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= 041508
(854 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 94.4 bits (233), Expect = 3e-19, Method: Compositional matrix adjust.
Identities = 66/238 (27%), Positives = 103/238 (43%), Gaps = 37/238 (15%)
Query: 238 LEVLVRGGLPMALRGELWQAFVGVRARR--VDKYYQDLLSAESNFGNNMEQHXXXXXXXX 295
L LV+ G+P ALR E+WQ G + +D+Y + L++ +S
Sbjct: 26 LSTLVKSGVPEALRAEVWQLLAGCHDNQAXLDRY-RILITKDS----------------- 67
Query: 296 XXXXXXXVCLPEKWKGQIEKDLPRTFPGHPALDN---DGRNALRRLLTAYARHNPSVGYC 352
+ I +D+ RTFP H + DG+ +L ++ AY+ ++ +GYC
Sbjct: 68 ------------AQESVITRDIHRTFPAHDYFKDTGGDGQESLYKICKAYSVYDEDIGYC 115
Query: 353 QAMNXXXXXXXXXMPEENAFWALMGILDDY-FDGYYSEEMIESQVDQLVFEELVRERFPK 411
Q + PEE AF L+ I DY Y + E L +E+ P
Sbjct: 116 QGQSFLAAVLLLHXPEEQAFCVLVKIXYDYGLRDLYRNNFEDLHCKFYQLERLXQEQLPD 175
Query: 412 LVNHLDYLGVQVAWVTGPWFLSIFMNMLPWESVLRIWDVLLFEGNRVMLFRTALALME 469
L +H L ++ WFL++F P V I D+LL EG ++ F ALAL++
Sbjct: 176 LHSHFSDLNLEAHXYASQWFLTLFTAKFPLCXVFHIIDLLLCEGLNII-FHVALALLK 232
>pdb|3QYB|A Chain A, X-Ray Crystal Structure Of Human Tbc1d4 (As160) Rabgap
Domain
Length = 301
Score = 87.4 bits (215), Expect = 3e-17, Method: Compositional matrix adjust.
Identities = 68/247 (27%), Positives = 111/247 (44%), Gaps = 45/247 (18%)
Query: 236 EELEVLVRGGLPMALRGELWQAFVGVRAR---RV-------DKYYQDLLSAESNFGNNME 285
E++ L++ G+P + RGE+WQ F+ ++ R R+ D Y++LL + +
Sbjct: 40 EDIHTLLKEGVPKSRRGEIWQ-FLALQYRLRHRLPNKQQPPDISYKELLKQLTA-----Q 93
Query: 286 QHXXXXXXXXXXXXXXXVCLPEKWKGQIEKDLPRTFPGHPALD---NDGRNALRRLLTAY 342
QH I DL RTFP HP G+ +L LL AY
Sbjct: 94 QHA------------------------ILVDLGRTFPTHPYFSVQLGPGQLSLFNLLKAY 129
Query: 343 ARHNPSVGYCQAMNXXXXXXXXXMPEENAFWALMGILDDY-FDGYYSEEMIESQVDQLVF 401
+ + VGYCQ ++ M EE AF L ++ D F Y +M+ Q+
Sbjct: 130 SLLDKEVGYCQGISFVAGVLLLHMSEEQAFEMLKFLMYDLGFRKQYRPDMMSLQIQMYQL 189
Query: 402 EELVRERFPKLVNHLDYLGVQVAWVTGPWFLSIFMNMLPWESVLRIWDVLLFEGNRVMLF 461
L+ + L NHL+ + + PWFL++F + V R++D++ +G V +F
Sbjct: 190 SRLLHDYHRDLYNHLEENEISPSLYAAPWFLTLFASQFSLGFVARVFDIIFLQGTEV-IF 248
Query: 462 RTALALM 468
+ AL+L+
Sbjct: 249 KVALSLL 255
>pdb|3QYE|A Chain A, Crystal Structure Of Human Tbc1d1 Rabgap Domain
pdb|3QYE|B Chain B, Crystal Structure Of Human Tbc1d1 Rabgap Domain
Length = 331
Score = 84.3 bits (207), Expect = 2e-16, Method: Compositional matrix adjust.
Identities = 52/182 (28%), Positives = 88/182 (48%), Gaps = 5/182 (2%)
Query: 313 IEKDLPRTFPGHPALDND---GRNALRRLLTAYARHNPSVGYCQAMNXXXXXXXXXMPEE 369
I DL RTFP HP G+ +L +L AY+ + VGYCQ ++ M EE
Sbjct: 107 ILIDLGRTFPTHPYFSAQLGAGQLSLYNILKAYSLLDQEVGYCQGLSFVAGILLLHMSEE 166
Query: 370 NAFWALMGILDDY-FDGYYSEEMIESQVDQLVFEELVRERFPKLVNHLDYLGVQVAWVTG 428
AF L ++ D Y +MI Q+ L+ + L NHL+ + +
Sbjct: 167 EAFKMLKFLMFDMGLRKQYRPDMIILQIQMYQLSRLLHDYHRDLYNHLEEHEIGPSLYAA 226
Query: 429 PWFLSIFMNMLPWESVLRIWDVLLFEGNRVMLFRTALALMELYGPALVTTKDAGDAVTLL 488
PWFL++F + P V R++D++ +G V +F+ AL+L+ + P ++ ++ V +
Sbjct: 227 PWFLTMFASQFPLGFVARVFDMIFLQGTEV-IFKVALSLLGSHKPLILQHENLETIVDFI 285
Query: 489 QT 490
++
Sbjct: 286 KS 287
>pdb|2QQ8|A Chain A, Crystal Structure Of The Putative Rabgap Domain Of Human
Tbc1 Domain Family Member 14
Length = 334
Score = 63.5 bits (153), Expect = 5e-10, Method: Compositional matrix adjust.
Identities = 47/168 (27%), Positives = 69/168 (41%), Gaps = 16/168 (9%)
Query: 313 IEKDLPRTFPGHPALDNDG--RNALRRLLTAYARHNPSVGYCQAMNXXXXXXXXXMPEEN 370
I+ D+ RTFP G + L +L AY + P VGY Q M+ + +
Sbjct: 113 IKLDISRTFPNLCIFQQGGPYHDMLHSILGAYTCYRPDVGYVQGMSFIAAVLILNLDTAD 172
Query: 371 AFWALMGILDDYFDGYYSEEMIESQVDQ-------LVFEELVRERFPKLVNHLDYLGVQV 423
AF A +L+ +M +VD FE E PKL H +
Sbjct: 173 AFIAFSNLLNK------PCQMAFFRVDHGLMLTYFAAFEVFFEENLPKLFAHFKKNNLTP 226
Query: 424 AWVTGPWFLSIFMNMLPWESVLRIWDVLLFEGNRVMLFRTALALMELY 471
W +++ LP + RIWDV +G LFRTAL +++L+
Sbjct: 227 DIYLIDWIFTLYSKSLPLDLACRIWDVFCRDGEE-FLFRTALGILKLF 273
>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 = 49.3 bits (116), Expect = 9e-06, Method: Compositional matrix adjust.
Identities = 62/303 (20%), Positives = 104/303 (34%), Gaps = 40/303 (13%)
Query: 236 EELEVLVRGGLPMALRGELWQAFVGVRARRVDKYYQDLLSAESNFGNNMEQHXXXXXXXX 295
EEL L G+P +R W+ G VD+ L + + +E +
Sbjct: 41 EELRRLSWSGIPKPVRPMTWKLLSGYLPANVDRRPATLQRKQKEYFAFIEHYYDSRNDEV 100
Query: 296 XXXXXXXVCLPEKWKGQIEKDLPRTFPGHPALDNDGRNALRRLLTAYARHNPSVGYCQAM 355
QI D+PR P L R+L +A +P+ GY Q +
Sbjct: 101 HQDTYR----------QIHIDIPRMSPEALILQPKVTEIFERILFIWAIRHPASGYVQGI 150
Query: 356 NXXXXXXXXXMP-------------------------EENAFWALMGILDDYFDGY-YSE 389
N E + +W + +LD D Y +++
Sbjct: 151 NDLVTPFFVVFICEYIEAEEVDTVDVSGVPAEVLCNIEADTYWCMSKLLDGIQDNYTFAQ 210
Query: 390 EMIESQVDQLVFEELVRERFPKLVNHLDYLGVQVAWVTGPWFLSIFMNMLPWESVLRIWD 449
I+ +V L EELV ++ HLD V+ W ++ M +P +R+WD
Sbjct: 211 PGIQMKVKML--EELVSRIDEQVHRHLDQHEVRYLQFAFRWMNNLLMREVPLRCTIRLWD 268
Query: 450 VLLFEGNRVMLFR--TALALMELYGPALVTTKDAGDAVTLLQTLAGSTFDSSQLVLTACM 507
E + F A + + ++ KD + + LQ L + +D + L
Sbjct: 269 TYQSEPDGFSHFHLYVCAAFLVRWRKEILEEKDFQELLLFLQNLPTAHWDDEDISLLLAE 328
Query: 508 GYQ 510
Y+
Sbjct: 329 AYR 331
>pdb|2G77|A Chain A, Crystal Structure Of Gyp1 Tbc Domain In Complex With Rab33
Gtpase Bound To Gdp And Alf3
Length = 410
Score = 48.1 bits (113), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 45/177 (25%), Positives = 69/177 (38%), Gaps = 33/177 (18%)
Query: 312 QIEKDLPRTFPGHPALDNDG-RNALRRLLTAYARHNPSVGYCQAMN-----XXXXXXXXX 365
QIE D+PRT P P +N+L+R+L +A +P+ GY Q +N
Sbjct: 109 QIEIDIPRTNPHIPLYQFKSVQNSLQRILYLWAIRHPASGYVQGINDLVTPFFETFLTEY 168
Query: 366 MP------------------------EENAFWALMGILDDYFDGY-YSEEMIESQVDQLV 400
+P E + FW L +L+ D Y + + I QV L
Sbjct: 169 LPPSQIDDVKIKDPSTYMVDEQITDLEADTFWCLTKLLEQITDNYIHGQPGILRQVKNL- 227
Query: 401 FEELVRERFPKLVNHLDYLGVQVAWVTGPWFLSIFMNMLPWESVLRIWDVLLFEGNR 457
+LV+ L NH V+ W + M +V+R+WD L E ++
Sbjct: 228 -SQLVKRIDADLYNHFQNEHVEFIQFAFRWMNCLLMREFQMGTVIRMWDTYLSETSQ 283
>pdb|3DZX|A Chain A, Crystal Structure Of The Rabgap Domain Of Human Tbc1d22b
Length = 346
Score = 44.7 bits (104), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 50/227 (22%), Positives = 84/227 (37%), Gaps = 30/227 (13%)
Query: 312 QIEKDLPRTFPGHPALDND-GRNALRRLLTAYARHNPSVGYCQAMNXXXXXXXXXMPEE- 369
QI D+PRT P P + R+L +A +P+ GY Q +N E
Sbjct: 108 QIHIDIPRTNPLIPLFQQPLVQEIFERILFIWAIRHPASGYVQGINDLVTPFFVVFLSEY 167
Query: 370 -----------------------NAFWALMGILDDYFDGY-YSEEMIESQVDQLVFEELV 405
++FW + +LD D Y +++ I+ +V L EELV
Sbjct: 168 VEEDVENFDVTNLSQDMLRSIEADSFWCMSKLLDGIQDNYTFAQPGIQKKVKAL--EELV 225
Query: 406 RERFPKLVNHLDYLGVQVAWVTGPWFLSIFMNMLPWESVLRIWDVLLF--EGNRVMLFRT 463
++ NH V+ W ++ M LP +R+WD EG
Sbjct: 226 SRIDEQVHNHFRRYEVEYLQFAFRWMNNLLMRELPLRCTIRLWDTYQSEPEGFSHFHLYV 285
Query: 464 ALALMELYGPALVTTKDAGDAVTLLQTLAGSTFDSSQLVLTACMGYQ 510
A + + ++ +D + LLQ L + + ++ L Y+
Sbjct: 286 CAAFLIKWRKEILDEEDFQGLLMLLQNLPTIHWGNEEIGLLLAEAYR 332
>pdb|1FKM|A Chain A, Crystal Structure Of The YptRAB-Gap Domain Of Gyp1p
Length = 396
Score = 43.9 bits (102), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 44/177 (24%), Positives = 67/177 (37%), Gaps = 33/177 (18%)
Query: 312 QIEKDLPRTFPGHPALDNDG-RNALRRLLTAYARHNPSVGYCQAMN-----XXXXXXXXX 365
QIE D+PRT P P +N+L+R+L +A +P+ GY Q +N
Sbjct: 89 QIEIDIPRTNPHIPLYQFKSVQNSLQRILYLWAIRHPASGYVQGINDLVTPFFETFLTEY 148
Query: 366 MP------------------------EENAFWALMGILDDYFDGY-YSEEMIESQVDQLV 400
+P E + FW L +L+ D Y + + I QV L
Sbjct: 149 LPPSQIDDVEIKDPSTYXVDEQITDLEADTFWCLTKLLEQITDNYIHGQPGILRQVKNL- 207
Query: 401 FEELVRERFPKLVNHLDYLGVQVAWVTGPWFLSIFMNMLPWESVLRIWDVLLFEGNR 457
+LV+ L NH V+ W + +V+R WD L E ++
Sbjct: 208 -SQLVKRIDADLYNHFQNEHVEFIQFAFRWXNCLLXREFQXGTVIRXWDTYLSETSQ 263
>pdb|2ZUY|A Chain A, Crystal Structure Of Exotype Rhamnogalacturonan Lyase Yesx
Length = 620
Score = 37.4 bits (85), Expect = 0.038, Method: Compositional matrix adjust.
Identities = 32/97 (32%), Positives = 44/97 (45%), Gaps = 10/97 (10%)
Query: 149 EDMMSVRVKKKGSIPKGEQTGRGKPSPPSDESKSLKGASEEDSDDEFYDVEKSDPTQDSP 208
E+++ V + K P+G T GKP S S+ + D D E+ + K DP S
Sbjct: 93 ENVLEVPLAK----PEGGVTPDGKPYTYSANDASV---GDIDGDGEYEMILKWDP---SN 142
Query: 209 SHDSVSASVTGAVAIDATTLQSLFPWKEELEVLVRGG 245
S D+ TG V IDA L F W+ L +R G
Sbjct: 143 SKDNAHDGYTGEVLIDAYKLDGTFLWRINLGRNIRAG 179
>pdb|1VR0|A Chain A, Crystal Structure Of Putative 2-Phosphosulfolactate
Phosphatase (15026306) From Clostridium Acetobutylicum
At 2.6 A Resolution
pdb|1VR0|B Chain B, Crystal Structure Of Putative 2-Phosphosulfolactate
Phosphatase (15026306) From Clostridium Acetobutylicum
At 2.6 A Resolution
pdb|1VR0|C Chain C, Crystal Structure Of Putative 2-Phosphosulfolactate
Phosphatase (15026306) From Clostridium Acetobutylicum
At 2.6 A Resolution
Length = 247
Score = 33.1 bits (74), Expect = 0.75, Method: Composition-based stats.
Identities = 25/86 (29%), Positives = 40/86 (46%), Gaps = 4/86 (4%)
Query: 520 VEERSKGLLARKDSQGLASKLYNFKQDPKSMLIDPNKGVQLDDPQTNGNLSRSESGSTNA 579
V+E K + + +GL + ++F P D KG L TNG +R+ GS A
Sbjct: 70 VKEYGKDAILGGERKGLKIEGFDFSNSPXEYTEDVVKGKTLIXTTTNG--TRAIKGSETA 127
Query: 580 DEVLIS--LTGDGEIDSVPDLQEQVV 603
++LI L G+ + + +L VV
Sbjct: 128 RDILIGSVLNGEAVAEKIVELNNDVV 153
>pdb|3VLD|A Chain A, Crystal Structure Of Yeast Proteasome Interacting Protein
pdb|3VLD|B Chain B, Crystal Structure Of Yeast Proteasome Interacting Protein
pdb|3VLF|A Chain A, Crystal Structure Of Yeast Proteasome Interacting Protein
pdb|3VLF|C Chain C, Crystal Structure Of Yeast Proteasome Interacting Protein
Length = 500
Score = 30.8 bits (68), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 25/108 (23%), Positives = 47/108 (43%), Gaps = 25/108 (23%)
Query: 371 AFWALMGILDDYFDGYYSEEM--------IESQVDQLVFEELVRERF-----PKLVN--- 414
+A I+D D + E++ IE +++L +EL+R R P LV+
Sbjct: 147 GLFATSNIIDILLDILFDEKVENDKLITAIEKALERLSTDELIRRRLFDNNLPYLVSVKG 206
Query: 415 ---------HLDYLGVQVAWVTGPWFLSIFMNMLPWESVLRIWDVLLF 453
+D+L ++ +++GP F I E + + D+L+F
Sbjct: 207 RXETVSFVRLIDFLTIEFQFISGPEFKDIIFCFTKEEILKSVEDILVF 254
>pdb|1ZOV|A Chain A, Crystal Structure Of Monomeric Sarcosine Oxidase From
Bacillus Sp. Ns- 129
pdb|1ZOV|B Chain B, Crystal Structure Of Monomeric Sarcosine Oxidase From
Bacillus Sp. Ns- 129
Length = 386
Score = 30.4 bits (67), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 25/83 (30%), Positives = 40/83 (48%), Gaps = 14/83 (16%)
Query: 527 LLARKDSQGLASKLYNFKQDPKSMLIDPNKGVQLDDPQTNGNLSRSESGSTNADEVLISL 586
++ S G+A+ Y KQ K++L+D D P TNG S G T ++
Sbjct: 7 IVVGAGSMGMAAGYYLAKQGVKTLLVD-----SFDPPHTNG----SHHGDT---RIIRHA 54
Query: 587 TGDGEIDSVP-DLQEQVVWLKVE 608
G+G + VP L+ Q +W ++E
Sbjct: 55 YGEGR-EYVPFALRAQELWYELE 76
>pdb|3VLE|A Chain A, Crystal Structure Of Yeast Proteasome Interacting Protein
pdb|3VLE|B Chain B, Crystal Structure Of Yeast Proteasome Interacting Protein
Length = 500
Score = 30.4 bits (67), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 25/108 (23%), Positives = 47/108 (43%), Gaps = 25/108 (23%)
Query: 371 AFWALMGILDDYFDGYYSEEM--------IESQVDQLVFEELVRERF-----PKLVN--- 414
+A I+D D + E++ IE +++L +EL+R R P LV+
Sbjct: 147 GLFATSNIIDILLDILFDEKVENDKLITAIEKALERLSTDELIRRRLFDNNLPYLVSVKG 206
Query: 415 ---------HLDYLGVQVAWVTGPWFLSIFMNMLPWESVLRIWDVLLF 453
+D+L ++ +++GP F I E + + D+L+F
Sbjct: 207 RMETVSFVRLIDFLTIEFQFISGPEFKDIIFCFTKEEILKSVEDILVF 254
>pdb|4A3V|A Chain A, Yeast Regulatory Particle Proteasome Assembly Chaperone
Hsm3 In Complex With Rpt1 C-Terminal Fragment
pdb|4A3V|C Chain C, Yeast Regulatory Particle Proteasome Assembly Chaperone
Hsm3 In Complex With Rpt1 C-Terminal Fragment
Length = 496
Score = 30.0 bits (66), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 25/108 (23%), Positives = 47/108 (43%), Gaps = 25/108 (23%)
Query: 371 AFWALMGILDDYFDGYYSEEM--------IESQVDQLVFEELVRERF-----PKLVN--- 414
+A I+D D + E++ IE +++L +EL+R R P LV+
Sbjct: 132 GLFATSNIIDILLDILFDEKVENDKLITAIEKALERLSTDELIRRRLFDNNLPYLVSVKG 191
Query: 415 ---------HLDYLGVQVAWVTGPWFLSIFMNMLPWESVLRIWDVLLF 453
+D+L ++ +++GP F I E + + D+L+F
Sbjct: 192 RMETVSFVRLIDFLTIEFQFISGPEFKDIIFCFTKEEILKSVEDILVF 239
>pdb|4A3T|A Chain A, Yeast Regulatory Particle Proteasome Assembly Chaperone
Hsm3
pdb|4A3T|B Chain B, Yeast Regulatory Particle Proteasome Assembly Chaperone
Hsm3
Length = 485
Score = 30.0 bits (66), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 25/107 (23%), Positives = 47/107 (43%), Gaps = 25/107 (23%)
Query: 372 FWALMGILDDYFDGYYSEEM--------IESQVDQLVFEELVRERF-----PKLVN---- 414
+A I+D D + E++ IE +++L +EL+R R P LV+
Sbjct: 133 LFATSNIIDILLDILFDEKVENDKLITAIEKALERLSTDELIRRRLFDNNLPYLVSVKGR 192
Query: 415 --------HLDYLGVQVAWVTGPWFLSIFMNMLPWESVLRIWDVLLF 453
+D+L ++ +++GP F I E + + D+L+F
Sbjct: 193 METVSFVRLIDFLTIEFQFISGPEFKDIIFCFTKEEILKSVEDILVF 239
>pdb|3L6A|A Chain A, Crystal Structure Of The C-Terminal Region Of Human P97
Length = 364
Score = 29.3 bits (64), Expect = 8.5, Method: Compositional matrix adjust.
Identities = 18/60 (30%), Positives = 25/60 (41%)
Query: 174 SPPSDESKSLKGASEEDSDDEFYDVEKSDPTQDSPSHDSVSASVTGAVAIDATTLQSLFP 233
+PPSDE+ S S+E + E + P HD V V+ A+ S FP
Sbjct: 252 NPPSDETDSSSAPSKEQLEQEKQLLLSFKPVMQKFLHDHVDLQVSALYALQVHCYNSNFP 311
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
0.312 0.129 0.369
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 22,653,015
Number of Sequences: 62578
Number of extensions: 880131
Number of successful extensions: 1614
Number of sequences better than 100.0: 23
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 16
Number of HSP's that attempted gapping in prelim test: 1579
Number of HSP's gapped (non-prelim): 40
length of query: 854
length of database: 14,973,337
effective HSP length: 107
effective length of query: 747
effective length of database: 8,277,491
effective search space: 6183285777
effective search space used: 6183285777
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 56 (26.2 bits)