283 VPHTTFDIIEQYNELDDIIKPL-SQPIF 309
>pdb|2ZCF|A Chain A, Mutational Study On Alpha-Gln90 Of Fe-Type Nitrile
Hydratase From Rhodococcus Sp. N771
Length = 206
Score = 33.5 bits (75), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 22/53 (41%), Positives = 23/53 (43%), Gaps = 2/53 (3%)
Query: 205 EAVAHRDNKPVFYRRDLLFTHLVVDVVQYEVFGTTSEYIVYFAATTTLRTVFV 257
E VA P F R LL T V QY G EYIV T TL+ V V
Sbjct: 58 ELVARAWTDPEF--RQLLLTDGTAAVAQYGYLGPNGEYIVAVEDTPTLKNVIV 108
>pdb|2D0Q|A Chain A, Complex Of Fe-Type Nhase With Cyclohexyl Isocyanide,
Photo- Activated For 1hr At 277k
Length = 206
Score = 33.1 bits (74), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 22/53 (41%), Positives = 23/53 (43%), Gaps = 2/53 (3%)
Query: 205 EAVAHRDNKPVFYRRDLLFTHLVVDVVQYEVFGTTSEYIVYFAATTTLRTVFV 257
E VA P F R LL T V QY G EYIV T TL+ V V
Sbjct: 58 ELVARAWTDPEF--RQLLLTDGTAAVAQYGYLGPQGEYIVAVEDTPTLKNVIV 108
>pdb|1AHJ|A Chain A, Nitrile Hydratase
pdb|1AHJ|C Chain C, Nitrile Hydratase
pdb|1AHJ|E Chain E, Nitrile Hydratase
pdb|1AHJ|G Chain G, Nitrile Hydratase
Length = 207
Score = 33.1 bits (74), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 22/53 (41%), Positives = 23/53 (43%), Gaps = 2/53 (3%)
Query: 205 EAVAHRDNKPVFYRRDLLFTHLVVDVVQYEVFGTTSEYIVYFAATTTLRTVFV 257
E VA P F R LL T V QY G EYIV T TL+ V V
Sbjct: 59 ELVARAWTDPEF--RQLLLTDGTAAVAQYGYLGPQGEYIVAVEDTPTLKNVIV 109
>pdb|2QDY|A Chain A, Crystal Structure Of Fe-Type Nhase From Rhodococcus
Erythropolis Aj270
pdb|3A8M|A Chain A, Crystal Structure Of Nitrile Hydratase Mutant Y72f
Complexed With Trimethylacetonitrile
pdb|3A8O|A Chain A, Crystal Structure Of Nitrile Hydratase Complexed With
Trimethylacetamide
Length = 207
Score = 33.1 bits (74), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 22/53 (41%), Positives = 23/53 (43%), Gaps = 2/53 (3%)
Query: 205 EAVAHRDNKPVFYRRDLLFTHLVVDVVQYEVFGTTSEYIVYFAATTTLRTVFV 257
E VA P F R LL T V QY G EYIV T TL+ V V
Sbjct: 59 ELVARAWTDPEF--RQLLLTDGTAAVAQYGYLGPQGEYIVAVEDTPTLKNVIV 109
>pdb|2AHJ|A Chain A, Nitrile Hydratase Complexed With Nitric Oxide
pdb|2AHJ|C Chain C, Nitrile Hydratase Complexed With Nitric Oxide
pdb|2CYZ|A Chain A, Photo-Activation State Of Fe-Type Nhase In Anaerobic
Condition
pdb|2CZ0|A Chain A, Photo-Activation State Of Fe-Type Nhase In Aerobic
Condition
pdb|2CZ1|A Chain A, Photo-Activation State Of Fe-Type Nhase With N-Ba In
Anaerobic Condition
pdb|2CZ6|A Chain A, Complex Of Inactive Fe-Type Nhase With Cyclohexyl
Isocyanide
pdb|2CZ7|A Chain A, Fe-Type Nhase Photo-Activated For 75min At 105k
pdb|2ZPB|A Chain A, Nitrosylated Fe-Type Nitrile Hydratase
pdb|2ZPE|A Chain A, Nitrosylated Fe-Type Nitrile Hydratase With Tert-
Butylisonitrile
pdb|2ZPF|A Chain A, Complex Of Fe-Type Nitrile Hydratase With Tert-
Butylisonitrile, Photo-Activated For 18min At 293k
pdb|2ZPG|A Chain A, Complex Of Fe-Type Nitrile Hydratase With Tert-
Butylisonitrile, Photo-Activated For 120min At 293k
pdb|2ZPH|A Chain A, Complex Of Fe-Type Nitrile Hydratase With Tert-
Butylisonitrile, Photo-Activated For 340min At 293k
pdb|2ZPI|A Chain A, Complex Of Fe-Type Nitrile Hydratase With Tert-
Butylisonitrile, Photo-Activated For 440min At 293k
Length = 206
Score = 33.1 bits (74), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 22/53 (41%), Positives = 23/53 (43%), Gaps = 2/53 (3%)
Query: 205 EAVAHRDNKPVFYRRDLLFTHLVVDVVQYEVFGTTSEYIVYFAATTTLRTVFV 257
E VA P F R LL T V QY G EYIV T TL+ V V
Sbjct: 58 ELVARAWTDPEF--RQLLLTDGTAAVAQYGYLGPQGEYIVAVEDTPTLKNVIV 108
>pdb|3A8G|A Chain A, Crystal Structure Of Nitrile Hydratase Mutant S113a
Complexed With Trimethylacetonitrile
pdb|3A8H|A Chain A, Crystal Structure Of Nitrile Hydratase Mutant S113a
Complexed With Trimethylacetamide
pdb|3A8L|A Chain A, Crystal Structure Of Photo-Activation State Of Nitrile
Hydratase Mutant S113a
Length = 207
Score = 33.1 bits (74), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 22/53 (41%), Positives = 23/53 (43%), Gaps = 2/53 (3%)
Query: 205 EAVAHRDNKPVFYRRDLLFTHLVVDVVQYEVFGTTSEYIVYFAATTTLRTVFV 257
E VA P F R LL T V QY G EYIV T TL+ V V
Sbjct: 59 ELVARAWTDPEF--RQLLLTDGTAAVAQYGYLGPQGEYIVAVEDTPTLKNVIV 109
>pdb|3NRK|A Chain A, The Crystal Structure Of The Leptospiral Hypothetical
Protein Lic12922
Length = 325
Score = 32.7 bits (73), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 31/126 (24%), Positives = 52/126 (41%), Gaps = 6/126 (4%)
Query: 203 MDEAVAHRDNKPVFYRR--DLLFTHLVVDVVQYEVFGTTSEYIVYFAATTTLRTVFVKVR 260
+ + + H D + F R D L +VDVV E +E V + + + R
Sbjct: 40 LQKHLKHEDYRKSFRTRIIDFLIDRAIVDVVAEEESIQVNEQRVDSEIEKRMEVMGITNR 99
Query: 261 --LLQDVSNTSDSICESSVGRLKQTVTWGQSVHLSCFVKLPASMANQPMSWYHYSKDKGR 318
+ + +S E V L + GQ + L V P + SWY+ +KDK
Sbjct: 100 KQFEKTMETSSGMPFELWVTELPYQIKKGQLLQLKIAV--PPPNEQEIRSWYNQNKDKVG 157
Query: 319 YQIKFR 324
++I++R
Sbjct: 158 FEIRYR 163
>pdb|2QBY|A Chain A, Crystal Structure Of A Heterodimer Of Cdc6ORC1 INITIATORS
Bound To Origin Dna (From S. Solfataricus)
Length = 386
Score = 32.0 bits (71), Expect = 0.53, Method: Compositional matrix adjust.
Identities = 17/61 (27%), Positives = 29/61 (47%), Gaps = 3/61 (4%)
Query: 100 IPGEFPFYFNEIQDIYKVPGD---DTKFYGVFTTSTTGLMGSAICSFSIEDIERAFVGKF 156
IP E P ++I+ I + + K +F TG +A+ F + + + F+GKF
Sbjct: 18 IPDELPHREDQIRKIASILAPLYREEKPNNIFIYGLTGTGKTAVVKFVLSKLHKKFLGKF 77
Query: 157 K 157
K
Sbjct: 78 K 78
>pdb|2VRA|A Chain A, Drosophila Robo Ig1-2 (Monoclinic Form)
pdb|2VRA|B Chain B, Drosophila Robo Ig1-2 (Monoclinic Form)
pdb|2VRA|C Chain C, Drosophila Robo Ig1-2 (Monoclinic Form)
pdb|2VRA|D Chain D, Drosophila Robo Ig1-2 (Monoclinic Form)
Length = 208
Score = 30.4 bits (67), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 16/38 (42%), Positives = 21/38 (55%), Gaps = 1/38 (2%)
Query: 321 IKFRSDKFIRTVDGG-LVIMAVEELDAGKYDCWLGNTV 357
+ F + +R VDGG L+I VE +D G Y C N V
Sbjct: 156 MSFGASSRVRIVDGGNLLISNVEPIDEGNYKCIAQNLV 193
>pdb|2VR9|A Chain A, Drosophila Robo Ig1-2 (Tetragonal Form)
pdb|2VR9|B Chain B, Drosophila Robo Ig1-2 (Tetragonal Form)
pdb|2VR9|C Chain C, Drosophila Robo Ig1-2 (Tetragonal Form)
Length = 217
Score = 30.4 bits (67), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 16/38 (42%), Positives = 21/38 (55%), Gaps = 1/38 (2%)
Query: 321 IKFRSDKFIRTVDGG-LVIMAVEELDAGKYDCWLGNTV 357
+ F + +R VDGG L+I VE +D G Y C N V
Sbjct: 156 MSFGASSRVRIVDGGNLLISNVEPIDEGNYKCIAQNLV 193
>pdb|2V5M|A Chain A, Structural Basis For Dscam Isoform Specificity
Length = 388
Score = 30.4 bits (67), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 16/49 (32%), Positives = 26/49 (53%), Gaps = 1/49 (2%)
Query: 309 WYHYSKDKGRYQIKFRSDKFIRTVDGGLVIMAVEELDAGKYDCWLGNTV 357
WY + + R Q +D+ ++ V G L+I D+GKY C + N+V
Sbjct: 246 WYKFIEGTTRKQAVVLNDR-VKQVSGTLIIKDAVVEDSGKYLCVVNNSV 293
>pdb|2V5S|A Chain A, Structural Basis For Dscam Isoform Specificity
pdb|2V5S|B Chain B, Structural Basis For Dscam Isoform Specificity
Length = 394
Score = 30.0 bits (66), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 16/49 (32%), Positives = 26/49 (53%), Gaps = 1/49 (2%)
Query: 309 WYHYSKDKGRYQIKFRSDKFIRTVDGGLVIMAVEELDAGKYDCWLGNTV 357
WY + + R Q +D+ ++ V G L+I D+GKY C + N+V
Sbjct: 252 WYKFIEGTTRKQAVVLNDR-VKQVSGTLIIKDAVVEDSGKYLCVVNNSV 299
>pdb|2V5R|A Chain A, Structural Basis For Dscam Isoform Specificity
pdb|2V5R|B Chain B, Structural Basis For Dscam Isoform Specificity
Length = 391
Score = 30.0 bits (66), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 16/49 (32%), Positives = 26/49 (53%), Gaps = 1/49 (2%)
Query: 309 WYHYSKDKGRYQIKFRSDKFIRTVDGGLVIMAVEELDAGKYDCWLGNTV 357
WY + + R Q +D+ ++ V G L+I D+GKY C + N+V
Sbjct: 249 WYKFIEGTTRKQAVVLNDR-VKQVSGTLIIKDAVVEDSGKYLCVVNNSV 296
>pdb|3DMK|A Chain A, Crystal Structure Of Down Syndrome Cell Adhesion Molecule
(Dscam) Isoform 1.30.30, N-Terminal Eight Ig Domains
pdb|3DMK|B Chain B, Crystal Structure Of Down Syndrome Cell Adhesion Molecule
(Dscam) Isoform 1.30.30, N-Terminal Eight Ig Domains
pdb|3DMK|C Chain C, Crystal Structure Of Down Syndrome Cell Adhesion Molecule
(Dscam) Isoform 1.30.30, N-Terminal Eight Ig Domains
Length = 816
Score = 30.0 bits (66), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 16/49 (32%), Positives = 26/49 (53%), Gaps = 1/49 (2%)
Query: 309 WYHYSKDKGRYQIKFRSDKFIRTVDGGLVIMAVEELDAGKYDCWLGNTV 357
WY + + R Q +D+ ++ V G L+I D+GKY C + N+V
Sbjct: 282 WYKFIEGTTRKQAVVLNDR-VKQVSGTLIIKDAVVEDSGKYLCVVNNSV 329
>pdb|2AXN|A Chain A, Crystal Structure Of The Human Inducible Form 6-
Phosphofructo-2-KinaseFRUCTOSE-2,6-Bisphosphatase
pdb|2DWO|A Chain A, Pfkfb3 In Complex With Adp And Pep
pdb|2DWP|A Chain A, A Pseudo Substrate Complex Of 6-Phosphofructo-2-Kinase Of
Pfkfb
pdb|2I1V|B Chain B, Crystal Structure Of Pfkfb3 In Complex With Adp And
Fructose-2,6-Bisphosphate
pdb|3QPU|A Chain A, Pfkfb3 In Complex With Ppi
pdb|3QPV|A Chain A, Pfkfb3 Trapped In A Phospho-Enzyme Intermediate State
pdb|3QPW|A Chain A, Pfkfb3 In Complex With Aluminum Tetrafluoride
Length = 520
Score = 30.0 bits (66), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 18/50 (36%), Positives = 25/50 (50%), Gaps = 1/50 (2%)
Query: 144 SIEDIERAFVGKFKEQATSTSAWLP-VLSSRVPEPRPGQCVNDTETLPDS 192
S E ++ + F+E STSA LP L VP PGQ + + + DS
Sbjct: 467 SPEPTKKPRINSFEEHVASTSAALPSCLPPEVPTQLPGQNMKGSRSSADS 516
>pdb|2YD4|A Chain A, Crystal Structure Of The N-Terminal Ig1-2 Module Of
Chicken Receptor Protein Tyrosine Phosphatase Sigma
Length = 210
Score = 29.6 bits (65), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 12/24 (50%), Positives = 15/24 (62%)
Query: 334 GGLVIMAVEELDAGKYDCWLGNTV 357
GGL I + EE D GKY+C N+
Sbjct: 164 GGLQIESSEETDQGKYECVASNSA 187
>pdb|3JXA|A Chain A, Immunoglobulin Domains 1-4 Of Mouse Cntn4
pdb|3JXA|B Chain B, Immunoglobulin Domains 1-4 Of Mouse Cntn4
Length = 383
Score = 28.5 bits (62), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 13/31 (41%), Positives = 17/31 (54%)
Query: 327 KFIRTVDGGLVIMAVEELDAGKYDCWLGNTV 357
+F+ G L I VE+ D G Y C + NTV
Sbjct: 149 RFVSQETGNLYIAKVEKSDVGNYTCVVTNTV 179
>pdb|3B43|A Chain A, I-band Fragment I65-i70 From Titin
Length = 570
Score = 28.5 bits (62), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 23/85 (27%), Positives = 41/85 (48%), Gaps = 11/85 (12%)
Query: 287 GQSVHLSCFVKLPASMANQPMSWYHYSKD-KGRYQIKFRSDKFIRTVDGGLVIMAVEELD 345
G VHL C +L + Q +SW+ ++ + + K S+ F+ ++ I+ V+ D
Sbjct: 399 GADVHLEC--ELQGTPPFQ-VSWHKDKRELRSGKKYKIMSENFLTSIH----ILNVDSAD 451
Query: 346 AGKYDCWLGNTV---LCTHNLTVDA 367
G+Y C N V C ++T+ A
Sbjct: 452 IGEYQCKASNDVGSDTCVGSITLKA 476
>pdb|3KLD|A Chain A, Ptprg Cntn4 Complex
Length = 384
Score = 28.5 bits (62), Expect = 7.2, Method: Compositional matrix adjust.
Identities = 13/31 (41%), Positives = 17/31 (54%)
Query: 327 KFIRTVDGGLVIMAVEELDAGKYDCWLGNTV 357
+F+ G L I VE+ D G Y C + NTV
Sbjct: 150 RFVSQETGNLYIAKVEKSDVGNYTCVVTNTV 180
>pdb|2RJM|A Chain A, 3ig Structure Of Titin Domains I67-I69 E-To-A Mutated
Variant
Length = 284
Score = 28.1 bits (61), Expect = 7.8, Method: Compositional matrix adjust.
Identities = 26/86 (30%), Positives = 42/86 (48%), Gaps = 13/86 (15%)
Query: 287 GQSVHLSCFVKLPASMANQPMSWYHYSKDKGRYQIKFR--SDKFIRTVDGGLVIMAVEEL 344
G VHL C +L + Q +SW H K + R K++ S+ F+ ++ I+ V+
Sbjct: 207 GADVHLEC--ELQGTPPFQ-VSW-HKDKRELRSGKKYKIMSENFLTSIH----ILNVDSA 258
Query: 345 DAGKYDCWLGNTV---LCTHNLTVDA 367
D G+Y C N V C ++T+ A
Sbjct: 259 DIGEYQCKASNDVGSYTCVGSITLKA 284
>pdb|2RIK|A Chain A, I-Band Fragment I67-I69 From Titin
Length = 284
Score = 28.1 bits (61), Expect = 7.9, Method: Compositional matrix adjust.
Identities = 26/86 (30%), Positives = 42/86 (48%), Gaps = 13/86 (15%)
Query: 287 GQSVHLSCFVKLPASMANQPMSWYHYSKDKGRYQIKFR--SDKFIRTVDGGLVIMAVEEL 344
G VHL C +L + Q +SW H K + R K++ S+ F+ ++ I+ V+
Sbjct: 207 GADVHLEC--ELQGTPPFQ-VSW-HKDKRELRSGKKYKIMSENFLTSIH----ILNVDSA 258
Query: 345 DAGKYDCWLGNTV---LCTHNLTVDA 367
D G+Y C N V C ++T+ A
Sbjct: 259 DIGEYQCKASNDVGSYTCVGSITLKA 284
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
0.323 0.136 0.418
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 11,152,909
Number of Sequences: 62578
Number of extensions: 458548
Number of successful extensions: 862
Number of sequences better than 100.0: 30
Number of HSP's better than 100.0 without gapping: 17
Number of HSP's successfully gapped in prelim test: 13
Number of HSP's that attempted gapping in prelim test: 816
Number of HSP's gapped (non-prelim): 37
length of query: 378
length of database: 14,973,337
effective HSP length: 100
effective length of query: 278
effective length of database: 8,715,537
effective search space: 2422919286
effective search space used: 2422919286
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 52 (24.6 bits)