This is probably the most difficult case in the whole benchmark because of the high
degree of conformational change. Note that the unbound Gelsolin is more than twice
the size of the bound, i.e. the bound protein is a fragment.

NOTE THAT IN THE ALIGNMENTS BELOW, GAPS MOST LIKELY INDICATE
RESIDUES MISSING IN THE ELECTRON DENSITY.
Alignment: 1H1V_A against 1IJJ_B
Query= 
         (368 letters)

>1IJJ_B
          Length = 371

 Score =  738 bits (1904), Expect = 0.0
 Identities = 367/370 (99%), Positives = 367/370 (99%), Gaps = 3/370 (0%)

Query: 1   TTALVCDNGSGLVKAGFAGDDAPRAVFPSIVGRPRH---MVGMGQKDSYVGDEAQSKRGI 57
           TTALVCDNGSGLVKAGFAGDDAPRAVFPSIVGRPRH   MVGMGQKDSYVGDEAQSKRGI
Sbjct: 2   TTALVCDNGSGLVKAGFAGDDAPRAVFPSIVGRPRHQGVMVGMGQKDSYVGDEAQSKRGI 61

Query: 58  LTLKYPIEHGIITNWDDMEKIWHHTFYNELRVAPEEHPTLLTEAPLNPKANREKMTQIMF 117
           LTLKYPIEHGIITNWDDMEKIWHHTFYNELRVAPEEHPTLLTEAPLNPKANREKMTQIMF
Sbjct: 62  LTLKYPIEHGIITNWDDMEKIWHHTFYNELRVAPEEHPTLLTEAPLNPKANREKMTQIMF 121

Query: 118 ETFNVPAMYVAIQAVLSLYASGRTTGIVLDSGDGVTHNVPIYEGYALPHAIMRLDLAGRD 177
           ETFNVPAMYVAIQAVLSLYASGRTTGIVLDSGDGVTHNVPIYEGYALPHAIMRLDLAGRD
Sbjct: 122 ETFNVPAMYVAIQAVLSLYASGRTTGIVLDSGDGVTHNVPIYEGYALPHAIMRLDLAGRD 181

Query: 178 LTDYLMKILTERGYSFVTTAEREIVRDIKEKLCYVALDFENEMATAASSSSLEKSYELPD 237
           LTDYLMKILTERGYSFVTTAEREIVRDIKEKLCYVALDFENEMATAASSSSLEKSYELPD
Sbjct: 182 LTDYLMKILTERGYSFVTTAEREIVRDIKEKLCYVALDFENEMATAASSSSLEKSYELPD 241

Query: 238 GQVITIGNERFRCPETLFQPSFIGMESAGIHETTYNSIMKCDIDIRKDLYANNVMSGGTT 297
           GQVITIGNERFRCPETLFQPSFIGMESAGIHETTYNSIMKCDIDIRKDLYANNVMSGGTT
Sbjct: 242 GQVITIGNERFRCPETLFQPSFIGMESAGIHETTYNSIMKCDIDIRKDLYANNVMSGGTT 301

Query: 298 MYPGIADRMQKEITALAPSTMKIKIIAPPERKYSVWIGGSILASLSTFQQMWITKQEYDE 357
           MYPGIADRMQKEITALAPSTMKIKIIAPPERKYSVWIGGSILASLSTFQQMWITKQEYDE
Sbjct: 302 MYPGIADRMQKEITALAPSTMKIKIIAPPERKYSVWIGGSILASLSTFQQMWITKQEYDE 361

Query: 358 AGPSIVHRKC 367
           AGPSIVHRKC
Sbjct: 362 AGPSIVHRKC 371


Alignment: 1H1V_G against 1D0N_B
Query= 
         (327 letters)

>1D0N_B
          Length = 729

 Score =  643 bits (1659), Expect = 0.0
 Identities = 313/331 (94%), Positives = 322/331 (96%), Gaps = 4/331 (1%)

Query: 1   MDDDGTGQKQIWRIEGSNKVPVDPATYGQFYGGDSYIILYNYRHG----QIIYNWQGAQS 56
           MDDDGTGQKQIWR+EGSNKVPVDPATYGQFYGGDSYIILYNYRHG    QIIYNWQGAQS
Sbjct: 386 MDDDGTGQKQIWRVEGSNKVPVDPATYGQFYGGDSYIILYNYRHGSRQGQIIYNWQGAQS 445

Query: 57  TQDEVAASAILTAQLDEELGGTPVQSRVVQGKEPAHLMSLFGGKPMIIYKGGTSREGGQT 116
           TQDEVAASAILTAQLDEELGGTPVQSRVVQGKEPAHLMSLFGGKPMI+YKGGTSREGGQT
Sbjct: 446 TQDEVAASAILTAQLDEELGGTPVQSRVVQGKEPAHLMSLFGGKPMIVYKGGTSREGGQT 505

Query: 117 APASTRLFQVRANSAGATRAVEVLPKAGALNSNDAFVLKTPSAAYLWVGTGASEAEKTGA 176
           APASTRLFQVRA+S+GATRAVE++PKAGALNSNDAFVLKTPSAAYLWVG GASEAEKTGA
Sbjct: 506 APASTRLFQVRASSSGATRAVEIIPKAGALNSNDAFVLKTPSAAYLWVGAGASEAEKTGA 565

Query: 177 QELLRVLRAQPVQVAEGSEPDGFWEALGGKAAYRTSPRLKDKKMDAHPPRLFACSNKIGR 236
           QELLRVLRAQPVQVAEGSEPD FWEALGGKA YRTSPRLKDKKMDAHPPRLFACSNKIGR
Sbjct: 566 QELLRVLRAQPVQVAEGSEPDSFWEALGGKATYRTSPRLKDKKMDAHPPRLFACSNKIGR 625

Query: 237 FVIEEVPGELMQEDLATDDVMLLDTWDQVFVWVGKDSQEEEKTEALTSAKRYIETDPANR 296
           FVIEEVPGE MQEDLATDDVMLLDTWDQVFVWVGKDSQ+EEKTEALTSAKRYI+TDPA+R
Sbjct: 626 FVIEEVPGEFMQEDLATDDVMLLDTWDQVFVWVGKDSQDEEKTEALTSAKRYIDTDPAHR 685

Query: 297 DRRTPITVVKQGFEPPSFVGWFLGWDDDYWS 327
           DRRTPITVVKQGFEPPSFVGWFLGWDD YWS
Sbjct: 686 DRRTPITVVKQGFEPPSFVGWFLGWDDSYWS 716



 Score =  145 bits (365), Expect = 4e-39
 Identities = 110/336 (32%), Positives = 164/336 (48%), Gaps = 28/336 (8%)

Query: 10  QIWRIEGSNKVPVDPATYGQFYGGDSYIIL--YNYRHGQIIYN---WQGAQSTQDEVAAS 64
           QIWR+E  + VPV P  YG F+ GD+Y+IL     R+G + Y+   W G + +QDE  A+
Sbjct: 16  QIWRVEKFDLVPVPPNLYGDFFTGDAYVILKTVQLRNGILQYDLHYWLGNECSQDESGAA 75

Query: 65  AILTAQLDEELGGTPVQSRVVQGKEPAHLMSLFGGKPMIIY-KGGTSREGGQTAPAST-- 121
           AI T QLD+ L G  VQ R VQG E A  +  F  K  + Y KGG +       P     
Sbjct: 76  AIFTVQLDDYLNGRAVQHREVQGFESATFLGYF--KSGLKYKKGGVASGFKHVVPNEVVV 133

Query: 122 -RLFQVRANSAGATRAVEVLPKAGALNSNDAFVLKTPSAAYLWVGTGASEAEKTGAQELL 180
            RL QV+       RA EV     + N+ D F+L   +  Y W G+ ++  E+  A ++ 
Sbjct: 134 QRLLQVKGRR--VVRATEVPVSWESFNNGDCFILDLGNNIYQWCGSKSNRFERLKATQVS 191

Query: 181 RVL-------RAQPVQVAEGSEPDGFWEALGGKAAY--RTSPRLKDKKMDAHPPRLFACS 231
           + +       RAQ     EG+EP+   + LG K      T   +K+   +    +L+  S
Sbjct: 192 KGIRDNERSGRAQVSVFEEGAEPEAMLQVLGPKPTLPEATEDTVKEDAANRKLAKLYKVS 251

Query: 232 NKIGRFVIEEVPGE--LMQEDLATDDVMLLDTW--DQVFVWVGKDSQEEEKTEALTSAKR 287
           N  G  V+  V  E    Q  L ++D  +LD     ++FVW GK +  EE+  AL +A  
Sbjct: 252 NGAGPMVVSLVADENPFAQGALRSEDCFILDHGKDGKIFVWKGKQANMEERKAALKTASD 311

Query: 288 YIETDPANRDRRTPITVVKQGFEPPSFVGWFLGWDD 323
           +I     +  ++T ++V+ +G E P F  +F  W D
Sbjct: 312 FI--SKMDYPKQTQVSVLPEGGETPLFRQFFKNWRD 345